<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-12-01 01:34:50"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E362500" ref_strand="+" ref_description="SGN-E362500 [cLPP-1-A5]">
      <seq>ctggattctccccatactcaactgctgaggaagtaacccaaggaattgatggctctgctcttactgccattgttacaggagcatcaagtggaattggtgcggaaactgcacgtgttcttgcattgcgaggtgtgcatgtaattatgggggtcaggaatatctctgctggagaacaggttaaagagacgataattaaagatgtcccacaagctaaaattgatgccttggagttggatctcagttcacttgcatctgtgaggaatttcgcatcaaattacaattctttaggccttcctctaaacctgcttattaacaatgcaggaatcatggcaaccccattcacactttccaaggataagattgagctgcaatttgcaacaaaccatgttggccactttcttttgacaaatttattgctggacaccatgaaaaaaacagctcatgagagtagaaaagaagggaggattgttaatgtctcctcacgtcgccacaaattttcttacaatgaagggatttggtttgacaagattaatgatcaatccgggtgaacatgctatagtctgacatatcttttgagtgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="11066" stop="7742"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="10766" g_stop="10689" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="78" r_length="78" r_score="0.962"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="10688" i_stop="10207" i_length="482">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="10206" g_stop="9975" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="79" r_stop="310" r_length="232" r_score="0.970"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="9974" i_stop="8879" i_length="1096">
            <donor d_prob="0.221" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="8878" g_stop="8799" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="311" r_stop="390" r_length="80" r_score="0.962"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="8798" i_stop="8233" i_length="566">
            <donor d_prob="0.978" d_score="0.94"/>
            <acceptor a_prob="0.922" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="8232" g_stop="8042" g_length="191"/>
          <reference_exon_boundary r_type="cDNA" r_start="391" r_stop="581" r_length="191" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E362500" ref_strand="+">
        <total_alignment_score>0.967</total_alignment_score>
        <cumulative_length_of_scored_exons>581</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E362500" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="10766" e_stop="10689"/>
          <exon e_start="10206" e_stop="9975"/>
          <exon e_start="8878" e_stop="8799"/>
          <exon e_start="8232" e_stop="8042"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGGATTCTCCCCAAACTCAACTGCTGAGGAAGTAACTCAAGCAATTGATGGCTCTGCTCTTACTGCCATTGTTACAGGTTCTACTCTCTTGCTCAATTTCAAATTGAACCTCCCCATTTTTTTATTTTAAGTTTCTTGGTTTAGTATTATATTATCAATATACGTTTCAGTTTATTTGTCTAATTTGACTTCGATAAAGTTTTTAATCTTGTAGTATTAGACATGTTATGTTCGAAAATTGAAATAAAAGAGTGGCTAAACTTTATGGGAAGGGACTAAAAATAAATTTTTTTGGATTCATGTATCCTACACTTAGTGGATATTCCATAAAGAAGAACTGGACTTGTTAGTTTGAATGAATTTTGTATGATTCTATGGAATGAAAAGAACCAAATAGACCAAAATGTGTATGAAGGATCCATGTAGCTCACCCTAACTGGTTTGGGATTGAGGCATAGATGTTGTAGTATTTGAAAATTGAACTGTTTATCCGCGCTCTCTTTGTCTTTGTCGATATGTGCTAGACTATTCACACTTTCACATTCATGATGGTAAACAGGAGCATCAAGTGGGATTGGTGCGGAAACTGCACGTGTTCTTGCATTGCGAGGTGTGCATGTAATTATGGGGGTAAGGAATATCTCTGCTGGAAAACAGGTTAAAGAGACGATAACTAAAGCTGTACCGCAAGCTAAAATTGATGCCTTGGAGTTGGATCTCAGTTCACTTGCATCTGTGAGGAATTTCGCATCAAATTACAATTCTTTAGGCCTTCCTCTAAACCTGCTTATGTAAGTGCTTACTTTGAAGTCTCAAAAACCGAGAATCTTGTGTTAGAGTAAGTACACATACATATCTGCTGTGAATATTATGCTCATTTCTATCCCTAAGTTCTCATAAAAAGGTGTGATCATACAGGCATAAGCTGTAGATGTCTGTATGTAAACAAAGAAACAAGAGAAAAACATGTAGTTAAAAAGACATTAAGGGTAGCTAACGGTTGTTATGTGTTAGTTCTCAACCACAGTATGCTCCAGGTCTATATTATTAGGTAATCTTATCTTACAGTTGAAATGGAATGTCTTGAATGATTAGAGAAGTGTATAAATAAGAGTACTTTTAATATATTAAGTTCGAAATATATTCTATACAAATTCTAAGTCGACGCAACTATACTTTACACTACATTAAATAGGTTATTCAATAAATATTGTAGGAAGCATATATGATGAACTGTAATTCCTTATTTGAGTGTAACATATTGAACTTATTTGGTTTATCTCCAGAGTTTTCCTTCTCTGCTGTACATATGATAAGCTTTCTGTTCGCTATGATGTCAATATGAATATGGAGATCACTTATTCATACTCCACAATTCAGACAATGCAAAATTAACATTCTGTTTTTTAAAGTGAGCAATTCATATTACTACGTATACTGTAATGCAACCTTTTAGACGATTTCCGGCCTATATTTCATGTCCCATTGGAAGATTCAGACAATACAAAAGTAAAATTATTGAAACTTGGTAATTTAATGTTATCAGTGATACTAATTTCTAATATCAGTTTTTGCTTCTATTGACAACCCCTAATTATTATGTTAATTGTCTCAAAGAAGCGATAATTCATCATAGATAATAATACCTGCATGTCTGTTTTACTTTACAATACTTAAAAATGTGACAGACTGAATCCAAGGCATTCAGATTTTGTTGCTGATATGGAAGTTCAGTTTGCTGATGAATAATCTACAGATAATATTTTTTGAGCCTTGCTCCTACCACCATTAGGGTGAACAGGACTTGCATTTATAGGCATGATACTTGTGTTTTAGGCTGAATGATGAGCACAGAAGTAACTAGATAATTGCGATCTTGTGGCAAAGTAACAATGCAGGAATCATGGCAACCCCATTCGCACTTTCCAAGGATAACATTGAGCTGCAATTTGCAACAAACCATGTCGGTAAGATGCACGACATTTCCTACTACTTAACACTGAAATGAACTAGTCAATGAAAATGAGAATAGAACGGCTGGCGATTTTCTAAGGAGATGATAAATTAAAATATCCCCAGCCTTTGGGCCTTAAAACTGGAATTACGAGGTCAATTTTGTCGCTAAGTGTTTATTGTGTATCAATCTATGTCCTGCTTGTTAGACCGACTGTGATTAAGTTAGATGATTACCATGTCATGACAAACAAAACTGGCTTAGTATATGTCTACATTGTTACTTCCTTCTCTTTAGTGCTCATGAGCCTTAGTTTGTGAGGTTTTGTTTCCCAGAGTTCTGTATAATTTTATGACATCTTTTCTAGTTAAGTATCACTTAATGTGGGTATCCTAGTTGGTGTTTTTAGTGCTGAATGCTAATTGTTTTATTCTCATAGTTCTCCTTCGTTTGGTAAGCTTGTATATTCTTAGATTTCTGCATGACTTCCTGACATCTGGTGTTCAAATTATGTTTTTGGTGATATTGAAGTCAAATTGCATCACATTAAAGGATGATTGACAGAGTATATTTTTGCAGGCCACTTCCTTTTGACAAATTTATTGCTGGACACCATGAAAAAAACAGCTCGTGAGAGTAGAAAGGAAGGGAGGATTGTTAATGTCTCCTCACGTCGCCACAAATTTTCTTACAATGAAGGGATTCGGTTTGACAAGATTAATGATCAATCAGGGTGAACATGCTATAATCTGACATATCTTTTGAGTGCT</genome_strand>
        <mrna_strand>CTGGATTCTCCCCATACTCAACTGCTGAGGAAGTAACCCAAGGAATTGATGGCTCTGCTCTTACTGCCATTGTTACAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGCATCAAGTGGAATTGGTGCGGAAACTGCACGTGTTCTTGCATTGCGAGGTGTGCATGTAATTATGGGGGTCAGGAATATCTCTGCTGGAGAACAGGTTAAAGAGACGATAATTAAAGATGTCCCACAAGCTAAAATTGATGCCTTGGAGTTGGATCTCAGTTCACTTGCATCTGTGAGGAATTTCGCATCAAATTACAATTCTTTAGGCCTTCCTCTAAACCTGCTTAT........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAACAATGCAGGAATCATGGCAACCCCATTCACACTTTCCAAGGATAAGATTGAGCTGCAATTTGCAACAAACCATGTTG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCACTTTCTTTTGACAAATTTATTGCTGGACACCATGAAAAAAACAGCTCATGAGAGTAGAAAAGAAGGGAGGATTGTTAATGTCTCCTCACGTCGCCACAAATTTTCTTACAATGAAGGGATTTGGTTTGACAAGATTAATGATCAATCCGGGTGAACATGCTATAGTCTGACATATCTTTTGAGTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E718522" ref_strand="+" ref_description="SGN-E718522 [FC04DF09]">
      <seq>gcggccaaatcggccgaattgatacaaatatcatagagttcttttactttgctctaaaagatattaaatttgtttatatttaagcattatggtgtctctaaataggaacctcattttggcatttttgtgtgttttattgtgctttgttgttagctttagcaatgcccaattatcagccaatttttatgggacgtcgtgccctaatctgcagacaattgtaagaaatgcaatgacacaagctgtgaatagagaggccagacttggtgcctctattcttcgattgttcttccatgattgcttcgttaacgggtgcgatgcatcaatactactggatgacacatcaacttttataggagaaaagaatgcaaatccaaacagaaattcagcaagaggatatgaagtgatagacaccattaaaactcaagttgaagctgcttgtcctaacgttatctcttgtgcggatattcttgctcttgctgctcgagaaggcaccgtactgcttggagggccatcatgggcagtgccattgggccgaagagacgcaaggaccgcgagccaaagcgccgccaacacccaaatccccgcaccgtcttccagtcttgcaactttaatttccatgttctccgccaaaggcctaagtgcgcgtgacatgacggcactatccggcagccacacgatcggccaggctcggtgcaccactttcagaaaccggatctacaacgacaccaacatcgacccgcaattcgccgccacgcgcagggctacctgccctgcttccggcgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="16061" stop="18860"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="16372" g_stop="16657" g_length="286"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="307" r_length="286" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16658" i_stop="17425" i_length="768">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="17426" g_stop="17617" g_length="192"/>
          <reference_exon_boundary r_type="cDNA" r_start="308" r_stop="499" r_length="192" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="17618" i_stop="18276" i_length="659">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="18277" g_stop="18560" g_length="284"/>
          <reference_exon_boundary r_type="cDNA" r_start="500" r_stop="783" r_length="284" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E718522" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>762</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E718522" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16372" e_stop="16657"/>
          <exon e_start="17426" e_stop="17617"/>
          <exon e_start="18277" e_stop="18560"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATACAAATATCATAGAGTTCTTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAACGTAAGCTTATTTCTATCTTCATTTTCATTGTTATCGATCACAAAATATATCTTATTTATTATGTGGAAACGATTTTGTATTGTATCTAAAACTCCGCAAAGCGGAAATTTAGTATATATGTGACATTTAAGAGTACTATTTTTATCTATTGATATAAAAGTACACTCTTTTAATAAAATACAACATATATTGATGAGTGGGGCCTATATAATGTAGTATTAATGTATACTTCCTCATTTGAGGTGGTACTTTTGGTTTATTTTGTTAATTTGGATTTAATATAAATATTTTTTAACTTTATCCAAACATTTTAAAATTACTTAAAAGCTATTTTGGCTTTAAAATATTTAAAATAAGTCAATCCAAACGGATACTATGCTACAATAGTTTCTTAGTTCATTTCTAACAGAATAATAATTTTCTCTTGAAATAGATATGAATCTATAGTTACTTAGATGTTATTGTTATGACACACACACACATATATATATGATCACAAATTTCAGAGTCTTAAATTGTACTATTTTGTAAGTCCAACAGTGATTGACTTTTTTTTTAAAATTAGTGTCCCGTAGGCTAAAAAGAGGTAGAAAATTATTTATAAAATAAATTCAGGGAGTAATAGAATCTTAATATAGTATAAGTCTGTTTTTAAAATTTCAAACATAGATTGAGGGAATACTTGTGCACTTTTCTTAAAAATTTGAAAGGAATATAATTCAGAAAGCATTTGCTTTATTCTACTGTGTAATTTTCTATTACTTTTAGGGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTGGTTAGTAATCCTTTTATCAATACTGACCTCACAATTTTCATGCTTCCTTATTTAGAAACATTTAACTTTTACGATGCTTTTATTTTTTTCACTTTGAAAATAATATATATATATATAAAAAAAAAAGTTTCACAATAAAACATGATGGCTAAATACATAAATAAATCCTAAACTTGTTTGGTTTTTTTCCTAAGGTACCTTAACTATGTCATTTTCCTATTGAATCGTTGAACCGCCGATAGTTTGTTCATTTTAAACAAACACTGTTGGCTGATGTGAAATCAAATTTTTGAAGGTACATATATTGTTCGAGAACTCATTAGTCCAATTAACAATGAAAATGTTCGAGAGTAATGATGTTTTATTTCAAGTCATTTGAATATATTAGAATACAAGTGAAACTAACACAGTTTGTCGTCATTCTTTAGTAAAAAAAAATTACAATACGAACACAATCGAAGACATTTATAATAGAATAGTCGATCAAAATCAACTAACGATGTTTAAAAGAAACAAATTATGGGTGATTCAATGATTTAATAGAAAAATGACGTAGTTGAGATACCTAAGGACAAAAATCTAACAAATTTAAGAATTTGTTTATGAATTCGACCAAGCATGATTAATGTTACATTTCCTGAATTAATTTGTTTATGTAGCTTGGAGGGCCATCATGGGCAGTGCCATTGGGCCGAAGAGACGCAAGGACCGCGAGCCAAAGCGCCGCCAACACCCAAATCCCCGCACCATCTTCCAGTCTTGCAACTTTAATTTCCATGTTCTCCGCCAAAGGCCTAAGTGCGCGTGACATGACGGCACTATCCGGCAGCCACACGATCGGCCAGGCTCGGTGCACCACTTTCAGAAACCGGATCTACAACGACACCAACATCGACCCGCAGTTCGCCGCCACGCGCAGGGCTACCTGCCCTGCTTCCGGCGG</genome_strand>
        <mrna_strand>ATACAAATATCATAGAGTTCTTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAAC................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGAGGGCCATCATGGGCAGTGCCATTGGGCCGAAGAGACGCAAGGACCGCGAGCCAAAGCGCCGCCAACACCCAAATCCCCGCACCGTCTTCCAGTCTTGCAACTTTAATTTCCATGTTCTCCGCCAAAGGCCTAAGTGCGCGTGACATGACGGCACTATCCGGCAGCCACACGATCGGCCAGGCTCGGTGCACCACTTTCAGAAACCGGATCTACAACGACACCAACATCGACCCGCAATTCGCCGCCACGCGCAGGGCTACCTGCCCTGCTTCCGGCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E724836" ref_strand="+" ref_description="SGN-E724836 [FC25BB12]">
      <seq>agggcgattggcggccaatcggccgaattgaaaatatcatagacttcttttactttgctctaaaagatattaaatttgtttatatttaagcattatggtgtctctaaataggaacctcattttggcatttttgtgtgttttattgtgctttgttgttagctttagcaatgcccaattatcagccaatttttatgggacgtcgtgccctaatctgcagacaattgtaagaaatgcaatgacacaagctgtgaatagagaggccagacttggtgcctctattcttcgattgttcttccatgattgcttcgttaacgggtgcgatgcatcaatactactggatgacacatcaacttttataggagaaaagaatgcaaatccaaacagaaattcagcaagaggatatgaagtgatagacaccattaaaactcaagttgaagctgcttgtcctaacgttatctcttgtgcggatattcttgctcttgctgctcgagaaggcaccgtactgcttggagggccatcatgggcagtgccattgggccgaagagacgcaaggaccgcgagccaaagcgccgccaacacccaaatccccgcaccgtcttccagtcttgcaactttaatttccatgttctccgccaaaggcctaagtgcgcgtgacatgacggcactatccggcagccacacgatcggccaggctcggtgcaccactttcagaaaccggatctacaacgacaccaacatcgacccgcaattcgccgccacgcgcagggctacctgccctgcttccggcggcgacgccaatttggccccgttggatatccagactccgaaccggttcgataatgattattatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="16061" stop="18922"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="16376" g_stop="16657" g_length="282"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="313" r_length="282" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16658" i_stop="17425" i_length="768">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="17426" g_stop="17617" g_length="192"/>
          <reference_exon_boundary r_type="cDNA" r_start="314" r_stop="505" r_length="192" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="17618" i_stop="18276" i_length="659">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="18277" g_stop="18622" g_length="346"/>
          <reference_exon_boundary r_type="cDNA" r_start="506" r_stop="851" r_length="346" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E724836" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>820</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E724836" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16376" e_stop="16657"/>
          <exon e_start="17426" e_stop="17617"/>
          <exon e_start="18277" e_stop="18622"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATATCATAGAGTTCTTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAACGTAAGCTTATTTCTATCTTCATTTTCATTGTTATCGATCACAAAATATATCTTATTTATTATGTGGAAACGATTTTGTATTGTATCTAAAACTCCGCAAAGCGGAAATTTAGTATATATGTGACATTTAAGAGTACTATTTTTATCTATTGATATAAAAGTACACTCTTTTAATAAAATACAACATATATTGATGAGTGGGGCCTATATAATGTAGTATTAATGTATACTTCCTCATTTGAGGTGGTACTTTTGGTTTATTTTGTTAATTTGGATTTAATATAAATATTTTTTAACTTTATCCAAACATTTTAAAATTACTTAAAAGCTATTTTGGCTTTAAAATATTTAAAATAAGTCAATCCAAACGGATACTATGCTACAATAGTTTCTTAGTTCATTTCTAACAGAATAATAATTTTCTCTTGAAATAGATATGAATCTATAGTTACTTAGATGTTATTGTTATGACACACACACACATATATATATGATCACAAATTTCAGAGTCTTAAATTGTACTATTTTGTAAGTCCAACAGTGATTGACTTTTTTTTTAAAATTAGTGTCCCGTAGGCTAAAAAGAGGTAGAAAATTATTTATAAAATAAATTCAGGGAGTAATAGAATCTTAATATAGTATAAGTCTGTTTTTAAAATTTCAAACATAGATTGAGGGAATACTTGTGCACTTTTCTTAAAAATTTGAAAGGAATATAATTCAGAAAGCATTTGCTTTATTCTACTGTGTAATTTTCTATTACTTTTAGGGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTGGTTAGTAATCCTTTTATCAATACTGACCTCACAATTTTCATGCTTCCTTATTTAGAAACATTTAACTTTTACGATGCTTTTATTTTTTTCACTTTGAAAATAATATATATATATATAAAAAAAAAAGTTTCACAATAAAACATGATGGCTAAATACATAAATAAATCCTAAACTTGTTTGGTTTTTTTCCTAAGGTACCTTAACTATGTCATTTTCCTATTGAATCGTTGAACCGCCGATAGTTTGTTCATTTTAAACAAACACTGTTGGCTGATGTGAAATCAAATTTTTGAAGGTACATATATTGTTCGAGAACTCATTAGTCCAATTAACAATGAAAATGTTCGAGAGTAATGATGTTTTATTTCAAGTCATTTGAATATATTAGAATACAAGTGAAACTAACACAGTTTGTCGTCATTCTTTAGTAAAAAAAAATTACAATACGAACACAATCGAAGACATTTATAATAGAATAGTCGATCAAAATCAACTAACGATGTTTAAAAGAAACAAATTATGGGTGATTCAATGATTTAATAGAAAAATGACGTAGTTGAGATACCTAAGGACAAAAATCTAACAAATTTAAGAATTTGTTTATGAATTCGACCAAGCATGATTAATGTTACATTTCCTGAATTAATTTGTTTATGTAGCTTGGAGGGCCATCATGGGCAGTGCCATTGGGCCGAAGAGACGCAAGGACCGCGAGCCAAAGCGCCGCCAACACCCAAATCCCCGCACCATCTTCCAGTCTTGCAACTTTAATTTCCATGTTCTCCGCCAAAGGCCTAAGTGCGCGTGACATGACGGCACTATCCGGCAGCCACACGATCGGCCAGGCTCGGTGCACCACTTTCAGAAACCGGATCTACAACGACACCAACATCGACCCGCAGTTCGCCGCCACGCGCAGGGCTACCTGCCCTGCTTCCGGCGGCGACGCCAATTTGGCCCCGTTGGATATCCAGACTCCGAACCGGTTCGATAATGATTATTATC</genome_strand>
        <mrna_strand>AAATATCATAGACTTCTTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAAC................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGAGGGCCATCATGGGCAGTGCCATTGGGCCGAAGAGACGCAAGGACCGCGAGCCAAAGCGCCGCCAACACCCAAATCCCCGCACCGTCTTCCAGTCTTGCAACTTTAATTTCCATGTTCTCCGCCAAAGGCCTAAGTGCGCGTGACATGACGGCACTATCCGGCAGCCACACGATCGGCCAGGCTCGGTGCACCACTTTCAGAAACCGGATCTACAACGACACCAACATCGACCCGCAATTCGCCGCCACGCGCAGGGCTACCTGCCCTGCTTCCGGCGGCGACGCCAATTTGGCCCCGTTGGATATCCAGACTCCGAACCGGTTCGATAATGATTATTATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E394709" ref_strand="+" ref_description="SGN-E394709 [TUS-42-I16]">
      <seq>ttttactttgctctaaaagatattaaatttgtttatatttaagcattatggtgtctctaaataggaacctcattttggcatttttgtgtgttttattgtgctttgttgttagctttatcaatgcccaattatcagccaatttttatgggacgtcgtgccctaatctgcagacaattgtaagaaatgcaatgacacaagctgtgaatagagaggccagacttggtgcctctattcttcgattgttcttccatgattgcttcgttaacgggtgcgatgcatcaatactactggatgacacatcaacttttataggagaaaagaatgcaaatccaaacagaaattcagcaagaggatatgaagtgatagacaccattaaaactcaagttgaagctgcttgtcctaacgttatctcttgtgcggatattcttgctcttgctgctcgagaaggcaccgtactgcttggagggccatcatgggcagtgccattgggccgaagagacgcaaggaccgcgagccaaagcgccgccaacacccaaatccccgcaccatcttccagtcttgcaactttaatttccatgttctccgccaaaggcctaagtgcgcgtgacatgacggcactatccggcagccacacgatcggccaggctcggtgcaccactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="16092" stop="18778"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="16392" g_stop="16657" g_length="266"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="266" r_length="266" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16658" i_stop="17425" i_length="768">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="17426" g_stop="17617" g_length="192"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="458" r_length="192" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="17618" i_stop="18276" i_length="659">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="18277" g_stop="18478" g_length="202"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="660" r_length="202" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E394709" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>660</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E394709" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16392" e_stop="16657"/>
          <exon e_start="17426" e_stop="17617"/>
          <exon e_start="18277" e_stop="18478"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAACGTAAGCTTATTTCTATCTTCATTTTCATTGTTATCGATCACAAAATATATCTTATTTATTATGTGGAAACGATTTTGTATTGTATCTAAAACTCCGCAAAGCGGAAATTTAGTATATATGTGACATTTAAGAGTACTATTTTTATCTATTGATATAAAAGTACACTCTTTTAATAAAATACAACATATATTGATGAGTGGGGCCTATATAATGTAGTATTAATGTATACTTCCTCATTTGAGGTGGTACTTTTGGTTTATTTTGTTAATTTGGATTTAATATAAATATTTTTTAACTTTATCCAAACATTTTAAAATTACTTAAAAGCTATTTTGGCTTTAAAATATTTAAAATAAGTCAATCCAAACGGATACTATGCTACAATAGTTTCTTAGTTCATTTCTAACAGAATAATAATTTTCTCTTGAAATAGATATGAATCTATAGTTACTTAGATGTTATTGTTATGACACACACACACATATATATATGATCACAAATTTCAGAGTCTTAAATTGTACTATTTTGTAAGTCCAACAGTGATTGACTTTTTTTTTAAAATTAGTGTCCCGTAGGCTAAAAAGAGGTAGAAAATTATTTATAAAATAAATTCAGGGAGTAATAGAATCTTAATATAGTATAAGTCTGTTTTTAAAATTTCAAACATAGATTGAGGGAATACTTGTGCACTTTTCTTAAAAATTTGAAAGGAATATAATTCAGAAAGCATTTGCTTTATTCTACTGTGTAATTTTCTATTACTTTTAGGGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTGGTTAGTAATCCTTTTATCAATACTGACCTCACAATTTTCATGCTTCCTTATTTAGAAACATTTAACTTTTACGATGCTTTTATTTTTTTCACTTTGAAAATAATATATATATATATAAAAAAAAAAGTTTCACAATAAAACATGATGGCTAAATACATAAATAAATCCTAAACTTGTTTGGTTTTTTTCCTAAGGTACCTTAACTATGTCATTTTCCTATTGAATCGTTGAACCGCCGATAGTTTGTTCATTTTAAACAAACACTGTTGGCTGATGTGAAATCAAATTTTTGAAGGTACATATATTGTTCGAGAACTCATTAGTCCAATTAACAATGAAAATGTTCGAGAGTAATGATGTTTTATTTCAAGTCATTTGAATATATTAGAATACAAGTGAAACTAACACAGTTTGTCGTCATTCTTTAGTAAAAAAAAATTACAATACGAACACAATCGAAGACATTTATAATAGAATAGTCGATCAAAATCAACTAACGATGTTTAAAAGAAACAAATTATGGGTGATTCAATGATTTAATAGAAAAATGACGTAGTTGAGATACCTAAGGACAAAAATCTAACAAATTTAAGAATTTGTTTATGAATTCGACCAAGCATGATTAATGTTACATTTCCTGAATTAATTTGTTTATGTAGCTTGGAGGGCCATCATGGGCAGTGCCATTGGGCCGAAGAGACGCAAGGACCGCGAGCCAAAGCGCCGCCAACACCCAAATCCCCGCACCATCTTCCAGTCTTGCAACTTTAATTTCCATGTTCTCCGCCAAAGGCCTAAGTGCGCGTGACATGACGGCACTATCCGGCAGCCACACGATCGGCCAGGCTCGGTGCACCACTT</genome_strand>
        <mrna_strand>TTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTATCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAAC................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGAGGGCCATCATGGGCAGTGCCATTGGGCCGAAGAGACGCAAGGACCGCGAGCCAAAGCGCCGCCAACACCCAAATCCCCGCACCATCTTCCAGTCTTGCAACTTTAATTTCCATGTTCTCCGCCAAAGGCCTAAGTGCGCGTGACATGACGGCACTATCCGGCAGCCACACGATCGGCCAGGCTCGGTGCACCACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E393723" ref_strand="+" ref_description="SGN-E393723 [TUS-42-K14]">
      <seq>ttttactttgctctaaaagatattaaatttgtttatatttaagcattatggtgtctctaaataggaacctcattttggcatttttgtgtgttttattgtgctttgttgttagctttagcaatgcccaattatcagccaatttttatgggacgtcgtgccctaatctgcagacaattgtaagaaatgcaatgacacaagctgtgaatagagaggccagacttggtgcctctattcttcgattgttcttccatgattgcttcgttaacgggtgcgatgcatcaatactactggatgacacatcaacttttataggagaaaagaatgcaaatccaaacagaaattcagcaagaggatatgaagtgatagacaccattaaaactcaagttgaagctgcttgtcctaacgttatctcttgtgcggatattcttgctcttgctgctcgagaaggcaccgtactgcttggagggccatcatgggcagtgccattgggccgaagagacgcaaggaccgcgagccaaaacgccgccaacacccaaatccccgcaccatctttcagtcttgcacttttaatttccatgttctccgccaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="16092" stop="18709"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="16392" g_stop="16657" g_length="266"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="266" r_length="266" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16658" i_stop="17425" i_length="768">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="17426" g_stop="17617" g_length="192"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="458" r_length="192" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="17618" i_stop="18276" i_length="659">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="18277" g_stop="18409" g_length="133"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="591" r_length="133" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E393723" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>591</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E393723" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16392" e_stop="16657"/>
          <exon e_start="17426" e_stop="17617"/>
          <exon e_start="18277" e_stop="18409"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAACGTAAGCTTATTTCTATCTTCATTTTCATTGTTATCGATCACAAAATATATCTTATTTATTATGTGGAAACGATTTTGTATTGTATCTAAAACTCCGCAAAGCGGAAATTTAGTATATATGTGACATTTAAGAGTACTATTTTTATCTATTGATATAAAAGTACACTCTTTTAATAAAATACAACATATATTGATGAGTGGGGCCTATATAATGTAGTATTAATGTATACTTCCTCATTTGAGGTGGTACTTTTGGTTTATTTTGTTAATTTGGATTTAATATAAATATTTTTTAACTTTATCCAAACATTTTAAAATTACTTAAAAGCTATTTTGGCTTTAAAATATTTAAAATAAGTCAATCCAAACGGATACTATGCTACAATAGTTTCTTAGTTCATTTCTAACAGAATAATAATTTTCTCTTGAAATAGATATGAATCTATAGTTACTTAGATGTTATTGTTATGACACACACACACATATATATATGATCACAAATTTCAGAGTCTTAAATTGTACTATTTTGTAAGTCCAACAGTGATTGACTTTTTTTTTAAAATTAGTGTCCCGTAGGCTAAAAAGAGGTAGAAAATTATTTATAAAATAAATTCAGGGAGTAATAGAATCTTAATATAGTATAAGTCTGTTTTTAAAATTTCAAACATAGATTGAGGGAATACTTGTGCACTTTTCTTAAAAATTTGAAAGGAATATAATTCAGAAAGCATTTGCTTTATTCTACTGTGTAATTTTCTATTACTTTTAGGGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTGGTTAGTAATCCTTTTATCAATACTGACCTCACAATTTTCATGCTTCCTTATTTAGAAACATTTAACTTTTACGATGCTTTTATTTTTTTCACTTTGAAAATAATATATATATATATAAAAAAAAAAGTTTCACAATAAAACATGATGGCTAAATACATAAATAAATCCTAAACTTGTTTGGTTTTTTTCCTAAGGTACCTTAACTATGTCATTTTCCTATTGAATCGTTGAACCGCCGATAGTTTGTTCATTTTAAACAAACACTGTTGGCTGATGTGAAATCAAATTTTTGAAGGTACATATATTGTTCGAGAACTCATTAGTCCAATTAACAATGAAAATGTTCGAGAGTAATGATGTTTTATTTCAAGTCATTTGAATATATTAGAATACAAGTGAAACTAACACAGTTTGTCGTCATTCTTTAGTAAAAAAAAATTACAATACGAACACAATCGAAGACATTTATAATAGAATAGTCGATCAAAATCAACTAACGATGTTTAAAAGAAACAAATTATGGGTGATTCAATGATTTAATAGAAAAATGACGTAGTTGAGATACCTAAGGACAAAAATCTAACAAATTTAAGAATTTGTTTATGAATTCGACCAAGCATGATTAATGTTACATTTCCTGAATTAATTTGTTTATGTAGCTTGGAGGGCCATCATGGGCAGTGCCATTGGGCCGAAGAGACGCAAGGACCGCGAGCCAAAGCGCCGCCAACACCCAAATCCCCGCACCATCTTCCAGTCTTGCAACTTTAATTTCCATGTTCTCCGCCAAAG</genome_strand>
        <mrna_strand>TTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAAC................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGAGGGCCATCATGGGCAGTGCCATTGGGCCGAAGAGACGCAAGGACCGCGAGCCAAAACGCCGCCAACACCCAAATCCCCGCACCATCTTTCAGTCTTGCACTTTTAATTTCCATGTTCTCCGCCAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E393714" ref_strand="+" ref_description="SGN-E393714 [TUS-42-I14]">
      <seq>ttttactttgctctaaaagatattaaatttgtttatatttaagcattatggtgtctctaaataggaacctcattttggcatttttgtgtgttttattgtgctttgttgttagctttagcaatgcccaattatcagccaatttttatgggacgtcgtgccctaatctgcagacaattgtaagaaatgcaatgacacaagctgtgaatagagaggccagacttggtgcctctattcttcgattgttcttccatgattgcttcgttaacgggtgcgatgcatcaatactactggatgacacatcaacttttataggagaaaagaatgcaaatccaaacagaaattcagcaagaggatatgaagtgatagacaccattaaaactcaagttgaagctgcttgtcctaacgttatctcttgtgcggatattcttgctcttgctgctccagaaggcaccgtactgcttggagggccattc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="16092" stop="17922"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="16392" g_stop="16657" g_length="266"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="266" r_length="266" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16658" i_stop="17425" i_length="768">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="17426" g_stop="17617" g_length="192"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="458" r_length="192" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E393714" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>458</cumulative_length_of_scored_exons>
        <coverage percentage="0.968" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E393714" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16392" e_stop="16657"/>
          <exon e_start="17426" e_stop="17617"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAACGTAAGCTTATTTCTATCTTCATTTTCATTGTTATCGATCACAAAATATATCTTATTTATTATGTGGAAACGATTTTGTATTGTATCTAAAACTCCGCAAAGCGGAAATTTAGTATATATGTGACATTTAAGAGTACTATTTTTATCTATTGATATAAAAGTACACTCTTTTAATAAAATACAACATATATTGATGAGTGGGGCCTATATAATGTAGTATTAATGTATACTTCCTCATTTGAGGTGGTACTTTTGGTTTATTTTGTTAATTTGGATTTAATATAAATATTTTTTAACTTTATCCAAACATTTTAAAATTACTTAAAAGCTATTTTGGCTTTAAAATATTTAAAATAAGTCAATCCAAACGGATACTATGCTACAATAGTTTCTTAGTTCATTTCTAACAGAATAATAATTTTCTCTTGAAATAGATATGAATCTATAGTTACTTAGATGTTATTGTTATGACACACACACACATATATATATGATCACAAATTTCAGAGTCTTAAATTGTACTATTTTGTAAGTCCAACAGTGATTGACTTTTTTTTTAAAATTAGTGTCCCGTAGGCTAAAAAGAGGTAGAAAATTATTTATAAAATAAATTCAGGGAGTAATAGAATCTTAATATAGTATAAGTCTGTTTTTAAAATTTCAAACATAGATTGAGGGAATACTTGTGCACTTTTCTTAAAAATTTGAAAGGAATATAATTCAGAAAGCATTTGCTTTATTCTACTGTGTAATTTTCTATTACTTTTAGGGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTG</genome_strand>
        <mrna_strand>TTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAAC................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCCAGAAGGCACCGTACTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E394708" ref_strand="+" ref_description="SGN-E394708 [TUS-42-I16](-)">
      <seq>ggaaaccggatctacaangacaccaacatcgacccgcagttcgccgccacgcgcagggctacctgccctgcttccggcggcgacgccaatttggccccgttggatatccagactccgaaccggttcgataatgattattatcagaacctagtggttcggcgtgggttgcttcactcggatcaggaattgtttaacggtggatctcaggatgcgttggtgaggagttatagtaacaatggtgcgagttttagaagtgattttgctgcagctatggtgaagatggggaatattagtccacttaccggaattaacggagagattggaacaaacagcagggctataaactaattaagtggatattacgaattgaaaatagtcatatttactatcgtaagctgtggtatcacttcctataccaaatatcagtgtcaatcagttaactagacaccaagtttacgaaataaatggagacttgtgaattttatgattttaaatatcggataacatgagttaaatttgaaaatacaacaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="18182" stop="19314"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="18481" g_stop="19021" g_length="541"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="542" r_length="542" r_score="0.952"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E394708" ref_strand="+">
        <total_alignment_score>0.952</total_alignment_score>
        <cumulative_length_of_scored_exons>541</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E394708" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="18481" e_stop="19021"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAACCGGATCTACAACGACACCAACATCGACCCGCAGTTCGCCGCCACGCGCAGGGCTACCTGCCCTGCTTCCGGCGGCGACGCCAATTTGGCCCCGTTGGATATCCAGACTCCGAACCGGTTCGATAATGATTATTATCAGAACCTAGTGGTTCGGCGTGGGTTGCTTCACTCGGATCAGGAATTGTTTAACGGTGGATCTCAGGATGCGTTGGTGAGGAGTTATAGTAACAATGGTGCGAGTTTTAGAAGTGATTTTGCTGCAGCTATGGTGAAGATGGGGAATATTAGTCCACTTACTGGAACTAATGGAGAGATTAGAACAAACTGCAGGGCTATTAACTAACTAAGTTGTTATTACGAATTTAAAATTGTCATATTTACTATCGTAAGTTGTTGTATCACTTCCTCTACCAAATATCAGTGTCAATCAGTTAACTAGACACCAAGTTTACGAAATAAATGGAGACTTTTGAATTTTATGATTTTAAATATCGGA-AACATGAGTTAAATTTGAAAATACAACACCAAATCCATAT</genome_strand>
        <mrna_strand>GGAAACCGGATCTACAANGACACCAACATCGACCCGCAGTTCGCCGCCACGCGCAGGGCTACCTGCCCTGCTTCCGGCGGCGACGCCAATTTGGCCCCGTTGGATATCCAGACTCCGAACCGGTTCGATAATGATTATTATCAGAACCTAGTGGTTCGGCGTGGGTTGCTTCACTCGGATCAGGAATTGTTTAACGGTGGATCTCAGGATGCGTTGGTGAGGAGTTATAGTAACAATGGTGCGAGTTTTAGAAGTGATTTTGCTGCAGCTATGGTGAAGATGGGGAATATTAGTCCACTTACCGGAATTAACGGAGAGATTGGAACAAACAGCAGGGCTATAAACTAATTAAGTGGATATTACGAATTGAAAATAGTCATATTTACTATCGTAAGCTGTGGTATCACTTCCTATACCAAATATCAGTGTCAATCAGTTAACTAGACACCAAGTTTACGAAATAAATGGAGACTTGTGAATTTTATGATTTTAAATATCGGATAACATGAGTTAAATTTGAAAATACAACAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E398332" ref_strand="+" ref_description="SGN-E398332 [TUS-42-K14](-)">
      <seq>accggatctacaaggacaccaacatcgacccgcagttcgccgccacgcgcagggctacctgccctgcttccggcggcgacgccaatttggccccgttggatatccagactccgaaccggttcgataatgattattatcagaacctagtggttcggcgtgggttgcttcactcggatcaggaattgtttaacggtggatctcaggatgcgttggtgaggagttatagtaacaatggtgcgagttttagaagtgattttgctgcagctatggtgaagatggggaatattagtccacttactggaattaatggagagattagaacaaactgcagggctattaactaactaagttgttattacgaatttaaaattgtcatatttactatcgtaagttgttgtatcacttcctctaccaaatatcagtgtcaatcagttaactagacaccaagtttacgaaataaatggagacttttgaattttatgattttaaatatcggaaacatgagttaaatttgaaaatacaacaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="18185" stop="19314"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="18485" g_stop="19021" g_length="537"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="537" r_length="537" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E398332" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>537</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E398332" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="18485" e_stop="19021"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCGGATCTACAACGACACCAACATCGACCCGCAGTTCGCCGCCACGCGCAGGGCTACCTGCCCTGCTTCCGGCGGCGACGCCAATTTGGCCCCGTTGGATATCCAGACTCCGAACCGGTTCGATAATGATTATTATCAGAACCTAGTGGTTCGGCGTGGGTTGCTTCACTCGGATCAGGAATTGTTTAACGGTGGATCTCAGGATGCGTTGGTGAGGAGTTATAGTAACAATGGTGCGAGTTTTAGAAGTGATTTTGCTGCAGCTATGGTGAAGATGGGGAATATTAGTCCACTTACTGGAACTAATGGAGAGATTAGAACAAACTGCAGGGCTATTAACTAACTAAGTTGTTATTACGAATTTAAAATTGTCATATTTACTATCGTAAGTTGTTGTATCACTTCCTCTACCAAATATCAGTGTCAATCAGTTAACTAGACACCAAGTTTACGAAATAAATGGAGACTTTTGAATTTTATGATTTTAAATATCGGAAACATGAGTTAAATTTGAAAATACAACACCAAATCCATAT</genome_strand>
        <mrna_strand>ACCGGATCTACAAGGACACCAACATCGACCCGCAGTTCGCCGCCACGCGCAGGGCTACCTGCCCTGCTTCCGGCGGCGACGCCAATTTGGCCCCGTTGGATATCCAGACTCCGAACCGGTTCGATAATGATTATTATCAGAACCTAGTGGTTCGGCGTGGGTTGCTTCACTCGGATCAGGAATTGTTTAACGGTGGATCTCAGGATGCGTTGGTGAGGAGTTATAGTAACAATGGTGCGAGTTTTAGAAGTGATTTTGCTGCAGCTATGGTGAAGATGGGGAATATTAGTCCACTTACTGGAATTAATGGAGAGATTAGAACAAACTGCAGGGCTATTAACTAACTAAGTTGTTATTACGAATTTAAAATTGTCATATTTACTATCGTAAGTTGTTGTATCACTTCCTCTACCAAATATCAGTGTCAATCAGTTAACTAGACACCAAGTTTACGAAATAAATGGAGACTTTTGAATTTTATGATTTTAAATATCGGAAACATGAGTTAAATTTGAAAATACAACAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E394814" ref_strand="+" ref_description="SGN-E394814 [TUS-42-I14](-)">
      <seq>cggcggcgacgccaatttggccccgttggatatccagactccgaaccggttcgataatgattattatcagaacctagtggttcggcgtgggttgcttcactcggatcaggaattgtttaacggtggatctcaggatgcgttggtgaggagttatagtaacaatggtgcgagttttagaagtgattttgctgcagctatggtgaagatggggaatattagtccacttactggaattaacggagagattagaacaaactgcagggctattaactaattatgtggatattacgaatttaaaatagtcatatttactatagtaagcagtggtatcacttcctgtaccaaatatcagtgtcaatcagttaattagacaccaagtttacgaaataaatggagacttttgaatattatgattttaaatatcggataacatgagttaaatttgaaaatacaacaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="18255" stop="19314"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="18555" g_stop="19021" g_length="467"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="468" r_length="468" r_score="0.951"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E394814" ref_strand="+">
        <total_alignment_score>0.951</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E394814" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="18555" e_stop="19021"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGCGGCGACGCCAATTTGGCCCCGTTGGATATCCAGACTCCGAACCGGTTCGATAATGATTATTATCAGAACCTAGTGGTTCGGCGTGGGTTGCTTCACTCGGATCAGGAATTGTTTAACGGTGGATCTCAGGATGCGTTGGTGAGGAGTTATAGTAACAATGGTGCGAGTTTTAGAAGTGATTTTGCTGCAGCTATGGTGAAGATGGGGAATATTAGTCCACTTACTGGAACTAATGGAGAGATTAGAACAAACTGCAGGGCTATTAACTAACTAAGTTGTTATTACGAATTTAAAATTGTCATATTTACTATCGTAAGTTGTTGTATCACTTCCTCTACCAAATATCAGTGTCAATCAGTTAACTAGACACCAAGTTTACGAAATAAATGGAGACTTTTGAATTTTATGATTTTAAATATCGGA-AACATGAGTTAAATTTGAAAATACAACACCAAATCCATAT</genome_strand>
        <mrna_strand>CGGCGGCGACGCCAATTTGGCCCCGTTGGATATCCAGACTCCGAACCGGTTCGATAATGATTATTATCAGAACCTAGTGGTTCGGCGTGGGTTGCTTCACTCGGATCAGGAATTGTTTAACGGTGGATCTCAGGATGCGTTGGTGAGGAGTTATAGTAACAATGGTGCGAGTTTTAGAAGTGATTTTGCTGCAGCTATGGTGAAGATGGGGAATATTAGTCCACTTACTGGAATTAACGGAGAGATTAGAACAAACTGCAGGGCTATTAACTAATTATGTGGATATTACGAATTTAAAATAGTCATATTTACTATAGTAAGCAGTGGTATCACTTCCTGTACCAAATATCAGTGTCAATCAGTTAATTAGACACCAAGTTTACGAAATAAATGGAGACTTTTGAATATTATGATTTTAAATATCGGATAACATGAGTTAAATTTGAAAATACAACAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E371217" ref_strand="+" ref_description="SGN-E371217 [TUS-28-J23](-)">
      <seq>aagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcatcaaccacctgttatatagcattgaatccacaagtgaagggggtgagtggtgaatattttcaggacaacaatttggccaccccatcgaagaaggctagggacatggatttggctaagaaactctgggattttagtgtggatttggttaagtaacaaacaacatatatcagtaagtaagttgtggtgtgcattagtcggtttgattcgattctatgtattatcggttttcaatttttaaataagctaaaccaataataaaataataagatattttttatcgtttatcgatttacccaataagaaaatgttcataaaatatatatatatatatataatttctcacttctctatttgacataaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="20899" stop="19062"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="20599" g_stop="20552" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="48" r_length="48" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="133" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="134" r_stop="180" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="19732" g_stop="19360" g_length="373"/>
          <reference_exon_boundary r_type="cDNA" r_start="181" r_stop="553" r_length="373" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E371217" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>553</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E371217" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="20599" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19360"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATCGTTTATCGATTTACCCAATAAGAAAATGTTCATAAAATATATATATATATATATAATTTCTCACTTCTCTATTTGACATAATACAATG</genome_strand>
        <mrna_strand>AAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATCGTTTATCGATTTACCCAATAAGAAAATGTTCATAAAATATATATATATATATATAATTTCTCACTTCTCTATTTGACATAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345159" ref_strand="+" ref_description="SGN-E345159 [cTOF-22-J24]">
      <seq>agcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcatcaaccacctgttatatagcattgaatccacaagtgaagggggtgagtggtgaatattttcaggacaacaatttggccaccccatcgaagaaggctagggacatggatttggctaagaaactctgggattttagtgtggatttggttaagtaacaaacaacatatatcagtaagtaagttgtggtgtgcattagtcggtttgattcgattctatgtattatcggttttcaatttttaaataagctaaaccaataataaaataataagatattttttatcgtttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="21470" stop="19143"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21170" g_stop="21063" g_length="108"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="108" r_length="108" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="109" r_stop="187" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="188" r_stop="272" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="273" r_stop="319" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="19732" g_stop="19434" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="320" r_stop="618" r_length="299" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E345159" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>618</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345159" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21170" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19434"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATCGTTTATCGATTTAC</genome_strand>
        <mrna_strand>AGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATCGTTTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E552036" ref_strand="+" ref_description="SGN-E552036 [cTSB-2-K12]">
      <seq>gttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcatcaaccacctgttatatagcattgaatccacaagtgaagggggtgagtggtgaatattttcaggacaacaatttggccaccccatcgaagaaggctagggacatggatttggctaagaaactctgggattttagtgtggatttggttaagtaacaaacaacatatatcagtaagtaagttgtggtgtgcattagtcggtttgattcgattctatgtattatcggttttcaatttttaaataagctaaaccaataataaaataataagatattttttatcgttaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="21433" stop="19143"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21133" g_stop="21063" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="71" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="72" r_stop="150" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="235" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="236" r_stop="282" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="19732" g_stop="19448" g_length="285"/>
          <reference_exon_boundary r_type="cDNA" r_start="283" r_stop="567" r_length="285" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="571" polyA_stop="590"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E552036" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>567</cumulative_length_of_scored_exons>
        <coverage percentage="0.961" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E552036" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21133" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19448"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATC</genome_strand>
        <mrna_strand>GTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E552273" ref_strand="+" ref_description="SGN-E552273 [cTSB-3-G16]">
      <seq>gttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcatcaaccacctgttatatagcattgaatccacaagtgaagggggtgagtggtgaatattttcaggacaacaatttggccaccccatcgaagaaggctagggacatggatttggctaagaaactctgggattttagtgtggatttggttaagtaacaaacaacatatatcagtaagtaagttgtggtgtgcattagtcggtttgattcgattctatgtattatcggttttcaatttttaaataagctaaaccaataataaaataataagatattttttatcgttaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="21433" stop="19143"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21133" g_stop="21063" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="71" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="72" r_stop="150" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="235" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="236" r_stop="282" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="19732" g_stop="19448" g_length="285"/>
          <reference_exon_boundary r_type="cDNA" r_start="283" r_stop="567" r_length="285" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="571" polyA_stop="591"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E552273" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>567</cumulative_length_of_scored_exons>
        <coverage percentage="0.959" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E552273" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21133" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19448"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATC</genome_strand>
        <mrna_strand>GTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E323174" ref_strand="+" ref_description="SGN-E323174 [cTOB-28-A3]">
      <seq>ttccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcatcaaccacctgttatatagcattgaatccacaagtgaagggggtgagtggtgaatattttcaggacaacaatttggccaccccatcgaagaaggctagggacatggatttggctaagaactctgggattttagtgtggatttggtttagtaaacaacacatatatcagtaagtaagttgtgtgtgcattagtcggttgattcgatctatgtatatcggttttcatttttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="27731" stop="19190"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21998" g_stop="21942" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="211" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="212" r_stop="290" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="291" r_stop="375" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="376" r_stop="422" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="19732" g_stop="19490" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="423" r_stop="659" r_length="237" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E323174" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>665</cumulative_length_of_scored_exons>
        <coverage percentage="1.009" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E323174" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21998" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19490"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTA</genome_strand>
        <mrna_strand>TTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAG-AACTCTGGGATTTTAGTGTGGATTTGGTTTAGTAAACAAC-ACATATATCAGTAAGTAAGTTGT-GTGTGCATTAGTCGG-TTGATTCGA-TCTATGTA-TATCGGTTTTCATTTTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E253142" ref_strand="+" ref_description="SGN-E253142 [cLEG-26-C3]">
      <seq>ctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcatcaaccacctgttatatagcattgaatccacaagtgaagggggtgagtggtgaatattttca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="34898" stop="19365"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21994" g_stop="21942" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="207" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="208" r_stop="286" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="287" r_stop="371" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="372" r_stop="418" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="19732" g_stop="19665" g_length="68"/>
          <reference_exon_boundary r_type="cDNA" r_start="419" r_stop="486" r_length="68" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E253142" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>486</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E253142" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21994" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19665"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCA</genome_strand>
        <mrna_strand>CTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705047" ref_strand="+" ref_description="SGN-E705047 [FA26AA11]">
      <seq>gtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttanaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcatcaaccacctgttatatagcattgaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23183" stop="19400"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22883" g_stop="22722" g_length="162"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="162" r_length="162" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="394" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="395" r_stop="474" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="475" r_stop="628" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="629" r_stop="707" r_length="79" r_score="0.987"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="708" r_stop="792" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="793" r_stop="839" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="19732" g_stop="19700" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="840" r_stop="872" r_length="33" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E705047" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>872</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705047" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22883" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19700"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATCAACCACCTGTTATATAGCATTGAAT</genome_strand>
        <mrna_strand>GTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTANAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCATCAACCACCTGTTATATAGCATTGAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E272318" ref_strand="+" ref_description="SGN-E272318 [cLEM-19-F22]">
      <seq>ccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcatcaaccacctgttatatagcattgaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="22517" stop="19400"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22217" g_stop="22118" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="100" r_length="100" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="101" r_stop="180" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="181" r_stop="334" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="335" r_stop="412" r_length="78" r_score="0.987"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="413" r_stop="497" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="498" r_stop="544" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="19732" g_stop="19700" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="545" r_stop="577" r_length="33" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E272318" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>578</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E272318" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22217" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19700"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATCAACCACCTGTTATATAGCATTGAAT</genome_strand>
        <mrna_strand>CCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATC-AAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCATCAACCACCTGTTATATAGCATTGAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339977" ref_strand="+" ref_description="SGN-E339977 [cTOF-3-C15]">
      <seq>tctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatgggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcatcaaccacctgttatatagcattgaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23225" stop="19401"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22925" g_stop="22761" g_length="165"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="165" r_length="165" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22760" i_stop="22204" i_length="557">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22203" g_stop="22118" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="166" r_stop="251" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="252" r_stop="331" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="332" r_stop="485" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="486" r_stop="564" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="565" r_stop="649" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="650" r_stop="697" r_length="48" r_score="0.957"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="0.96"/>
            <acceptor a_prob="0.771" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="19732" g_stop="19701" g_length="32"/>
          <reference_exon_boundary r_type="cDNA" r_start="698" r_stop="729" r_length="32" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E339977" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>728</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E339977" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22925" e_stop="22761"/>
          <exon e_start="22203" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19701"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAG-GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATCAACCACCTGTTATATAGCATTGAA</genome_strand>
        <mrna_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCATCAACCACCTGTTATATAGCATTGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E708937" ref_strand="+" ref_description="SGN-E708937 [FA42AG05]">
      <seq>cataaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgntnatggcttagtaagcacgattggaaaactcctgcttaaaaatnngtcacagggagcatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23164" stop="19543"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22864" g_stop="22722" g_length="143"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="143" r_length="143" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="144" r_stop="375" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="376" r_stop="455" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="456" r_stop="609" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="610" r_stop="688" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="689" r_stop="773" r_length="85" r_score="0.976"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.857" a_score="0.89"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="774" r_stop="820" r_length="47" r_score="0.894"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="0.89"/>
            <acceptor a_prob="0.771" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="19732" g_stop="19725" g_length="8"/>
          <reference_exon_boundary r_type="cDNA" r_start="821" r_stop="828" r_length="8" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E708937" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>828</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E708937" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22864" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19725"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCATC</genome_strand>
        <mrna_strand>CATAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGNTNATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATNNGTCACAG.....................................................................................................GGAGCATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E707589" ref_strand="+" ref_description="SGN-E707589 [FA33BG04]">
      <seq>cgttgcacgattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcacttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgactatcgttaatggcttagtaagcacgattggaaaactcctgcttaaaaatgttcaacagggagcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23205" stop="19530"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22906" g_stop="22722" g_length="185"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="185" r_length="185" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="186" r_stop="417" r_length="232" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="418" r_stop="497" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="498" r_stop="651" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="652" r_stop="730" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20287" g_stop="20203" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="731" r_stop="815" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="19880" g_stop="19834" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="816" r_stop="862" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="19732" g_stop="19726" g_length="7"/>
          <reference_exon_boundary r_type="cDNA" r_start="863" r_stop="869" r_length="7" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E707589" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>869</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E707589" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22906" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20203"/>
          <exon e_start="19880" e_stop="19834"/>
          <exon e_start="19732" e_stop="19726"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATGGTAATAATATTCCCTCTTTCTGCTTTCTTTTCCTTTCTCCTTTTCGTTTAGTACCTGCTTCAAATTGTTATAATGGAATGTGTAGCGCGTTATGCCTTCTTTCGATATCTCAAATCGAGCATCTAGCGCTAACTGATGCTAAATCATGACATGGCAGGCAGATGGCATTTGCCTTTTGTTTTGTCTTTCAATATCTTTCTCACTTCTCAGCTCTGTTTTGGTTGAGTTTCTAATTTTTACTGTTTTGGCCTAAAGAGAAGCTTTTCATAACGTCTGTTCTCTACTTATTGTTGGTTAATGCTACGTCTTCTGTATGGCCCAGGCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAGGTAGGTTCTACATGAATTAGTTAAGTTGCAAATTGTTTTGGAAGTGTAAACAGGTAAGGCAAATGATCAGTTTTTAACTTCCATTTGTTCGTCTTCTCTAGGGAGCAT</genome_strand>
        <mrna_strand>CGTTGCACGATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCACTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG..................................................................................................................................................................................................................................................................................................................................GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG.....................................................................................................GGAGCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705612" ref_strand="+" ref_description="SGN-E705612 [FA27CF03]">
      <seq>gtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagccatcttttccgtcatatgacta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23183" stop="19912"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22883" g_stop="22722" g_length="162"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="162" r_length="162" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="394" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="395" r_stop="474" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="475" r_stop="628" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="629" r_stop="707" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20287" g_stop="20212" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="708" r_stop="783" r_length="76" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E705612" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>783</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705612" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22883" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20212"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTA</genome_strand>
        <mrna_strand>GTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCCATCTTTTCCGTCATATGACTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E204377" ref_strand="+" ref_description="SGN-E204377 [cLEC-13-F1]">
      <seq>gcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattgtatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagctctctgcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacacttaatcctggagcaatctcaagcaatcttttccgtcatatgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="22601" stop="19914"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22301" g_stop="22118" g_length="184"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="184" r_length="184" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="0.98"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="185" r_stop="264" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="265" r_stop="418" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="419" r_stop="497" r_length="79" r_score="0.975"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20287" g_stop="20214" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="498" r_stop="571" r_length="74" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E204377" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>571</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E204377" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22301" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20214"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGAC</genome_strand>
        <mrna_strand>GCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTGTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGCTCTCTGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E317465" ref_strand="+" ref_description="SGN-E317465 [cTOA-28-H14]">
      <seq>ttgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacgaaattaatgaccangaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtggaaataactgcaaacacactgtatcctggagcaatctcaagcaatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23142" stop="19930"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22842" g_stop="22722" g_length="121"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="121" r_length="121" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="353" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="354" r_stop="433" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="434" r_stop="587" r_length="154" r_score="0.987"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="588" r_stop="666" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20287" g_stop="20230" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="667" r_stop="724" r_length="58" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E317465" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>724</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E317465" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22842" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20230"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATC</genome_strand>
        <mrna_strand>TTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACGAAATTAATGACCANGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGAAATAACTGCAAACACACTGTATCCTGGAGCAATCTCAAGCAATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E317077" ref_strand="+" ref_description="SGN-E317077 [cTOA-27-O18]">
      <seq>ttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggaagacggtgtgggaataactgcaancacacttaatcctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23221" stop="20251"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22921" g_stop="22722" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="200" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="201" r_stop="432" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="433" r_stop="512" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="513" r_stop="666" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="667" r_stop="745" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20287" g_stop="20251" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="746" r_stop="782" r_length="37" r_score="0.946"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E317077" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>782</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E317077" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22921" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20287" e_stop="20251"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTTTAGTTGATCTTTACTTTGAACAGGAAGACGGTGTGGAAATAACTGCAAACACACTTAATC</genome_strand>
        <mrna_strand>TTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG........................................................................................................................................................................................................................................................................GAAGACGGTGTGGGAATAACTGCAANCACACTTAATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730268" ref_strand="+" ref_description="SGN-E730268 [LA23CD10]">
      <seq>atattctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcacttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaagttcctggcctctgtattcaatcatagctagagctgagggggtccatgttatgcaactaaactcttaagaaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23186" stop="20012"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22886" g_stop="22722" g_length="165"/>
          <reference_exon_boundary r_type="cDNA" r_start="6" r_stop="170" r_length="165" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="402" r_length="232" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="403" r_stop="482" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="483" r_stop="636" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="637" r_stop="715" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20551" i_stop="20383" i_length="169">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.816" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20382" g_stop="20311" g_length="72"/>
          <reference_exon_boundary r_type="cDNA" r_start="716" r_stop="788" r_length="73" r_score="0.958"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E730268" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>782</cumulative_length_of_scored_exons>
        <coverage percentage="0.992" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730268" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22886" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20382" e_stop="20311"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGACAAAACACATATGTTGCTTGGTGTGGGCATTTTGGTATTTCCTTTTCACACTTCAAGAAATGCTTGGTTTGCAGTTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGA-GGGGTCCATGTTATGCAACTAAACTCTTAAGAATTT</genome_strand>
        <mrna_strand>CTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCACTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG.........................................................................................................................................................................TTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGGTCCATGTTATGCAACTAAACTCTTAAGAAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E689293" ref_strand="+" ref_description="SGN-E689293 [t3_tus_80_P06]">
      <seq>cgtttgaaggatagtctatgttgcatcaaacgctcattatgttacatatcgtcgagggaattctgtttgacaaaattaatgaccaggaaaggtaatcataattatgtttcggtattagttcaatcaagtctatcagagtgtgaagttcaaatgtcaaaatatctaccagtgccgttatgtatttattacctgcaagatgcttaataactaactatccacctcactacaaatcactcttaatcagtgcttatcctcgtgacaaatatagtaaactaacagcctacttatccattctcaattaaaggaaacctccatttgctcagaatcattgcttcagttgcttgatgacttctgtaagaatatgggatagttctgtcttacagctccagaatttctatgcttgctgtgttctattgctgtaccttcttggtactagctactatagtgaaatttattaagaaaaacacacatttggccattgtaaattcatttatactttttgttgtttctaacctgtttgcagctaccgaaagttctcggcatatggccaatcaaagatggctaacatactgacgacatatgagctcgcgaagcgcttaaaggtgttttctcagaaatatatctaacatgctgctttctcatcttattttcatattgggtttatgtgtaactcatagttttgctccattccaagaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="21447" stop="20157"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21152" g_stop="20457" g_length="696"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="697" r_length="697" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E689293" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>696</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E689293" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21152" e_stop="20457"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGT-GAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGA</genome_strand>
        <mrna_strand>CGTTTGAAGGATAGTCTATGTTGCATCAAACGCTCATTATGTTACATATCGTCGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATCAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAATAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACCGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGACGACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTAACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCATAGTTTTGCTCCATTCCAAGAGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326074" ref_strand="+" ref_description="SGN-E326074 [cTOC-16-D5]">
      <seq>agaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaaggtaatcataattatgtttcggtattagttcaatcaagtctataagagtgtgaagttcaaatgtcaaaatatctaccagtgccgttatgtatttattacctgcaagatgcttagtaactaactatccacctcactacaaatcactcttaatcagtgcttatcctcgtgacaaatatagtaaactaacagcctacttatccattctcaattaaaggaaacctccatttgctcagaatcattgcttcagttgcttgatgacttctgtaagaatatgggatagttctgtcttacagctccagaatttctatgcttgctgtgttctattgctgtaccttcttggtactagctactatagtgaaatttattaagaaaaacacacatttggccattgtaaattcatttatactttttgttgtttctaacctgtttgcagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggtgttttctcagaaatatatcttacatgctgctttctcatcttattttcatattgggtttatgtgtaactcacagttttgctccattccaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="21447" stop="20160"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21148" g_stop="20460" g_length="689"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="689" r_length="689" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E326074" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>689</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E326074" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21148" e_stop="20460"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAG</genome_strand>
        <mrna_strand>AGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327307" ref_strand="+" ref_description="SGN-E327307 [cTOC-19-P15]">
      <seq>agaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaagttttgctccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23163" stop="20242"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22863" g_stop="22722" g_length="142"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="142" r_length="142" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="143" r_stop="374" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="375" r_stop="454" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="455" r_stop="608" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20552" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="609" r_stop="687" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20551" i_stop="20477" i_length="75">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.754" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20476" g_stop="20466" g_length="11"/>
          <reference_exon_boundary r_type="cDNA" r_start="688" r_stop="698" r_length="11" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E327307" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>698</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327307" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22863" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20552"/>
          <exon e_start="20476" e_stop="20466"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCAT</genome_strand>
        <mrna_strand>AGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG...........................................................................TTTTGCTCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327044" ref_strand="+" ref_description="SGN-E327044 [cTOC-18-H13]">
      <seq>agaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaaggtaatcataattatgtttcggtattagttcaatcaagtctataagagtgtgaagttcaaatgtcaaaatatctaccagtgccgttatgtatttattacctgcaagatgcttagtaactaactatccacctcactacaaatcactcttaatcagtgcttatcctcgtgacaaatatagtaaactaacagcctacttatccattctcaattaaaggaaacctccatttgctcagaatcattgcttcagttgcttgatgacttctgtaagaatatgggatagttctgtcttacagctccagaatttctatgcttgctgtgttctattgctgtaccttcttggtactagctactatagtgaaatttattaagaaaaacacacatttggccattgtaaattcatttatactttttgttgtttctaacctgtttgcagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaacatatgagctcgcgaagcgcttaaaggtgttttctcagaaatatatcttacatgctgctttctcatcttattttcatattgggtttatgtgtaactcacagttttgctccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="21447" stop="20166"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21148" g_stop="20466" g_length="683"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="683" r_length="683" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E327044" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>683</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327044" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21148" e_stop="20466"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCAT</genome_strand>
        <mrna_strand>AGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326490" ref_strand="+" ref_description="SGN-E326490 [cTOC-17-E7]">
      <seq>tctgttgcaccattttctcagttgcacaattttccattagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggctttttcaaaagaaatggaccatctgggttttcgtatttcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaattaatgaccaggaaagctacagaaagttctcggcatatggccaatcaaagatggctaacatactgtcaaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23225" stop="20276"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22925" g_stop="22722" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="207" r_length="207" r_score="0.971"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="208" r_stop="439" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="440" r_stop="519" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="520" r_stop="672" r_length="153" r_score="0.994"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20576" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="673" r_stop="727" r_length="55" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E326490" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>725</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E326490" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22925" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20576"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCA-TAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGC-TTTTCAAAAGAAATGGACCATCTGGGTTTTCGTA-TTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACA</genome_strand>
        <mrna_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATTAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGAC-AAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E370789" ref_strand="+" ref_description="SGN-E370789 [TUS-28-J16]">
      <seq>tctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgagggaattctgtttgacaaaattaatgaccaggaaagctacagaaagttctcggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23225" stop="20313"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22925" g_stop="22722" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="204" r_length="204" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="205" r_stop="436" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="437" r_stop="516" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21063" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="517" r_stop="670" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20630" g_stop="20613" g_length="18"/>
          <reference_exon_boundary r_type="cDNA" r_start="671" r_stop="688" r_length="18" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E370789" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>688</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E370789" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22925" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21063"/>
          <exon e_start="20630" e_stop="20613"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGC</genome_strand>
        <mrna_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAGAAAGTTCTCGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E211860" ref_strand="+" ref_description="SGN-E211860 [cLEC-66-L4]">
      <seq>gtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgaggggattctgtttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23174" stop="20784"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22874" g_stop="22722" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="153" r_length="153" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="154" r_stop="385" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="386" r_stop="465" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21084" g_length="133"/>
          <reference_exon_boundary r_type="cDNA" r_start="466" r_stop="598" r_length="133" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E211860" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>598</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E211860" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22874" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21084"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGA</genome_strand>
        <mrna_strand>GTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGGATTCTGTTTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340774" ref_strand="+" ref_description="SGN-E340774 [cTOF-5-E8]">
      <seq>aattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacanatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaangagacagcatctgaaacaaagagagagggaaggatagtcaatgttgcatcagacgctcattatgttacatatcgtgaggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23198" stop="20796"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22898" g_stop="22722" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="177" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="178" r_stop="409" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="410" r_stop="489" r_length="80" r_score="0.988"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21096" g_length="121"/>
          <reference_exon_boundary r_type="cDNA" r_start="490" r_stop="610" r_length="121" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E340774" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>610</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340774" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22898" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21096"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGG</genome_strand>
        <mrna_strand>AATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACANATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAANGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E298566" ref_strand="+" ref_description="SGN-E298566 [cLET-41-P5]">
      <seq>aattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaaggatagtcaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23198" stop="20833"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22898" g_stop="22722" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="177" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="178" r_stop="409" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="410" r_stop="489" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21133" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="490" r_stop="573" r_length="84" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E298566" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>573</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298566" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22898" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21133"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATG</genome_strand>
        <mrna_strand>AATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E371218" ref_strand="+" ref_description="SGN-E371218 [TUS-28-J23]">
      <seq>tctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagcatctgaaacaaagagagagggaagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23225" stop="20843"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22925" g_stop="22722" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="204" r_length="204" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="205" r_stop="436" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="437" r_stop="516" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21143" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="517" r_stop="590" r_length="74" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E371218" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>590</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E371218" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22925" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21143"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGG</genome_strand>
        <mrna_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E271051" ref_strand="+" ref_description="SGN-E271051 [cLEM-22-J22]">
      <seq>ttctcagttgcacaattttccatagctagtgaatagagtgagtgagacagaaacaagcagagcagcgaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatctaggtcacttccttttgacaaatttgttgttggagaagatgaaggagacagca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23211" stop="20867"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22911" g_stop="22722" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="190" r_length="190" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="191" r_stop="422" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21942" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="423" r_stop="502" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725">
            <donor d_prob="0.557" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21216" g_stop="21167" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="503" r_stop="552" r_length="50" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E271051" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>552</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E271051" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22911" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21942"/>
          <exon e_start="21216" e_stop="21167"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAGGTATGGCTGTTAATCACAACTATTACGTGTTGAAGACGAGAATAATCGGGTCATGCTATGGAGAAGACATAGAAAGTTGAAGTCTAGAAATAGAACAAATATCTTAGATAGTTGCATCTTTTCTTTCCACGAATAGTTCTGCAAGAAAAATGATAGCATAAGGTTAAATGTACTATCTCCCTACCAGACAATGGTGTGCGTTCAAAATATGAAAAAGTAAACACACGAAGAAGCTAATGGGTACATAAAAAATAATTTTAACTATGTATAAATAGTGCGGAAACATCGCTGAATCCCAGCTTCCTGATAATACTAAAATGAAGGTTCAGTTTTCCCTTAAAGGAGATCCATGATCGAGTTGTCAATACTTTTTCAACTTAGACTTCATTTGTTAATGTGGACGGAGAAAGCCTTTTAAGACCCGAATTAGCGTAGATGTGCAACAATGATACTAGGGAGACAAAGCATGATTTTAAAATACTACTGCTTAGGCTTTCTATGTTGAAGCCAGTTTTATTTGACGTAGAAAGCCTTCGCCCATACTTTGTCATCCCATTTTCAGTCACACAATACATATGTAACAGATGTTACAAGGTTTGGATTTGATGTACTACAATAATAGATGAAAGATGCGCGATGATTCTATAATTGCACTTTTAAGAGGGAAAATGCATACCCACTTAATCATCTTAGCCATAATTATTCTTTTTTTCTTGTGTTTGAAGGTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCA</genome_strand>
        <mrna_strand>TTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGAGACAGAAACAAGCAGAGCAGCGAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339605" ref_strand="+" ref_description="SGN-E339605 [cTOE-16-B12]">
      <seq>ttttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaatttgccacaaatcatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23196" stop="21645"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22896" g_stop="22722" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="175" r_length="175" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="176" r_stop="407" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21945" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="408" r_stop="484" r_length="77" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E339605" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>484</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E339605" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22896" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATC</genome_strand>
        <mrna_strand>TTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295428" ref_strand="+" ref_description="SGN-E295428 [cLET-23-D6]">
      <seq>tcccccgggctgcaggtgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatgcaggcgtgatggcaattccctttatgctctccaaagacaatatagagctgcaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23154" stop="21660"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22858" g_stop="22722" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="136" r_length="136" r_score="0.927"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="137" r_stop="368" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="21960" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="369" r_stop="430" r_length="62" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E295428" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>431</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295428" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22858" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="21960"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAAT</genome_strand>
        <mrna_strand>TCCCCCGGGCTGC-AGGTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324276" ref_strand="+" ref_description="SGN-E324276 [cTOC-4-M2]">
      <seq>ccatcaatatccgtgcaagctgagtttttgtctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaagaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattgaacatcttaattaataatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23255" stop="21806"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22955" g_stop="22722" g_length="234"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="234" r_length="234" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22118" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="235" r_stop="466" r_length="232" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96">
            <donor d_prob="0.802" d_score="1.00"/>
            <acceptor a_prob="0.879" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22021" g_stop="22014" g_length="8"/>
          <reference_exon_boundary r_type="cDNA" r_start="467" r_stop="474" r_length="8" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E324276" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>474</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324276" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22955" e_stop="22722"/>
          <exon e_start="22349" e_stop="22118"/>
          <exon e_start="22021" e_stop="22014"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAATGTAAGTGAAGAATAAGAGTACTAATCAGATTTGCCATTTTGCAAGAATCTCTATCTCCATAAATATCTACTAACATTATATCTTGTCATTCTTAAGTAATAATG</genome_strand>
        <mrna_strand>CCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAAGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT................................................................................................TAATAATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219033" ref_strand="-" ref_description="SGN-E219033 [cLEL-11-F7](-)">
      <seq>tttttttttttgtctgttgtatcattttctcagttgcacaattttccagagctagtgaggggagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaacgaaatggaccatctgggttttcgtattcctctactggtgaagaagtaacccatggaatcgacggctccggtctcaccgtcattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatcggtaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatatgcagctgattttatatcatcgggtcactcattgaacatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23231" stop="21823"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22937" g_stop="22722" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="216" r_length="216" r_score="0.935"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22123" g_length="227"/>
          <reference_exon_boundary r_type="cDNA" r_start="217" r_stop="443" r_length="227" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E219033" ref_strand="-">
        <total_alignment_score>0.962</total_alignment_score>
        <cumulative_length_of_scored_exons>443</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E219033" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="22937" e_stop="22722"/>
          <exon e_start="22349" e_stop="22123"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATC</genome_strand>
        <mrna_strand>TTTTTTTTTTTGTCTGTTGTATCATTTTCTCAGTTGCACAATTTTCCAGAGCTAGTGAGGGGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAACGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGGTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGTCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATCGGTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATATGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219462" ref_strand="-" ref_description="SGN-E219462 [cLEL-11-F8](-)">
      <seq>atcaatatccgtgcaagctgagtttgtgtctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaagaagcaatagttaaggaaatccctgctgccaaagtagatgtaatggaattagatcttagttcatttgattcagtgaagaaatttgcagctgattttatatcatcgggtcactcattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23253" stop="21829"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22953" g_stop="22722" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="232" r_length="232" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22129" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="233" r_stop="453" r_length="221" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E219462" ref_strand="-">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>453</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E219462" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="22953" e_stop="22722"/>
          <exon e_start="22349" e_stop="22129"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTG</genome_strand>
        <mrna_strand>ATCAATATCCGTGCAAGCTGAGTTTGTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328241" ref_strand="+" ref_description="SGN-E328241 [cTOC-21-F5]">
      <seq>tctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttangaatatgactgctggaaaagatgttaaagaagcaaatagtaaggaaatccctgctgccaaagtagatgtaatggaattagatnctagttcatttgatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23225" stop="21876"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22925" g_stop="22722" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="204" r_length="204" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22176" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="205" r_stop="378" r_length="174" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E328241" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>378</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328241" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22925" e_stop="22722"/>
          <exon e_start="22349" e_stop="22176"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATT</genome_strand>
        <mrna_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTANGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAAATAGTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATNCTAGTTCATTTGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E243775" ref_strand="+" ref_description="SGN-E243775 [cLED-35-F21]">
      <seq>tcaaagaagattgctcatctcttaaatagagatcttgagttttaaatataatttttttttttaataaaaagtactttcatctttgggtaaaaatttatttatgtattatgcgttttttaatctttcgagtaagaaaatatatagagatttaacaaacaaaaaaacaaaaatcacaatatagtaatgagtaatgccatcaatatccgtgcaagctgagtttttgtctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagatgttaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23448" stop="21945"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23148" g_stop="22722" g_length="427"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="427" r_length="427" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22245" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="428" r_stop="532" r_length="105" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E243775" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>532</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E243775" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23148" e_stop="22722"/>
          <exon e_start="22349" e_stop="22245"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAG</genome_strand>
        <mrna_strand>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E241920" ref_strand="+" ref_description="SGN-E241920 [cLED-27-J4]">
      <seq>tcaaagaagattgctcatctcttaaatagagatcttgagttttaaatataatttttttttttaataaaaagtactttcatctttgggtaaaaatttatttatgtattatgcgttttttaatctttcgagtaagaaaatatatagagatttaacaaacaaaaaaacaaaaatcacaatatagtaatgagtaatgccatcaatatccgtgcaagctgagtttttgtctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgctctgcgcggagttcatgttatcatggctgttaggaatatgactgctggaaaagat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23448" stop="21952"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23148" g_stop="22722" g_length="427"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="427" r_length="427" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22252" g_length="98"/>
          <reference_exon_boundary r_type="cDNA" r_start="428" r_stop="525" r_length="98" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E241920" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>525</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E241920" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23148" e_stop="22722"/>
          <exon e_start="22349" e_stop="22252"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGAT</genome_strand>
        <mrna_strand>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E228416" ref_strand="+" ref_description="SGN-E228416 [cLED-3-N20]">
      <seq>gattgctcatctcttaaatagagatcttgagttttaaatataatttttttttttaataaaaagtactttcatctttgggtaaaaatttatttatgtattatgcgttttttaatctttcgagtaagaaaatatatagagatttaacaaacaaaaaaacaaaaatcacaatatagtaatgagtaatgccatcaatatccgtgcaagctgagtttttgtctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacatgcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcgacggctccggtctcaccgccattgttacaggagcatctagtggtattggtgctgaaactagccgtgttcttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23440" stop="22007"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23140" g_stop="22722" g_length="419"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="419" r_length="419" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22349" g_stop="22307" g_length="43"/>
          <reference_exon_boundary r_type="cDNA" r_start="420" r_stop="462" r_length="43" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E228416" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>462</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E228416" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23140" e_stop="22722"/>
          <exon e_start="22349" e_stop="22307"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTACTTTCACTTTTTGGCGGCGTATGTGTTTTTACCGATTAAACTATAAATCATTCAATTTCACTTTGATAATCTGTTATTCATGCGTTGATTTTATTTTGCCCTGACCACTGTTGCAACGATTAATTTGGTCGTCGAGTGATTTTATTGATATAAAAATTAAATTTGAGTTGTTTCTATTTTATAAATTATCAAAATTGAGTGATCTTTGAACTCATTTTTTTACTTGTACATTTTGTATAAACCACAATCGATGTGATGTCATGTTTAGATGAAATCTTGTAAGTTTTTACAATAAATATTTACATGAAAAGATCAAAAAAAATTGTTTGCCTCTCCAAATGTTATAAACATGCATGGATCCATTTGCAGGAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGC</genome_strand>
        <mrna_strand>GATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACATGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG....................................................................................................................................................................................................................................................................................................................................................................................GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E243594" ref_strand="+" ref_description="SGN-E243594 [cLED-34-I6]">
      <seq>tcaaagaagattgctcatctcttaaatagagatcttgagttttaaatataatttttttttttaataaaaagtactttcatctttgggtaaaaatttatttatgtattatgcgttttttaatctttcgagtaagaaaatatatagagatttaacaaacaaaaaaacaaaaatcacaatatagtaatgagtaatgccatcaatatccgtgcaagctgagtttttgtctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcggattcctctactgctgaagaagtaacccatggaatcgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23448" stop="22450"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23148" g_stop="22750" g_length="399"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="399" r_length="399" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E243594" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>399</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E243594" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23148" e_stop="22750"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGAC</genome_strand>
        <mrna_strand>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGGATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E271878" ref_strand="+" ref_description="SGN-E271878 [cLEM-8-B22]">
      <seq>tctgttgcaccattttctcagttgcacaattttccatagctagtgaatagagtgagtgatacagaaacaagcagagcagcaaattgaaccttaaaactatgtggcttttcaaaagaaatggaccatctgggttttcgtattcctctactgctgaagaagtaacccatggaatcga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="23225" stop="22451"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22925" g_stop="22751" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="175" r_length="175" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E271878" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>175</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E271878" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22925" e_stop="22751"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGA</genome_strand>
        <mrna_strand>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E369500" ref_strand="+" ref_description="SGN-E369500 [TUS-23-K5](-)">
      <seq>aaataaataatcacatgttttttttttgtgttctaataatttttgttttggcggttcttgtgtagtcatgacatgtctccattcctcgcgaccaaacacatatttcttggagttgatatttggtattccattttgcacattgagaaatcgtgatttaatttccagtatctgatttctgtagccacagccatagctttggcttaggggttcgatgccattcaattgaactctaaaaatctgagtgctctttgttattttgaataggaaggaggagtggaaataacagcaaattcacttcatcctggaacaatcacaaccaatatgtttcgtcatctgggcatttttgatggtcttgtaagcaagtttgggaagtttatttttaaaaacgttcaacagggagcatcaaccacttgctatgttgcattgcatccacaattgaaggggataagtggtgaatatttttgtgacaacaatttggggacaacaacagctattgctagagatatggatttagctaaaaggctctgggattttagtatggaattagttaaggagtaacatgtaagatgttgtaccagtaagagagaaaaaataactttgtatttaatagtttgtgatgtttatttttgtatcatatagagaaataagatgttgtacctaactgagagtgttcaccgaagaaaaagctttttcgagtaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="26647" stop="24765"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="26347" g_stop="25999" g_length="349"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="349" r_length="349" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25998" i_stop="25547" i_length="452">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25546" g_stop="25500" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="350" r_stop="396" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="25499" i_stop="25367" i_length="133">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.717" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="25366" g_stop="25057" g_length="310"/>
          <reference_exon_boundary r_type="cDNA" r_start="397" r_stop="706" r_length="310" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E369500" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>706</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E369500" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="26347" e_stop="25999"/>
          <exon e_start="25546" e_stop="25500"/>
          <exon e_start="25366" e_stop="25057"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATAAATAATCACATGTTTTTTTTTTGTGTTCTAATAATTTTTGTTTTGGCGGTTCTTGTGTAGTCATGACATGTCTCCATTCCTCGCGACCAAACACATATTTCTTGGAGTTGATATTTGGTATTCCATTTTGCACATTGAGAAATCGTGATTTAATTTCCAGTATCTGATTTCTGTAGCCACAGCCATAGCTTTGGCTTAGGGGTTCGATGCCATTCAATTGAACTCTAAAAATCTGAGTGCTCTTTGTTATTTTGAATAGGAAGGAGGAGTGGAAATAACAGCAAATTCACTTCATCCTGGAACAATCACAACCAATATGTTTCGTCATCTGGGCATTTTTGATGGTAATAATAAGATTTTCTTTTCTTCCTTCCTCTATGGTGTCTAATTAATATGATGCCATTCTTAGCGAGTTATTATCTTCTTTATATCTGAAATAAAGCCTTTTATGCTCTCACAGTCTCACTAATAGTACAACAACAACATAGTGTAGTCTCACACAGTGGGATGAGGGGAGGCTAGAGTGTACACAAACTTTATCTCGAGAGGCTTTGAGGTAGAGAGGTTGTTTTCTATAGAACCCCGACTCGAGACAAAAGAAGTCTAGAAAAAGACATAATGGACATTACAAGAGACAATTAATAGTAACAAAAACAACAGATAATTACAGAATAATACTACAAATGAACTACACGAAATAATAGATAGTACACGCTAAATTGCATATTTAGCAAATGTGAAGTATTCCTGTATGTTTATTTTATCGAACTAATACTCCCTTTTCTATATGATACAGGTCTTGTAAGCAAGTTTGGGAAGTTTATTTTTAAAAACGTTCAACAGGTATGTTCCACATTGAGACATTTATGAAATTTGCAGTACACACACACACACTCTTATGCAAATTTATAGAATTTTCGACATCATCCGGAGCAATTTTATAGATTTATTTTTCCATTTCATCTTCTCTATATAGGGAGCATCAACCACTTGCTATGTTGCATTGCATCCACAATTGAAGGGGATAAGTGGTGAATATTTTTGTGACAACAATTTGGGGACAACAACAGCTATTGCTAGAGATATGGATTTAGCTAAAAGGCTCTGGGATTTTAGTATGGAATTAGTTAAGGAGTAACATGTAAGATGTTGTACCAGTAAGAGAGAAAAAATAACTTTGTATTTAATAGTTTGTGATGTTTATTTTTGTATCATATAGAGAAATAAGATGTTGTACCTAACTGAGAGTGTTCACCGAAGAAAAAGCTTTTTCGAGTAGTGAGGAA</genome_strand>
        <mrna_strand>AAATAAATAATCACATGTTTTTTTTTTGTGTTCTAATAATTTTTGTTTTGGCGGTTCTTGTGTAGTCATGACATGTCTCCATTCCTCGCGACCAAACACATATTTCTTGGAGTTGATATTTGGTATTCCATTTTGCACATTGAGAAATCGTGATTTAATTTCCAGTATCTGATTTCTGTAGCCACAGCCATAGCTTTGGCTTAGGGGTTCGATGCCATTCAATTGAACTCTAAAAATCTGAGTGCTCTTTGTTATTTTGAATAGGAAGGAGGAGTGGAAATAACAGCAAATTCACTTCATCCTGGAACAATCACAACCAATATGTTTCGTCATCTGGGCATTTTTGATG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTTGTAAGCAAGTTTGGGAAGTTTATTTTTAAAAACGTTCAACAG.....................................................................................................................................GGAGCATCAACCACTTGCTATGTTGCATTGCATCCACAATTGAAGGGGATAAGTGGTGAATATTTTTGTGACAACAATTTGGGGACAACAACAGCTATTGCTAGAGATATGGATTTAGCTAAAAGGCTCTGGGATTTTAGTATGGAATTAGTTAAGGAGTAACATGTAAGATGTTGTACCAGTAAGAGAGAAAAAATAACTTTGTATTTAATAGTTTGTGATGTTTATTTTTGTATCATATAGAGAAATAAGATGTTGTACCTAACTGAGAGTGTTCACCGAAGAAAAAGCTTTTTCGAGTAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E553979" ref_strand="+" ref_description="SGN-E553979 [cTSC-2-N16]">
      <seq>catgctaatgagtggtgggaattccctttatgctttccaaagataacatagagctgcaatttgccacgaatcatctaggtcattttcttttgacaaatttgttgttggacaagatgaaggagacaacacgtaaaacagagagagagggaaggattattaatgtgtcttcagtagcttattgtatgttcacatatcgcgagggaattcgctttggcaaaattaatgatcccaaaagctactgtagtttttgggcatacggacaatcaaagctggccaacatactgcatgcttatgagctcacaagacgcttaaagtcatgacatgtctccattcctcgcgaccaaacacatatttcttggagttgatatttggtattccattttgcacattgagaaatcgtgatttaatttccagtatctgatttctgtagccacagccatagctttggcttaggggttcgatgccattcaattgaactctaaaaatctgagtgctctttgttattttgaataggaaggaggagtggaaataacagcaaattcacttcatcctggaacaatcacaaccaatatgtttcgtcatctgggcatttttgatggtcttgtaagcaagtttgggaagtttatttttaaaaacgttcaacagggagcatcaaccacttgctatgttgcattgcatccacaattgaaggggataagtggtgaatatttttgtgacaacaatttggggacaacaacagctattgctagagatatggatttagctaaaaggctctggggattttagtatggaattagttaaggagtaacatgtaagatgttgtaccagtaaaagaaaaaaaaaaactttgtattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="27745" stop="24858"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="27594" g_stop="27586" g_length="9"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="9" r_length="9" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="27585" i_stop="27444" i_length="142">
            <donor d_prob="0.936" d_score="0.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="27443" g_stop="27375" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="78" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="27374" i_stop="26902" i_length="473">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="26901" g_stop="26745" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="79" r_stop="235" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="26744" i_stop="26439" i_length="306">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26438" g_stop="26360" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="236" r_stop="314" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26359" i_stop="26283" i_length="77">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26282" g_stop="25999" g_length="284"/>
          <reference_exon_boundary r_type="cDNA" r_start="315" r_stop="598" r_length="284" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="25998" i_stop="25547" i_length="452">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="25546" g_stop="25500" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="599" r_stop="645" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="25499" i_stop="25367" i_length="133">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.717" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="25366" g_stop="25158" g_length="209"/>
          <reference_exon_boundary r_type="cDNA" r_start="646" r_stop="855" r_length="210" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E553979" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>854</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E553979" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="27594" e_stop="27586"/>
          <exon e_start="27443" e_stop="27375"/>
          <exon e_start="26901" e_stop="26745"/>
          <exon e_start="26438" e_stop="26360"/>
          <exon e_start="26282" e_stop="25999"/>
          <exon e_start="25546" e_stop="25500"/>
          <exon e_start="25366" e_stop="25158"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGCTAATGTAAGTCACAAATACGAGTGGTAATTAATCACATAGTCTTGAAACTCTGAAAGACGACATTTTGCTTTTTCTCCCTATATAGTTTTGGAAGAATCTTTATATATCTATTGATGTTACTTATTTTCTGTTAGTAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAGGTATGGTTGTGCGTTAGGCGTATGTTTCTGTACACGACATTTATCATGCGGTGCCTTCCTGAGATGTCATGGAAGGGCAACGTGAGGTAAAGTAATTGATTTCCATATGATTTGTCATGCGGTGCCTTCCAACTGCCTTTCCACCTTCCGTTCAATCGATTAGACTGTTTGTACTGTACAGGGAATTTAATATCAAGATTATAGGATGAAGAAAAGCATGAAATGCACATATATAATAGTAGACCATATGAGACCTGAATTAACTTGTATATGTAACAGTGAAACAAGGGAGATTCTAAAATCACACTGGTAATAGGCAGTTTATATCTGCTTGGTAGTACGTCATAGGAGATGATAGGTGCCTGTTGATGCTTAATTCGAATTTGTAAATTTCAATAGGGACATTCAGTTTGTGGTTCCTGTTAATTTATTTTGCCCAAAATTGTTCTCTTTCTAATTCCCTGTGTTTGCAGGTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAGGTAATCTAATCAAATTTCTTATGTCGAACTTCCATAAGTTATCTTGATTGTAATTAATAGAAGAGAGGTGTTCACTCCAATCACGTCATTTGATTGTTCAATTATCTTATTTGGTGTCCTTCTATCTCGATAGTTGCTCATTGCTACTATTGAATTAATCAAGATGACAAGCTTTTCGTGCTCAAAAAATGCTGTTCTTTTCACTTCAAGCTGTATAACCATGATCAGATTAACATGATAAATTTAGGCTTCTCCCATGGAAAATCGTTTTTTCATTGTCTATGTTGTTTGTTATTTTATTTGCAGCTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCACAAGACGCTTAAAGGTGCTTTTCAGAAAATAAATAATCACATGTTTTTTTTTTGTGTTCTAATAATTTTTGTTTTGGCGGTTCTTGTGTAGTCATGACATGTCTCCATTCCTCGCGACCAAACACATATTTCTTGGAGTTGATATTTGGTATTCCATTTTGCACATTGAGAAATCGTGATTTAATTTCCAGTATCTGATTTCTGTAGCCACAGCCATAGCTTTGGCTTAGGGGTTCGATGCCATTCAATTGAACTCTAAAAATCTGAGTGCTCTTTGTTATTTTGAATAGGAAGGAGGAGTGGAAATAACAGCAAATTCACTTCATCCTGGAACAATCACAACCAATATGTTTCGTCATCTGGGCATTTTTGATGGTAATAATAAGATTTTCTTTTCTTCCTTCCTCTATGGTGTCTAATTAATATGATGCCATTCTTAGCGAGTTATTATCTTCTTTATATCTGAAATAAAGCCTTTTATGCTCTCACAGTCTCACTAATAGTACAACAACAACATAGTGTAGTCTCACACAGTGGGATGAGGGGAGGCTAGAGTGTACACAAACTTTATCTCGAGAGGCTTTGAGGTAGAGAGGTTGTTTTCTATAGAACCCCGACTCGAGACAAAAGAAGTCTAGAAAAAGACATAATGGACATTACAAGAGACAATTAATAGTAACAAAAACAACAGATAATTACAGAATAATACTACAAATGAACTACACGAAATAATAGATAGTACACGCTAAATTGCATATTTAGCAAATGTGAAGTATTCCTGTATGTTTATTTTATCGAACTAATACTCCCTTTTCTATATGATACAGGTCTTGTAAGCAAGTTTGGGAAGTTTATTTTTAAAAACGTTCAACAGGTATGTTCCACATTGAGACATTTATGAAATTTGCAGTACACACACACACACTCTTATGCAAATTTATAGAATTTTCGACATCATCCGGAGCAATTTTATAGATTTATTTTTCCATTTCATCTTCTCTATATAGGGAGCATCAACCACTTGCTATGTTGCATTGCATCCACAATTGAAGGGGATAAGTGGTGAATATTTTTGTGACAACAATTTGGGGACAACAACAGCTATTGCTAGAGATATGGATTTAGCTAAAAGGCTCT-GGGATTTTAGTATGGAATTAGTTAAGGAGTAACATGTAAGATGTTGTACCAGTAAGAGAGAAAAAATAACTTTGTATTT</genome_strand>
        <mrna_strand>CATGCTAAT..............................................................................................................................................GAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAG..................................................................................................................................................................................................................................................................................................................CTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCACAAGACGCTTAAAG.............................................................................TCATGACATGTCTCCATTCCTCGCGACCAAACACATATTTCTTGGAGTTGATATTTGGTATTCCATTTTGCACATTGAGAAATCGTGATTTAATTTCCAGTATCTGATTTCTGTAGCCACAGCCATAGCTTTGGCTTAGGGGTTCGATGCCATTCAATTGAACTCTAAAAATCTGAGTGCTCTTTGTTATTTTGAATAGGAAGGAGGAGTGGAAATAACAGCAAATTCACTTCATCCTGGAACAATCACAACCAATATGTTTCGTCATCTGGGCATTTTTGATG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTTGTAAGCAAGTTTGGGAAGTTTATTTTTAAAAACGTTCAACAG.....................................................................................................................................GGAGCATCAACCACTTGCTATGTTGCATTGCATCCACAATTGAAGGGGATAAGTGGTGAATATTTTTGTGACAACAATTTGGGGACAACAACAGCTATTGCTAGAGATATGGATTTAGCTAAAAGGCTCTGGGGATTTTAGTATGGAATTAGTTAAGGAGTAACATGTAAGATGTTGTACCAGTAAAAGAAAAAAAAAAACTTTGTATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E378262" ref_strand="+" ref_description="SGN-E378262 [TUS-23-K5]">
      <seq>gggttttcctattcctccactgctgaagaagtcaccgatgaaatcgacggctccggtctcaccgccattgttacaggagcatcaaggggtattggtgctgaaactagccgtgttctagctctgcgtggagttcatgttatcatggctgtcaggaatatagctgctggaaaagatgttaaagaagcaatagtaaaggaaatctcagcagctaaagttgatataatggagttagatcttagctcattggcatcagtaaggaaatttgcagctgattttatatcatcaggtcactcattgaacatgctaattaataatgcaggagtggtgggaattccctttatgctttccaaagataacatagagctgcaatttgccacgaatcatctaggtcattttcttttgacaaatttgttgttggacaagatgaaggagacaacacgtaaaacagagagagagggaaggattattaatgtgtcttcagtagcttattgtatgttcacatatcgcgagggaattcgctttggcaaaattaatgatcccaaaagctactgtagtttttgggcatacggacaatcaaagctggccaacatactgcatgcttatgagctcacaagacgcttaaaggtgcttttcagaaaataaataatcacatgttttttttttgtgttctaataatttttgttttggcggttcttgtgtagtcatgacatgtctccattcctcgcgaccaacacatatttcttggagttgatatttggtattccattttgcacattgagaaatcgtgatttattttcagtatctgatttctgtagcacagccatagctttggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="29383" stop="25848"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29083" g_stop="29008" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="76" r_length="76" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="29007" i_stop="27818" i_length="1190">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="27817" g_stop="27586" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="77" r_stop="308" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="27585" i_stop="27455" i_length="131">
            <donor d_prob="0.936" d_score="1.00"/>
            <acceptor a_prob="0.964" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27454" g_stop="27375" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="309" r_stop="388" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27374" i_stop="26902" i_length="473">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26901" g_stop="26745" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="389" r_stop="545" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26744" i_stop="26439" i_length="306">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26438" g_stop="26148" g_length="291"/>
          <reference_exon_boundary r_type="cDNA" r_start="546" r_stop="833" r_length="288" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E378262" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>836</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E378262" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29083" e_stop="29008"/>
          <exon e_start="27817" e_stop="27586"/>
          <exon e_start="27454" e_stop="27375"/>
          <exon e_start="26901" e_stop="26745"/>
          <exon e_start="26438" e_stop="26148"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTGTTTACTCCATTTTCATTTTCACTTTTGCTAGCATCCAATTAATATTTGTTTGTATCACTATTTCTTCTAGGTCTACGTTTACCTCTTTGTTTTAACAAAAATTAAAGTGTAATCTATTCATTTCATGTTGAAAAATCTGTGCTAGCTACTTGCATATAATTTTTGTCCTATAGATCCGTGGCTTTGGCTTGAGAACCATGAGGTTTTAGTTCAAATCCCAGCAGAGACAAATATTAGGTAGGTGATTTCTTTCTATCTATCTGTCCTAGTTTAGTGTACAAAGTTACCCTATACCTGTTGCTGATGGACTGACCGTAAATGACAACTACTAAAAAGATATTGTCACAACACCTATTGTACTTAAATTATATTGTATCTTATCCTAACATTCTTCGTTAGGTAATGAAAGAAAGTCCCATTTTGTGTAACGACTTATTTGGTGTGATTGAGTTATTAACTTATTTTGTCTTATTCTATCTTTTGTGCCACCTTTTTATAGCGATGCCCTACTTTTCCTGGTGGTTTATTCTTCAAATTGTTGATGTGTGTCATTATGTAATGACGAAAAACAGTACAATCTATTCAAAAGTTGTGTCGTTAAAACAATATTGTACGATACAATACAATATGATACACTATGAAAGAATACGTAATTACCATCCAAATAGAGTATAAAACAATGAGCAATTGTAGGTTACAATTCAATCATCTAGGAGGCTGCATTCGAACCACTTGAATGCTTGCGGTCACTCGATTCAAGCCAATTCCTTTCAAACTAATTCTAGCCCATAAGTACAAGGGTTTTTAAAAAGAAATATCTTGTAATAATGTTCTTGAAGTGAATAATGTTACTACTCAAATCATCTGGTACGAAGAATAGACAAAGTGTAGAGCTGAAATGAACTTCAACTCACAAGCTTTTGTTCTTCAGTTTGATCTATCTCACGCTCAATATTTGCTTCTTACTTTAGCTTTCTCAATTTTTTCAATATGACAGCAGACTAATAATATATAGGACAGACATGAGAGGCAACGTTAGATGAACGAAGCATGAAGAAGAATAAAATCACAGTACTCCTAATATTATCCTACTTGCTTATTAGACTGAGACTCCACATTGATGAGTGTTTTCTTTAGCAAGAAGTTAGCAGCAATTTGTTTGCTTTTAATTATCAATCTATTTGTAGGAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAATGTAAGTCACAAATACGAGTGGTAATTAATCACATAGTCTTGAAACTCTGAAAGACGACATTTTGCTTTTTCTCCCTATATAGTTTTGGAAGAATCTTTATATATCTATTGATGTTACTTATTTTCTGTTAGTAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAGGTATGGTTGTGCGTTAGGCGTATGTTTCTGTACACGACATTTATCATGCGGTGCCTTCCTGAGATGTCATGGAAGGGCAACGTGAGGTAAAGTAATTGATTTCCATATGATTTGTCATGCGGTGCCTTCCAACTGCCTTTCCACCTTCCGTTCAATCGATTAGACTGTTTGTACTGTACAGGGAATTTAATATCAAGATTATAGGATGAAGAAAAGCATGAAATGCACATATATAATAGTAGACCATATGAGACCTGAATTAACTTGTATATGTAACAGTGAAACAAGGGAGATTCTAAAATCACACTGGTAATAGGCAGTTTATATCTGCTTGGTAGTACGTCATAGGAGATGATAGGTGCCTGTTGATGCTTAATTCGAATTTGTAAATTTCAATAGGGACATTCAGTTTGTGGTTCCTGTTAATTTATTTTGCCCAAAATTGTTCTCTTTCTAATTCCCTGTGTTTGCAGGTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAGGTAATCTAATCAAATTTCTTATGTCGAACTTCCATAAGTTATCTTGATTGTAATTAATAGAAGAGAGGTGTTCACTCCAATCACGTCATTTGATTGTTCAATTATCTTATTTGGTGTCCTTCTATCTCGATAGTTGCTCATTGCTACTATTGAATTAATCAAGATGACAAGCTTTTCGTGCTCAAAAAATGCTGTTCTTTTCACTTCAAGCTGTATAACCATGATCAGATTAACATGATAAATTTAGGCTTCTCCCATGGAAAATCGTTTTTTCATTGTCTATGTTGTTTGTTATTTTATTTGCAGCTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCACAAGACGCTTAAAGGTGCTTTTCAGAAAATAAATAATCACATGTTTTTTTTTTGTGTTCTAATAATTTTTGTTTTGGCGGTTCTTGTGTAGTCATGACATGTCTCCATTCCTCGCGACCAAACACATATTTCTTGGAGTTGATATTTGGTATTCCATTTTGCACATTGAGAAATCGTGATTTAATTTCCAGTATCTGATTTCTGTAGCCACAGCCATAGCTTTGGC</genome_strand>
        <mrna_strand>GGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAAT...................................................................................................................................TAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAG..................................................................................................................................................................................................................................................................................................................CTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCACAAGACGCTTAAAGGTGCTTTTCAGAAAATAAATAATCACATGTTTTTTTTTTGTGTTCTAATAATTTTTGTTTTGGCGGTTCTTGTGTAGTCATGACATGTCTCCATTCCTCGCGACC-AACACATATTTCTTGGAGTTGATATTTGGTATTCCATTTTGCACATTGAGAAATCGTGATTT-ATTTTCAGTATCTGATTTCTGTAG-CACAGCCATAGCTTTGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E369501" ref_strand="+" ref_description="SGN-E369501 [TUS-23-K5]">
      <seq>gggttttcctattcctccactgctgaagaagtcaccgatgaaatcgacggctccggtctcaccgccattgttacaggagcatcaaggggtattggtgctgaaactagccgtgttctagctctgcgtggagttcatgttatcatggctgtcaggaatatagctgctggaaaagatgttaaagaagcaatagtaaaggaaatctcagcagctaaagttgatataatggagttagatcttagctcattggcatcagtaaggaaatttgcagctgattttatatcatcaggtcactcattgaacatgctaattaataatgcaggagtggtgggaattccctttatgctttccaaagataacatagagctgcaatttgccacgaatcatctaggtcattttcttttgacaaatttgttgttggacaagatgaaggagacaacacgtaaaacagagagagagggaaggattattaatgtgtcttcagtagcttattgtatgttcacatatcgcgagggaattcgctttggcaaaattaatgatcccaaaagctactgtagtttttgggcatacggacaatcaaagctggccaacatactgcatgcttatgagctcacaagacgcttaaaggtgcttttcagaaaataaataatcacatgttttttttttgtgttctaataatttttgttttggcgtttcttgtgtagtcatgacatgtctccattcctcgcgaccaaacacatatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="29383" stop="25944"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29083" g_stop="29008" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="76" r_length="76" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="29007" i_stop="27818" i_length="1190">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="27817" g_stop="27586" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="77" r_stop="308" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="27585" i_stop="27455" i_length="131">
            <donor d_prob="0.936" d_score="1.00"/>
            <acceptor a_prob="0.964" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27454" g_stop="27375" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="309" r_stop="388" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27374" i_stop="26902" i_length="473">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26901" g_stop="26745" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="389" r_stop="545" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26744" i_stop="26439" i_length="306">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26438" g_stop="26244" g_length="195"/>
          <reference_exon_boundary r_type="cDNA" r_start="546" r_stop="740" r_length="195" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E369501" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>740</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E369501" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29083" e_stop="29008"/>
          <exon e_start="27817" e_stop="27586"/>
          <exon e_start="27454" e_stop="27375"/>
          <exon e_start="26901" e_stop="26745"/>
          <exon e_start="26438" e_stop="26244"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTGTTTACTCCATTTTCATTTTCACTTTTGCTAGCATCCAATTAATATTTGTTTGTATCACTATTTCTTCTAGGTCTACGTTTACCTCTTTGTTTTAACAAAAATTAAAGTGTAATCTATTCATTTCATGTTGAAAAATCTGTGCTAGCTACTTGCATATAATTTTTGTCCTATAGATCCGTGGCTTTGGCTTGAGAACCATGAGGTTTTAGTTCAAATCCCAGCAGAGACAAATATTAGGTAGGTGATTTCTTTCTATCTATCTGTCCTAGTTTAGTGTACAAAGTTACCCTATACCTGTTGCTGATGGACTGACCGTAAATGACAACTACTAAAAAGATATTGTCACAACACCTATTGTACTTAAATTATATTGTATCTTATCCTAACATTCTTCGTTAGGTAATGAAAGAAAGTCCCATTTTGTGTAACGACTTATTTGGTGTGATTGAGTTATTAACTTATTTTGTCTTATTCTATCTTTTGTGCCACCTTTTTATAGCGATGCCCTACTTTTCCTGGTGGTTTATTCTTCAAATTGTTGATGTGTGTCATTATGTAATGACGAAAAACAGTACAATCTATTCAAAAGTTGTGTCGTTAAAACAATATTGTACGATACAATACAATATGATACACTATGAAAGAATACGTAATTACCATCCAAATAGAGTATAAAACAATGAGCAATTGTAGGTTACAATTCAATCATCTAGGAGGCTGCATTCGAACCACTTGAATGCTTGCGGTCACTCGATTCAAGCCAATTCCTTTCAAACTAATTCTAGCCCATAAGTACAAGGGTTTTTAAAAAGAAATATCTTGTAATAATGTTCTTGAAGTGAATAATGTTACTACTCAAATCATCTGGTACGAAGAATAGACAAAGTGTAGAGCTGAAATGAACTTCAACTCACAAGCTTTTGTTCTTCAGTTTGATCTATCTCACGCTCAATATTTGCTTCTTACTTTAGCTTTCTCAATTTTTTCAATATGACAGCAGACTAATAATATATAGGACAGACATGAGAGGCAACGTTAGATGAACGAAGCATGAAGAAGAATAAAATCACAGTACTCCTAATATTATCCTACTTGCTTATTAGACTGAGACTCCACATTGATGAGTGTTTTCTTTAGCAAGAAGTTAGCAGCAATTTGTTTGCTTTTAATTATCAATCTATTTGTAGGAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAATGTAAGTCACAAATACGAGTGGTAATTAATCACATAGTCTTGAAACTCTGAAAGACGACATTTTGCTTTTTCTCCCTATATAGTTTTGGAAGAATCTTTATATATCTATTGATGTTACTTATTTTCTGTTAGTAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAGGTATGGTTGTGCGTTAGGCGTATGTTTCTGTACACGACATTTATCATGCGGTGCCTTCCTGAGATGTCATGGAAGGGCAACGTGAGGTAAAGTAATTGATTTCCATATGATTTGTCATGCGGTGCCTTCCAACTGCCTTTCCACCTTCCGTTCAATCGATTAGACTGTTTGTACTGTACAGGGAATTTAATATCAAGATTATAGGATGAAGAAAAGCATGAAATGCACATATATAATAGTAGACCATATGAGACCTGAATTAACTTGTATATGTAACAGTGAAACAAGGGAGATTCTAAAATCACACTGGTAATAGGCAGTTTATATCTGCTTGGTAGTACGTCATAGGAGATGATAGGTGCCTGTTGATGCTTAATTCGAATTTGTAAATTTCAATAGGGACATTCAGTTTGTGGTTCCTGTTAATTTATTTTGCCCAAAATTGTTCTCTTTCTAATTCCCTGTGTTTGCAGGTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAGGTAATCTAATCAAATTTCTTATGTCGAACTTCCATAAGTTATCTTGATTGTAATTAATAGAAGAGAGGTGTTCACTCCAATCACGTCATTTGATTGTTCAATTATCTTATTTGGTGTCCTTCTATCTCGATAGTTGCTCATTGCTACTATTGAATTAATCAAGATGACAAGCTTTTCGTGCTCAAAAAATGCTGTTCTTTTCACTTCAAGCTGTATAACCATGATCAGATTAACATGATAAATTTAGGCTTCTCCCATGGAAAATCGTTTTTTCATTGTCTATGTTGTTTGTTATTTTATTTGCAGCTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCACAAGACGCTTAAAGGTGCTTTTCAGAAAATAAATAATCACATGTTTTTTTTTTGTGTTCTAATAATTTTTGTTTTGGCGGTTCTTGTGTAGTCATGACATGTCTCCATTCCTCGCGACCAAACACATATT</genome_strand>
        <mrna_strand>GGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAAT...................................................................................................................................TAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAG..................................................................................................................................................................................................................................................................................................................CTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCACAAGACGCTTAAAGGTGCTTTTCAGAAAATAAATAATCACATGTTTTTTTTTTGTGTTCTAATAATTTTTGTTTTGGCGTTTCTTGTGTAGTCATGACATGTCTCCATTCCTCGCGACCAAACACATATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E697621" ref_strand="+" ref_description="SGN-E697621 [FA03CE03]">
      <seq>aagcaacgggagagaagtaaataaactactggttcctgtactatgtgggtttttaatagatcaaaagggcgatctgggttttcctattcctccactgctgaagaagtcaccgatgaaatcgacggctccggtctcaccgccattgttacaggagcatcaaggggtattggtgctgaaactagccgtgttctagctctgcgtggagttcatgttatcatggctgtcaggaatatagctgctggaaaagatgttaaagaagcaatagtaaaggaaatctcagcagctaaagttgatataatggagttagatcttagctcattggcatcagtaaggaaatttgcagctgattttatatcatcaggtcactcattgaacatgctaattaataatgcaggagtggtgggaattccctttatgctttccaaagataacatagagctgcaatttgccacgaatcatctaggtcattttcttttgacaaatttgttgttggacaagatgaaggagacaacacgtaaaacagagagagagggaaggattattaatgtgtcttcagtagcttattgtatgttcacatatcgcgagggaattcgctttggcaaaattaatgatcccaaaagctactgtagtttttgggcatacggacaatcaaagctggcccacatactgcatgcttatgagctcaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="29458" stop="26072"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29158" g_stop="29008" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="151" r_length="151" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="29007" i_stop="27818" i_length="1190">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="27817" g_stop="27586" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="383" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="27585" i_stop="27455" i_length="131">
            <donor d_prob="0.936" d_score="1.00"/>
            <acceptor a_prob="0.964" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27454" g_stop="27375" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="384" r_stop="463" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27374" i_stop="26902" i_length="473">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26901" g_stop="26745" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="464" r_stop="620" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26744" i_stop="26439" i_length="306">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26438" g_stop="26372" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="621" r_stop="687" r_length="67" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E697621" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>687</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E697621" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29158" e_stop="29008"/>
          <exon e_start="27817" e_stop="27586"/>
          <exon e_start="27454" e_stop="27375"/>
          <exon e_start="26901" e_stop="26745"/>
          <exon e_start="26438" e_stop="26372"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGCAACGGGAGAGAAGTAAATAAACTACTGGTTCCTGTACTATGTGGGTTTTTAATAGATCAAAAGGGCGATCTGGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTGTTTACTCCATTTTCATTTTCACTTTTGCTAGCATCCAATTAATATTTGTTTGTATCACTATTTCTTCTAGGTCTACGTTTACCTCTTTGTTTTAACAAAAATTAAAGTGTAATCTATTCATTTCATGTTGAAAAATCTGTGCTAGCTACTTGCATATAATTTTTGTCCTATAGATCCGTGGCTTTGGCTTGAGAACCATGAGGTTTTAGTTCAAATCCCAGCAGAGACAAATATTAGGTAGGTGATTTCTTTCTATCTATCTGTCCTAGTTTAGTGTACAAAGTTACCCTATACCTGTTGCTGATGGACTGACCGTAAATGACAACTACTAAAAAGATATTGTCACAACACCTATTGTACTTAAATTATATTGTATCTTATCCTAACATTCTTCGTTAGGTAATGAAAGAAAGTCCCATTTTGTGTAACGACTTATTTGGTGTGATTGAGTTATTAACTTATTTTGTCTTATTCTATCTTTTGTGCCACCTTTTTATAGCGATGCCCTACTTTTCCTGGTGGTTTATTCTTCAAATTGTTGATGTGTGTCATTATGTAATGACGAAAAACAGTACAATCTATTCAAAAGTTGTGTCGTTAAAACAATATTGTACGATACAATACAATATGATACACTATGAAAGAATACGTAATTACCATCCAAATAGAGTATAAAACAATGAGCAATTGTAGGTTACAATTCAATCATCTAGGAGGCTGCATTCGAACCACTTGAATGCTTGCGGTCACTCGATTCAAGCCAATTCCTTTCAAACTAATTCTAGCCCATAAGTACAAGGGTTTTTAAAAAGAAATATCTTGTAATAATGTTCTTGAAGTGAATAATGTTACTACTCAAATCATCTGGTACGAAGAATAGACAAAGTGTAGAGCTGAAATGAACTTCAACTCACAAGCTTTTGTTCTTCAGTTTGATCTATCTCACGCTCAATATTTGCTTCTTACTTTAGCTTTCTCAATTTTTTCAATATGACAGCAGACTAATAATATATAGGACAGACATGAGAGGCAACGTTAGATGAACGAAGCATGAAGAAGAATAAAATCACAGTACTCCTAATATTATCCTACTTGCTTATTAGACTGAGACTCCACATTGATGAGTGTTTTCTTTAGCAAGAAGTTAGCAGCAATTTGTTTGCTTTTAATTATCAATCTATTTGTAGGAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAATGTAAGTCACAAATACGAGTGGTAATTAATCACATAGTCTTGAAACTCTGAAAGACGACATTTTGCTTTTTCTCCCTATATAGTTTTGGAAGAATCTTTATATATCTATTGATGTTACTTATTTTCTGTTAGTAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAGGTATGGTTGTGCGTTAGGCGTATGTTTCTGTACACGACATTTATCATGCGGTGCCTTCCTGAGATGTCATGGAAGGGCAACGTGAGGTAAAGTAATTGATTTCCATATGATTTGTCATGCGGTGCCTTCCAACTGCCTTTCCACCTTCCGTTCAATCGATTAGACTGTTTGTACTGTACAGGGAATTTAATATCAAGATTATAGGATGAAGAAAAGCATGAAATGCACATATATAATAGTAGACCATATGAGACCTGAATTAACTTGTATATGTAACAGTGAAACAAGGGAGATTCTAAAATCACACTGGTAATAGGCAGTTTATATCTGCTTGGTAGTACGTCATAGGAGATGATAGGTGCCTGTTGATGCTTAATTCGAATTTGTAAATTTCAATAGGGACATTCAGTTTGTGGTTCCTGTTAATTTATTTTGCCCAAAATTGTTCTCTTTCTAATTCCCTGTGTTTGCAGGTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAGGTAATCTAATCAAATTTCTTATGTCGAACTTCCATAAGTTATCTTGATTGTAATTAATAGAAGAGAGGTGTTCACTCCAATCACGTCATTTGATTGTTCAATTATCTTATTTGGTGTCCTTCTATCTCGATAGTTGCTCATTGCTACTATTGAATTAATCAAGATGACAAGCTTTTCGTGCTCAAAAAATGCTGTTCTTTTCACTTCAAGCTGTATAACCATGATCAGATTAACATGATAAATTTAGGCTTCTCCCATGGAAAATCGTTTTTTCATTGTCTATGTTGTTTGTTATTTTATTTGCAGCTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCACA</genome_strand>
        <mrna_strand>AAGCAACGGGAGAGAAGTAAATAAACTACTGGTTCCTGTACTATGTGGGTTTTTAATAGATCAAAAGGGCGATCTGGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAAT...................................................................................................................................TAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAG..................................................................................................................................................................................................................................................................................................................CTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCCACATACTGCATGCTTATGAGCTCACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E248593" ref_strand="+" ref_description="SGN-E248593 [cLEF-58-E23]">
      <seq>cgatctgggttttcctattcctccactgctgaagaagtcaccgatgaaatcgacggctccggtctcaccgccattgttacaggagcatcaaggggtattggtgctgaaactagccgtgttctagctctgcgtggagttcatgttatcatggctgtcaggaatatagctgctggaaaagatgttaaagaagcaatagtaaaggaaatctcagcagctaaagttgatataatggagttagatcttagctcattggcatcagtaaggaaatttgcagctgattttatatcatcaggtcactcattgaacatgctaattaataatgcaggagtggtgggaattccctttatgctttccaaagataacatagagctgcaatttgccacgaatcatctaggtcattttcttttgacaaatttgttgttggacaagatgaaggagacaacacgtaaaacagagagagagggaaggattattaatgtgtcttcagtagcttattgtatgttcacatatcgcgagggaattcgctttggcaaaattaatgatcccaaaagctactgtagtttttgggcatacggacaatcaaagctggccaacatactgcatgcttatgagctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="29389" stop="26074"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29089" g_stop="29008" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="82" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="29007" i_stop="27818" i_length="1190">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="27817" g_stop="27586" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="83" r_stop="314" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="27585" i_stop="27455" i_length="131">
            <donor d_prob="0.936" d_score="1.00"/>
            <acceptor a_prob="0.964" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27454" g_stop="27375" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="315" r_stop="394" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27374" i_stop="26902" i_length="473">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26901" g_stop="26745" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="395" r_stop="551" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26744" i_stop="26439" i_length="306">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26438" g_stop="26374" g_length="65"/>
          <reference_exon_boundary r_type="cDNA" r_start="552" r_stop="616" r_length="65" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E248593" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>616</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E248593" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29089" e_stop="29008"/>
          <exon e_start="27817" e_stop="27586"/>
          <exon e_start="27454" e_stop="27375"/>
          <exon e_start="26901" e_stop="26745"/>
          <exon e_start="26438" e_stop="26374"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGATCTGGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTGTTTACTCCATTTTCATTTTCACTTTTGCTAGCATCCAATTAATATTTGTTTGTATCACTATTTCTTCTAGGTCTACGTTTACCTCTTTGTTTTAACAAAAATTAAAGTGTAATCTATTCATTTCATGTTGAAAAATCTGTGCTAGCTACTTGCATATAATTTTTGTCCTATAGATCCGTGGCTTTGGCTTGAGAACCATGAGGTTTTAGTTCAAATCCCAGCAGAGACAAATATTAGGTAGGTGATTTCTTTCTATCTATCTGTCCTAGTTTAGTGTACAAAGTTACCCTATACCTGTTGCTGATGGACTGACCGTAAATGACAACTACTAAAAAGATATTGTCACAACACCTATTGTACTTAAATTATATTGTATCTTATCCTAACATTCTTCGTTAGGTAATGAAAGAAAGTCCCATTTTGTGTAACGACTTATTTGGTGTGATTGAGTTATTAACTTATTTTGTCTTATTCTATCTTTTGTGCCACCTTTTTATAGCGATGCCCTACTTTTCCTGGTGGTTTATTCTTCAAATTGTTGATGTGTGTCATTATGTAATGACGAAAAACAGTACAATCTATTCAAAAGTTGTGTCGTTAAAACAATATTGTACGATACAATACAATATGATACACTATGAAAGAATACGTAATTACCATCCAAATAGAGTATAAAACAATGAGCAATTGTAGGTTACAATTCAATCATCTAGGAGGCTGCATTCGAACCACTTGAATGCTTGCGGTCACTCGATTCAAGCCAATTCCTTTCAAACTAATTCTAGCCCATAAGTACAAGGGTTTTTAAAAAGAAATATCTTGTAATAATGTTCTTGAAGTGAATAATGTTACTACTCAAATCATCTGGTACGAAGAATAGACAAAGTGTAGAGCTGAAATGAACTTCAACTCACAAGCTTTTGTTCTTCAGTTTGATCTATCTCACGCTCAATATTTGCTTCTTACTTTAGCTTTCTCAATTTTTTCAATATGACAGCAGACTAATAATATATAGGACAGACATGAGAGGCAACGTTAGATGAACGAAGCATGAAGAAGAATAAAATCACAGTACTCCTAATATTATCCTACTTGCTTATTAGACTGAGACTCCACATTGATGAGTGTTTTCTTTAGCAAGAAGTTAGCAGCAATTTGTTTGCTTTTAATTATCAATCTATTTGTAGGAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAATGTAAGTCACAAATACGAGTGGTAATTAATCACATAGTCTTGAAACTCTGAAAGACGACATTTTGCTTTTTCTCCCTATATAGTTTTGGAAGAATCTTTATATATCTATTGATGTTACTTATTTTCTGTTAGTAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAGGTATGGTTGTGCGTTAGGCGTATGTTTCTGTACACGACATTTATCATGCGGTGCCTTCCTGAGATGTCATGGAAGGGCAACGTGAGGTAAAGTAATTGATTTCCATATGATTTGTCATGCGGTGCCTTCCAACTGCCTTTCCACCTTCCGTTCAATCGATTAGACTGTTTGTACTGTACAGGGAATTTAATATCAAGATTATAGGATGAAGAAAAGCATGAAATGCACATATATAATAGTAGACCATATGAGACCTGAATTAACTTGTATATGTAACAGTGAAACAAGGGAGATTCTAAAATCACACTGGTAATAGGCAGTTTATATCTGCTTGGTAGTACGTCATAGGAGATGATAGGTGCCTGTTGATGCTTAATTCGAATTTGTAAATTTCAATAGGGACATTCAGTTTGTGGTTCCTGTTAATTTATTTTGCCCAAAATTGTTCTCTTTCTAATTCCCTGTGTTTGCAGGTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAGGTAATCTAATCAAATTTCTTATGTCGAACTTCCATAAGTTATCTTGATTGTAATTAATAGAAGAGAGGTGTTCACTCCAATCACGTCATTTGATTGTTCAATTATCTTATTTGGTGTCCTTCTATCTCGATAGTTGCTCATTGCTACTATTGAATTAATCAAGATGACAAGCTTTTCGTGCTCAAAAAATGCTGTTCTTTTCACTTCAAGCTGTATAACCATGATCAGATTAACATGATAAATTTAGGCTTCTCCCATGGAAAATCGTTTTTTCATTGTCTATGTTGTTTGTTATTTTATTTGCAGCTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCA</genome_strand>
        <mrna_strand>CGATCTGGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAAT...................................................................................................................................TAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAG..................................................................................................................................................................................................................................................................................................................CTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E323404" ref_strand="+" ref_description="SGN-E323404 [cTOC-7-G17]">
      <seq>taaactactggttcctgtactatgtggggttttaatagatcaaaagggcgatctgggttttcctattcctccactgctgaagaagtcaccgatgaaatcgacggctccggtctcaccgccattgttacaggagcatcaaggggtattggtgctgaaactagccgtgttctagctctgcgtggagttcatgttatcatggctgtcaggaatatagctgctggaaaagatgttaaagaagcaatagtaaaggaaatctcagcagctaaagttgatataatggagttagatcttagctcattggcatcagtaaggaaatttgcagctgattttatatcatcaggtcactcattgaacatgctaattaataatgcaggagtggtgggaattccctttatgctttccaaagataacatagagctgcaatttgccacgaatcatctaggtcattttcttttgacaaatttgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="29437" stop="26577"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29137" g_stop="29008" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="130" r_length="130" r_score="0.992"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="29007" i_stop="27818" i_length="1190">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="27817" g_stop="27586" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="362" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="27585" i_stop="27455" i_length="131">
            <donor d_prob="0.936" d_score="1.00"/>
            <acceptor a_prob="0.964" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27454" g_stop="27375" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="363" r_stop="442" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27374" i_stop="26902" i_length="473">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26901" g_stop="26877" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="443" r_stop="467" r_length="25" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E323404" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E323404" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29137" e_stop="29008"/>
          <exon e_start="27817" e_stop="27586"/>
          <exon e_start="27454" e_stop="27375"/>
          <exon e_start="26901" e_stop="26877"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACTACTGGTTCCTGTACTATGTGGGTTTTTAATAGATCAAAAGGGCGATCTGGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAGGTGTTTACTCCATTTTCATTTTCACTTTTGCTAGCATCCAATTAATATTTGTTTGTATCACTATTTCTTCTAGGTCTACGTTTACCTCTTTGTTTTAACAAAAATTAAAGTGTAATCTATTCATTTCATGTTGAAAAATCTGTGCTAGCTACTTGCATATAATTTTTGTCCTATAGATCCGTGGCTTTGGCTTGAGAACCATGAGGTTTTAGTTCAAATCCCAGCAGAGACAAATATTAGGTAGGTGATTTCTTTCTATCTATCTGTCCTAGTTTAGTGTACAAAGTTACCCTATACCTGTTGCTGATGGACTGACCGTAAATGACAACTACTAAAAAGATATTGTCACAACACCTATTGTACTTAAATTATATTGTATCTTATCCTAACATTCTTCGTTAGGTAATGAAAGAAAGTCCCATTTTGTGTAACGACTTATTTGGTGTGATTGAGTTATTAACTTATTTTGTCTTATTCTATCTTTTGTGCCACCTTTTTATAGCGATGCCCTACTTTTCCTGGTGGTTTATTCTTCAAATTGTTGATGTGTGTCATTATGTAATGACGAAAAACAGTACAATCTATTCAAAAGTTGTGTCGTTAAAACAATATTGTACGATACAATACAATATGATACACTATGAAAGAATACGTAATTACCATCCAAATAGAGTATAAAACAATGAGCAATTGTAGGTTACAATTCAATCATCTAGGAGGCTGCATTCGAACCACTTGAATGCTTGCGGTCACTCGATTCAAGCCAATTCCTTTCAAACTAATTCTAGCCCATAAGTACAAGGGTTTTTAAAAAGAAATATCTTGTAATAATGTTCTTGAAGTGAATAATGTTACTACTCAAATCATCTGGTACGAAGAATAGACAAAGTGTAGAGCTGAAATGAACTTCAACTCACAAGCTTTTGTTCTTCAGTTTGATCTATCTCACGCTCAATATTTGCTTCTTACTTTAGCTTTCTCAATTTTTTCAATATGACAGCAGACTAATAATATATAGGACAGACATGAGAGGCAACGTTAGATGAACGAAGCATGAAGAAGAATAAAATCACAGTACTCCTAATATTATCCTACTTGCTTATTAGACTGAGACTCCACATTGATGAGTGTTTTCTTTAGCAAGAAGTTAGCAGCAATTTGTTTGCTTTTAATTATCAATCTATTTGTAGGAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAATGTAAGTCACAAATACGAGTGGTAATTAATCACATAGTCTTGAAACTCTGAAAGACGACATTTTGCTTTTTCTCCCTATATAGTTTTGGAAGAATCTTTATATATCTATTGATGTTACTTATTTTCTGTTAGTAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAGGTATGGTTGTGCGTTAGGCGTATGTTTCTGTACACGACATTTATCATGCGGTGCCTTCCTGAGATGTCATGGAAGGGCAACGTGAGGTAAAGTAATTGATTTCCATATGATTTGTCATGCGGTGCCTTCCAACTGCCTTTCCACCTTCCGTTCAATCGATTAGACTGTTTGTACTGTACAGGGAATTTAATATCAAGATTATAGGATGAAGAAAAGCATGAAATGCACATATATAATAGTAGACCATATGAGACCTGAATTAACTTGTATATGTAACAGTGAAACAAGGGAGATTCTAAAATCACACTGGTAATAGGCAGTTTATATCTGCTTGGTAGTACGTCATAGGAGATGATAGGTGCCTGTTGATGCTTAATTCGAATTTGTAAATTTCAATAGGGACATTCAGTTTGTGGTTCCTGTTAATTTATTTTGCCCAAAATTGTTCTCTTTCTAATTCCCTGTGTTTGCAGGTCATTTTCTTTTGACAAATTTGTT</genome_strand>
        <mrna_strand>TAAACTACTGGTTCCTGTACTATGTGGGGTTTTAATAGATCAAAAGGGCGATCTGGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAAT...................................................................................................................................TAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATTTTCTTTTGACAAATTTGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E246122" ref_strand="+" ref_description="SGN-E246122 [cLEF-40-G2]">
      <seq>gggttttcctattcctccactgctgaagaagtcaccgatgaaatcgacggctccggtctcaccgccattgttaccaggagcatcaaggggtattggtgctgaaactagccgtgttctagctctgcgtggagttcatgttatcatggctgtcaggaatatagctgctggaaaagaagttaaagaagcaatagtaaaggaaatctcagcagctaaagttgatataatggagttagatcttagctcattggcatcagtaaggaaatttgcagctgattttatatcatcaggtcactcattgaacatgctaattaataatgcaggagtggtgggaattccctttatgctttccaaaaaatacatagagctgcaatttgccacgaatcatctaggtcattttcttttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="29383" stop="27065"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29083" g_stop="29008" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="77" r_length="77" r_score="0.974"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="29007" i_stop="27818" i_length="1190">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="27817" g_stop="27586" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="78" r_stop="309" r_length="232" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="27585" i_stop="27455" i_length="131">
            <donor d_prob="0.936" d_score="1.00"/>
            <acceptor a_prob="0.964" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27454" g_stop="27373" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="310" r_stop="391" r_length="82" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E246122" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>390</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E246122" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29083" e_stop="29008"/>
          <exon e_start="27817" e_stop="27586"/>
          <exon e_start="27454" e_stop="27373"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTAC-AGGTGTTTACTCCATTTTCATTTTCACTTTTGCTAGCATCCAATTAATATTTGTTTGTATCACTATTTCTTCTAGGTCTACGTTTACCTCTTTGTTTTAACAAAAATTAAAGTGTAATCTATTCATTTCATGTTGAAAAATCTGTGCTAGCTACTTGCATATAATTTTTGTCCTATAGATCCGTGGCTTTGGCTTGAGAACCATGAGGTTTTAGTTCAAATCCCAGCAGAGACAAATATTAGGTAGGTGATTTCTTTCTATCTATCTGTCCTAGTTTAGTGTACAAAGTTACCCTATACCTGTTGCTGATGGACTGACCGTAAATGACAACTACTAAAAAGATATTGTCACAACACCTATTGTACTTAAATTATATTGTATCTTATCCTAACATTCTTCGTTAGGTAATGAAAGAAAGTCCCATTTTGTGTAACGACTTATTTGGTGTGATTGAGTTATTAACTTATTTTGTCTTATTCTATCTTTTGTGCCACCTTTTTATAGCGATGCCCTACTTTTCCTGGTGGTTTATTCTTCAAATTGTTGATGTGTGTCATTATGTAATGACGAAAAACAGTACAATCTATTCAAAAGTTGTGTCGTTAAAACAATATTGTACGATACAATACAATATGATACACTATGAAAGAATACGTAATTACCATCCAAATAGAGTATAAAACAATGAGCAATTGTAGGTTACAATTCAATCATCTAGGAGGCTGCATTCGAACCACTTGAATGCTTGCGGTCACTCGATTCAAGCCAATTCCTTTCAAACTAATTCTAGCCCATAAGTACAAGGGTTTTTAAAAAGAAATATCTTGTAATAATGTTCTTGAAGTGAATAATGTTACTACTCAAATCATCTGGTACGAAGAATAGACAAAGTGTAGAGCTGAAATGAACTTCAACTCACAAGCTTTTGTTCTTCAGTTTGATCTATCTCACGCTCAATATTTGCTTCTTACTTTAGCTTTCTCAATTTTTTCAATATGACAGCAGACTAATAATATATAGGACAGACATGAGAGGCAACGTTAGATGAACGAAGCATGAAGAAGAATAAAATCACAGTACTCCTAATATTATCCTACTTGCTTATTAGACTGAGACTCCACATTGATGAGTGTTTTCTTTAGCAAGAAGTTAGCAGCAATTTGTTTGCTTTTAATTATCAATCTATTTGTAGGAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAATGTAAGTCACAAATACGAGTGGTAATTAATCACATAGTCTTGAAACTCTGAAAGACGACATTTTGCTTTTTCTCCCTATATAGTTTTGGAAGAATCTTTATATATCTATTGATGTTACTTATTTTCTGTTAGTAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAGGT</genome_strand>
        <mrna_strand>GGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACCAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGAAGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAAT...................................................................................................................................TAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAAAATACATAGAGCTGCAATTTGCCACGAATCATCTAGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E235576" ref_strand="+" ref_description="SGN-E235576 [cLED-11-J24]">
      <seq>ttgcttcagactttaaatcatcaggtcgcccgttgaaccttttaattaataatgcaggaatcatggcaactccctttatgctctcaaaagacaacatagagctgcaatttgccacaaatcatgtaggtcattttcttttgacaaatttgttgttggagaagatgaaggagacagcacgtaaaacaaagagagagggaagaattgtgaatgtttcgtcagaggctcatcgatttgcatacagagaaggaattcggtttgacaaaattaatgatcccaaaagctacaacagctatggtgcatatggccaatcaaagctggccaacatactgcatgcaaatgagcttacaagacgcttaaaggaagatggagtagaaataagtgcaaattcacttcatcctggaacgatcactaccaatctttttcgtcatatgggtatttttgatggtctggtcggcactcttggaaaacttctgcttaaaaatgttcaacagggagcatcaaccacttgttatcttgcattgaatccacaagtgaagggggtaagtggtgaatatttttcagacaacaatttggcgaagacgacagcgttggctaaagatatggatttagctaagaggctctgggattntagtatggatctgatcaagtaaaatgttgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="35133" stop="30872"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34833" g_stop="34788" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="46" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="34787" i_stop="34626" i_length="162">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.805" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="34625" g_stop="34546" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="126" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="34545" i_stop="34083" i_length="463">
            <donor d_prob="0.935" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="34082" g_stop="33929" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="127" r_stop="280" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="33928" i_stop="33083" i_length="846">
            <donor d_prob="0.972" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="33082" g_stop="33004" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="281" r_stop="359" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="33003" i_stop="32747" i_length="257">
            <donor d_prob="0.645" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="32746" g_stop="32662" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="360" r_stop="444" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="32661" i_stop="31827" i_length="835">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.744" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="31826" g_stop="31780" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="445" r_stop="491" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="31779" i_stop="31340" i_length="440">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="31339" g_stop="31172" g_length="168"/>
          <reference_exon_boundary r_type="cDNA" r_start="492" r_stop="659" r_length="168" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E235576" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>659</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E235576" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34833" e_stop="34788"/>
          <exon e_start="34625" e_stop="34546"/>
          <exon e_start="34082" e_stop="33929"/>
          <exon e_start="33082" e_stop="33004"/>
          <exon e_start="32746" e_stop="32662"/>
          <exon e_start="31826" e_stop="31780"/>
          <exon e_start="31339" e_stop="31172"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCTTCAGACTTTAAATCATCAGGTCGCCCGTTGAACCTTTTAATGTAAGTGATGAATAAGAGTGGTAGTCGCATGCCTGAAGATTGCATTTTTACTCCCTCCCAGCCTCCCTCTCTCTTTCAAGTAACTTTGTTCTTCTGCATGAATCTCTTCCCTCTTCATATATATCCTAGCATGTCAATTAACATCATCTATTTCTTTCAAAGTAATAATGCAGGAATCATGGCAACTCCCTTTATGCTCTCAAAAGACAACATAGAGCTGCAATTTGCCACAAATCATGTAGGTAAGAACTGTTTGTTAATGCTTGTTTCTGCGCGAGAAGAGAGCCTGTAATAGTTCCATCATCTTCTTTATTTTATTTTTTATTCAGGCACCAGTTCACTTTATAAATTAAAGCATCTGATCCAAATTTACCGCCCTTCCTAATTTTACTGAAATGAAGATTCAATTCTCGCTTAAAGGAGATCAAATAGTTGATTCTCCATAATTTTGTCATCTTAAGTTTCAGTTATAAAATGCACATGTAAAAGACCATCTGAGACCTGGTTAGAGGACAATTCATGTCCCCTTTATCCCTACTTTGTCATCCAACTCTTCTACAGTGCACACTTGACAAATCTAGTAAGACTGGTAGGAAGTTGTATGATAGGTGGGCAACGTTTTCAAAAGTAAACTTTCAAGAGGGAAATTCATACTTCCTTTTAACTTATCTTATCCATAACTATTCTTCTTTCTTGCCTTTGCAGGTCATTTTCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCACGTAAAACAAAGAGAGAGGGAAGAATTGTGAATGTTTCGTCAGAGGCTCATCGATTTGCATACAGAGAAGGAATTCGGTTTGACAAAATTAATGATCCCAAAAGGTAATCTTGTTAGATTTTGGTGCCGAACTAAATTTTCTTGATTGTAAGAGAAGCCTTGCTCAAATTCATCACTTGCTCGATGGCTTCAGTGATCACTTTTTAATTTTCACAGTCTAATAGTTCCATGAGAGTGTATAATATACTCCCTTCATTCACTTTTACATGTCCACTTTGGACTTTGCTCGCCCTTTTAAGAAACAATGATTAATATGAGTATTTTACCACAATATCCATATTAATTGACGTATAGTCTTAAGTCTTGAATTGATTTGGGGAATAAGTAATTAATGTTGCGGGTAAAACACAAAAAAACAATTGTCTTTAAAGGATATGTTAAAAGTAAGTAGAAGTGGAAATCTATTTATGGAATACTGAACAAGTAACCTGAGGAAGTATTTTAATATAGATTTCTAATGTTATCATGCCAAGATCACTTGCAATTCATCACAAGTTCTTGATTGACAATCTCTCTTGTTAATTATGGTGCCCTAACTTCTCAACCAACACCTTGGATTTCCTTCATGAGATTTTTATATTTATTGTTTTCACCTGGAGAGTACTGGGTGATACTCTATCTGTATTAAACACCAATATGAATCATTTTCCTTAATATTCAATCACTATATTTAACTGATCACTTGTCTTATTGGTTTCCTTCAAGCTTAATGGTTATTCTGTACTATTCTTGAACTAATCAAAGATGACAAGCATTTTGTGCTCAAGATTGACGATTCTTTGCTGTTTTTCACTTCAAGCTGCATAACTGATATTTCTCCATGATAAAAAATAGTCGTCCCCTGGATATTGATTTTTCAATTTCGGTGTTGTTTTTTATCTTATGTGCAGCTACAACAGCTATGGTGCATATGGCCAATCAAAGCTGGCCAACATACTGCATGCAAATGAGCTTACAAGACGCTTAAAGGTGGATTTTCGAAAAAAAGAATCTTGCAAACTGATTTTGATTCTGATGTCGTAATGGTTCTTGTGTAGTCATGATTGTCTCCATTCCTAGAGGCAAACACATATTTCTTGGGTGTAGATTTGGATATTCTTTTTGGCACATCAAGAAGTTCTTGGTTTGCAGTCTCTGACTTATGTAGCTCTGTCACAGCTTTGGACAAGGGCTCTCCATACCATTCAATTGAACTCTAAATTTTTAGTGATCTTTATTTCAAACAGGAAGATGGAGTAGAAATAAGTGCAAATTCACTTCATCCTGGAACGATCACTACCAATCTTTTTCGTCATATGGGTATTTTTGATGGTTAGTAAGATTCTCTTTTCTTCCTTTTCTATTTAGTAGCTGTTGTCTGATTTTAATATGAATGGTTCGTACAGTAAGTTCACTACTTTATGTCTGGTGCTCTCACTAATACTAATATATGGCATAATGAGCAAAAGGCATTTCCGTTTGTAGATTTGTGGTGTGTCATGCCTTTCTTTCTTTCCTTTTTTTTGGGGGGGTTTCTCTTTGTTTTTACTTTTTCCTTAAGGTGGGTTGGAGAGGGAGGGAGATTGCTAAGAACTTGACCACTAATTTGGAGGAGGAGAGGGGTTTGGAATTGAACCCTTGCATTAAGCAGTTTTGGTCCATCCGTTAACAAACTCTGATTGTTATTAGCGGAAATTGTGAAAAGAAATGATTTAACCAGAAACACCAAGTCTTATCAAGTCCTAGAAACAACAACCTCAAAAACTAGAGCAAACACCAGAAATAGAAAGAAGAAGCAGAAACTTCACCAGGAAAACCAGCACCAAACTTCAGAAAGAGAACGAAAATAGCAGAAACTGCAAAAATGTCACTTCCAAATGTGAGTTCATGGTAATCCTTTTTCTCTCACAGTTAAATTCAACGGCCAGAGTTTGTAATATTTGACGTAGACCAAACATGCTCACTTTTGATTGACTTAGACGACATAAACTGCTCCAGGAGACATTTAAGATACCATTATTTTGGACCTGCCGAAAACATAAGAGGACTATCAGTTTCTCCTATATAGAGTTCTAAGCCCACAAGTCGTTGTAGAATATTTATGTGTAATGTTTGTTTCACAAGCTAAGACAAGCGAACATGAAATATTCCTTTCTGCTCATTACAGGTCTGGTCGGCACTCTTGGAAAACTTCTGCTTAAAAATGTTCAACAGGTATGTTCTGCATCAAAACATTTAAAGTTTTACTGTATGTACAGATTCTTTTGCAACAATGAGGAGAGAACTTTGACATCTTCCGGAGCAAGAAGTTTGGCTCAATAATAATCGGCTAACTATCAGAAGGTTTATATTAGGATTATTAATGATCTTCTCATGAATCAGTTGGAGAAAATTCAACCTTGTCGGAACATTATTTGTATTTCCTTAGCATAGATAAAATTCCCTGCTATATTCGCAGAAAATGGAACCTGATTAAGAATCTTCCCAGAAGGTAAGTCAATATACAAGCCAGAGGATGATTTGCCAATACACAATAACTTGTCGATACACACGACCTTTGCTCAGATGAAGAAAAAGATATCTCTGAAATAGAAACAACCATGATGCCATGGAAATTGATCAGTACTTAACATTCCCTTTTTCCTCTTCTTTAGGGAGCATCAACCACTTGTTATCTTGCATTGAATCCACAAGTGAAGGGGGTAAGTGGTGAATATTTTTCAGACAACAATTTGGCGAAGACGACAGCGTTGGCTAAAGATATGGATTTAGCTAAGAGGCTCTGGGATTTTAGTATGGATCTGATCAAGTAAAATGTTGTA</genome_strand>
        <mrna_strand>TTGCTTCAGACTTTAAATCATCAGGTCGCCCGTTGAACCTTTTAAT..................................................................................................................................................................TAATAATGCAGGAATCATGGCAACTCCCTTTATGCTCTCAAAAGACAACATAGAGCTGCAATTTGCCACAAATCATGTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATTTTCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCACGTAAAACAAAGAGAGAGGGAAGAATTGTGAATGTTTCGTCAGAGGCTCATCGATTTGCATACAGAGAAGGAATTCGGTTTGACAAAATTAATGATCCCAAAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTACAACAGCTATGGTGCATATGGCCAATCAAAGCTGGCCAACATACTGCATGCAAATGAGCTTACAAGACGCTTAAAG.................................................................................................................................................................................................................................................................GAAGATGGAGTAGAAATAAGTGCAAATTCACTTCATCCTGGAACGATCACTACCAATCTTTTTCGTCATATGGGTATTTTTGATG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTGGTCGGCACTCTTGGAAAACTTCTGCTTAAAAATGTTCAACAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................GGAGCATCAACCACTTGTTATCTTGCATTGAATCCACAAGTGAAGGGGGTAAGTGGTGAATATTTTTCAGACAACAATTTGGCGAAGACGACAGCGTTGGCTAAAGATATGGATTTAGCTAAGAGGCTCTGGGATTNTAGTATGGATCTGATCAAGTAAAATGTTGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E299433" ref_strand="+" ref_description="SGN-E299433 [cLET-43-F1]">
      <seq>gaaaagatgttagagatgcaatagttacggaaatccctgctgctaaagttgataccatggagttagatcttagctcattggcatcagtgaagaaatttgcttcagactttaaatcatcaggtcgcccgttgaaccttttaattaataatgcaggaatcatggcaactccctttatgctctcaaaagacaacatatagctgcaatttgccacaaatcatgtaggtcattttcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="35229" stop="34242"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34929" g_stop="34788" g_length="142"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="142" r_length="142" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="34787" i_stop="34626" i_length="162">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.805" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="34625" g_stop="34546" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="143" r_stop="222" r_length="80" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E299433" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>222</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299433" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34929" e_stop="34788"/>
          <exon e_start="34625" e_stop="34546"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAAGATGTTAGAGATGCAATAGTTACGGAAATCCCTGCTGCTAAAGTTGATACCATGGAGTTAGATCTTAGCTCATTGGCATCAGTGAAGAAATTTGCTTCAGACTTTAAATCATCAGGTCGCCCGTTGAACCTTTTAATGTAAGTGATGAATAAGAGTGGTAGTCGCATGCCTGAAGATTGCATTTTTACTCCCTCCCAGCCTCCCTCTCTCTTTCAAGTAACTTTGTTCTTCTGCATGAATCTCTTCCCTCTTCATATATATCCTAGCATGTCAATTAACATCATCTATTTCTTTCAAAGTAATAATGCAGGAATCATGGCAACTCCCTTTATGCTCTCAAAAGACAACATAGAGCTGCAATTTGCCACAAATCATGTAG</genome_strand>
        <mrna_strand>GAAAAGATGTTAGAGATGCAATAGTTACGGAAATCCCTGCTGCTAAAGTTGATACCATGGAGTTAGATCTTAGCTCATTGGCATCAGTGAAGAAATTTGCTTCAGACTTTAAATCATCAGGTCGCCCGTTGAACCTTTTAAT..................................................................................................................................................................TAATAATGCAGGAATCATGGCAACTCCCTTTATGCTCTCAAAAGACAACATATAGCTGCAATTTGCCACAAATCATGTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E698152" ref_strand="+" ref_description="SGN-E698152 [FA05BG01]">
      <seq>cttctccttcctaaacccagcagcagccaccattcttgttgagagacagagccctaaacgcccaaatctgctaaaccaccattgacagtcagggggccttattatcaggtaaacaaacctaagcaattacagaaactacttgtctttcaatcgagaaagaaataacaaagacaaaaaagaagaaaaaaaaatcaagaaaaaacgtcgagccaaaaaaagaaaagaaaaaaaaaattcattcttctctttttcttgctagtttaaaaccctacctatttctctgggatttttgttttaatcctccagcttttatctctgttgcggcatacatgactgcattgtttattgaggtgcatgcctcgttggaattcggagaggtttacttacgatggtttgattatgttactgatgcttgccttctaaaggaataaagctgctgtcttgttcataacatcaacacttttaaggttgaaactttatttataccgtagttctgagaaggccaataaacagttttatcagatttatcagctgatatctggaggtcctatggcgatcgtcaaaccaaagatgaagtcatatatctggctcgaaactgctgatggttcaatccaaaaagtggaggaacaggttgccatgttttgcccctgcgatatgcagggaaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="39502" stop="42011"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39802" g_stop="40151" g_length="350"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="350" r_length="350" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="40152" i_stop="40728" i_length="577">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.789" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40729" g_stop="40948" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="351" r_stop="570" r_length="220" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40949" i_stop="41616" i_length="668">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="0.628" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41617" g_stop="41712" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="571" r_stop="667" r_length="97" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E698152" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>666</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E698152" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39802" e_stop="40151"/>
          <exon e_start="40729" e_stop="40948"/>
          <exon e_start="41617" e_stop="41712"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTCTCCTTCCTAAACCCAGCAGCAGCCACCATTCTTGTTGAGAGACAGAGCCCTAAACGCCCAAATCTGCTAAACCACCATTGACAGTCAGGGGGCCTTATTATCAGGTAAACAAACCTAAGCAATTACAGAAACTACTTGTCTTTCAATCGAGAAAGAAATAACAAAGACAAAAAAGAAGAAAAAAAAATCAAGAAAAAACGTCGAGCCAAAAAAAGAAAAGAAAAAAAAAATTCATTCTTCTCTTTTTCTTGCTAGTTTAAAACCCTACCTATTTCTCTGGGATTTTTGTTTTAATCCTCCAGCTTTTATCTCTGTTGCGGCATAGATGACTGCATTGTTTATTGAGGTATTTTTTTTTCATTTCTGTTTTCACCTTTTTTATGTTCTGAATTTATTTACCTTGTTTTACACTAAAAAATTGGTTCTTTATCGGTGAATTGGTGTTAATTTCGTGTAAAAATCGAGTTGTTTAATTGGGTTTTTTTTTAGTTGGTGGGTGTTTATTTTATACCGTTTCTTGATTTTTGGTGTTACTTTGTGTTCTTCATTGGGTTTTAATGGAGAAATGTTGATGAGGTTTTGCACATACATGGGGTAGCAATTGAAGTGAAATTTTGTGACATTTCTGTTAAATTTTGTTACATTTCTGTTTGATTATTCGACTTCTAAATTTTCCCTATTTCTTTAGGGGGAGGGATGTGATGGTGGAATTGATATAGAAATGAACAATTAAGTAAGGAAAACAAGCACATATAGAAGTAAAAACCCTTATAGGCAAAAAATGGAAATGAACCAACTTACCTTCTATTATGATTCATATGTTTTTTTTTTTAAATTAGTGTTTGTTAATTATGTAACTTGATTAACCTGCTATGTTTTTTCTTTAAGAAGAATATACTACTGATGAAACAATCTCCCTGAAGGTGCATGTCTCGTTGGAATTCGGAGAGGTTTACTTACGATGGTTTGATTATGTTACTGATGCTTGTCTTCTAAAGGAATAAAGCTGCTGTCTTGTTCATAACATCGACACTTTTAAGGTTGAAACTTTATTTATACCGTAGTTCTGAGAAGGCCAATAAACAGTTTTATCAGATTTATCAGCTGATATCTGGAGGTCCTATGGCGATCGTCAAACCAGAGGTATGAGATAACTTCTTTATGTTCAAATGACACTTGGATGTATTTATCTAGTAAAAAAGGCTACTTGGTTATGATCTTTACGAATTTAGGAGACTCTTAACTTCTATTCCTTTTATCTTCATCCAATCACATTCCTTTTAAGGCTGTCTTATATCAGTTGCTTGGTCAGGTTGTGAGTTGCATTAACTTAAGGTGTTATGAGATCCCATGATTCGGGAATAGTAGTGGTTTTGTGTTAAGATGAACTGGCTATGCTACATACTTTTTTTTAATCTTAAATTTGAATTGGATACTGCATGGAAGAGCTAGGTGTTTCTTAGTTTATTGATGGCATGTTGTGCCACGATACAAGATGCATTATATAGATCACAGCCCTGAAATATTGTAAGCATTAAAATGATCCTGTTTGAGAACTGATAAAGACAGCTTTAGCATGAAGGGTAGAGATAAGTGGAACCATCCCTTTCTACATCTAAAGAAATAGTAATTCTTTTGGATAATGGCCAAAATCCTTTTTTGCATGGGAATGGAGTGTGACATCCTGCATCACTGTTCAAGGTGTGGGAATAGATTTTTATTGCATTTCCAATGATCTCCCTTTATTATTTTTCAATCAGGCAACGTCCAAGATCTTCTGCTAAATTTGCGCTGCTGTTAATTCTATACAGATGAAGTCATATATCTGGCTCGAAACTGCTGATGGTTCAATCCAAGAAGTGGAGGAAGAGGTTGCCATGTTTTG-CCCTGTGATATGCAGGGAATTA</genome_strand>
        <mrna_strand>CTTCTCCTTCCTAAACCCAGCAGCAGCCACCATTCTTGTTGAGAGACAGAGCCCTAAACGCCCAAATCTGCTAAACCACCATTGACAGTCAGGGGGCCTTATTATCAGGTAAACAAACCTAAGCAATTACAGAAACTACTTGTCTTTCAATCGAGAAAGAAATAACAAAGACAAAAAAGAAGAAAAAAAAATCAAGAAAAAACGTCGAGCCAAAAAAAGAAAAGAAAAAAAAAATTCATTCTTCTCTTTTTCTTGCTAGTTTAAAACCCTACCTATTTCTCTGGGATTTTTGTTTTAATCCTCCAGCTTTTATCTCTGTTGCGGCATACATGACTGCATTGTTTATTGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCATGCCTCGTTGGAATTCGGAGAGGTTTACTTACGATGGTTTGATTATGTTACTGATGCTTGCCTTCTAAAGGAATAAAGCTGCTGTCTTGTTCATAACATCAACACTTTTAAGGTTGAAACTTTATTTATACCGTAGTTCTGAGAAGGCCAATAAACAGTTTTATCAGATTTATCAGCTGATATCTGGAGGTCCTATGGCGATCGTCAAACCAAAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGAAGTCATATATCTGGCTCGAAACTGCTGATGGTTCAATCCAAAAAGTGGAGGAACAGGTTGCCATGTTTTGCCCCTGCGATATGCAGGGAAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324671" ref_strand="+" ref_description="SGN-E324671 [cTOC-9-P15]">
      <seq>gacagtcagggggccttattatcagaagaatatactactgatgaaacaatctccctgaaagtgcatgtctcgttggaattcggagaggtttacttacgatggtttgattatgttactgatgcttgtcttctaaaggaataaagctgctgtcttgttcataacatcgacacttttaaggttgaaactttatttataccgtagttctgagaaggccaataaacagttttatcagatttatcagctgatatctggaggtcctatggcgatcgtcaaaccagagatgaagtcatatatctggctcgaaactgctgatggttcaatccaagaagtggaggaagaggttgccatgttttgccctgtgatatgcagggaattacttcaaaatggcaagggatcttcgaaaaattatgcaatattacttcctgaacgagtcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="39585" stop="42071"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39885" g_stop="39909" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="25" r_length="25" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39910" i_stop="40693" i_length="784">
            <donor d_prob="0.988" d_score="0.00"/>
            <acceptor a_prob="0.567" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40694" g_stop="40948" g_length="255"/>
          <reference_exon_boundary r_type="cDNA" r_start="26" r_stop="280" r_length="255" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40949" i_stop="41616" i_length="668">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.628" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41617" g_stop="41771" g_length="155"/>
          <reference_exon_boundary r_type="cDNA" r_start="281" r_stop="435" r_length="155" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E324671" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>435</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E324671" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39885" e_stop="39909"/>
          <exon e_start="40694" e_stop="40948"/>
          <exon e_start="41617" e_stop="41771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACAGTCAGGGGGCCTTATTATCAGGTAAACAAACCTAAGCAATTACAGAAACTACTTGTCTTTCAATCGAGAAAGAAATAACAAAGACAAAAAAGAAGAAAAAAAAATCAAGAAAAAACGTCGAGCCAAAAAAAGAAAAGAAAAAAAAAATTCATTCTTCTCTTTTTCTTGCTAGTTTAAAACCCTACCTATTTCTCTGGGATTTTTGTTTTAATCCTCCAGCTTTTATCTCTGTTGCGGCATAGATGACTGCATTGTTTATTGAGGTATTTTTTTTTCATTTCTGTTTTCACCTTTTTTATGTTCTGAATTTATTTACCTTGTTTTACACTAAAAAATTGGTTCTTTATCGGTGAATTGGTGTTAATTTCGTGTAAAAATCGAGTTGTTTAATTGGGTTTTTTTTTAGTTGGTGGGTGTTTATTTTATACCGTTTCTTGATTTTTGGTGTTACTTTGTGTTCTTCATTGGGTTTTAATGGAGAAATGTTGATGAGGTTTTGCACATACATGGGGTAGCAATTGAAGTGAAATTTTGTGACATTTCTGTTAAATTTTGTTACATTTCTGTTTGATTATTCGACTTCTAAATTTTCCCTATTTCTTTAGGGGGAGGGATGTGATGGTGGAATTGATATAGAAATGAACAATTAAGTAAGGAAAACAAGCACATATAGAAGTAAAAACCCTTATAGGCAAAAAATGGAAATGAACCAACTTACCTTCTATTATGATTCATATGTTTTTTTTTTTAAATTAGTGTTTGTTAATTATGTAACTTGATTAACCTGCTATGTTTTTTCTTTAAGAAGAATATACTACTGATGAAACAATCTCCCTGAAGGTGCATGTCTCGTTGGAATTCGGAGAGGTTTACTTACGATGGTTTGATTATGTTACTGATGCTTGTCTTCTAAAGGAATAAAGCTGCTGTCTTGTTCATAACATCGACACTTTTAAGGTTGAAACTTTATTTATACCGTAGTTCTGAGAAGGCCAATAAACAGTTTTATCAGATTTATCAGCTGATATCTGGAGGTCCTATGGCGATCGTCAAACCAGAGGTATGAGATAACTTCTTTATGTTCAAATGACACTTGGATGTATTTATCTAGTAAAAAAGGCTACTTGGTTATGATCTTTACGAATTTAGGAGACTCTTAACTTCTATTCCTTTTATCTTCATCCAATCACATTCCTTTTAAGGCTGTCTTATATCAGTTGCTTGGTCAGGTTGTGAGTTGCATTAACTTAAGGTGTTATGAGATCCCATGATTCGGGAATAGTAGTGGTTTTGTGTTAAGATGAACTGGCTATGCTACATACTTTTTTTTAATCTTAAATTTGAATTGGATACTGCATGGAAGAGCTAGGTGTTTCTTAGTTTATTGATGGCATGTTGTGCCACGATACAAGATGCATTATATAGATCACAGCCCTGAAATATTGTAAGCATTAAAATGATCCTGTTTGAGAACTGATAAAGACAGCTTTAGCATGAAGGGTAGAGATAAGTGGAACCATCCCTTTCTACATCTAAAGAAATAGTAATTCTTTTGGATAATGGCCAAAATCCTTTTTTGCATGGGAATGGAGTGTGACATCCTGCATCACTGTTCAAGGTGTGGGAATAGATTTTTATTGCATTTCCAATGATCTCCCTTTATTATTTTTCAATCAGGCAACGTCCAAGATCTTCTGCTAAATTTGCGCTGCTGTTAATTCTATACAGATGAAGTCATATATCTGGCTCGAAACTGCTGATGGTTCAATCCAAGAAGTGGAGGAAGAGGTTGCCATGTTTTGCCCTGTGATATGCAGGGAATTACTTCAAAATGGCAAGGGATCTTCGAAAAATTGTGCAATATTACTTCCTGAACGAGTCAA</genome_strand>
        <mrna_strand>GACAGTCAGGGGGCCTTATTATCAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGAATATACTACTGATGAAACAATCTCCCTGAAAGTGCATGTCTCGTTGGAATTCGGAGAGGTTTACTTACGATGGTTTGATTATGTTACTGATGCTTGTCTTCTAAAGGAATAAAGCTGCTGTCTTGTTCATAACATCGACACTTTTAAGGTTGAAACTTTATTTATACCGTAGTTCTGAGAAGGCCAATAAACAGTTTTATCAGATTTATCAGCTGATATCTGGAGGTCCTATGGCGATCGTCAAACCAGAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGAAGTCATATATCTGGCTCGAAACTGCTGATGGTTCAATCCAAGAAGTGGAGGAAGAGGTTGCCATGTTTTGCCCTGTGATATGCAGGGAATTACTTCAAAATGGCAAGGGATCTTCGAAAAATTATGCAATATTACTTCCTGAACGAGTCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E689177" ref_strand="+" ref_description="SGN-E689177 [t3_tus_80_H02]">
      <seq>acagggggccttataatcagaagaatataccccttatgaaacaatctccctgaaggtgcatgtctcgttggaattcggagaggtttacttacgatggtttgattatcttactgatgcttgtcttctaaaggaataaagctgctgtcttgttcataacatcgacacttttaaggttgaaactttatttataccgtagttctgagaaggccaataaacagttttatcagatttatcagctgatatctggaggtcctatggcgatcgtcaaaccagagatgaagtcatatatctggctcgaaactgctgatggttcaatccaagaagtgtaggaagaggttgccatgttttgccctgtgatatgcagggaattacttcaaaatggcaagggatcttcgaaaaattatgcaatattacttcctgaacgagtcaatcctgctaacttagagttaatactggagttttgtcggttccatcaagttcctggccgttctaataaggagcgcaagaaacatgatgagaagtttgtccggttagataccaagacgttatgtgatttggcttctgctgctgacagtcttcagctaaggcctgtggttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="40390" stop="42411"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40694" g_stop="40948" g_length="255"/>
          <reference_exon_boundary r_type="cDNA" r_start="21" r_stop="275" r_length="255" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="40949" i_stop="41616" i_length="668">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.628" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="41617" g_stop="41838" g_length="222"/>
          <reference_exon_boundary r_type="cDNA" r_start="276" r_stop="497" r_length="222" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="41839" i_stop="42010" i_length="172">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.679" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42011" g_stop="42111" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="498" r_stop="598" r_length="101" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E689177" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>578</cumulative_length_of_scored_exons>
        <coverage percentage="0.967" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E689177" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40694" e_stop="40948"/>
          <exon e_start="41617" e_stop="41838"/>
          <exon e_start="42011" e_stop="42111"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAATATACTACTGATGAAACAATCTCCCTGAAGGTGCATGTCTCGTTGGAATTCGGAGAGGTTTACTTACGATGGTTTGATTATGTTACTGATGCTTGTCTTCTAAAGGAATAAAGCTGCTGTCTTGTTCATAACATCGACACTTTTAAGGTTGAAACTTTATTTATACCGTAGTTCTGAGAAGGCCAATAAACAGTTTTATCAGATTTATCAGCTGATATCTGGAGGTCCTATGGCGATCGTCAAACCAGAGGTATGAGATAACTTCTTTATGTTCAAATGACACTTGGATGTATTTATCTAGTAAAAAAGGCTACTTGGTTATGATCTTTACGAATTTAGGAGACTCTTAACTTCTATTCCTTTTATCTTCATCCAATCACATTCCTTTTAAGGCTGTCTTATATCAGTTGCTTGGTCAGGTTGTGAGTTGCATTAACTTAAGGTGTTATGAGATCCCATGATTCGGGAATAGTAGTGGTTTTGTGTTAAGATGAACTGGCTATGCTACATACTTTTTTTTAATCTTAAATTTGAATTGGATACTGCATGGAAGAGCTAGGTGTTTCTTAGTTTATTGATGGCATGTTGTGCCACGATACAAGATGCATTATATAGATCACAGCCCTGAAATATTGTAAGCATTAAAATGATCCTGTTTGAGAACTGATAAAGACAGCTTTAGCATGAAGGGTAGAGATAAGTGGAACCATCCCTTTCTACATCTAAAGAAATAGTAATTCTTTTGGATAATGGCCAAAATCCTTTTTTGCATGGGAATGGAGTGTGACATCCTGCATCACTGTTCAAGGTGTGGGAATAGATTTTTATTGCATTTCCAATGATCTCCCTTTATTATTTTTCAATCAGGCAACGTCCAAGATCTTCTGCTAAATTTGCGCTGCTGTTAATTCTATACAGATGAAGTCATATATCTGGCTCGAAACTGCTGATGGTTCAATCCAAGAAGTGGAGGAAGAGGTTGCCATGTTTTGCCCTGTGATATGCAGGGAATTACTTCAAAATGGCAAGGGATCTTCGAAAAATTGTGCAATATTACTTCCTGAACGAGTCAATCCTGCTAACTTAGAGTTAATACTGGAGTTTTGTCGGTTCCATCAAGTTCCTGGCCGTTCTAATAAGGTCTCTTTCTTGCTTCTTCTAAAGCAATGCATCCCCCCCCCCCCCCCCCCCAAAAAAAAACAACAACCTCATACACATAATGAAGGAAAATCAGGGCTTAGTATGGTTATGTAACATGATGTTCAATCATTTGGCTTCCACTAAGTGTAACAGTTGTCATTTACATACCTAGGAGCGCAAGAAACATGATGAGAAGTTTGTCCGGTTAGATACCAAGACGTTATGTGATTTGGCTTCTGCTGCTGACAGTCTTCAGCTAAGGCCTGTGGTTGA</genome_strand>
        <mrna_strand>AAGAATATACCCCTTATGAAACAATCTCCCTGAAGGTGCATGTCTCGTTGGAATTCGGAGAGGTTTACTTACGATGGTTTGATTATCTTACTGATGCTTGTCTTCTAAAGGAATAAAGCTGCTGTCTTGTTCATAACATCGACACTTTTAAGGTTGAAACTTTATTTATACCGTAGTTCTGAGAAGGCCAATAAACAGTTTTATCAGATTTATCAGCTGATATCTGGAGGTCCTATGGCGATCGTCAAACCAGAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGAAGTCATATATCTGGCTCGAAACTGCTGATGGTTCAATCCAAGAAGTGTAGGAAGAGGTTGCCATGTTTTGCCCTGTGATATGCAGGGAATTACTTCAAAATGGCAAGGGATCTTCGAAAAATTATGCAATATTACTTCCTGAACGAGTCAATCCTGCTAACTTAGAGTTAATACTGGAGTTTTGTCGGTTCCATCAAGTTCCTGGCCGTTCTAATAAG............................................................................................................................................................................GAGCGCAAGAAACATGATGAGAAGTTTGTCCGGTTAGATACCAAGACGTTATGTGATTTGGCTTCTGCTGCTGACAGTCTTCAGCTAAGGCCTGTGGTTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E692782" ref_strand="+" ref_description="SGN-E692782 [LH_Ea09J20]">
      <seq>cctttgaaactttccatttgcctgatgatctaacagaggagcataagttggaacctttgagaaatatgacggatgatccacgtatccgccttctaaatcgactctatgcaagaaaaaggaaagaattatatgacagaaagaaactaaagaatgttgatgtagaagaagagccccgcgtagatgaaagatcagttgatgatcttttgtcattcataaatagtggagatcaagactcaaaggctgtaagagtaacaaaaaataaaaagaaatctcgagggagaaaagaacaagctagaaattcgtcttcaaataatgaagctggaaacaataataaggaatctaattgccttacatctggctgcctaaatggtgacaccagtgatgggtcttctccaagtagaaattctgagctgcaaaactcaccgtctgcaatgttttcatctaagctcgacttggatgattttgatattgatgatgagttagatccagcaaggaaggaagaaattgacagggaggttgaggattttgctcggagactagactctgtctggccagataggatacaacagattttgtctttgggtcaggagaatagacggcttggaccaatttccatgaatggaaatggttccatgaagagatgtacagcaggtgtggaccggggatagtgatggaaatggtggacaaacgacaatgcgttttttgtttttttttttgtatacagcttgagcttaaaaggccagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="41869" stop="47248"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42165" g_stop="42202" g_length="38"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="38" r_length="38" r_score="0.895"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42203" i_stop="42284" i_length="82">
            <donor d_prob="0.987" d_score="0.00"/>
            <acceptor a_prob="0.990" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="42285" g_stop="42395" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="39" r_stop="149" r_length="111" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42396" i_stop="42531" i_length="136">
            <donor d_prob="0.920" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42532" g_stop="42613" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="150" r_stop="231" r_length="82" r_score="0.988"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="42614" i_stop="43340" i_length="727">
            <donor d_prob="0.977" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="43341" g_stop="43444" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="232" r_stop="335" r_length="104" r_score="0.971"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="43445" i_stop="43573" i_length="129">
            <donor d_prob="0.996" d_score="0.98"/>
            <acceptor a_prob="0.993" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="43574" g_stop="43749" g_length="176"/>
          <reference_exon_boundary r_type="cDNA" r_start="336" r_stop="511" r_length="176" r_score="0.989"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="43750" i_stop="44835" i_length="1086">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="44836" g_stop="44972" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="512" r_stop="648" r_length="137" r_score="0.971"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="44973" i_stop="46861" i_length="1889">
            <donor d_prob="0.979" d_score="0.94"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="46862" g_stop="46920" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="649" r_stop="707" r_length="59" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E692782" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>707</cumulative_length_of_scored_exons>
        <coverage percentage="0.950" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E692782" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42165" e_stop="42202"/>
          <exon e_start="42285" e_stop="42395"/>
          <exon e_start="42532" e_stop="42613"/>
          <exon e_start="43341" e_stop="43444"/>
          <exon e_start="43574" e_stop="43749"/>
          <exon e_start="44836" e_stop="44972"/>
          <exon e_start="46862" e_stop="46920"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACGTGAAACTTTCCATTTGCCTGATGATCTAACAGAGGTCTGTCTCACTTGCAGAGAACTTAGATATCCTTCTACTGCCATATTATGGTTGTCCTTACATTGAAGTGGTATTTCTTCAGGAGGAGAAGTTGGAACCTTTGAGAAATATGACGGATGATCCACGTATCCGCCTTCTAAATCGACTCTATGCAAGAAAAAGGAAAGAATTATATGACAGAAAGAAACTAAAGGTGCTTTGACATTTATCTCACGTTGTAATCTCTAGTCATGTTTATTTATATCGGTAATTATTGTGTGATTGTATATGCATCTCTCATTCTGCATTAATTCATTAATGTTTAACTGATTTTCATTTTGATTTTCCAGAATGTTGATGTAGAAGAAGAGCCCCGCGTAGATGAAAGATCAGTTGATGATCTTTTGTCATTCATAAATGGTGGAGATCAAGGTACAATTGTGGACTTCATTTACACTCTCATTTGTTGTGTAGAGTTGCACTAACTTCTACAGATTATATAAGTAAGATATTTGAACTACCACCTCTAGTTACATTTTTGGGGGGTGGATTTGCTCATCATAGCTTCCATTCCCTCCCTCTCAATTTATATGACAGTTTGACTTCGTAGGGAGTTTAAGAAAGAAAGACTTTTGAAACTTGTGTGTCTAAGATAAGTCATAGATATTTGTGTGGTTGTAAATCATTTCATTTAGGGTAAAATGGGCACTTTGAAATTAAATTACTAAATATAGAATTGTTTTTGGGATTGACTAAGAAGGAAAGTGACCATATAAATTGGGACAGAGGGAGTATATAGTTTGCCAAAACTATGATCAGGGCCGGCCTTCTTATGCTTTCGATGAATCAATTGCGTTTTTTTTTCAAATAAGTAAATATGTTTTGCTGCATTATCATCATATCTGTAGTCTGTATGGTCGCCGGACCTTATAATACTGTAATCTAGTTTTGTCCGAAGGACTTGACTTTGTCATTAGTAGATGCACATGAGTAGGTTAGCTAATAAATTTATGTGGAACTGTATACTTTTTGTGTTTGCAAGCCCCTATCTGAAATAGAATAGTTTTTTAACCATCCTTTATCGTTTTGAGAACTCTGTTCTTGTCTTGTTTGTGACAAGTTCCTTCTTTTAACTGTATCATGATTATCTTTTCTGCAGACTCAAAGGCTGCAAGAGTAACAAAAAATAAAAAGAAATCTCGAGGAAGAAAAGAACAAGCTAGAAATTCGTCTTCAAATAATGAACCTGGAAACAATAATAAGGTTGGTATCTCATGTACTCTAGGTTCTTTTCTGTTTCTTTCTATTATTTTTATGCTCGCAGTGTAAGAGAAGAGTGTGTTTCTTGTAACTATATTCTACTTTTTTGATATGATCCTTGCTGGTACTCAGGAATCTAATTGCCTTACATCTGGCTGCTTAAATGGTGACACCAGTGATGGGTCTTCTCCAAGTAGAAATTCTGAGCTGCAAAACTCACCATCTGCAATGTTTTCATCTAAGCTCGACTTGGATGATTTTGATATTGATGATGAGTTAGATCCAGCAAGGAAGGAAGAAATTGACAGGTTCGTTCATCTTGTATTAGTGTTCTAGAGATATACTTTGTTATTCTGACTATATGGCATGACTGCATTTCTCGTGAAAAATTATTTATGTTAATATCTCTCTCTTTTGATAGATTTTGGTAATGTTTATTTGGGTAAAGGGAAAACTACTTCCCTACGAGTAGTGTACCACACTTCCTATTTCTGCAGAGGTTGCATACCTGTTCTAAGAAGCTCATTGGAACTGTCTGTTTCCTTCATATTTTGGATAAGGAACTATGTACATCCCCCGTCCCTTTGTTTTTTTGATAAGGAATTGTGTATATCCCTTGTTCTCTGGTAAGCCCGAAGAATTGCATACTCCAGGGCATACTGTATGGCTTAAAGGTTAACTTAGCCCGGTTATGCATATTACTGACCCCCTCTACCAAGAAAAGAAAAGAAAGAGAAAAGGTTGGAGATAGAATCTTCCCAACATCCCATGCTTTTGGGGAGCTTGACTTTTTCCTGTGTAATAGATCCCTGATCCCCTGGGAAAAACTTTAGATTCTAAAACTGAATCTAATATCGTTCACACTTTTGACGATCCGTCTTTTGTCCATCCAAGTCGATGAATTTTCTCTATTTCATTTGTTTGACCTGCTCCCTTCGTACAAGTTTCAACCCTTACTGGCATTAATGTCTTGCTTGATTTTGTATACTGGTAGCTTTCCTAATTGTGCTAACTGCAAGTACAGCAATGTTAACATGCTTGGATTCTTCTAGCTGTAATCTGCTTACCTATTATAGTATATATGGATTTATTTAATTGATGTGGAACTGTCATATCATCCACGTGTTATGGTGCATGTATAAGAGTTGATAAATCTTTATTATGTAGCAGTGGTCATTTCCTATTTTTTGTCCTTGAATAATGTTGGAGTTCCGTCTGAGTTTCTGTCTTTGGAGTGACAGGCCTCTGTCTGTGTGATTACTATCTATAACAGCGAGATGTCTCCATATATCTCTTGGCATGGGCTGCTATCGTCTGTATGGGGCAAGAATTCTTATAAAGTTTCCATGGTAAGATGTGTGATTTCTAATGTGTTTTGTATTTCTATATTGCAGGGAGGTTGAGGATTTTGCTCGGAGACTAGACTCTGTCTGGCCAGAAAGGATACAACAGATTTTGTCTTTGGGTCAGGAGAATAGACGGCTTACACCAATTTCCATGAACGGAAATGGTTCCATGAAGAGATGTACAGGTAGATCTTTTACTTTTCCTGAACCGAACATTTATTGATAACTTACACCTTGTTTGGATGGTATGCTTAGTATTTTCTTCTCATTTTGTCTTTACTTTTTACTATTTAATAATTCTATTTCATTTTTACCCTATCTTTTCAAGTAGCTCTACTCCGTACCCTACTTTTCTGTGGATTTATTATTCAAATTATGGATGAGTCGTTATGTATCGATGGAGAATGATATAATCTATTCAACATTGTATTTATTAAAACAATATAGTATGATACAATACAATACATTATGATACATTACGTAACAACCATCCAAACCGAGTGTTCAGGGAAGTACAATATTCTTTTGGAAAGATCTTGCTGAAAAGAATCCTCTGCGTAAGACTGGAGTTTCAAGGAGACTCTTTCTATCATTCTAAATACCAAAAGTACAAGAAATTTTAGGCTATTTAAAAGAAGTTGAATTTAACTGTAGAGTCTTCATTATAAAAGAATATGGTAGTACGTGAGCTGACCTGATTGCTTTCAGTTTTATCCAGCACTCATCGTTAGAAGATAAATTAAAATACTAAAAGTACAAGAACTTTTAGGCCATTTTGAAGAAGTTAACATTCTTAATTGTAGAAGAAAATGGTTGTATGGAGACCTGACCTGATTGCTCTCTGTTTATCCAACATACATGGTTAGGAGGGTAAATTTAAAGATGAAAATTGGGAATGGTGCCTCGGTAGTGTCAGCAATGGTTCCAGATTTAATGTGGGACATCATTGATTTGTTTACACTTCCCAAAGAACTATAAGTATCCCTTGAAGTCAAGCTCTATCTCTTTTGTTTAATGTGTCACATTTCTGATTTCCCGCAGCAAGGTTTCCCTGGTTGTGTCGGTGATATTTAACCTAGTTTATTTCAAAATGTTGCTCTCGAAACAAGAATAAATGAACTTATTGCCGCAGCTGTCTTTTTTCTTGTCATAGTTGCAATGATTCTTTTAAGACATTAGCGTAGTATTTTAGTTTGAATGTTCGTCAACCCCATGCATGATTTTTTCTTTTGATAACCATGGTGTCCGTGCCAGCTCACGTGCACCTCAACTAACTTCACGAGATCCCGGCCCCATGCATGATTTTTCTCACGACCTCATTATTTTATTTATGAATCACCTGGCAGTAGACCTTTCTTGTTGAGTTGCTTCAAGAGATGGGAATGTTCTTTTTTTTTTTTTTTTATAAAGGTAAAGTTGTATTTTTCTGCATTAAGGGTATGCTGGCTACCTCCAAAAAAATTACAAGCTATTTTCATTATCACATAGATCCTTGAAATCTACCAACTGTTCTACTTCTTCTACCTTCTTCTTTTCACCAAAAATACAACATGTTAATGCAATTTTCTTTAAAGTTCTGAATAATGTTAGTAATATTCATGACACCTGAGGTTTCTCTCTAAATAGCCCACCAGACACAAGCAGGTACTATACACCTCATTGAACAACTCAAAAGATCAGCAGTATGTTCTGGCATCACCCAGGGCTCTTCAGAAATGCTGAGAACCATGTGTCATACCTGAACAGTAATCGTACAGAGCAGGCCTCTTTTCTTGAGTTTTTTCCTGAGTGAGACATGTCTATCTGGAGACCAACTAGGTGAAGCGTTTCACCTTGGTTTGGGTGTTGCACTTCAATATTTGTTTCAAGAGATGGGATAGTTTATCAAGGAGTGTACAGTTTTGTGGCTGGGTTCTAGTTGGGACTAATATTACTATTGATTTTGCTTTGCACTTCCTCCCTATGAAAAAATAAACAGAAAGACCCGAAATCAACATGAAATGGCTTTTTATTTAACAAATATCTGTTTTGTGCTAGAAGCTCGTCTCTCAAAAGAAGTTTGTTGTCTTTGCAGCAGGTGTGGACCGGGGATAGTGATGGAAATGGTGGACAAACGACAATGCGTTTTTTTTT</genome_strand>
        <mrna_strand>CCTTTGAAACTTTCCATTTGCCTGATGATCTAACAGAG..................................................................................GAGCATAAGTTGGAACCTTTGAGAAATATGACGGATGATCCACGTATCCGCCTTCTAAATCGACTCTATGCAAGAAAAAGGAAAGAATTATATGACAGAAAGAAACTAAAG........................................................................................................................................AATGTTGATGTAGAAGAAGAGCCCCGCGTAGATGAAAGATCAGTTGATGATCTTTTGTCATTCATAAATAGTGGAGATCAAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTCAAAGGCTGTAAGAGTAACAAAAAATAAAAAGAAATCTCGAGGGAGAAAAGAACAAGCTAGAAATTCGTCTTCAAATAATGAAGCTGGAAACAATAATAAG.................................................................................................................................GAATCTAATTGCCTTACATCTGGCTGCCTAAATGGTGACACCAGTGATGGGTCTTCTCCAAGTAGAAATTCTGAGCTGCAAAACTCACCGTCTGCAATGTTTTCATCTAAGCTCGACTTGGATGATTTTGATATTGATGATGAGTTAGATCCAGCAAGGAAGGAAGAAATTGACAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGAGGTTGAGGATTTTGCTCGGAGACTAGACTCTGTCTGGCCAGATAGGATACAACAGATTTTGTCTTTGGGTCAGGAGAATAGACGGCTTGGACCAATTTCCATGAATGGAAATGGTTCCATGAAGAGATGTACAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAGGTGTGGACCGGGGATAGTGATGGAAATGGTGGACAAACGACAATGCGTTTTTTGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E696622" ref_strand="+" ref_description="SGN-E696622 [LH_Ea09J20](-)">
      <seq>atgtagaagaagagccccgcgtagatgaaagatcagttgatgatcttttgtcattcataaatagtggagatcaagactcaaaggctgtaagagtaacaaaaaataaaaagaaatctcgagggagaaaagaacaagctagaaattcgtcttcaaataatgaagctggaaacaataataaggaatctaattgccttacatctggctgcctaaatggtgacaccagtgatgggtcttctccaagtagaaattctgagctgcaaaactcaccgtctgcaatgttttcatctaagctcgacttggatgattttgatattgatgatgagttagatccagcaaggaaggaagaaattgacagggaggttgaggattttgctcggagactagactctgtctggccagataggatacaacagattttgtctttgggtcaggagaatagacggcttggaccaatttccatgaatggaaatggttccatgaagagatgtacagcaggtgtggaccggggatagtgatggaaatggtggacaaacgacaatgcgttttttgtttttttttttgtatacagcttgagcttaaaaggccaggttgtctgtctgttgcaacaaagaatttggtatccatatcatgtaaagtttcctgtcaagctgccaatagcaagttcgtgtccctggatacacaccaggttctcaaagtgtactgaaatatcagaatagaaggaattttctgttgtttgtgattatggaatttgcaaaacatgggcatttcaaaaagctgagattaacagttccaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="42239" stop="47456"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42539" g_stop="42613" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="75" r_length="75" r_score="0.987"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42614" i_stop="43340" i_length="727">
            <donor d_prob="0.977" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="43341" g_stop="43444" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="76" r_stop="179" r_length="104" r_score="0.971"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="43445" i_stop="43573" i_length="129">
            <donor d_prob="0.996" d_score="0.98"/>
            <acceptor a_prob="0.993" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="43574" g_stop="43749" g_length="176"/>
          <reference_exon_boundary r_type="cDNA" r_start="180" r_stop="355" r_length="176" r_score="0.989"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="43750" i_stop="44835" i_length="1086">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="44836" g_stop="44972" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="356" r_stop="492" r_length="137" r_score="0.971"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="44973" i_stop="46861" i_length="1889">
            <donor d_prob="0.979" d_score="0.94"/>
            <acceptor a_prob="0.988" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="46862" g_stop="47149" g_length="288"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="786" r_length="294" r_score="0.899"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="792" polyA_stop="804"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E696622" ref_strand="+">
        <total_alignment_score>0.950</total_alignment_score>
        <cumulative_length_of_scored_exons>780</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E696622" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42539" e_stop="42613"/>
          <exon e_start="43341" e_stop="43444"/>
          <exon e_start="43574" e_stop="43749"/>
          <exon e_start="44836" e_stop="44972"/>
          <exon e_start="46862" e_stop="47149"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGTAGAAGAAGAGCCCCGCGTAGATGAAAGATCAGTTGATGATCTTTTGTCATTCATAAATGGTGGAGATCAAGGTACAATTGTGGACTTCATTTACACTCTCATTTGTTGTGTAGAGTTGCACTAACTTCTACAGATTATATAAGTAAGATATTTGAACTACCACCTCTAGTTACATTTTTGGGGGGTGGATTTGCTCATCATAGCTTCCATTCCCTCCCTCTCAATTTATATGACAGTTTGACTTCGTAGGGAGTTTAAGAAAGAAAGACTTTTGAAACTTGTGTGTCTAAGATAAGTCATAGATATTTGTGTGGTTGTAAATCATTTCATTTAGGGTAAAATGGGCACTTTGAAATTAAATTACTAAATATAGAATTGTTTTTGGGATTGACTAAGAAGGAAAGTGACCATATAAATTGGGACAGAGGGAGTATATAGTTTGCCAAAACTATGATCAGGGCCGGCCTTCTTATGCTTTCGATGAATCAATTGCGTTTTTTTTTCAAATAAGTAAATATGTTTTGCTGCATTATCATCATATCTGTAGTCTGTATGGTCGCCGGACCTTATAATACTGTAATCTAGTTTTGTCCGAAGGACTTGACTTTGTCATTAGTAGATGCACATGAGTAGGTTAGCTAATAAATTTATGTGGAACTGTATACTTTTTGTGTTTGCAAGCCCCTATCTGAAATAGAATAGTTTTTTAACCATCCTTTATCGTTTTGAGAACTCTGTTCTTGTCTTGTTTGTGACAAGTTCCTTCTTTTAACTGTATCATGATTATCTTTTCTGCAGACTCAAAGGCTGCAAGAGTAACAAAAAATAAAAAGAAATCTCGAGGAAGAAAAGAACAAGCTAGAAATTCGTCTTCAAATAATGAACCTGGAAACAATAATAAGGTTGGTATCTCATGTACTCTAGGTTCTTTTCTGTTTCTTTCTATTATTTTTATGCTCGCAGTGTAAGAGAAGAGTGTGTTTCTTGTAACTATATTCTACTTTTTTGATATGATCCTTGCTGGTACTCAGGAATCTAATTGCCTTACATCTGGCTGCTTAAATGGTGACACCAGTGATGGGTCTTCTCCAAGTAGAAATTCTGAGCTGCAAAACTCACCATCTGCAATGTTTTCATCTAAGCTCGACTTGGATGATTTTGATATTGATGATGAGTTAGATCCAGCAAGGAAGGAAGAAATTGACAGGTTCGTTCATCTTGTATTAGTGTTCTAGAGATATACTTTGTTATTCTGACTATATGGCATGACTGCATTTCTCGTGAAAAATTATTTATGTTAATATCTCTCTCTTTTGATAGATTTTGGTAATGTTTATTTGGGTAAAGGGAAAACTACTTCCCTACGAGTAGTGTACCACACTTCCTATTTCTGCAGAGGTTGCATACCTGTTCTAAGAAGCTCATTGGAACTGTCTGTTTCCTTCATATTTTGGATAAGGAACTATGTACATCCCCCGTCCCTTTGTTTTTTTGATAAGGAATTGTGTATATCCCTTGTTCTCTGGTAAGCCCGAAGAATTGCATACTCCAGGGCATACTGTATGGCTTAAAGGTTAACTTAGCCCGGTTATGCATATTACTGACCCCCTCTACCAAGAAAAGAAAAGAAAGAGAAAAGGTTGGAGATAGAATCTTCCCAACATCCCATGCTTTTGGGGAGCTTGACTTTTTCCTGTGTAATAGATCCCTGATCCCCTGGGAAAAACTTTAGATTCTAAAACTGAATCTAATATCGTTCACACTTTTGACGATCCGTCTTTTGTCCATCCAAGTCGATGAATTTTCTCTATTTCATTTGTTTGACCTGCTCCCTTCGTACAAGTTTCAACCCTTACTGGCATTAATGTCTTGCTTGATTTTGTATACTGGTAGCTTTCCTAATTGTGCTAACTGCAAGTACAGCAATGTTAACATGCTTGGATTCTTCTAGCTGTAATCTGCTTACCTATTATAGTATATATGGATTTATTTAATTGATGTGGAACTGTCATATCATCCACGTGTTATGGTGCATGTATAAGAGTTGATAAATCTTTATTATGTAGCAGTGGTCATTTCCTATTTTTTGTCCTTGAATAATGTTGGAGTTCCGTCTGAGTTTCTGTCTTTGGAGTGACAGGCCTCTGTCTGTGTGATTACTATCTATAACAGCGAGATGTCTCCATATATCTCTTGGCATGGGCTGCTATCGTCTGTATGGGGCAAGAATTCTTATAAAGTTTCCATGGTAAGATGTGTGATTTCTAATGTGTTTTGTATTTCTATATTGCAGGGAGGTTGAGGATTTTGCTCGGAGACTAGACTCTGTCTGGCCAGAAAGGATACAACAGATTTTGTCTTTGGGTCAGGAGAATAGACGGCTTACACCAATTTCCATGAACGGAAATGGTTCCATGAAGAGATGTACAGGTAGATCTTTTACTTTTCCTGAACCGAACATTTATTGATAACTTACACCTTGTTTGGATGGTATGCTTAGTATTTTCTTCTCATTTTGTCTTTACTTTTTACTATTTAATAATTCTATTTCATTTTTACCCTATCTTTTCAAGTAGCTCTACTCCGTACCCTACTTTTCTGTGGATTTATTATTCAAATTATGGATGAGTCGTTATGTATCGATGGAGAATGATATAATCTATTCAACATTGTATTTATTAAAACAATATAGTATGATACAATACAATACATTATGATACATTACGTAACAACCATCCAAACCGAGTGTTCAGGGAAGTACAATATTCTTTTGGAAAGATCTTGCTGAAAAGAATCCTCTGCGTAAGACTGGAGTTTCAAGGAGACTCTTTCTATCATTCTAAATACCAAAAGTACAAGAAATTTTAGGCTATTTAAAAGAAGTTGAATTTAACTGTAGAGTCTTCATTATAAAAGAATATGGTAGTACGTGAGCTGACCTGATTGCTTTCAGTTTTATCCAGCACTCATCGTTAGAAGATAAATTAAAATACTAAAAGTACAAGAACTTTTAGGCCATTTTGAAGAAGTTAACATTCTTAATTGTAGAAGAAAATGGTTGTATGGAGACCTGACCTGATTGCTCTCTGTTTATCCAACATACATGGTTAGGAGGGTAAATTTAAAGATGAAAATTGGGAATGGTGCCTCGGTAGTGTCAGCAATGGTTCCAGATTTAATGTGGGACATCATTGATTTGTTTACACTTCCCAAAGAACTATAAGTATCCCTTGAAGTCAAGCTCTATCTCTTTTGTTTAATGTGTCACATTTCTGATTTCCCGCAGCAAGGTTTCCCTGGTTGTGTCGGTGATATTTAACCTAGTTTATTTCAAAATGTTGCTCTCGAAACAAGAATAAATGAACTTATTGCCGCAGCTGTCTTTTTTCTTGTCATAGTTGCAATGATTCTTTTAAGACATTAGCGTAGTATTTTAGTTTGAATGTTCGTCAACCCCATGCATGATTTTTTCTTTTGATAACCATGGTGTCCGTGCCAGCTCACGTGCACCTCAACTAACTTCACGAGATCCCGGCCCCATGCATGATTTTTCTCACGACCTCATTATTTTATTTATGAATCACCTGGCAGTAGACCTTTCTTGTTGAGTTGCTTCAAGAGATGGGAATGTTCTTTTTTTTTTTTTTTTATAAAGGTAAAGTTGTATTTTTCTGCATTAAGGGTATGCTGGCTACCTCCAAAAAAATTACAAGCTATTTTCATTATCACATAGATCCTTGAAATCTACCAACTGTTCTACTTCTTCTACCTTCTTCTTTTCACCAAAAATACAACATGTTAATGCAATTTTCTTTAAAGTTCTGAATAATGTTAGTAATATTCATGACACCTGAGGTTTCTCTCTAAATAGCCCACCAGACACAAGCAGGTACTATACACCTCATTGAACAACTCAAAAGATCAGCAGTATGTTCTGGCATCACCCAGGGCTCTTCAGAAATGCTGAGAACCATGTGTCATACCTGAACAGTAATCGTACAGAGCAGGCCTCTTTTCTTGAGTTTTTTCCTGAGTGAGACATGTCTATCTGGAGACCAACTAGGTGAAGCGTTTCACCTTGGTTTGGGTGTTGCACTTCAATATTTGTTTCAAGAGATGGGATAGTTTATCAAGGAGTGTACAGTTTTGTGGCTGGGTTCTAGTTGGGACTAATATTACTATTGATTTTGCTTTGCACTTCCTCCCTATGAAAAAATAAACAGAAAGACCCGAAATCAACATGAAATGGCTTTTTATTTAACAAATATCTGTTTTGTGCTAGAAGCTCGTCTCTCAAAAGAAGTTTGTTGTCTTTGCAGCAGGTGTGGACCGGGGATAGTGATGGAAATGGTGGACAAACGACAATGC-------G--TTTTTTTTTGTATACAGCTTGAGCTTAAAATGCCAGGTTGTCTGTCTATTGCAACAAAGAACTTTGGTATCCATATCATGTAAAGTTTCCTGTCAAGCTGCCAATAGCAAGTTCGCGTCCCTGGATACACGCCAGGTTCTCAAAGTGTACTGAAATATCAGAATAGAAGGAAAGTTTCTGTTGTTTGTGACTATGGAATTTGCAAAACTTGTGCATTTCAAAAAAGCTGAGATTAACA</genome_strand>
        <mrna_strand>ATGTAGAAGAAGAGCCCCGCGTAGATGAAAGATCAGTTGATGATCTTTTGTCATTCATAAATAGTGGAGATCAAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTCAAAGGCTGTAAGAGTAACAAAAAATAAAAAGAAATCTCGAGGGAGAAAAGAACAAGCTAGAAATTCGTCTTCAAATAATGAAGCTGGAAACAATAATAAG.................................................................................................................................GAATCTAATTGCCTTACATCTGGCTGCCTAAATGGTGACACCAGTGATGGGTCTTCTCCAAGTAGAAATTCTGAGCTGCAAAACTCACCGTCTGCAATGTTTTCATCTAAGCTCGACTTGGATGATTTTGATATTGATGATGAGTTAGATCCAGCAAGGAAGGAAGAAATTGACAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGAGGTTGAGGATTTTGCTCGGAGACTAGACTCTGTCTGGCCAGATAGGATACAACAGATTTTGTCTTTGGGTCAGGAGAATAGACGGCTTGGACCAATTTCCATGAATGGAAATGGTTCCATGAAGAGATGTACAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAGGTGTGGACCGGGGATAGTGATGGAAATGGTGGACAAACGACAATGCGTTTTTTGTTTTTTTTTTTGTATACAGCTTGAGCTTAAAAGGCCAGGTTGTCTGTCTGTTGCAACAAAGAA-TTTGGTATCCATATCATGTAAAGTTTCCTGTCAAGCTGCCAATAGCAAGTTCGTGTCCCTGGATACACACCAGGTTCTCAAAGTGTACTGAAATATCAGAATAGAAGG-AATTTTCTGTTGTTTGTGATTATGGAATTTGCAAAACATGGGCATTTC-AAAAAGCTGAGATTAACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E715837" ref_strand="+" ref_description="SGN-E715837 [FB15BF06]">
      <seq>ctgggaagctctggaggcctgtgagcaggcatggaagtggacaacatcctgaagaggctgtgatgagtggaaagttggatagtcagatttcatccgctgaaaattgtttgcgatcgtgctctatggacaaccccactggcaaaagtaagaattacacatgtcaggtttcagatggtaatgctcatcaaggtctgggattttgcagtacttctgcaaaagcttttctctctcagagatggaaggaggctatcgccggggatcatgttacattagtcctttccaatgacagcgaagtttctggacatccagatgcgcaaaacagcagttcagaagcagccccatcatcagatgatcaggagcatggcgttcttgtcgaagctgataaccagcagagaaatactggagtttctaatgtatcctcccatggaaattctaaacttaagtttaggcagaagcctgataagtctattaagacaaggtacattccaaagcaaaaaccataatttaggatacaagtatttcttgattataccagattgtgcagtttttagtcagttcagcagaggttccgttttacctgtggtcttctgtcacagttacagttgaagtaaggttttctagagtagcttatatcctcgggagttgctgctgcattttggctagggtacccttctttttgcagcttacagattctgtaacaagctgggttttaaaaaaatttagtctcattgctcattattttctgctatggcaactcgccaacttctcattttagtttgaacaatatatgattataataacaatttttgataaaatggtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="51572" stop="50057"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="51272" g_stop="51039" g_length="234"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="234" r_length="234" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="51038" i_stop="50943" i_length="96">
            <donor d_prob="0.922" d_score="1.00"/>
            <acceptor a_prob="0.811" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="50942" g_stop="50357" g_length="586"/>
          <reference_exon_boundary r_type="cDNA" r_start="235" r_stop="820" r_length="586" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E715837" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>820</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E715837" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="51272" e_stop="51039"/>
          <exon e_start="50942" e_stop="50357"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGGGAAGCTCTGGAGGCCTGTGAGCAGGCATGGAAGTGGACAACATCCTGAAGAGGCTGTGATGAGTGGAAAGTTGGATAGTCAGATTTCATCCGCTGAAAATTGTTTGCGATCGTGCTCTATGGACAACCCCACTGGCAAAAGTAAGAATTACACATGTCAGGTTTCAGATGTTAATGCTCATCAAGGTCTGGGATTTTGCAGTACTTCTGCAAAAGCTTTTCTCTCTCAGAGTATGTTCCCTATGCCATTATCCGTGTTTCTCTCTAAGTTTCTACCGACTTATTTTGCGCTTCATTTTCGTCTGACCTGTCTGCAAATGAATGTAGGATGGAAGGAGGCTATTGCCGGGGATCATGTTACATTAGTCCTTTCCAATGACACCGAAGTTTCTGGACATCCAGATGCGCAAAACAGCAGTTCAGAAGCAGCCCCATCATCAGATGATCAGGAGCATGGCGTTCTTGTCGAAGCTGATAACCAGCAGAGAAATACTGGAGTTTCTAATGTATCCTCCCATGGAAATTCTAAACTTAAGTTTAGGCAGAAGCCTGATAAGTCTATTAAGACAAGGTACATTCCAAAGCAAAAACCATAATTTAGGATACAAGTATTTCTTGATTATACCAGATTGTGCAGTTTTTAGTCAGTTCAGCAGAGGTTCCGTTTTACCTGTGGTCTTCTGTCACAGTTACAGTTGAAGTAAGGTTTTCTAGAGTAGCTTATATCCTCGGGAGTTGCTGCTGCATTTTGGCTAGGGTACCCTTCTTTTTGCAGCTTACAGATTCTGTAACAAGCTGGGTTTTAAAAAAATTTAGTCTCATTGCTCATTATTTTCTGCTATGGCAGCTCGCCAACTTCTCATTTTAGTTTGAACAATATATGATTATAGTAACAATTTTTGATAAAATGGTC</genome_strand>
        <mrna_strand>CTGGGAAGCTCTGGAGGCCTGTGAGCAGGCATGGAAGTGGACAACATCCTGAAGAGGCTGTGATGAGTGGAAAGTTGGATAGTCAGATTTCATCCGCTGAAAATTGTTTGCGATCGTGCTCTATGGACAACCCCACTGGCAAAAGTAAGAATTACACATGTCAGGTTTCAGATGGTAATGCTCATCAAGGTCTGGGATTTTGCAGTACTTCTGCAAAAGCTTTTCTCTCTCAGA................................................................................................GATGGAAGGAGGCTATCGCCGGGGATCATGTTACATTAGTCCTTTCCAATGACAGCGAAGTTTCTGGACATCCAGATGCGCAAAACAGCAGTTCAGAAGCAGCCCCATCATCAGATGATCAGGAGCATGGCGTTCTTGTCGAAGCTGATAACCAGCAGAGAAATACTGGAGTTTCTAATGTATCCTCCCATGGAAATTCTAAACTTAAGTTTAGGCAGAAGCCTGATAAGTCTATTAAGACAAGGTACATTCCAAAGCAAAAACCATAATTTAGGATACAAGTATTTCTTGATTATACCAGATTGTGCAGTTTTTAGTCAGTTCAGCAGAGGTTCCGTTTTACCTGTGGTCTTCTGTCACAGTTACAGTTGAAGTAAGGTTTTCTAGAGTAGCTTATATCCTCGGGAGTTGCTGCTGCATTTTGGCTAGGGTACCCTTCTTTTTGCAGCTTACAGATTCTGTAACAAGCTGGGTTTTAAAAAAATTTAGTCTCATTGCTCATTATTTTCTGCTATGGCAACTCGCCAACTTCTCATTTTAGTTTGAACAATATATGATTATAATAACAATTTTTGATAAAATGGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E378168" ref_strand="+" ref_description="SGN-E378168 [TUS-24-D6]">
      <seq>cccaaccagtatctgcacagagtcgacggcatttcccccatacccagtggcaagtgccaaagtcacaaagaatggggcgaaatggttcccataacaaccagaatcatcaagtacaaaaaattgaacctgtgcagaagcatggagtttttaaagaccgaggtgcccctgttaatagcagtaagatttggacaaaaaaaattagagtgctaaatggtgagcgctttagaccggagccacagaaggaggcaataaaccaaaatcagagtaactgtgaagtgatgattggttctatttctgttccaatgaaaaattgcagcactcccggactgggtaactgtcctgctgtagaaagagacaacttcgacagccatgcagaaccagccatgactaaaaagtgtaatcttgcagtgaaaccagcaaagcaagatgctcttcagggtgggtcaaatggggcagctgggaagctctggaggcctgtgagcaggcatggaagtggacaacatcctgaagaggctgtgatgagtggaaagttggatagtcagatttcatccgctgaaaattgtttgcgatcgtgctctatggacaaccccactggcaaaagtaagaattacacatgtcaggtttcagatgttaatgctcatcaaggtctgggattttgcagtacttctgcaaaagcttttctctctcagagatggaaggaggctattgccggggatcatgttacattagtcctttccaatgacaccgaagtttctggacatccagatgcgcaaaacagcagttcagaagcagccccatcatcagatgatcaggagcatggcgttcttgtcgaagctgataccagcagagaaatactggagtttctatgtatcctccatggaaattctaacttaagtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="52028" stop="50432"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="51728" g_stop="51039" g_length="690"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="690" r_length="690" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="51038" i_stop="50943" i_length="96">
            <donor d_prob="0.922" d_score="1.00"/>
            <acceptor a_prob="0.811" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="50942" g_stop="50732" g_length="211"/>
          <reference_exon_boundary r_type="cDNA" r_start="691" r_stop="897" r_length="207" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E378168" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>901</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E378168" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="51728" e_stop="51039"/>
          <exon e_start="50942" e_stop="50732"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGAACCTGTGCAGAAGCATGGAGTTTTTAAAGACCGAGGTGCCCCTGTTAATAGCAGTAAGATTTGGACAAAAAAAATTAGAGTGCTAAATGGTGAGCGCTTTAGACCGGAGCCACAGAAGGAGGCAATAAACCAAAATCAGAGTAACTGTGAAGTGATGATTGGTTCTATTTCTGTTCCAATGAAAAATTGCAGCACTCCCGGACTGGGTAACTGTCCTGCTGTAGAAAGAGACAACTTCGACAGCCATGCAGAACCAGCCATGACTAAAAAGTGTAATCTTGCAGTGAAACCAGCAAAGCAAGATGCTCTTCAGGGTGGGTCAAATGGGGCAGCTGGGAAGCTCTGGAGGCCTGTGAGCAGGCATGGAAGTGGACAACATCCTGAAGAGGCTGTGATGAGTGGAAAGTTGGATAGTCAGATTTCATCCGCTGAAAATTGTTTGCGATCGTGCTCTATGGACAACCCCACTGGCAAAAGTAAGAATTACACATGTCAGGTTTCAGATGTTAATGCTCATCAAGGTCTGGGATTTTGCAGTACTTCTGCAAAAGCTTTTCTCTCTCAGAGTATGTTCCCTATGCCATTATCCGTGTTTCTCTCTAAGTTTCTACCGACTTATTTTGCGCTTCATTTTCGTCTGACCTGTCTGCAAATGAATGTAGGATGGAAGGAGGCTATTGCCGGGGATCATGTTACATTAGTCCTTTCCAATGACACCGAAGTTTCTGGACATCCAGATGCGCAAAACAGCAGTTCAGAAGCAGCCCCATCATCAGATGATCAGGAGCATGGCGTTCTTGTCGAAGCTGATAACCAGCAGAGAAATACTGGAGTTTCTAATGTATCCTCCCATGGAAATTCTAAACTTAAGTT</genome_strand>
        <mrna_strand>CCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGAACCTGTGCAGAAGCATGGAGTTTTTAAAGACCGAGGTGCCCCTGTTAATAGCAGTAAGATTTGGACAAAAAAAATTAGAGTGCTAAATGGTGAGCGCTTTAGACCGGAGCCACAGAAGGAGGCAATAAACCAAAATCAGAGTAACTGTGAAGTGATGATTGGTTCTATTTCTGTTCCAATGAAAAATTGCAGCACTCCCGGACTGGGTAACTGTCCTGCTGTAGAAAGAGACAACTTCGACAGCCATGCAGAACCAGCCATGACTAAAAAGTGTAATCTTGCAGTGAAACCAGCAAAGCAAGATGCTCTTCAGGGTGGGTCAAATGGGGCAGCTGGGAAGCTCTGGAGGCCTGTGAGCAGGCATGGAAGTGGACAACATCCTGAAGAGGCTGTGATGAGTGGAAAGTTGGATAGTCAGATTTCATCCGCTGAAAATTGTTTGCGATCGTGCTCTATGGACAACCCCACTGGCAAAAGTAAGAATTACACATGTCAGGTTTCAGATGTTAATGCTCATCAAGGTCTGGGATTTTGCAGTACTTCTGCAAAAGCTTTTCTCTCTCAGA................................................................................................GATGGAAGGAGGCTATTGCCGGGGATCATGTTACATTAGTCCTTTCCAATGACACCGAAGTTTCTGGACATCCAGATGCGCAAAACAGCAGTTCAGAAGCAGCCCCATCATCAGATGATCAGGAGCATGGCGTTCTTGTCGAAGCTGAT-ACCAGCAGAGAAATACTGGAGTTTCT-ATGTATCCT-CCATGGAAATTCT-AACTTAAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E699624" ref_strand="+" ref_description="SGN-E699624 [FA10CH10]">
      <seq>ggaacagagagaaagggagcaatcaaattgggaaagaggtgatttggaggtttcaatagcagaatcttccatcctttcagctgcagtatctgattccaactcaagtactcccgaagtatctgacgatacctcctcctgccttgaacttgtacaattctctaacaatgaagttatggacattgaagcacaacttaatctctctagccagcatctggatctggtagaaattcaggatgttgagccccaaccagtatctgcacagagtcgacggcatttcccccatacccagtggcaagtgccaaagtcacaaagaatggggcgaaatggttcccataacaaccagaatcatcaagtacaaaaaattgaacctgtgcagaagcatggagtttttaaagaccgaggtgcccctgttaatagcagtaagatttggacaaaaaaaattagagtgctaaatggtgagcgctttagaccggagccacagaaggaggcaataaaccaaaatcagagtaactgtgaagtgatgattggttctatttctgttccaatgaaaaattgcagcactcccggactgggtaactgtcctgctgtagaaagagacaacttcgacagccatgcagaaccagccatgactaaaaagtgtaatcttgcagtgaaaccagcaaagcaagatgctcttcagggtgggtcaaatggggcagctgggaagctctggaggcctgtgagcaggcatggaagtggacaacatcctgaagaggctgtgatgagtggaaagttggatagtcagatttcatccgctgaaaattgtttgcgatcgtgctctatggacaaaccccctggcaaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="52270" stop="50828"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="51970" g_stop="51128" g_length="843"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="843" r_length="843" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E699624" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>843</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E699624" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="51970" e_stop="51128"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAACAGAGAGAAAGGGAGCAATCAAATTGGGAAAGAGGTGATTTGGAGGTTTCAATAGCAGAATCTTCCATCCTTTCAGCTGCAGTATCTGATTCCAACTCAAGTACTCCCGAAGTATCTGACGATACCTCCTCCTGCCTTGAACTTGTACAATTCTCTAACAATGAAGTTATGGACATTGAAGCACAACTTAATCTCTCTAGCCAGCATCTGGATCTGGTAGAAATTCAGGATGTTGAGCCCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGAACCTGTGCAGAAGCATGGAGTTTTTAAAGACCGAGGTGCCCCTGTTAATAGCAGTAAGATTTGGACAAAAAAAATTAGAGTGCTAAATGGTGAGCGCTTTAGACCGGAGCCACAGAAGGAGGCAATAAACCAAAATCAGAGTAACTGTGAAGTGATGATTGGTTCTATTTCTGTTCCAATGAAAAATTGCAGCACTCCCGGACTGGGTAACTGTCCTGCTGTAGAAAGAGACAACTTCGACAGCCATGCAGAACCAGCCATGACTAAAAAGTGTAATCTTGCAGTGAAACCAGCAAAGCAAGATGCTCTTCAGGGTGGGTCAAATGGGGCAGCTGGGAAGCTCTGGAGGCCTGTGAGCAGGCATGGAAGTGGACAACATCCTGAAGAGGCTGTGATGAGTGGAAAGTTGGATAGTCAGATTTCATCCGCTGAAAATTGTTTGCGATCGTGCTCTATGGACAACCCCACTGGCAAAAG</genome_strand>
        <mrna_strand>GGAACAGAGAGAAAGGGAGCAATCAAATTGGGAAAGAGGTGATTTGGAGGTTTCAATAGCAGAATCTTCCATCCTTTCAGCTGCAGTATCTGATTCCAACTCAAGTACTCCCGAAGTATCTGACGATACCTCCTCCTGCCTTGAACTTGTACAATTCTCTAACAATGAAGTTATGGACATTGAAGCACAACTTAATCTCTCTAGCCAGCATCTGGATCTGGTAGAAATTCAGGATGTTGAGCCCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGAACCTGTGCAGAAGCATGGAGTTTTTAAAGACCGAGGTGCCCCTGTTAATAGCAGTAAGATTTGGACAAAAAAAATTAGAGTGCTAAATGGTGAGCGCTTTAGACCGGAGCCACAGAAGGAGGCAATAAACCAAAATCAGAGTAACTGTGAAGTGATGATTGGTTCTATTTCTGTTCCAATGAAAAATTGCAGCACTCCCGGACTGGGTAACTGTCCTGCTGTAGAAAGAGACAACTTCGACAGCCATGCAGAACCAGCCATGACTAAAAAGTGTAATCTTGCAGTGAAACCAGCAAAGCAAGATGCTCTTCAGGGTGGGTCAAATGGGGCAGCTGGGAAGCTCTGGAGGCCTGTGAGCAGGCATGGAAGTGGACAACATCCTGAAGAGGCTGTGATGAGTGGAAAGTTGGATAGTCAGATTTCATCCGCTGAAAATTGTTTGCGATCGTGCTCTATGGACAAACCCCCTGGCAAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E247564" ref_strand="+" ref_description="SGN-E247564 [cLEF-42-B23]">
      <seq>cccaaccagtatctgcacagagtcgacggcatttcccccatacccagtggcaagtgccaaagtcacaaagaatggggcgaaatggttcccataacaaccagaatcatcaagtacaaaaaattgaacctgtgcagaagcatggagtttttaaagaccgaggtgcccctgttaatagcagtaagatttggacaaaaaaaattagagtgctaaatggtgagcgctttagaccggagccacagaaggaggcaataaaccaaaatcagagtaactgtgaagtgatgattggttctatttctgttccaatgaaaaattgcagcactcccggactgggtaactgtcctgctgtagaaagagacaacttcgacagccatgcagaaccagccatgactaaaaagtgtaatcttgcagtgaaaccagcaaagcaagatgctcttcaaggtgggtcaaatggggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="52028" stop="50975"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="51728" g_stop="51275" g_length="454"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="454" r_length="454" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E247564" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>454</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E247564" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="51728" e_stop="51275"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGAACCTGTGCAGAAGCATGGAGTTTTTAAAGACCGAGGTGCCCCTGTTAATAGCAGTAAGATTTGGACAAAAAAAATTAGAGTGCTAAATGGTGAGCGCTTTAGACCGGAGCCACAGAAGGAGGCAATAAACCAAAATCAGAGTAACTGTGAAGTGATGATTGGTTCTATTTCTGTTCCAATGAAAAATTGCAGCACTCCCGGACTGGGTAACTGTCCTGCTGTAGAAAGAGACAACTTCGACAGCCATGCAGAACCAGCCATGACTAAAAAGTGTAATCTTGCAGTGAAACCAGCAAAGCAAGATGCTCTTCAGGGTGGGTCAAATGGGGC</genome_strand>
        <mrna_strand>CCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGAACCTGTGCAGAAGCATGGAGTTTTTAAAGACCGAGGTGCCCCTGTTAATAGCAGTAAGATTTGGACAAAAAAAATTAGAGTGCTAAATGGTGAGCGCTTTAGACCGGAGCCACAGAAGGAGGCAATAAACCAAAATCAGAGTAACTGTGAAGTGATGATTGGTTCTATTTCTGTTCCAATGAAAAATTGCAGCACTCCCGGACTGGGTAACTGTCCTGCTGTAGAAAGAGACAACTTCGACAGCCATGCAGAACCAGCCATGACTAAAAAGTGTAATCTTGCAGTGAAACCAGCAAAGCAAGATGCTCTTCAAGGTGGGTCAAATGGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E205998" ref_strand="+" ref_description="SGN-E205998 [cLEC-20-O8]">
      <seq>acaacttaatctctctagccagcatctggatctggtagaaattcaggatgttgagccccaaccagtgtctgcacagagtcgaccgcatttcccccatacccagtggcaagtgccaaagtcacaaagaatggggcgaaatggttcccataacaaccagaatcatcaattacaaaaaattgaacctgtgcagaagcatggagtttttaaagaccgaggtgcccctgttaatagcagtaagatttggacaaaaaaaattagagtgctaaatggtgagcgctttagaccggagccacagaaggaggccttgaaccaaaatcagagtaactgtgaagtgatgattggctctatttctgttccaatgaaaaattgcagcactcccggactgggtaactgtactgctgtagaaagagacaacttcgacagccatgcagaaccagccatgactaagaagtgtaatcttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="52084" stop="51023"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="51784" g_stop="51323" g_length="462"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="462" r_length="462" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E205998" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>462</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E205998" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="51784" e_stop="51323"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAACTTAATCTCTCTAGCCAGCATCTGGATCTGGTAGAAATTCAGGATGTTGAGCCCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGAACCTGTGCAGAAGCATGGAGTTTTTAAAGACCGAGGTGCCCCTGTTAATAGCAGTAAGATTTGGACAAAAAAAATTAGAGTGCTAAATGGTGAGCGCTTTAGACCGGAGCCACAGAAGGAGGCAATAAACCAAAATCAGAGTAACTGTGAAGTGATGATTGGTTCTATTTCTGTTCCAATGAAAAATTGCAGCACTCCCGGACTGGGTAACTGTCCTGCTGTAGAAAGAGACAACTTCGACAGCCATGCAGAACCAGCCATGACTAAAAAGTGTAATCTTGC</genome_strand>
        <mrna_strand>ACAACTTAATCTCTCTAGCCAGCATCTGGATCTGGTAGAAATTCAGGATGTTGAGCCCCAACCAGTGTCTGCACAGAGTCGACCGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAATTACAAAAAATTGAACCTGTGCAGAAGCATGGAGTTTTTAAAGACCGAGGTGCCCCTGTTAATAGCAGTAAGATTTGGACAAAAAAAATTAGAGTGCTAAATGGTGAGCGCTTTAGACCGGAGCCACAGAAGGAGGCCTTGAACCAAAATCAGAGTAACTGTGAAGTGATGATTGGCTCTATTTCTGTTCCAATGAAAAATTGCAGCACTCCCGGACTGGGTAACTGTACTGCTGTAGAAAGAGACAACTTCGACAGCCATGCAGAACCAGCCATGACTAAGAAGTGTAATCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E245753" ref_strand="+" ref_description="SGN-E245753 [cLEF-48-A9]">
      <seq>aaatatgtttttgatggggatgcttccaaaaaaggtcctgagctgaaaaacttggtagcttgcactagcttcctttttgaacagaaactggtaaaagcatggtttgcagacaaagatgctgaagctttgagatgccagaagttgctttttgaagaggaagaagctgctcaaaaaaagcaagctgagttgttggaaaggaaaaaacagaaaaagctcagacagaaggaacagagagaaagggagcaatcaaattgggaaagaggtgatttggaggtttcaatagcagaatcttccatcctttcagctgcagtatctgattccaactcaagtactcccgaagtatctgacgatacctcctcctgccttgaacttgtacaattctctaacaatgaagttatggacattgaagcacaacttaatctctctagccagcatctggatctggtagaaattcaagatgttgagccccaaccagtatctgcacagagtcgacggcatttcccccatacccagtggcaagtgccaaagtcacaaagaatggggcgaaatggttcccataacaaccagaatcatcaagtacaaaaaattga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="53737" stop="51305"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53437" g_stop="53348" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="90" r_length="90" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="53347" i_stop="53101" i_length="247">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="53100" g_stop="53015" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="91" r_stop="176" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="53014" i_stop="52019" i_length="996">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="52018" g_stop="51605" g_length="414"/>
          <reference_exon_boundary r_type="cDNA" r_start="177" r_stop="590" r_length="414" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E245753" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>590</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E245753" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53437" e_stop="53348"/>
          <exon e_start="53100" e_stop="53015"/>
          <exon e_start="52018" e_stop="51605"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATATGTTTTTGATGGGGATGCTTCCAAAAAAGGTCCTGAGCTGAAAAACTTGGTAGCTTGCACTAGCTTCCTTTTTGAACAGAAACTGGTAGGTCTTTCTACCTCACCTCTTAATTCCTTCTTGTCTATTTCTTGAGAACTGGCCAGCTTTGCGTGTTGTCTATATGAAATGCCAGCATATTGCATGAAATGATATTTTGGGTTCTGTTCTTAATATTTTCTGAAAATGCTGTTAATTGCTAAGCACTCTCTGTTTAGTTTTTCCTTTCTTTGTATCAGACTGACCTTGTCCTTCAAACCAACATCCAAAGTGACTTGTGTCTTGTTATGCGCAGGTAAAAGCATGGTTTGCAGACAAAGATGCTGAAGCTTTGAGATGCCAGAAGTTGCTTTTTGAAGAGGAAGAAGCTGCTCAAAAAAAGTGAGCACTTTTTACCATATCTTTTGTTCTCTGATATTGCCTTTTCATGCGTCCCACTAGTGATTATTGCTTTCTACTGATCATCATTTTTCTGATGTTCTTAGTAAGCAGTCAGTAATTTATGATGTGGTATTTCATATTTTCCCTTTCCCTCCTTTATTGTACTAAGAATTATGGCTCTTGGTTGATTATTATTTTTATGATGTTTTGGGTGGCTAGTCAGTAATTGATAAAGAAGTATTTTTTTTATTGTATGGAATGAAGTGTTAAAAGAAAGTCTACATACTTGGTGTTTGACTTTTGAGAAAAAAAAATGTTGTGAAGTTGTGCTCTTGGAGTTTATTCCCTCCTTTCTTGAAGCAGAATAGGATATTGCATTTTGAGTAGCAAACAGTTTTTACTTTTTCATTTGGTTGTCAATCCCTGAAATGTTAAAGCAGATCTAAAAACCATTTTCACATGATTTGAGGGTTCAGGTTCTTGCATTTACAATCCTGTTTATGTGGAGAAAACTATTTGACACGCATATCGTATCCTGTCTACTTCAAATGAAGATTTTATCACTTGCGTAAAAATAAAATTACACGATTTGTTGCTGGGGCTTTGATCTAGACACTGTTGGTACCCAAACTATTCGTCACTAGCCCTTGCGGGCTTCATGGTTATAAAACAAAAAGATGCTCCCTCCGTTCAAAAATAGTTGTCCACTATTGACTTAATACACTTAAAGAAACAAAAAATAATAAGAGGGGGGGGGGGGAATATATACTATAATACCCTTTTAATATATTAAATTTAATGCCTTAGGAAATGTATTAGATATTGAATTAGAATGTTATCTAATAGCAAGGGTAAAATGGACACAAATGGGTAAGTATTGGTTGGACATCTATTTTTAGTACTAGACAAGTAAAGATGGACGGAGGGAATACATGATTATATATTCAGCTGTGCAGCAACTCATTTTTGCCATCATTCTTCTTATTTTGTTGGTAGGCAAGCTGAGTTGTTGGAAAGGAAAAAACAGAAAAAGCTCAGACAGAAGGAACAGAGAGAAAGGGAGCAATCAAATTGGGAAAGAGGTGATTTGGAGGTTTCAATAGCAGAATCTTCCATCCTTTCAGCTGCAGTATCTGATTCCAACTCAAGTACTCCCGAAGTATCTGACGATACCTCCTCCTGCCTTGAACTTGTACAATTCTCTAACAATGAAGTTATGGACATTGAAGCACAACTTAATCTCTCTAGCCAGCATCTGGATCTGGTAGAAATTCAGGATGTTGAGCCCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGA</genome_strand>
        <mrna_strand>AAATATGTTTTTGATGGGGATGCTTCCAAAAAAGGTCCTGAGCTGAAAAACTTGGTAGCTTGCACTAGCTTCCTTTTTGAACAGAAACTG.......................................................................................................................................................................................................................................................GTAAAAGCATGGTTTGCAGACAAAGATGCTGAAGCTTTGAGATGCCAGAAGTTGCTTTTTGAAGAGGAAGAAGCTGCTCAAAAAAA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAAGCTGAGTTGTTGGAAAGGAAAAAACAGAAAAAGCTCAGACAGAAGGAACAGAGAGAAAGGGAGCAATCAAATTGGGAAAGAGGTGATTTGGAGGTTTCAATAGCAGAATCTTCCATCCTTTCAGCTGCAGTATCTGATTCCAACTCAAGTACTCCCGAAGTATCTGACGATACCTCCTCCTGCCTTGAACTTGTACAATTCTCTAACAATGAAGTTATGGACATTGAAGCACAACTTAATCTCTCTAGCCAGCATCTGGATCTGGTAGAAATTCAAGATGTTGAGCCCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735919" ref_strand="+" ref_description="SGN-E735919 [LC03CF11]">
      <seq>gtcagtcttacatatcaacatatcagaagtgtgaaaaatgttcacgggaattttattcccctataaattatcgaaggcatatgcgtttacatcgtcgagccttaaacaactttgataaggagtctcgcaaatatagggatctgctgggagcgttctgggataagctctcacttgatgatattaaggaagttgtatcattgcatgatgtttcgataaaggatctttctggatcttcacttgttcaggacctggcaacatctatgcgaaaaccggcggtctggactcttccgcaagattattacaaggctggcttagctttgttggacctcatccaaggtataccttccaagcttacctctggggagttatttagcgtccttgatgatgctagcgaaagaacatttttatgtgctggtacagctgagtcactgcaaaaatatgtttttgatggggatgcttccaaaaaaggtcctgagctgaaaaacttggtagcttgcactagcttcctttttgaacagaaactggtaaaagcatggtttgcagacaaagatgctgaagctttgagatgccagaagttgctttttgaagaggaagaagctgctcaaaaaaagcaagctgagttgttggaaaggaaaaaacagaaaaagctcagacagaaggaacagagagaaagggagcaatcaaattgggaaagaggtgatttggaggtttcaatagcagaatcttccatcctttcagctgcagtatctgattccaactcaagtactcccgaagtatctgacgatacctcctcctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="58252" stop="51533"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54930" g_stop="54810" g_length="121"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="119" r_length="119" r_score="0.917"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="54809" i_stop="54595" i_length="215">
            <donor d_prob="0.961" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="54594" g_stop="54550" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="120" r_stop="164" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="54549" i_stop="54451" i_length="99">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="54450" g_stop="54397" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="165" r_stop="218" r_length="54" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="54396" i_stop="53744" i_length="653">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="53743" g_stop="53639" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="219" r_stop="323" r_length="105" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="53638" i_stop="53549" i_length="90">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.857" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="53548" g_stop="53348" g_length="201"/>
          <reference_exon_boundary r_type="cDNA" r_start="324" r_stop="524" r_length="201" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="53347" i_stop="53101" i_length="247">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="53100" g_stop="53015" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="525" r_stop="610" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="53014" i_stop="52019" i_length="996">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="52018" g_stop="51833" g_length="186"/>
          <reference_exon_boundary r_type="cDNA" r_start="611" r_stop="796" r_length="186" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E735919" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>798</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735919" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54930" e_stop="54810"/>
          <exon e_start="54594" e_stop="54550"/>
          <exon e_start="54450" e_stop="54397"/>
          <exon e_start="53743" e_stop="53639"/>
          <exon e_start="53548" e_stop="53348"/>
          <exon e_start="53100" e_stop="53015"/>
          <exon e_start="52018" e_stop="51833"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCTATGCTAACACCAGCGAAATATCAGAAGTGTGAAAAATGTTCACGGGAATTTTATTCCCCTATAAATTATCGAAGGCATATGCGTTTACATCGTCGAGCCTTAAACAACTTTGATAAGGTATATCTAGATTTTTTTTGTATAGCTTTATACTCCCAGAGAAGGGGAAAAAAGGTTTCTGTTTGCATATGTAAATGACCATTTCCAATTTAATTTCCCATCTGGTGAGTTTTGCTATTTTTTATTGTAAAACTTAGTGCAGATTCGTTTACTTGTCAATAATTTGAGTGTGGATGTGCTGCCATGTGCATCTTGTTATATTTTCAATTTTGCAGGAGTCTCGCAAATATAGGGATCTGCTGGGAGCGTTCTGGGATAAGGTACTCCCCCATCTCATCTCCCTAAATTTTCTCATATGGTGTTTTTCTGTGTCCATTGTTCCATAATGGTAATTTATGTTTATGTAATTTTACTTGCAGCTCTCACTTGATGATATTAAGGAAGTTGTATCATTGCATGATGTTTCGATAAAGGTAATTACCAGATTCACTTTCCCTCTGTTTAGGTATTTATTTCCCTGGAATTTGAAGCAGTTCTTTACAACGACAACAACATACCCAGTGTATTCACACAGAGTGGGGTCTGGGGATTTGAAGCAGTTCTTTAAAATGAAAATTTGACGCATAAATATAAAGTGAAGATCATCATATTACTTGCAGTGATTATAGTAGGATTATTGGTGATGTGCTACAAGGTGCTTCTTACATTTCTTGACACCTATATGTGTGAAGTAACATACTTGTATTCTGCATGTTCTACCTTTTTTCTATGAGAAAAATATTGGCTTAGTTCTTATGTTAGGGAGGTGGCGACTTGTAATAGTCACTGATGATCACCACACAAATAAATTGCTAACTGCAGATATTTAAGGATCTGTGTTTTGTTCAGACTACCTCTTTATTCATATAAATGTCTATCCATGCTAGATTCCTTTAGCTTGTATGTATGACAAGCTCAGAACTGGTGGTAAAACTGTCTAAAGTGACACTGTTGAAATGTTGTATATGAGAATATTCTAATGTGCCATTCTGTGACACTGTTGAAATGTTGTATAAGAGTATTCTAATGTGCCATTCTGCTGACCTTCAGACTTAAAGAAACATTCTGTGGTTGTACTGTCTTTCAGGATCTTTCTGGATCTTCACTTGTTCAGGACCTGGCAACATCTATGCGAAAACCGGCGGTCTGGACTCTTCCGCAAGATTATTACAAGGCTGGCTTAGCTTTGTTGGTAAGTAATCTATTTCCACTCCCTGTCAAGTTCTATCGATACCCTTTGAGCAAGAAGAGCCAATGATGATGCTCATTGTCAATTTTGCAGGACCTCATCCAAGGTATACCTTCCAAGCTTACCTCTGGGGAGTTATTTAGCGTCCTTGATGATGCTAGCGAAAGAACATTTTTATGTGCTGGTACAGCTGAGTCACTGCAAAAATATGTTTTTGATGGGGATGCTTCCAAAAAAGGTCCTGAGCTGAAAAACTTGGTAGCTTGCACTAGCTTCCTTTTTGAACAGAAACTGGTAGGTCTTTCTACCTCACCTCTTAATTCCTTCTTGTCTATTTCTTGAGAACTGGCCAGCTTTGCGTGTTGTCTATATGAAATGCCAGCATATTGCATGAAATGATATTTTGGGTTCTGTTCTTAATATTTTCTGAAAATGCTGTTAATTGCTAAGCACTCTCTGTTTAGTTTTTCCTTTCTTTGTATCAGACTGACCTTGTCCTTCAAACCAACATCCAAAGTGACTTGTGTCTTGTTATGCGCAGGTAAAAGCATGGTTTGCAGACAAAGATGCTGAAGCTTTGAGATGCCAGAAGTTGCTTTTTGAAGAGGAAGAAGCTGCTCAAAAAAAGTGAGCACTTTTTACCATATCTTTTGTTCTCTGATATTGCCTTTTCATGCGTCCCACTAGTGATTATTGCTTTCTACTGATCATCATTTTTCTGATGTTCTTAGTAAGCAGTCAGTAATTTATGATGTGGTATTTCATATTTTCCCTTTCCCTCCTTTATTGTACTAAGAATTATGGCTCTTGGTTGATTATTATTTTTATGATGTTTTGGGTGGCTAGTCAGTAATTGATAAAGAAGTATTTTTTTTATTGTATGGAATGAAGTGTTAAAAGAAAGTCTACATACTTGGTGTTTGACTTTTGAGAAAAAAAAATGTTGTGAAGTTGTGCTCTTGGAGTTTATTCCCTCCTTTCTTGAAGCAGAATAGGATATTGCATTTTGAGTAGCAAACAGTTTTTACTTTTTCATTTGGTTGTCAATCCCTGAAATGTTAAAGCAGATCTAAAAACCATTTTCACATGATTTGAGGGTTCAGGTTCTTGCATTTACAATCCTGTTTATGTGGAGAAAACTATTTGACACGCATATCGTATCCTGTCTACTTCAAATGAAGATTTTATCACTTGCGTAAAAATAAAATTACACGATTTGTTGCTGGGGCTTTGATCTAGACACTGTTGGTACCCAAACTATTCGTCACTAGCCCTTGCGGGCTTCATGGTTATAAAACAAAAAGATGCTCCCTCCGTTCAAAAATAGTTGTCCACTATTGACTTAATACACTTAAAGAAACAAAAAATAATAAGAGGGGGGGGGGGGAATATATACTATAATACCCTTTTAATATATTAAATTTAATGCCTTAGGAAATGTATTAGATATTGAATTAGAATGTTATCTAATAGCAAGGGTAAAATGGACACAAATGGGTAAGTATTGGTTGGACATCTATTTTTAGTACTAGACAAGTAAAGATGGACGGAGGGAATACATGATTATATATTCAGCTGTGCAGCAACTCATTTTTGCCATCATTCTTCTTATTTTGTTGGTAGGCAAGCTGAGTTGTTGGAAAGGAAAAAACAGAAAAAGCTCAGACAGAAGGAACAGAGAGAAAGGGAGCAATCAAATTGGGAAAGAGGTGATTTGGAGGTTTCAATAGCAGAATCTTCCATCCTTTCAGCTGCAGTATCTGATTCCAACTCAAGTACTCCCGAAGTATCTGACGATACCTCCTCCTG</genome_strand>
        <mrna_strand>GTCAGT-CTTACA-TATCAACATATCAGAAGTGTGAAAAATGTTCACGGGAATTTTATTCCCCTATAAATTATCGAAGGCATATGCGTTTACATCGTCGAGCCTTAAACAACTTTGATAAG.......................................................................................................................................................................................................................GAGTCTCGCAAATATAGGGATCTGCTGGGAGCGTTCTGGGATAAG...................................................................................................CTCTCACTTGATGATATTAAGGAAGTTGTATCATTGCATGATGTTTCGATAAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATCTTTCTGGATCTTCACTTGTTCAGGACCTGGCAACATCTATGCGAAAACCGGCGGTCTGGACTCTTCCGCAAGATTATTACAAGGCTGGCTTAGCTTTGTTG..........................................................................................GACCTCATCCAAGGTATACCTTCCAAGCTTACCTCTGGGGAGTTATTTAGCGTCCTTGATGATGCTAGCGAAAGAACATTTTTATGTGCTGGTACAGCTGAGTCACTGCAAAAATATGTTTTTGATGGGGATGCTTCCAAAAAAGGTCCTGAGCTGAAAAACTTGGTAGCTTGCACTAGCTTCCTTTTTGAACAGAAACTG.......................................................................................................................................................................................................................................................GTAAAAGCATGGTTTGCAGACAAAGATGCTGAAGCTTTGAGATGCCAGAAGTTGCTTTTTGAAGAGGAAGAAGCTGCTCAAAAAAA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAAGCTGAGTTGTTGGAAAGGAAAAAACAGAAAAAGCTCAGACAGAAGGAACAGAGAGAAAGGGAGCAATCAAATTGGGAAAGAGGTGATTTGGAGGTTTCAATAGCAGAATCTTCCATCCTTTCAGCTGCAGTATCTGATTCCAACTCAAGTACTCCCGAAGTATCTGACGATACCTCCTCCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E549358" ref_strand="+" ref_description="SGN-E549358 [TUS-69-K23](-)">
      <seq>cttttacgacttctgactgcaagaccagcttcgggtatagtgagggaggtcaggtgtgctttggaaagtggtaacttgggttcagttttggactcttcagctggtgattggccaattgaacaagtggaactgttggcttatctagcattgagttgctgtgagaaagatcctttaaatcggcctaatatgctctcagaagtttggccaacaattgagccaatgagagatatatgcaaaccaaactcagatttgaatacttcatctcacagttccaagagtcaaaaacgaattcctcctcatttcgtttgtcctattttccaggatgtcatggaagatccacacatagcagcagatggttatacatatgaaggtgatgcaataaaaggatggttgtatagcggacacgatacttctcccatgacaaacctcaagctcgacacctgtgatttgattcccaattatgctctctatcgcgcaattcaggaatggcagcaacagtcctgaaactcatttagagtatataatgcctccctcttacaaacaaaaacagctctgaagttgaagtatatactgatatatagaaagttagccatgtctcgtggtagttccactgagttaatacttggattcgagttatttgaacttgtcaagtgttgctgcaatattgagacgtacagattctaatcactatggtctatgtacactgcatattttgcctactcattacaaatattgaaaaacatatatatatcttcgtatcttcttaaaaaaaaaaaaaaaaaactcgaggggggccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="62857" stop="45872"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62557" g_stop="62237" g_length="321"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="321" r_length="321" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="62236" i_stop="61753" i_length="484">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="61752" g_stop="61305" g_length="448"/>
          <reference_exon_boundary r_type="cDNA" r_start="322" r_stop="767" r_length="446" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="61304" i_stop="61065" i_length="240">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="61064" g_stop="61043" g_length="22"/>
          <reference_exon_boundary r_type="cDNA" r_start="768" r_stop="789" r_length="22" r_score="0.591"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="61042" i_stop="60154" i_length="889">
            <donor d_prob="0.331" d_score="0.00"/>
            <acceptor a_prob="0.849" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="60153" g_stop="60146" g_length="8"/>
          <reference_exon_boundary r_type="cDNA" r_start="790" r_stop="797" r_length="8" r_score="0.625"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E549358" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>799</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E549358" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62557" e_stop="62237"/>
          <exon e_start="61752" e_stop="61305"/>
          <exon e_start="61064" e_stop="61043"/>
          <exon e_start="60153" e_stop="60146"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTACGACTTCTGACTGCAAGACCAGCTTCGGGTATAGTGAGGGAGGTCAAGTGTGCTTTGGAAAGTGGTAACTTGGGTTCAGTTTTGGACTCTTCTGCTGGTGATTGGCCAATTGAACAAGTGGAACTGTTGGCTTATCTAGCATTGAGTTGCTGTGAGAAAGATCCTTTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCAGGGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTTCAGGTAAGCATAAGATATATGATTCGTATCCTTTTGGTTTAAAATTCTGGCAATGGTTTCAATTAGTTACTCTTTTAACCTCCTAAATGGAAAACATGTGGACTAGCTGTTAGATCCTCACTCTTGTGTTGATTGATCATTCAATATGAACACACGTAATAATCACTTTCATCTATCGGTTTAGAGAATTTAGGTTGCACTAACGAACTACTAGGATCAGAGTGTCAGACTTCTTTATTAAGTGGTACAAATGATGAATACTTCTACATTAAAGACATTAGAAAGGCCCTCTATATCACTGCTAGTATAAGATACTATCAAGCATCAAAATGAAGTACGGATGGTTGCTGAGACTTTGTATATAGTATAAGATACTATCAAGAATCACAATGAAGTACGGATGGTTGCTGAGACTTTGTATGTAGTGTAGTGTAGTGTGGTGTATCTTGTATGAATGATGCCTTGTCTTTTTCCTCAACACTTTCAGGATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGCTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCTATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCACTCTTACAAACAAAAACAGCTTTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGTGGGTAGTTCCACTGAGTTAATACTTGGATTCGAGTTATTTGAACTTGTCAAGTGTTGCTGCAATATTGAGACGTACAGATTCTTATCACTATGGTCTATGTACACTGCATATTTTGCCTACTCATTACAAATATTGAACAAACATATATATATCTTCGTATCTTCTTTAGATTTGGCTAGTGTTACCATTCAATATTATTCATACTTTTGGGACATTGATGCCTCTATCGTCTGAAAATTAGACCGTCTACGTTATTCACTCTAATAGAAGACTAAATAGTGACACGTGGCCTAATCTCATCCATCGATCCGATATCGGGTCGGTGGATAAGATTATGACACGCGTATGTCCGTTAGTATAAATGATATATATGCTCTAATTTTTGGACATTAGGGACACCAATGACTCAAAAATATGATAAAAAGTATCTGTATACCATTTACGATACTTCGAGAATATATTTGTTCTTTTTCCCTTTTTTATTTGATTAAGTTTTTTTTATCAATTATCTACTATAAGCTTATCGAAGGGCTTAACTTTTGAACGGTCAGTCTGGTAAGCCCATTGGTGTCGATCTGTTTGGTTAGAATTGGCTGTTCTGGGCAATAGAATACCACAAATCACAATGTAAAGTTTTTGGACATTTATTTTTATTCGGAAAAAATGACAACGTAAATTGTATGCAAATATCTTATAGTATATTTTTGAGATATTATTGTTTCTGTCGTTCATAAATTAAAATATATATATCCTTTATATGAACGGACATACACGTGTCATAATCTTATCTACCGACTTGACATCTATTAAACATCGGATCGATGGATAAAATTATGACACATGTCCCTATTTAGTCTTCCGTTAGAGTGAAGGGTATATATATTTTAGTTTTTGGACGATAGAAACATTGATGTTTCAAAAATATGACAAAAATTATTTGTATACAATTTATTTATTTTTTTACCTTTCTATTTTGAAGTGATGTTTAATTTTTTAAAGTTATTTAATATTTGATAATAAATTATAAATTAATGTATTCTTAACTCTGCCCTACTTTTGCAAAGTAAAGATTCAAAGAAATTGTCTGGTTCAACATACATGGTAGCATATCGAATTTGCTCAGGGAAGGCTCAACGTACTTTGATGCCTAAAGCGAAATTTTAATAATTTAAATTAAAGGCGTAAATTTTTTTAGCCGAGACAATTGTTGACAAAATAGGGTATAAACTTCTTTTTAAAAAAAATAAAAATAAGTGCATAAAATAAGTCAATTCAGACATGCTTGTAATTTGCTTTATCCAACCTATAATTTTTATCAGGGGTGTAC</genome_strand>
        <mrna_strand>CTTTTACGACTTCTGACTGCAAGACCAGCTTCGGGTATAGTGAGGGAGGTCAGGTGTGCTTTGGAAAGTGGTAACTTGGGTTCAGTTTTGGACTCTTCAGCTGGTGATTGGCCAATTGAACAAGTGGAACTGTTGGCTTATCTAGCATTGAGTTGCTGTGAGAAAGATCCTTTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCACAGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTCCAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGTTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCAATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCCCTCTTACAAACAAAAACAGCTCTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGT-GGTAGTTCCACTGAGTTAATACTTGGATTCGAGTTATTTGAACTTGTCAAGTGTTGCTGCAATATTGAGACGTACAGATTCTAATCACTATGGTCTATGTACACTGCATATTTTGCCTACTCATTACAAATATTGAA-AAACATATATATATCTTCGTATCTTCTTAA................................................................................................................................................................................................................................................AAAAAAAAAAAAAAAACTCGAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGGGGCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E687767" ref_strand="+" ref_description="SGN-E687767 [T3_tus_79_O19]">
      <seq>tttaaatcggcctaatatgctctcagaagtttggccaacaattgagccaatgagagatatatgcaaaccaaactcagatttgaatacttcatctcagggttccaagagtcaaaaacgaattcctcctcatttcgtttgtcctatttttcaggatgtcatggaagatccacacatagcagcagatggttatacatatgaaggtgatgcaataaaaggatggctgtatagcggacacgatacttctcccatgacaaacctcaagctcgacacctgtgatttgattcccaattatgctctctatcgcgctattcaggaatggcagcaacagtcctgaaactcatttagagtatataatgcctcactcttacaaacaaaaacagctttgaagttgaagtatatactgatatatagaaagttagccatgtctcgtgggtagttccactgagttaatacttggattcgagttatttgaacttgtcaagtgttgctgcaatattgagacgtacagattcttatcactatggtctatgtacactgcatattttgcctactcattacaaatattgaacaaacatatatataaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="62687" stop="45877"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62387" g_stop="62237" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="151" r_length="151" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="62236" i_stop="61753" i_length="484">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="61752" g_stop="61322" g_length="431"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="582" r_length="431" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="61321" i_stop="60237" i_length="1085">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="60236" g_stop="60223" g_length="14"/>
          <reference_exon_boundary r_type="cDNA" r_start="583" r_stop="596" r_length="14" r_score="0.929"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E687767" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>596</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E687767" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62387" e_stop="62237"/>
          <exon e_start="61752" e_stop="61322"/>
          <exon e_start="60236" e_stop="60223"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCAGGGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTTCAGGTAAGCATAAGATATATGATTCGTATCCTTTTGGTTTAAAATTCTGGCAATGGTTTCAATTAGTTACTCTTTTAACCTCCTAAATGGAAAACATGTGGACTAGCTGTTAGATCCTCACTCTTGTGTTGATTGATCATTCAATATGAACACACGTAATAATCACTTTCATCTATCGGTTTAGAGAATTTAGGTTGCACTAACGAACTACTAGGATCAGAGTGTCAGACTTCTTTATTAAGTGGTACAAATGATGAATACTTCTACATTAAAGACATTAGAAAGGCCCTCTATATCACTGCTAGTATAAGATACTATCAAGCATCAAAATGAAGTACGGATGGTTGCTGAGACTTTGTATATAGTATAAGATACTATCAAGAATCACAATGAAGTACGGATGGTTGCTGAGACTTTGTATGTAGTGTAGTGTAGTGTGGTGTATCTTGTATGAATGATGCCTTGTCTTTTTCCTCAACACTTTCAGGATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGCTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCTATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCACTCTTACAAACAAAAACAGCTTTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGTGGGTAGTTCCACTGAGTTAATACTTGGATTCGAGTTATTTGAACTTGTCAAGTGTTGCTGCAATATTGAGACGTACAGATTCTTATCACTATGGTCTATGTACACTGCATATTTTGCCTACTCATTACAAATATTGAACAAACATATATATATCTTCGTATCTTCTTTAGATTTGGCTAGTGTTACCATTCAATATTATTCATACTTTTGGGACATTGATGCCTCTATCGTCTGAAAATTAGACCGTCTACGTTATTCACTCTAATAGAAGACTAAATAGTGACACGTGGCCTAATCTCATCCATCGATCCGATATCGGGTCGGTGGATAAGATTATGACACGCGTATGTCCGTTAGTATAAATGATATATATGCTCTAATTTTTGGACATTAGGGACACCAATGACTCAAAAATATGATAAAAAGTATCTGTATACCATTTACGATACTTCGAGAATATATTTGTTCTTTTTCCCTTTTTTATTTGATTAAGTTTTTTTTATCAATTATCTACTATAAGCTTATCGAAGGGCTTAACTTTTGAACGGTCAGTCTGGTAAGCCCATTGGTGTCGATCTGTTTGGTTAGAATTGGCTGTTCTGGGCAATAGAATACCACAAATCACAATGTAAAGTTTTTGGACATTTATTTTTATTCGGAAAAAATGACAACGTAAATTGTATGCAAATATCTTATAGTATATTTTTGAGATATTATTGTTTCTGTCGTTCATAAATTAAAATATATATATCCTTTATATGAACGGACATACACGTGTCATAATCTTATCTACCGACTTGACATCTATTAAACATCGGATCGATGGATAAAATTATGACACATGTCCCTATTTAGTCTTCCGTTAGAGTGAAGGGTATATATATTTTAGTTTTTGGACGATAGAAACATTGATGTTTCAAAAATATGACAAAAATTATTTGTATACAATTTATTTATTTTTTTACCTTTCTATTTTGAAGTGATGTTTAATTTTTTAAAGTTATTTAATATTTGATAATAAATTATAAATTAATGTATTCTTAACTCTGCCCTACTTTTGCAAAGTAAAGATTCAAAGAAATTGTCTGGTTCAACATACATGGTAGCATATCGAATTTGCTCAGGGAAGGCTCAACGTACTTTGATGCCTAAAGCGAAATTTTAATAATTTAAATTAAAGGCGTAAATTTTTTTAGCCGAGACAATTGTTGACAAAATAGGGTATAAACTTCTTTTTAAAAAAAATAAAAA</genome_strand>
        <mrna_strand>TTTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCAGGGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTTCAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGCTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCTATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCACTCTTACAAACAAAAACAGCTTTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGTGGGTAGTTCCACTGAGTTAATACTTGGATTCGAGTTATTTGAACTTGTCAAGTGTTGCTGCAATATTGAGACGTACAGATTCTTATCACTATGGTCTATGTACACTGCATATTTTGCCTACTCATTACAAATATTGAACAAACATATATATA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E349530" ref_strand="+" ref_description="SGN-E349530 [cTOS-1-G12]">
      <seq>ggtgattggccaattgaacaagtggaactgttggcttatctagcattgagttgctgtgagaaagatcctttaaatcggcctaatatgctctcagaagtttggccaacaattgagccaatgagagatatatgcaaaccaaactcagatttgaatacttcatctcagggttccaagagtcaaaaacgaattcctcctcatttcgtttgtcctatttttcaggatgtcatggaagatccacacatagcagcagatggttatacatatgaaggtgatgcaataaaaggatggctgtatagcggacacgatacttctcccatgacaaacctcaagctcgacacctgtgatttgattcccaattatgctctctatcgcgctattcaggaatggcagcaacagtcctgaaactcatttagagtatataatgcctcactcttacaaacaaaaacagctttgaagttgaagtatatactgatatatagaaagttagccatgtctcgtgggtagttccactgagttaatacttggattcgagttatttgaacttgtcaagtgttgctgcaatattgagacgtacagattcttatcactatggtctatgtacactgcatattttgcctactcattacaaatattgaacaaacatatatatatcttcgnatcttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="62755" stop="61008"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62455" g_stop="62237" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="219" r_length="219" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="62236" i_stop="61753" i_length="484">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="61752" g_stop="61308" g_length="445"/>
          <reference_exon_boundary r_type="cDNA" r_start="220" r_stop="664" r_length="445" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E349530" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>664</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E349530" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62455" e_stop="62237"/>
          <exon e_start="61752" e_stop="61308"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTGATTGGCCAATTGAACAAGTGGAACTGTTGGCTTATCTAGCATTGAGTTGCTGTGAGAAAGATCCTTTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCAGGGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTTCAGGTAAGCATAAGATATATGATTCGTATCCTTTTGGTTTAAAATTCTGGCAATGGTTTCAATTAGTTACTCTTTTAACCTCCTAAATGGAAAACATGTGGACTAGCTGTTAGATCCTCACTCTTGTGTTGATTGATCATTCAATATGAACACACGTAATAATCACTTTCATCTATCGGTTTAGAGAATTTAGGTTGCACTAACGAACTACTAGGATCAGAGTGTCAGACTTCTTTATTAAGTGGTACAAATGATGAATACTTCTACATTAAAGACATTAGAAAGGCCCTCTATATCACTGCTAGTATAAGATACTATCAAGCATCAAAATGAAGTACGGATGGTTGCTGAGACTTTGTATATAGTATAAGATACTATCAAGAATCACAATGAAGTACGGATGGTTGCTGAGACTTTGTATGTAGTGTAGTGTAGTGTGGTGTATCTTGTATGAATGATGCCTTGTCTTTTTCCTCAACACTTTCAGGATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGCTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCTATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCACTCTTACAAACAAAAACAGCTTTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGTGGGTAGTTCCACTGAGTTAATACTTGGATTCGAGTTATTTGAACTTGTCAAGTGTTGCTGCAATATTGAGACGTACAGATTCTTATCACTATGGTCTATGTACACTGCATATTTTGCCTACTCATTACAAATATTGAACAAACATATATATATCTTCGTATCTTCT</genome_strand>
        <mrna_strand>GGTGATTGGCCAATTGAACAAGTGGAACTGTTGGCTTATCTAGCATTGAGTTGCTGTGAGAAAGATCCTTTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCAGGGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTTCAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGCTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCTATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCACTCTTACAAACAAAAACAGCTTTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGTGGGTAGTTCCACTGAGTTAATACTTGGATTCGAGTTATTTGAACTTGTCAAGTGTTGCTGCAATATTGAGACGTACAGATTCTTATCACTATGGTCTATGTACACTGCATATTTTGCCTACTCATTACAAATATTGAACAAACATATATATATCTTCGNATCTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324105" ref_strand="+" ref_description="SGN-E324105 [cTOC-3-H13]">
      <seq>ttaaatcggcctaatatgctctcagaagtttggccaacaattgagccaatgagagatatatgcaaaccaaactcagatttgaatacttcatctcagggttccaagagtcaaaaacgaattcctcctcatttcgtttgtcctatttttcaggatgtcatggaagatccacacatagcagcagatggttatacatatgaaggtgatgcaataaaaggatggctgtatagcggacacgatacttctcccatgacaaacctcaagctcgacacctgtgatttgattcccaattatgctctctatcgcgctattcaggaatggcagcaacagtcctgaaactcatttagagtatataatgcctcactcttacaaacaaaaacagctttgaagttgaagtatatactgatatatagaaagttagccatgtctcgtgggtagttccactgagttaatacttggattcgagtatttgaacttgtcaagtggttgctgcatattgagacgtacagattcttatcactatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="62686" stop="61081"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62386" g_stop="62237" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="150" r_length="150" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="62236" i_stop="61753" i_length="484">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="61752" g_stop="61381" g_length="372"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="521" r_length="371" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E324105" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324105" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62386" e_stop="62237"/>
          <exon e_start="61752" e_stop="61381"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCAGGGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTTCAGGTAAGCATAAGATATATGATTCGTATCCTTTTGGTTTAAAATTCTGGCAATGGTTTCAATTAGTTACTCTTTTAACCTCCTAAATGGAAAACATGTGGACTAGCTGTTAGATCCTCACTCTTGTGTTGATTGATCATTCAATATGAACACACGTAATAATCACTTTCATCTATCGGTTTAGAGAATTTAGGTTGCACTAACGAACTACTAGGATCAGAGTGTCAGACTTCTTTATTAAGTGGTACAAATGATGAATACTTCTACATTAAAGACATTAGAAAGGCCCTCTATATCACTGCTAGTATAAGATACTATCAAGCATCAAAATGAAGTACGGATGGTTGCTGAGACTTTGTATATAGTATAAGATACTATCAAGAATCACAATGAAGTACGGATGGTTGCTGAGACTTTGTATGTAGTGTAGTGTAGTGTGGTGTATCTTGTATGAATGATGCCTTGTCTTTTTCCTCAACACTTTCAGGATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGCTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCTATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCACTCTTACAAACAAAAACAGCTTTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGTGGGTAGTTCCACTGAGTTAATACTTGGATTCGAGTTATTTGAACTTGTCAAGT-GTTGCTGCAATATTGAGACGTACAGATTCTTATCACTATG</genome_strand>
        <mrna_strand>TTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCAGGGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTTCAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGCTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCTATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCACTCTTACAAACAAAAACAGCTTTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGTGGGTAGTTCCACTGAGTTAATACTTGGATTCGAG-TATTTGAACTTGTCAAGTGGTTGCTGC-ATATTGAGACGTACAGATTCTTATCACTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E549365" ref_strand="+" ref_description="SGN-E549365 [TUS-69-L23]">
      <seq>tttacgtttcttggatcagttacagttttttcaaaccaaccccatgaaagtaatttcttgagctgagtgagctttttgggaaggaaattgcaaaaggggtttttggaatttttttggtgagattttagtgatgagtggtgaagatatgattaaagctgaagggatctgtgatgtggaggatactgtatttgtagctgtagggaagaatgtgaaagagggaaaatctgtactttcttgggctttgaagagctttgctggcaggagaatatgtgttcttcatgttcatcaacctaatcatttgttttcatccaaggatgggaagctttcaggtgcaaagctgaaacagcacatggtgaaggcatgccaagaacttgatcgcctaagactgcacaaacttctaaaccagtatcttctctttatatcccaagctgggatacaagggggtaaggtgtggcttgaaataaataatgtggagaaagggataatacatattattgaagaacacaaaattcggtggcttgtcatgggagctgcagcagagactcattactcaaaattgcaggcaactgtcagagctcaagtccagcaaagctaaatttgtgtgccaacatgcaccaatgcactgtcaaatttggtttacttgcaacgagtgcctgatacatacaaggtctatgaaaaactctttttcaagtagctcggagtcattatcttctccagaagataatggaggaaccgaaatgcgtaatcatgttggcaacggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="70088" stop="64973"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69788" g_stop="69479" g_length="310"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="311" r_length="311" r_score="0.977"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69478" i_stop="67846" i_length="1633">
            <donor d_prob="0.220" d_score="0.96"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67845" g_stop="67724" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="312" r_stop="433" r_length="122" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67723" i_stop="66905" i_length="819">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.964" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="66904" g_stop="66783" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="434" r_stop="555" r_length="122" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="66782" i_stop="66229" i_length="554">
            <donor d_prob="0.904" d_score="1.00"/>
            <acceptor a_prob="0.979" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="66228" g_stop="66117" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="556" r_stop="667" r_length="112" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="66116" i_stop="65367" i_length="750">
            <donor d_prob="0.869" d_score="1.00"/>
            <acceptor a_prob="0.532" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="65366" g_stop="65273" g_length="94"/>
          <reference_exon_boundary r_type="cDNA" r_start="668" r_stop="761" r_length="94" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E549365" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>760</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E549365" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69788" e_stop="69479"/>
          <exon e_start="67845" e_stop="67724"/>
          <exon e_start="66904" e_stop="66783"/>
          <exon e_start="66228" e_stop="66117"/>
          <exon e_start="65366" e_stop="65273"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTACGTTTCTTGGATCAGTTACAGTTTTTTCAAACCAACCCCATGAAAGTAATTTCTTGAGCTGAGTGAGCTTTTTGGGAAGGAAATTGCAAAAGGGGTTTTTGGAA-TTTTCTGGTGAAATTTTAGTGATGAGTGGTGAAGATATGATTAAAGCTGAAGGGATCTGTGACGTGGAGGATACTGTATTTGTAGCTGTAGGGAAGAATGTGAAAGAGGGAAAATCTGTACTTTCTTGGGCTTTGAAGAGCTTTGCTGGCAGGAGAATTTGTGTTCTTCATGTTCATCAACCTAATCATTTGTTTTCATCTAGTAAGCTCACACCCACATGCTTTTTTTGAACTAATGAATTTTAGGTTGTGTCTTTCTGTGCAATAGATATTTGAATCTTAATGTGAACATTCATTGTAGTTGCTTATCAGTATTATCTTGACTGCTTTGGACTGTTTTTCCTTGAGCTTAGGGTCTACCTCTAAGGTCGGGTAAGGTCTCCGTATAATCTATCTTTGTGGAACTATACTAGGTATGTTGTTGTTGTAATTATCAGTATTATTGGAATTTGAATTGGCCAAATTGAGCTGAATATAGGATTCATTTTGCCCACCCTGACTTGTTTGGGTTTGAGAATGTGGTGACTTTTAGTTTAAGGGGATTACTATGTGGACTTGATTTGTCGACCAAACATGTCTTAATCTATGGCCGGAACAGAAAAGACAGAATTTGAAAGTGGCAAGAAAAAATCAATTAAGTTGTTTTCATTGATATCGGAAGGAAATAGAGAAGGGAAAAAACAAAAAATGGAGACTTGACTTGGTCATTTTTATAGATCAATTTTCCACACCCTTATATCTTCTTCATATTAACAAGTAACAAGAAAGCCTTTTTTTCGTACAAAAGCAGGCACTCTTGTAAGCTTACAGTTTCTTCAACAAATCAAATTTAACATAAAGCACGAGTCTTTCCGCGCAGTTAACTGTATAAACATGTAAGTTTTGTTATGAGGATTCATTTTAATTCGTAATCAGTATTGGAATGAAATATGCCCCAAAGAATAGAATATGTAGGGATTCTTGTTGCGTGACCCTGCCTCATTTGGGTTGATGCGCCATTTATTGATTTACATGGTTTTGAGACGCCATTTGTTGATTGATTAATTGATACGCATAAAGTGTTCTTATTAGTTTAAGCATATGAGGGAGATGTGTCTTTTTTGCTCTTGCATTTTGACTCTCAGAGTTCATGGCTATGCAAAGCCTCCAGATGTTTCAGTGTGTATCAATTTCTTTTTTGGCTGTGTGATGTATCTTGGGCCTAACTTAACCCCAAAGCTATCTTAAGAGGTGAGGATTCCCAATCCATATTAAAGATACCACTCATCCCTGATATGGCCTTGGTGGGACTCTTCACATGATTGGGATAGATAGAACTGCAGCATGTTAAGTTTGATTAGAAAATAGCAGTTCTGAAATATGCTCTCTATATGTTGACTTACAACTATTATACCTCTGTTTGCAATTTTTGAACTGCATTAATATGTGGTTGTTAGATATATTATGGCTTGAAGATAAATGGAGCAGCAAAATGGCAACACACTATCATTTTGTTGTTTTAGCTAAATCTATATTAATTAGGAAGCTGCCAAAGTGCAAAATGAGTTAAAATTGGAGTGATGAGAGTGTGTACTATATTTTCCCTACGCTATCTCAAGCTGGGGATTATTAAATCCTGGAGAGGCTAGCTAAAGGCACTGTGTGCTTTAAGTTAAGAGCTAACGACTTGCGAGAGTTATACAAGTGAGCATCTCATGTGTGATAAATAATTACTCTTGTTGCTATAATGAATGTATTAACCTCTATTTGCCAATTGGCTCCCCCTTCCATCCCATGAAAACCATAGTCATTCACATATTCGCAGATGAATGAATCACAATCTTTTGAATTTGCAGAGGATGGGAAGCTATCAGGTGCAAAGCTGAAACAGCACATGGTGAAGGCATGCCAAGAACTTGATCGCCTAAGACTGCACAAACTTCTAAACCAGTATCTTCTCTTTATATCCCAAGCTGGGGTACAGCTCTCTCTAATTTTCTTATTAGATTTATTTAGCATTGTTAGCTATTCATTAAGCCAGAATTACTAGCCTGTCTGTCCCATATAGAGTGCTCCTCGTTGACTTAACACACCTATGAAGACAATGTTGAGATTATTGATTGTTCAAAATCTAAGGGTTTAAGGAAGTACATGTTTTACTGATAAACACTATAAATTAAATGGTGTAAGGATCCACTGGATTTAACTTTTAGTCGTTTAGGAACTGAATAGAAAAAAATTATTCAAAGAAGTTGTAGAAGTGAGCCTGATATGACAACTTTGTTATATAATATTTGAGACTACTTTGGATGTTGCAAAAAGAAAAGCTGGACATCCAGCTTGTAAGCCCCTTGTGACTTTAGTCATTAAAGTTATATAATATCTACAGAACCACTTGTGAGGAAAGGAACTATGATAGAGGTTATGAAAGAAAAATTGGAGTTCATTTTAGAGCAAGTAAGTTATTTACTCATTAAGTTTTTTAAAAAAAATCCAAGGAAGTTGTTTAAGATGGAACTTATGCTGAAGATAGGTTCCAATAGTTGTGTTTCAAAAGATTGTAATAGCATTTTCACAGAAAAAGATCAGAAGGGTTTACATGCCTGACAAATTATGTTGAGATAGATCATAAGTTAAAACCATAAAGGTAGGGGTGCGTACATCCTACCCCCCACCCCTAACCCCACCCAGATCCCACTTGTGGGATTACACCGGGGTTTAAGAAATGAGAAATAATTATTGCTTAAAAGGTTGAGTTGCTAGTATTCAAAATATTGATCACTGCTCACTTCTGCAGATACAAGGGGGTAAGGTGTGGCTTGAAATAAATAATGTGGAGAAAGGGATAATACATATTATTGAAGAACACAAAATTCGGTGGCTTGTCATGGGAGCTGCAGCAGAGACTCATTACTCAAAGTATGACACTTTTTTTTTCTTTGAAGATCTATCAGATGTGTAACAGCACAAATTGAATACGAATGATTGCCAATTCAAGTGGTTTTCACATATAACTATGTTACGGACTTGGGCATCTCATTTCATGAGCTCCTTTTCATTACTTTATTGGAATTTTCAGCTATTTTTTTCTCCTTGCATTACTATTCTCCTTTTATGTGTATATATTTATAATTTTACCCTTTTCCAAATAGATATTTACCGTACCGACTTAATGTATATTGGGGACTCCTTGATCCGGTACAGTCACTGCCAAGTTATGATTTTTTCTGGTGTAGGACTACTAGGCTTAAAAATATAATCGGTTGAGTTATGCTTCTTCTTTTGACTGCTAAATGTTAACTGCTATATAATGAGAATAGTTGCTTGGTAACATAAACTCGTGCTCCTCCACTACACTGCAAACTACTGAACCCAGCAAGCTTTGTTTGAATTAAGTCCTAAGATTTAATGAAGTGTTCCTTTTGATGTTAGATTCCTGATAATCATAATTTTGCTGATTGGGATTTCTCTAGATTGCAGGCAACTGTCAGAGCTCAAGTCCAGCAAAGCTAAATTTGTGTGCCAACATGCACCAATGCACTGTCAAATTTGGTTTACTTGCAACGAGTGCCTGATACATACAAGGTATGATGACTCGTGGCTACAAAACATGTAAATGATAACACATGAAGCAATGGACTATATATGTTATTCTATAGTTGCATGATTCACTTACTCATGCAGTGGTTTGTTATCAGAATACTCCTTTGACTAGTCATCTTCTGCAGTCTTGTGTCCACACATTAAAAGTTCCAAATTCGCTTAGCATTTAATATCCCTATTTCCCTCCAAAAACAGACACAAGACATCATTTTAAAGTCACACTCACAAAAAGAAAAAGAAAACAAATGGTGGTAGAAATGCAACATTACCAATTTCAAAAAAAAAAAAAAAAGGAAGGCGAGAGCTATCCTGGAAATTCTGTAGATCATTGATAATGTAACGAGCAAGAGCTTTGCATATGGCTTTTGACAAACAGTTTTCCTAAGGAAATGAATTGGATAAGTAGGATAAAAATATATGATTCTGCTAGCTTGGGAAAGGAGGGAGCCTTGGAGCAATGTTCAAGTTGTCTCTATTTGGCTCCTAAGTAATAGGTTCAAGCCGTGGAATTAATTATTGATGCTTATACTTGTATCTTGTTAGGCTGCCTACATCACGCATAAGGGGGTTCAGCCCTTCCCTTAACCCCGTGAGAACGCGGGATGTTTAGAGCACCGTGCTGCCAATTTTTTCTTATTCTGCTAGCTTGCGATTGAGGTGTGGTTGTTGCTTTTGGTGAACAGTTTACCAAGGCTGACTAACTTCCTATTTTGTTTCCCTTTGTCTTGCAAGGTCTATGAAAAACTCTCTTTCAAGTAGCTCGGAGTCATTATCTTCTCCAGAAGATAATGGAGGAACCGAAATGCGTAATAATGTTGGCAACGGT</genome_strand>
        <mrna_strand>TTTACGTTTCTTGGATCAGTTACAGTTTTTTCAAACCAACCCCATGAAAGTAATTTCTTGAGCTGAGTGAGCTTTTTGGGAAGGAAATTGCAAAAGGGGTTTTTGGAATTTTTTTGGTGAGATTTTAGTGATGAGTGGTGAAGATATGATTAAAGCTGAAGGGATCTGTGATGTGGAGGATACTGTATTTGTAGCTGTAGGGAAGAATGTGAAAGAGGGAAAATCTGTACTTTCTTGGGCTTTGAAGAGCTTTGCTGGCAGGAGAATATGTGTTCTTCATGTTCATCAACCTAATCATTTGTTTTCATCCA.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGATGGGAAGCTTTCAGGTGCAAAGCTGAAACAGCACATGGTGAAGGCATGCCAAGAACTTGATCGCCTAAGACTGCACAAACTTCTAAACCAGTATCTTCTCTTTATATCCCAAGCTGGG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATACAAGGGGGTAAGGTGTGGCTTGAAATAAATAATGTGGAGAAAGGGATAATACATATTATTGAAGAACACAAAATTCGGTGGCTTGTCATGGGAGCTGCAGCAGAGACTCATTACTCAAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGCAGGCAACTGTCAGAGCTCAAGTCCAGCAAAGCTAAATTTGTGTGCCAACATGCACCAATGCACTGTCAAATTTGGTTTACTTGCAACGAGTGCCTGATACATACAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTATGAAAAACTCTTTTTCAAGTAGCTCGGAGTCATTATCTTCTCCAGAAGATAATGGAGGAACCGAAATGCGTAATCATGTTGGCAACGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E358744" ref_strand="+" ref_description="SGN-E358744 [cLHT-24-I9]">
      <seq>agaaagggataatacatattattgaagaacacaaaattcggtggcttgtcatgggagctgcagcagagactcattactcaaaattgcaggcaactgtcagagctcaagtccagcaaagctaaatttgtgtgccaacatgcaccaatgcactgtcaaatttggtttacttgcaacgagtgcctgatacatacaaggctgcctacatcacgcataagggggttcagcccttcctcttacaccgtgagaacgcgggatgtttagagcaccgtgctgccaattttttcttattctgctagcttgcgattgaggtgtggttgttgcttttggtgaacagtttaccaaggctgactaacttcctattttgtttccctttgtcttgcaaggtctatgaaaaactctttttcaagtagctcggagtcattatcttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="67164" stop="65021"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="66864" g_stop="66783" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="82" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="66782" i_stop="66229" i_length="554">
            <donor d_prob="0.904" d_score="1.00"/>
            <acceptor a_prob="0.979" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66228" g_stop="66117" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="83" r_stop="194" r_length="112" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="66116" i_stop="65556" i_length="561">
            <donor d_prob="0.869" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="65555" g_stop="65321" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="195" r_stop="429" r_length="235" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E358744" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>429</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E358744" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="66864" e_stop="66783"/>
          <exon e_start="66228" e_stop="66117"/>
          <exon e_start="65555" e_stop="65321"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAAGGGATAATACATATTATTGAAGAACACAAAATTCGGTGGCTTGTCATGGGAGCTGCAGCAGAGACTCATTACTCAAAGTATGACACTTTTTTTTTCTTTGAAGATCTATCAGATGTGTAACAGCACAAATTGAATACGAATGATTGCCAATTCAAGTGGTTTTCACATATAACTATGTTACGGACTTGGGCATCTCATTTCATGAGCTCCTTTTCATTACTTTATTGGAATTTTCAGCTATTTTTTTCTCCTTGCATTACTATTCTCCTTTTATGTGTATATATTTATAATTTTACCCTTTTCCAAATAGATATTTACCGTACCGACTTAATGTATATTGGGGACTCCTTGATCCGGTACAGTCACTGCCAAGTTATGATTTTTTCTGGTGTAGGACTACTAGGCTTAAAAATATAATCGGTTGAGTTATGCTTCTTCTTTTGACTGCTAAATGTTAACTGCTATATAATGAGAATAGTTGCTTGGTAACATAAACTCGTGCTCCTCCACTACACTGCAAACTACTGAACCCAGCAAGCTTTGTTTGAATTAAGTCCTAAGATTTAATGAAGTGTTCCTTTTGATGTTAGATTCCTGATAATCATAATTTTGCTGATTGGGATTTCTCTAGATTGCAGGCAACTGTCAGAGCTCAAGTCCAGCAAAGCTAAATTTGTGTGCCAACATGCACCAATGCACTGTCAAATTTGGTTTACTTGCAACGAGTGCCTGATACATACAAGGTATGATGACTCGTGGCTACAAAACATGTAAATGATAACACATGAAGCAATGGACTATATATGTTATTCTATAGTTGCATGATTCACTTACTCATGCAGTGGTTTGTTATCAGAATACTCCTTTGACTAGTCATCTTCTGCAGTCTTGTGTCCACACATTAAAAGTTCCAAATTCGCTTAGCATTTAATATCCCTATTTCCCTCCAAAAACAGACACAAGACATCATTTTAAAGTCACACTCACAAAAAGAAAAAGAAAACAAATGGTGGTAGAAATGCAACATTACCAATTTCAAAAAAAAAAAAAAAAGGAAGGCGAGAGCTATCCTGGAAATTCTGTAGATCATTGATAATGTAACGAGCAAGAGCTTTGCATATGGCTTTTGACAAACAGTTTTCCTAAGGAAATGAATTGGATAAGTAGGATAAAAATATATGATTCTGCTAGCTTGGGAAAGGAGGGAGCCTTGGAGCAATGTTCAAGTTGTCTCTATTTGGCTCCTAAGTAATAGGTTCAAGCCGTGGAATTAATTATTGATGCTTATACTTGTATCTTGTTAGGCTGCCTACATCACGCATAAGGGGGTTCAGCCCTTCCCTTAACCCCGTGAGAACGCGGGATGTTTAGAGCACCGTGCTGCCAATTTTTTCTTATTCTGCTAGCTTGCGATTGAGGTGTGGTTGTTGCTTTTGGTGAACAGTTTACCAAGGCTGACTAACTTCCTATTTTGTTTCCCTTTGTCTTGCAAGGTCTATGAAAAACTCTCTTTCAAGTAGCTCGGAGTCATTATCTTCT</genome_strand>
        <mrna_strand>AGAAAGGGATAATACATATTATTGAAGAACACAAAATTCGGTGGCTTGTCATGGGAGCTGCAGCAGAGACTCATTACTCAAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGCAGGCAACTGTCAGAGCTCAAGTCCAGCAAAGCTAAATTTGTGTGCCAACATGCACCAATGCACTGTCAAATTTGGTTTACTTGCAACGAGTGCCTGATACATACAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGCCTACATCACGCATAAGGGGGTTCAGCCCTTCCTCTTACACCGTGAGAACGCGGGATGTTTAGAGCACCGTGCTGCCAATTTTTTCTTATTCTGCTAGCTTGCGATTGAGGTGTGGTTGTTGCTTTTGGTGAACAGTTTACCAAGGCTGACTAACTTCCTATTTTGTTTCCCTTTGTCTTGCAAGGTCTATGAAAAACTCTTTTTCAAGTAGCTCGGAGTCATTATCTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E358803" ref_strand="+" ref_description="SGN-E358803 [cLHT-24-F19]">
      <seq>ttacgtttcttggatcagttacagttttttcaaaccaaccccatgaaagtaatttcttgagctgagtgagctttttgggaaggaaattgcaaaaggggtttttggaatttttttggtgagattttagtgatgagtggtgaagatatgattaaagctgaagggatctgtgatgtggaggatactgtatttgtagctgtagggaagaatgtgaaagagggaaaatctgtactttcttgggctttgaagagctttgctggcaggagaatatgtgttcttcatgttcatcaacctaatcatttgttttcatccaaggatgggaagctttcaggtgcaaagctgaaacagcacatggtgaaggcatgccaagaacttgatcgcctaagactgcacaaacttctaaaccagtatcttctctttatatcccaagctgggatacaagggggtaaggtgtggcttgaaataaataatgtggagaaagggataatacatattattgaagaacacaaaattcggtggcttgtcatgggagctgcagcagagactcattactcaaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="70087" stop="66481"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69787" g_stop="69479" g_length="309"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="310" r_length="310" r_score="0.977"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69478" i_stop="67846" i_length="1633">
            <donor d_prob="0.220" d_score="0.96"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67845" g_stop="67724" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="311" r_stop="432" r_length="122" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67723" i_stop="66905" i_length="819">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.964" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="66904" g_stop="66783" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="433" r_stop="554" r_length="122" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E358803" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>553</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E358803" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69787" e_stop="69479"/>
          <exon e_start="67845" e_stop="67724"/>
          <exon e_start="66904" e_stop="66783"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTACGTTTCTTGGATCAGTTACAGTTTTTTCAAACCAACCCCATGAAAGTAATTTCTTGAGCTGAGTGAGCTTTTTGGGAAGGAAATTGCAAAAGGGGTTTTTGGAA-TTTTCTGGTGAAATTTTAGTGATGAGTGGTGAAGATATGATTAAAGCTGAAGGGATCTGTGACGTGGAGGATACTGTATTTGTAGCTGTAGGGAAGAATGTGAAAGAGGGAAAATCTGTACTTTCTTGGGCTTTGAAGAGCTTTGCTGGCAGGAGAATTTGTGTTCTTCATGTTCATCAACCTAATCATTTGTTTTCATCTAGTAAGCTCACACCCACATGCTTTTTTTGAACTAATGAATTTTAGGTTGTGTCTTTCTGTGCAATAGATATTTGAATCTTAATGTGAACATTCATTGTAGTTGCTTATCAGTATTATCTTGACTGCTTTGGACTGTTTTTCCTTGAGCTTAGGGTCTACCTCTAAGGTCGGGTAAGGTCTCCGTATAATCTATCTTTGTGGAACTATACTAGGTATGTTGTTGTTGTAATTATCAGTATTATTGGAATTTGAATTGGCCAAATTGAGCTGAATATAGGATTCATTTTGCCCACCCTGACTTGTTTGGGTTTGAGAATGTGGTGACTTTTAGTTTAAGGGGATTACTATGTGGACTTGATTTGTCGACCAAACATGTCTTAATCTATGGCCGGAACAGAAAAGACAGAATTTGAAAGTGGCAAGAAAAAATCAATTAAGTTGTTTTCATTGATATCGGAAGGAAATAGAGAAGGGAAAAAACAAAAAATGGAGACTTGACTTGGTCATTTTTATAGATCAATTTTCCACACCCTTATATCTTCTTCATATTAACAAGTAACAAGAAAGCCTTTTTTTCGTACAAAAGCAGGCACTCTTGTAAGCTTACAGTTTCTTCAACAAATCAAATTTAACATAAAGCACGAGTCTTTCCGCGCAGTTAACTGTATAAACATGTAAGTTTTGTTATGAGGATTCATTTTAATTCGTAATCAGTATTGGAATGAAATATGCCCCAAAGAATAGAATATGTAGGGATTCTTGTTGCGTGACCCTGCCTCATTTGGGTTGATGCGCCATTTATTGATTTACATGGTTTTGAGACGCCATTTGTTGATTGATTAATTGATACGCATAAAGTGTTCTTATTAGTTTAAGCATATGAGGGAGATGTGTCTTTTTTGCTCTTGCATTTTGACTCTCAGAGTTCATGGCTATGCAAAGCCTCCAGATGTTTCAGTGTGTATCAATTTCTTTTTTGGCTGTGTGATGTATCTTGGGCCTAACTTAACCCCAAAGCTATCTTAAGAGGTGAGGATTCCCAATCCATATTAAAGATACCACTCATCCCTGATATGGCCTTGGTGGGACTCTTCACATGATTGGGATAGATAGAACTGCAGCATGTTAAGTTTGATTAGAAAATAGCAGTTCTGAAATATGCTCTCTATATGTTGACTTACAACTATTATACCTCTGTTTGCAATTTTTGAACTGCATTAATATGTGGTTGTTAGATATATTATGGCTTGAAGATAAATGGAGCAGCAAAATGGCAACACACTATCATTTTGTTGTTTTAGCTAAATCTATATTAATTAGGAAGCTGCCAAAGTGCAAAATGAGTTAAAATTGGAGTGATGAGAGTGTGTACTATATTTTCCCTACGCTATCTCAAGCTGGGGATTATTAAATCCTGGAGAGGCTAGCTAAAGGCACTGTGTGCTTTAAGTTAAGAGCTAACGACTTGCGAGAGTTATACAAGTGAGCATCTCATGTGTGATAAATAATTACTCTTGTTGCTATAATGAATGTATTAACCTCTATTTGCCAATTGGCTCCCCCTTCCATCCCATGAAAACCATAGTCATTCACATATTCGCAGATGAATGAATCACAATCTTTTGAATTTGCAGAGGATGGGAAGCTATCAGGTGCAAAGCTGAAACAGCACATGGTGAAGGCATGCCAAGAACTTGATCGCCTAAGACTGCACAAACTTCTAAACCAGTATCTTCTCTTTATATCCCAAGCTGGGGTACAGCTCTCTCTAATTTTCTTATTAGATTTATTTAGCATTGTTAGCTATTCATTAAGCCAGAATTACTAGCCTGTCTGTCCCATATAGAGTGCTCCTCGTTGACTTAACACACCTATGAAGACAATGTTGAGATTATTGATTGTTCAAAATCTAAGGGTTTAAGGAAGTACATGTTTTACTGATAAACACTATAAATTAAATGGTGTAAGGATCCACTGGATTTAACTTTTAGTCGTTTAGGAACTGAATAGAAAAAAATTATTCAAAGAAGTTGTAGAAGTGAGCCTGATATGACAACTTTGTTATATAATATTTGAGACTACTTTGGATGTTGCAAAAAGAAAAGCTGGACATCCAGCTTGTAAGCCCCTTGTGACTTTAGTCATTAAAGTTATATAATATCTACAGAACCACTTGTGAGGAAAGGAACTATGATAGAGGTTATGAAAGAAAAATTGGAGTTCATTTTAGAGCAAGTAAGTTATTTACTCATTAAGTTTTTTAAAAAAAATCCAAGGAAGTTGTTTAAGATGGAACTTATGCTGAAGATAGGTTCCAATAGTTGTGTTTCAAAAGATTGTAATAGCATTTTCACAGAAAAAGATCAGAAGGGTTTACATGCCTGACAAATTATGTTGAGATAGATCATAAGTTAAAACCATAAAGGTAGGGGTGCGTACATCCTACCCCCCACCCCTAACCCCACCCAGATCCCACTTGTGGGATTACACCGGGGTTTAAGAAATGAGAAATAATTATTGCTTAAAAGGTTGAGTTGCTAGTATTCAAAATATTGATCACTGCTCACTTCTGCAGATACAAGGGGGTAAGGTGTGGCTTGAAATAAATAATGTGGAGAAAGGGATAATACATATTATTGAAGAACACAAAATTCGGTGGCTTGTCATGGGAGCTGCAGCAGAGACTCATTACTCAAA</genome_strand>
        <mrna_strand>TTACGTTTCTTGGATCAGTTACAGTTTTTTCAAACCAACCCCATGAAAGTAATTTCTTGAGCTGAGTGAGCTTTTTGGGAAGGAAATTGCAAAAGGGGTTTTTGGAATTTTTTTGGTGAGATTTTAGTGATGAGTGGTGAAGATATGATTAAAGCTGAAGGGATCTGTGATGTGGAGGATACTGTATTTGTAGCTGTAGGGAAGAATGTGAAAGAGGGAAAATCTGTACTTTCTTGGGCTTTGAAGAGCTTTGCTGGCAGGAGAATATGTGTTCTTCATGTTCATCAACCTAATCATTTGTTTTCATCCA.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGATGGGAAGCTTTCAGGTGCAAAGCTGAAACAGCACATGGTGAAGGCATGCCAAGAACTTGATCGCCTAAGACTGCACAAACTTCTAAACCAGTATCTTCTCTTTATATCCCAAGCTGGG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATACAAGGGGGTAAGGTGTGGCTTGAAATAAATAATGTGGAGAAAGGGATAATACATATTATTGAAGAACACAAAATTCGGTGGCTTGTCATGGGAGCTGCAGCAGAGACTCATTACTCAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E338880" ref_strand="+" ref_description="SGN-E338880 [cTOE-21-I10]">
      <seq>tgggtaccccattgtctgggaaaaagaacaactctgctagtaatttaacagaaaggaaattattcagtgagagaaaagctgtcatctctaagcaggatgaagtcacctcagctacaaagtttaagcctctatcaaaaaatgcttcaaccatcacatcttacttccataaaaagacttctcaagacaagtccgattcggatagttctggagccttgatattatcagcacaaaatgaaatcccaactgctttcaaggaaacaatctgcgataaaaatgtagaaaaggatgcctctccaccaaataaagcaacagatttagaagttac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="79954" stop="78261"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="79654" g_stop="79600" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="79599" i_stop="79509" i_length="91">
            <donor d_prob="0.952" d_score="1.00"/>
            <acceptor a_prob="0.923" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="79508" g_stop="79469" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="95" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="79468" i_stop="79122" i_length="347">
            <donor d_prob="0.923" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="79121" g_stop="79044" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="96" r_stop="173" r_length="78" r_score="0.987"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="79043" i_stop="78932" i_length="112">
            <donor d_prob="0.987" d_score="0.98"/>
            <acceptor a_prob="0.731" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="78931" g_stop="78872" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="174" r_stop="233" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="78871" i_stop="78774" i_length="98">
            <donor d_prob="0.985" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="78773" g_stop="78723" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="234" r_stop="284" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="78722" i_stop="78602" i_length="121">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="78601" g_stop="78561" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="285" r_stop="325" r_length="41" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E338880" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>325</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E338880" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="79654" e_stop="79600"/>
          <exon e_start="79508" e_stop="79469"/>
          <exon e_start="79121" e_stop="79044"/>
          <exon e_start="78931" e_stop="78872"/>
          <exon e_start="78773" e_stop="78723"/>
          <exon e_start="78601" e_stop="78561"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGGTACCCCATTGTCTGGGAAAAAGAACAACTCTGCTAGTAATTTAACAGAAAGGTATTGCTACATGGAATATCATATATGAACTAGCATATATTGTTCATTGACTGATGTGTACTGAAACATTGCTTCTGCGCTTTCATTGAAGGAAATTATTCAGTGAGAGAAAAGCTGTCATCTCTAAGCAGGTAACCGACCATGCATCTATTGTTTTTCTCCAGACATAGATCTTGGTTCTGATTCCTGTATAATTGGTTGGATTAACTATTTTAAAAGAATAGTTTACTACAAGCCTTCTACTTTAGTTGTCAACTCATCTGGTTTGTAGATTGTACCTCTATGTTTTAGAGTGTGAAATATAAACTACTACGCTGCACAAAGTCTTCTCCTTTACTTCTGAATTGTTGCTTTTAATTTTTCATTTAGGTTTATTGATTCAATAAAATGATGGAAATTATTCTAGTCTATTGTCAATTGTCTATGTAGCACTTCAATGTGTCATCGATTCATACCTTAACATGTCATTGATTCATAGGATGAAGTCACCTCAGCTACAAAGTTTAAGCCTCTATCAAAAAATGCTTCAACCATCACATCTTCCTTCCATAAAAAGGTACAAGACTTAATCAGTTGAGCATTGGTTAATTAAGATGTGTTAAGATATCATTCATTGTTTAGTTATGCTACATTGAACTTTAAAGTGTTATAATATTATGTATTGCTAGACTTCTCAAGACAAGTCCGATTCGGATAGTTCTGGAGCCTTGATATTATCAGCACAAAATGTATGTTCTCTTAAACTTTGTGGAATGCATCTCTGTTCCTTCTATTTTTTTGCTGCTCTGAGGGCTATGCACAGGCTTAACTAATGTATTAGATTCAGGAAATCCCAACTGCTTTCAAGGAAACAATCTGCGATAAAAATGTAGAAAAGGTAAGGCAATATTTGATTGTACAGTAATAATTTAGTTCAATCATCTTCTGCAAACACTGCTACTGATGCACTTTATTGAATTGGAGTTATCTGTGTACTAAGAATTATCTTTGCATCTCAGGATGCCTCTCCACCAAATAAAGCAACAGATTTAGAAGTTAC</genome_strand>
        <mrna_strand>TGGGTACCCCATTGTCTGGGAAAAAGAACAACTCTGCTAGTAATTTAACAGAAAG...........................................................................................GAAATTATTCAGTGAGAGAAAAGCTGTCATCTCTAAGCAG...........................................................................................................................................................................................................................................................................................................................................................GATGAAGTCACCTCAGCTACAAAGTTTAAGCCTCTATCAAAAAATGCTTCAACCATCACATCTTACTTCCATAAAAAG................................................................................................................ACTTCTCAAGACAAGTCCGATTCGGATAGTTCTGGAGCCTTGATATTATCAGCACAAAAT..................................................................................................GAAATCCCAACTGCTTTCAAGGAAACAATCTGCGATAAAAATGTAGAAAAG.........................................................................................................................GATGCCTCTCCACCAAATAAAGCAACAGATTTAGAAGTTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E313391" ref_strand="+" ref_description="SGN-E313391 [cTOA-13-K11]">
      <seq>aactttgtggatttggcaggctatgaggattccagaagaagtagcaaagatggaatttcacttactgaaagtactagaataaacaaatctttgtatgccattatgaatgtggtgtacgctctgaacacaaatgaaaagcgtgtgccttatcgagaaggcaaactcactcggatgctacaggaatctcttggaggctccaatcatgttttgttgcttacctgcttgaatccaattccttgccaagatactctttatgtagtaagtttggcttcacgatcttgtcaaagcactggtcagattttgacaagctctgcaatgaaaagtaaaaagcacactaatcaacaagtacgactaatgggtaccccattgtctgggaaaaagaacaactctgctagtaatttaacagaaaggaaattattcagtgagagaaaagctgtcatctctaagcaggatgaagtcacctcagctacaaagtttaagcctctatcaaaaaatgcttcaaccatcacatcttccttccataaaaagacttctcaagacaagtccgattcggatagttctggagccttgatattatcagcacaaaatgaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="80511" stop="78569"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="80211" g_stop="80193" g_length="19"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="19" r_length="19" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="80192" i_stop="80097" i_length="96">
            <donor d_prob="0.321" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="80096" g_stop="79891" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="20" r_stop="225" r_length="206" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="79890" i_stop="79785" i_length="106">
            <donor d_prob="0.896" d_score="1.00"/>
            <acceptor a_prob="0.039" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="79784" g_stop="79600" g_length="185"/>
          <reference_exon_boundary r_type="cDNA" r_start="226" r_stop="410" r_length="185" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="79599" i_stop="79509" i_length="91">
            <donor d_prob="0.952" d_score="1.00"/>
            <acceptor a_prob="0.923" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="79508" g_stop="79469" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="411" r_stop="450" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="79468" i_stop="79122" i_length="347">
            <donor d_prob="0.923" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="79121" g_stop="79044" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="451" r_stop="528" r_length="78" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="79043" i_stop="78932" i_length="112">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.731" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="78931" g_stop="78872" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="529" r_stop="588" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="78871" i_stop="78602" i_length="270">
            <donor d_prob="0.985" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="78601" g_stop="78597" g_length="5"/>
          <reference_exon_boundary r_type="cDNA" r_start="589" r_stop="593" r_length="5" r_score="0.400"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E313391" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>593</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E313391" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="80211" e_stop="80193"/>
          <exon e_start="80096" e_stop="79891"/>
          <exon e_start="79784" e_stop="79600"/>
          <exon e_start="79508" e_stop="79469"/>
          <exon e_start="79121" e_stop="79044"/>
          <exon e_start="78931" e_stop="78872"/>
          <exon e_start="78601" e_stop="78597"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACTTTGTGGATTTGGCAGGTCTGGTAGTCCTAAACCTTCAAAAATTGTAGAGCTATTCACCTATGCTCAATAATTGCTTTTTTAGTTATCTTCATTGTATTGTTGTGCTCTCAGGCTATGAGGATTCCAGAAGAAGTAGCAAAGATGGAATTTCACTTACTGAAAGTACTAGAATAAACAAATCTTTGTATGCCATTATGAATGTGGTGTACGCTCTGAACACAAATGAAAAGCGTGTGCCTTATCGAGAAGGCAAACTCACTCGGATGCTACAGGAATCTCTTGGAGGCTCCAATCATGTTTTGTTGCTTACCTGCTTGGTAATGACTTCTCATTTTTTACATGGTTGATATATTGTGTAGAACTGTAAATCCAAAAGTTGGTTTGGAAAATTCCTTTTCTCACCCTTCCGTTTTTTTGTTATAGAATCCAATTCCTTGCCAAGATACTCTTTATGTAGTAAGTTTGGCTTCACGATCTTGTCAAAGCACTGGTCAGATTTTGACAAGCTCTGCAATGAAAAGTAAAAAGCACACTAATCAACAAGTACGACTAATGGGTACCCCATTGTCTGGGAAAAAGAACAACTCTGCTAGTAATTTAACAGAAAGGTATTGCTACATGGAATATCATATATGAACTAGCATATATTGTTCATTGACTGATGTGTACTGAAACATTGCTTCTGCGCTTTCATTGAAGGAAATTATTCAGTGAGAGAAAAGCTGTCATCTCTAAGCAGGTAACCGACCATGCATCTATTGTTTTTCTCCAGACATAGATCTTGGTTCTGATTCCTGTATAATTGGTTGGATTAACTATTTTAAAAGAATAGTTTACTACAAGCCTTCTACTTTAGTTGTCAACTCATCTGGTTTGTAGATTGTACCTCTATGTTTTAGAGTGTGAAATATAAACTACTACGCTGCACAAAGTCTTCTCCTTTACTTCTGAATTGTTGCTTTTAATTTTTCATTTAGGTTTATTGATTCAATAAAATGATGGAAATTATTCTAGTCTATTGTCAATTGTCTATGTAGCACTTCAATGTGTCATCGATTCATACCTTAACATGTCATTGATTCATAGGATGAAGTCACCTCAGCTACAAAGTTTAAGCCTCTATCAAAAAATGCTTCAACCATCACATCTTCCTTCCATAAAAAGGTACAAGACTTAATCAGTTGAGCATTGGTTAATTAAGATGTGTTAAGATATCATTCATTGTTTAGTTATGCTACATTGAACTTTAAAGTGTTATAATATTATGTATTGCTAGACTTCTCAAGACAAGTCCGATTCGGATAGTTCTGGAGCCTTGATATTATCAGCACAAAATGTATGTTCTCTTAAACTTTGTGGAATGCATCTCTGTTCCTTCTATTTTTTTGCTGCTCTGAGGGCTATGCACAGGCTTAACTAATGTATTAGATTCAGGAAATCCCAACTGCTTTCAAGGAAACAATCTGCGATAAAAATGTAGAAAAGGTAAGGCAATATTTGATTGTACAGTAATAATTTAGTTCAATCATCTTCTGCAAACACTGCTACTGATGCACTTTATTGAATTGGAGTTATCTGTGTACTAAGAATTATCTTTGCATCTCAGGATGC</genome_strand>
        <mrna_strand>AACTTTGTGGATTTGGCAG................................................................................................GCTATGAGGATTCCAGAAGAAGTAGCAAAGATGGAATTTCACTTACTGAAAGTACTAGAATAAACAAATCTTTGTATGCCATTATGAATGTGGTGTACGCTCTGAACACAAATGAAAAGCGTGTGCCTTATCGAGAAGGCAAACTCACTCGGATGCTACAGGAATCTCTTGGAGGCTCCAATCATGTTTTGTTGCTTACCTGCTTG..........................................................................................................AATCCAATTCCTTGCCAAGATACTCTTTATGTAGTAAGTTTGGCTTCACGATCTTGTCAAAGCACTGGTCAGATTTTGACAAGCTCTGCAATGAAAAGTAAAAAGCACACTAATCAACAAGTACGACTAATGGGTACCCCATTGTCTGGGAAAAAGAACAACTCTGCTAGTAATTTAACAGAAAG...........................................................................................GAAATTATTCAGTGAGAGAAAAGCTGTCATCTCTAAGCAG...........................................................................................................................................................................................................................................................................................................................................................GATGAAGTCACCTCAGCTACAAAGTTTAAGCCTCTATCAAAAAATGCTTCAACCATCACATCTTCCTTCCATAAAAAG................................................................................................................ACTTCTCAAGACAAGTCCGATTCGGATAGTTCTGGAGCCTTGATATTATCAGCACAAAAT..............................................................................................................................................................................................................................................................................GAAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E541212" ref_strand="+" ref_description="SGN-E541212 [TUS-61-O5]">
      <seq>gaggaattggggctggtgagaaaaaaatggaggggaaaacggagaaggaaaacaagagtgtaaagaagacggcgtgtgatgtggaggctctgaagaagtgtttggaagaaaataaaggcgactatttgaaatgtcagtctcatgttgaagcatttaggtcatcttgctctatcaacaattctaattcttcttcaccaaagctcaactccgatacacacgcaggaaggcaataacttgaccaagcctgttcaagaaaagatcttcatatattagaggactgatttggaggactgaaatccgcgtcttttgctgctagcagtaataaaaccagaaagaagattcaagtataagacaccgcattgtttgtaaaattcctccacaaaggatatagttttcttatctttgctatttcttcagctttaatatctcttcagatactctcccagaaattttgtgacaagtagcaagagagaactaatgaggaaaacaaaatgttggtggatgggcagttgaatattacattggctgcttttagtttgtacatgcacgtatttccagtaacaatatgaagaactgggtaatttaaagttcagtgtcaaatttagtgacaaagctggctggtcatgtcttttttttttctttcaaaatcatcttatataaaactgattccaaataaatgaagaaactggagctaagggcaatatgtgtaaatttgagacctcaatcttgaagcttttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="83598" stop="87989"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83898" g_stop="84107" g_length="210"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="210" r_length="210" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="84108" i_stop="87161" i_length="3054">
            <donor d_prob="0.661" d_score="1.00"/>
            <acceptor a_prob="0.737" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="87162" g_stop="87689" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="211" r_stop="739" r_length="529" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E541212" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>738</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E541212" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83898" e_stop="84107"/>
          <exon e_start="87162" e_stop="87689"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGGAATTGGGGCTGGTGAGAAAAAAATGGAGGGGAAAACGGAGAAGGAAAACAAGAGTGTAAAGAAGACGGCGTGTGATGTGGAGGCTCTGAAGAAGTGTTTGGAAGAAAATAAAGGCGACTATTTGAAATGTCAGTCTCATGTTGAAGCATTTAGGTCATCTTGCTCTATCAACAATTCTAATTCTTCTTCACCAAAGCTCAACTCCGGTGCGGATTCTGATCCTTCGTTACGAAATCCTGATAATTCATACTGTTGAATTTTTTGTTTCGTTCGAGTTATTGCTTTTGTAATTGCAATTAGGTTGTTTTTGTCGTAATCATTGACGATGCAGTGTTGGAGGTTATTCTTTTTCAGTGACAAAGTTTCGAACTTGAATGCTAAAAGATTTGTTTTCTATGAAAATATTGAGCTTTTCTTTGTGGGGAACTTTTACATAAAGCCAATAAAAAATAGTCTAATTATTCTCTATAGCTATAATTTGATAATTACAATTCGTATCTACATGTTATATATAGAGGCGAGAGATAATTTGATAATTATAATTCGCAGCTACATGTTATATAGAGGCGAGAGGGGACAAAAAGTGGAAGAGAGGTGAATTGCATATATATATCGGTTAGATAATTATATATTATACATATGTATTGTATATATGGAAAGCGATATTGGGAGAGGGAAGTGAGCGAGACTGGGCAGAGAGTTGGAGAGAGGTGAATTGTACATATATATAGGTTAGATAATTGTATATTATACATATGCATTTGTATATGACGAGCGAGATTGGGAGAGAGAGGAGAGAGGCGAGCGAGATTGGGAGAGGGAGGAGAGAGGCGAGAGAGAGGGCAGAGTTGGAGAAAGGTGAATTGTATATGTATATCGATTAGATAATTGTATATTATGCATATGTATTTGTATATTCTGATGAATCATACATATACAAATGTGACTAATTATACAAATTCAAAGTCAACCTACGTAATTAATATATAATGTTAGTCGTGAATGGTAATTATAACAAATTATAGCTATGATAAGTAATTGAGTAGTATCTGTTTGCTTAACCGCCTAATTTTCCCTTTTTTAATTGTGTTGGACAAATGGTGAAATGGGTTTGGTTTACTTTGAAAGAAGATTCTTTCAAGTCAAATTGTTGCTTTGATTAATGTTAGTAATTGTGCCAATGGATGGAGCTGACATGAAAAAACCCGTTCTTGTAAAACATAATGGTAAGTTGTTTTTTTTCGTACCATGTCTCAGATTTCTACTAGGGGAAAAGAGACTTTTTTGTGTGTATTGTGGATATTTGGATGAGTCTAGCTGTAATCCTTGGCTTTGCTAACAATGTCGGAGCCAGGAATTCTCAAAAGAGGAATGAAAAGAATGCAAACTTGCACAGTGGGTGAATGTGTTGAGCCTTTTTGGTTGAAATTTATATGTATGATTGGAGTATAGAAAAAAAATTGTTTTTACCCTATTTGCTAAGTGTAACTTTTAAAGGGGATCCATTGAACCCCTTCTGTACACTTGGCTATACCTTTGTCTGCCAACAGATATTGGTCTATGACTTGAACGTTTTTATAAGGTTCTAGCACGTTAGTATGAGTTTCTTTCAAGAGTTACCTTTGGGAAGAAAACAAAAACAAGATTTTCAGAGGGTTGATAAATATTGCTTTATGGGTAAAATGACATTGTTTGTAGGTTCAGCAGAACCTTGTCAGTTGCTGATTAGTCATTAATGATTAATAAATATTAACTGATTTTAGAAATTAGGCATCCTAGGGGAAACAGAAGCGGAGGGGTACAATTGATTTGTTTGCTCATAGATACTGTCAAGGACTAGGTGTTATATTACCATTCTGATGTATTGGCTATCCTAGCATCATTGTGTTTCCAATACCTGGATTCCAAGTTTGTAAAGCTACAATTATGGTGGTACTGTGAATGAAAAGCAAGTGAAAAGAATTGTACTTTAAAAGTTTGATGTTGAGGGGTGTGAGTTTTACAAAGTAACGCTTGCTCGATCCTCATTCACCATAGGTAATTCAATCAATATCTTTTGTATGCTCACATTTTATGTGAAGGGAACTTTCTCACAAGCTACTGCAAAGACTAGTGACTTAGAAATTGAACCACTTGTTAGTTATCTGATGTTTAGGTATCCACATAATATTAATTTAACAGATAGTGGTTTAGATGCATTGGTAATTTGCCAGCTTGGGTGGGGAGTTCCTAATGACTGTCAGGTAAACTTCAATTATTGCCAGGTTTAGTCTTTGATGGTTTTCTGTTTTTGTTCCTTATAAATTATAGCCACTGTCCTGTAATCACATGGACTTGGGGTGAGATGCATGCATCTTAGTTGGATTTATGGATATTTAATGGCTTATTTGGGGGCAGCAAATGTTGCATACTTTTTAAACTTTCAAGTTGGGACATCGTTGAGGACCTGAACAAATAATATTCCTTCGCAACACTTTAGGTGTTTAAATGGAAGCAGTTCACTCAAATATGGTGTCAGATCATAGTAAGTCCTGAGCTCGAGTCTTACCACCACCCATTGGCAAAAATACTTCACATGGTTGGTCAAAAGAATTGGGCCTTCAGAAGATGGCATGTCGTTGACCTAAATATATAATAAAAGTTGGTAATTCCTCATCCAGTGATATAATACAGTAACTGCCATGTATATACCAGATTGGAAAGTGTCCATAGCTGCAAGTGTTGCATGTCACACACTTATTTTTCTTAACTGAAAATTCCATAATGTGTAGATCTATTGACAGTTGGATACTTACTGAAGTCCCATATCTGAATCACCACTTGTATCTATTAAATTCCTCACATACTAGTGCATTGGAAGTAGTGATATATGGATAACAAAATGAGAAGCATACTGAAGTATCACAAAGCCCCGATTTCTATTTCAGCTCACTTAGTTCTCAAAGTTAATGTTTAGCTAGCTTTGTTATGTCCGGTACTTTTCTTGCTTTCTTCCTAAGCAGACTTCAATCTATCTTTCTGGAAGCTCAGCTGCCAGAGTTTAGTGTTCTCTTTGATGTTCCGTTTTTTCTTTGTTTCATTTTGGGTAGCTTCCTATGTGCCATTAAAGCTATGACTTAGGAATGTCTGTGTATTTGACAGAAGTATGTGAGTTTCTCAAAATGAGAGTGTAATTTACACTTAAATCTCACTTCACATTGCAACTGATTTCATTTTATCCCCTTGTATCCGAAAAAACTGATCATTTACTTGTTAAAAAGATACACACGCAGGAAGGCAATAACTTGACCAAGCCTGTTCAAGAAAAGATCTTCATATATTAGAGGACTGATTTGGAGGACTGAAATCCGCGTCTTTTGCTGCTAGCAGTAATAAAACCAGAAAGAAGATTCAAGTATAAGACACCGCATTGTTTGTAAAATTCCTCCACAAAGGATATAGTTTTCTTATCTTTGCTATTTCTTCAGCTTTAATATCTCTTCAGATACTCTCCCAGAAATTTTGTGACAAGTAGCAAGAGAGAACTAATGAGGAAAACAAAATGTTGGTGGATGGGCAGTTGAATATTACATTGGCTGCTTTTAGTTTGTACATGCACGTATTTCCAGTAACAATATGAAGAACTGGGTAATTTAAAGTTCAGTGTCAAATTTAGTGACAAAGCTGGCTGGTCATGTC-TTTTTTTTTCTTTCAAAATCATCTTATATAAAACTGATTCCAAATAAATGAAGAAACTGGAGCTAAGGGCAATATGTGTAAATTTGAGACCTCAATCTTGAAGCTTTTGT</genome_strand>
        <mrna_strand>GAGGAATTGGGGCTGGTGAGAAAAAAATGGAGGGGAAAACGGAGAAGGAAAACAAGAGTGTAAAGAAGACGGCGTGTGATGTGGAGGCTCTGAAGAAGTGTTTGGAAGAAAATAAAGGCGACTATTTGAAATGTCAGTCTCATGTTGAAGCATTTAGGTCATCTTGCTCTATCAACAATTCTAATTCTTCTTCACCAAAGCTCAACTCCG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATACACACGCAGGAAGGCAATAACTTGACCAAGCCTGTTCAAGAAAAGATCTTCATATATTAGAGGACTGATTTGGAGGACTGAAATCCGCGTCTTTTGCTGCTAGCAGTAATAAAACCAGAAAGAAGATTCAAGTATAAGACACCGCATTGTTTGTAAAATTCCTCCACAAAGGATATAGTTTTCTTATCTTTGCTATTTCTTCAGCTTTAATATCTCTTCAGATACTCTCCCAGAAATTTTGTGACAAGTAGCAAGAGAGAACTAATGAGGAAAACAAAATGTTGGTGGATGGGCAGTTGAATATTACATTGGCTGCTTTTAGTTTGTACATGCACGTATTTCCAGTAACAATATGAAGAACTGGGTAATTTAAAGTTCAGTGTCAAATTTAGTGACAAAGCTGGCTGGTCATGTCTTTTTTTTTTCTTTCAAAATCATCTTATATAAAACTGATTCCAAATAAATGAAGAAACTGGAGCTAAGGGCAATATGTGTAAATTTGAGACCTCAATCTTGAAGCTTTTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E541210" ref_strand="+" ref_description="SGN-E541210 [TUS-61-O5](-)">
      <seq>gagaattgggggctgtgagaaaaaaatggaggggaaaacggagaaggaaaacaagagtgtaaagaagacggcgtgtgatgtggaggctctgaagaagtgtttggaagaaaataaaggcgactatttgaaatgtcagtctcatgttgaagcatttaggtcatcttgctctatcaacaattctaattcttcttcaccaaagctcaactccgatacacacgcaggaaggcaataacttgaccaagcctgttcaagaaaagatcttcatatattagaggactgatttggaggactgaaatccgcgtcttttgctgctagcagtaataaaaccagaaagaagattcaagtataagacaccgcattgtttgtaaaattcctccacaaaggatatagttttcttatctttgctatttcttcagctttaatatctcttcagatactctcccagaaattttgtgacaagtagcaagagagaactaatgaggaaaacaaaatgttggtggatgggcagttgaatattacattggctgcttttagtttgtacatgcacgtatttccagtaacaatatgaagaactgggtaatttaaagttcagtgtcaaatttagtgacaaagctggctggtcatgtcttttttttttctttcaaaatcatcttatataaaactgattccaaataaatgaagaaactggagctaagggcaatatgtgtaaatttgagacctcaatcttgaagcttttgggaaaaaaaaaaaaaaaaaaaaagaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="83601" stop="87993"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83898" g_stop="84107" g_length="210"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="209" r_length="209" r_score="0.981"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="84108" i_stop="87161" i_length="3054">
            <donor d_prob="0.661" d_score="1.00"/>
            <acceptor a_prob="0.737" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="87162" g_stop="87687" g_length="526"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="736" r_length="527" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="740" polyA_stop="763"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E541210" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>736</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E541210" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83898" e_stop="84107"/>
          <exon e_start="87162" e_stop="87687"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGGAATTGGGGCTGGTGAGAAAAAAATGGAGGGGAAAACGGAGAAGGAAAACAAGAGTGTAAAGAAGACGGCGTGTGATGTGGAGGCTCTGAAGAAGTGTTTGGAAGAAAATAAAGGCGACTATTTGAAATGTCAGTCTCATGTTGAAGCATTTAGGTCATCTTGCTCTATCAACAATTCTAATTCTTCTTCACCAAAGCTCAACTCCGGTGCGGATTCTGATCCTTCGTTACGAAATCCTGATAATTCATACTGTTGAATTTTTTGTTTCGTTCGAGTTATTGCTTTTGTAATTGCAATTAGGTTGTTTTTGTCGTAATCATTGACGATGCAGTGTTGGAGGTTATTCTTTTTCAGTGACAAAGTTTCGAACTTGAATGCTAAAAGATTTGTTTTCTATGAAAATATTGAGCTTTTCTTTGTGGGGAACTTTTACATAAAGCCAATAAAAAATAGTCTAATTATTCTCTATAGCTATAATTTGATAATTACAATTCGTATCTACATGTTATATATAGAGGCGAGAGATAATTTGATAATTATAATTCGCAGCTACATGTTATATAGAGGCGAGAGGGGACAAAAAGTGGAAGAGAGGTGAATTGCATATATATATCGGTTAGATAATTATATATTATACATATGTATTGTATATATGGAAAGCGATATTGGGAGAGGGAAGTGAGCGAGACTGGGCAGAGAGTTGGAGAGAGGTGAATTGTACATATATATAGGTTAGATAATTGTATATTATACATATGCATTTGTATATGACGAGCGAGATTGGGAGAGAGAGGAGAGAGGCGAGCGAGATTGGGAGAGGGAGGAGAGAGGCGAGAGAGAGGGCAGAGTTGGAGAAAGGTGAATTGTATATGTATATCGATTAGATAATTGTATATTATGCATATGTATTTGTATATTCTGATGAATCATACATATACAAATGTGACTAATTATACAAATTCAAAGTCAACCTACGTAATTAATATATAATGTTAGTCGTGAATGGTAATTATAACAAATTATAGCTATGATAAGTAATTGAGTAGTATCTGTTTGCTTAACCGCCTAATTTTCCCTTTTTTAATTGTGTTGGACAAATGGTGAAATGGGTTTGGTTTACTTTGAAAGAAGATTCTTTCAAGTCAAATTGTTGCTTTGATTAATGTTAGTAATTGTGCCAATGGATGGAGCTGACATGAAAAAACCCGTTCTTGTAAAACATAATGGTAAGTTGTTTTTTTTCGTACCATGTCTCAGATTTCTACTAGGGGAAAAGAGACTTTTTTGTGTGTATTGTGGATATTTGGATGAGTCTAGCTGTAATCCTTGGCTTTGCTAACAATGTCGGAGCCAGGAATTCTCAAAAGAGGAATGAAAAGAATGCAAACTTGCACAGTGGGTGAATGTGTTGAGCCTTTTTGGTTGAAATTTATATGTATGATTGGAGTATAGAAAAAAAATTGTTTTTACCCTATTTGCTAAGTGTAACTTTTAAAGGGGATCCATTGAACCCCTTCTGTACACTTGGCTATACCTTTGTCTGCCAACAGATATTGGTCTATGACTTGAACGTTTTTATAAGGTTCTAGCACGTTAGTATGAGTTTCTTTCAAGAGTTACCTTTGGGAAGAAAACAAAAACAAGATTTTCAGAGGGTTGATAAATATTGCTTTATGGGTAAAATGACATTGTTTGTAGGTTCAGCAGAACCTTGTCAGTTGCTGATTAGTCATTAATGATTAATAAATATTAACTGATTTTAGAAATTAGGCATCCTAGGGGAAACAGAAGCGGAGGGGTACAATTGATTTGTTTGCTCATAGATACTGTCAAGGACTAGGTGTTATATTACCATTCTGATGTATTGGCTATCCTAGCATCATTGTGTTTCCAATACCTGGATTCCAAGTTTGTAAAGCTACAATTATGGTGGTACTGTGAATGAAAAGCAAGTGAAAAGAATTGTACTTTAAAAGTTTGATGTTGAGGGGTGTGAGTTTTACAAAGTAACGCTTGCTCGATCCTCATTCACCATAGGTAATTCAATCAATATCTTTTGTATGCTCACATTTTATGTGAAGGGAACTTTCTCACAAGCTACTGCAAAGACTAGTGACTTAGAAATTGAACCACTTGTTAGTTATCTGATGTTTAGGTATCCACATAATATTAATTTAACAGATAGTGGTTTAGATGCATTGGTAATTTGCCAGCTTGGGTGGGGAGTTCCTAATGACTGTCAGGTAAACTTCAATTATTGCCAGGTTTAGTCTTTGATGGTTTTCTGTTTTTGTTCCTTATAAATTATAGCCACTGTCCTGTAATCACATGGACTTGGGGTGAGATGCATGCATCTTAGTTGGATTTATGGATATTTAATGGCTTATTTGGGGGCAGCAAATGTTGCATACTTTTTAAACTTTCAAGTTGGGACATCGTTGAGGACCTGAACAAATAATATTCCTTCGCAACACTTTAGGTGTTTAAATGGAAGCAGTTCACTCAAATATGGTGTCAGATCATAGTAAGTCCTGAGCTCGAGTCTTACCACCACCCATTGGCAAAAATACTTCACATGGTTGGTCAAAAGAATTGGGCCTTCAGAAGATGGCATGTCGTTGACCTAAATATATAATAAAAGTTGGTAATTCCTCATCCAGTGATATAATACAGTAACTGCCATGTATATACCAGATTGGAAAGTGTCCATAGCTGCAAGTGTTGCATGTCACACACTTATTTTTCTTAACTGAAAATTCCATAATGTGTAGATCTATTGACAGTTGGATACTTACTGAAGTCCCATATCTGAATCACCACTTGTATCTATTAAATTCCTCACATACTAGTGCATTGGAAGTAGTGATATATGGATAACAAAATGAGAAGCATACTGAAGTATCACAAAGCCCCGATTTCTATTTCAGCTCACTTAGTTCTCAAAGTTAATGTTTAGCTAGCTTTGTTATGTCCGGTACTTTTCTTGCTTTCTTCCTAAGCAGACTTCAATCTATCTTTCTGGAAGCTCAGCTGCCAGAGTTTAGTGTTCTCTTTGATGTTCCGTTTTTTCTTTGTTTCATTTTGGGTAGCTTCCTATGTGCCATTAAAGCTATGACTTAGGAATGTCTGTGTATTTGACAGAAGTATGTGAGTTTCTCAAAATGAGAGTGTAATTTACACTTAAATCTCACTTCACATTGCAACTGATTTCATTTTATCCCCTTGTATCCGAAAAAACTGATCATTTACTTGTTAAAAAGATACACACGCAGGAAGGCAATAACTTGACCAAGCCTGTTCAAGAAAAGATCTTCATATATTAGAGGACTGATTTGGAGGACTGAAATCCGCGTCTTTTGCTGCTAGCAGTAATAAAACCAGAAAGAAGATTCAAGTATAAGACACCGCATTGTTTGTAAAATTCCTCCACAAAGGATATAGTTTTCTTATCTTTGCTATTTCTTCAGCTTTAATATCTCTTCAGATACTCTCCCAGAAATTTTGTGACAAGTAGCAAGAGAGAACTAATGAGGAAAACAAAATGTTGGTGGATGGGCAGTTGAATATTACATTGGCTGCTTTTAGTTTGTACATGCACGTATTTCCAGTAACAATATGAAGAACTGGGTAATTTAAAGTTCAGTGTCAAATTTAGTGACAAAGCTGGCTGGTCATGTC-TTTTTTTTTCTTTCAAAATCATCTTATATAAAACTGATTCCAAATAAATGAAGAAACTGGAGCTAAGGGCAATATGTGTAAATTTGAGACCTCAATCTTGAAGCTTTT</genome_strand>
        <mrna_strand>GAGAATTGGGGGCT-GTGAGAAAAAAATGGAGGGGAAAACGGAGAAGGAAAACAAGAGTGTAAAGAAGACGGCGTGTGATGTGGAGGCTCTGAAGAAGTGTTTGGAAGAAAATAAAGGCGACTATTTGAAATGTCAGTCTCATGTTGAAGCATTTAGGTCATCTTGCTCTATCAACAATTCTAATTCTTCTTCACCAAAGCTCAACTCCG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATACACACGCAGGAAGGCAATAACTTGACCAAGCCTGTTCAAGAAAAGATCTTCATATATTAGAGGACTGATTTGGAGGACTGAAATCCGCGTCTTTTGCTGCTAGCAGTAATAAAACCAGAAAGAAGATTCAAGTATAAGACACCGCATTGTTTGTAAAATTCCTCCACAAAGGATATAGTTTTCTTATCTTTGCTATTTCTTCAGCTTTAATATCTCTTCAGATACTCTCCCAGAAATTTTGTGACAAGTAGCAAGAGAGAACTAATGAGGAAAACAAAATGTTGGTGGATGGGCAGTTGAATATTACATTGGCTGCTTTTAGTTTGTACATGCACGTATTTCCAGTAACAATATGAAGAACTGGGTAATTTAAAGTTCAGTGTCAAATTTAGTGACAAAGCTGGCTGGTCATGTCTTTTTTTTTTCTTTCAAAATCATCTTATATAAAACTGATTCCAAATAAATGAAGAAACTGGAGCTAAGGGCAATATGTGTAAATTTGAGACCTCAATCTTGAAGCTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295364" ref_strand="+" ref_description="SGN-E295364 [cLET-23-G16]">
      <seq>aggaattggggctggtgagaaaaaaatggaggggaaaacggagaaggaaaacaagagtgtaaagaagacggcgtgtgatgtggaggctctgaagaagtgtttggaagaaaataaaggcgactatttgaaatgtcagtctcatgttgaagcatttaggtcatcttgctctatcaacaattctaattcttcttcaccaaagctcaactccgatacacacgcaggaaggcaataacttgaccaagcctgttcaagaaaagatcttcatatattagaggactgatttggaggactgaaatccgcgtcttttgctgctagcagtaataaaaccagaaagaagattcaagtataagacaccgcattgtttgtaaaattcctccacaaaggatatagttttcttatctttgctatttcttcagctttaatatctcttcagatactctcccagaaattttgtgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="83599" stop="87709"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83899" g_stop="84107" g_length="209"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="209" r_length="209" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="84108" i_stop="87161" i_length="3054">
            <donor d_prob="0.661" d_score="1.00"/>
            <acceptor a_prob="0.737" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="87162" g_stop="87409" g_length="248"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="457" r_length="248" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E295364" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>457</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295364" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83899" e_stop="84107"/>
          <exon e_start="87162" e_stop="87409"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGAATTGGGGCTGGTGAGAAAAAAATGGAGGGGAAAACGGAGAAGGAAAACAAGAGTGTAAAGAAGACGGCGTGTGATGTGGAGGCTCTGAAGAAGTGTTTGGAAGAAAATAAAGGCGACTATTTGAAATGTCAGTCTCATGTTGAAGCATTTAGGTCATCTTGCTCTATCAACAATTCTAATTCTTCTTCACCAAAGCTCAACTCCGGTGCGGATTCTGATCCTTCGTTACGAAATCCTGATAATTCATACTGTTGAATTTTTTGTTTCGTTCGAGTTATTGCTTTTGTAATTGCAATTAGGTTGTTTTTGTCGTAATCATTGACGATGCAGTGTTGGAGGTTATTCTTTTTCAGTGACAAAGTTTCGAACTTGAATGCTAAAAGATTTGTTTTCTATGAAAATATTGAGCTTTTCTTTGTGGGGAACTTTTACATAAAGCCAATAAAAAATAGTCTAATTATTCTCTATAGCTATAATTTGATAATTACAATTCGTATCTACATGTTATATATAGAGGCGAGAGATAATTTGATAATTATAATTCGCAGCTACATGTTATATAGAGGCGAGAGGGGACAAAAAGTGGAAGAGAGGTGAATTGCATATATATATCGGTTAGATAATTATATATTATACATATGTATTGTATATATGGAAAGCGATATTGGGAGAGGGAAGTGAGCGAGACTGGGCAGAGAGTTGGAGAGAGGTGAATTGTACATATATATAGGTTAGATAATTGTATATTATACATATGCATTTGTATATGACGAGCGAGATTGGGAGAGAGAGGAGAGAGGCGAGCGAGATTGGGAGAGGGAGGAGAGAGGCGAGAGAGAGGGCAGAGTTGGAGAAAGGTGAATTGTATATGTATATCGATTAGATAATTGTATATTATGCATATGTATTTGTATATTCTGATGAATCATACATATACAAATGTGACTAATTATACAAATTCAAAGTCAACCTACGTAATTAATATATAATGTTAGTCGTGAATGGTAATTATAACAAATTATAGCTATGATAAGTAATTGAGTAGTATCTGTTTGCTTAACCGCCTAATTTTCCCTTTTTTAATTGTGTTGGACAAATGGTGAAATGGGTTTGGTTTACTTTGAAAGAAGATTCTTTCAAGTCAAATTGTTGCTTTGATTAATGTTAGTAATTGTGCCAATGGATGGAGCTGACATGAAAAAACCCGTTCTTGTAAAACATAATGGTAAGTTGTTTTTTTTCGTACCATGTCTCAGATTTCTACTAGGGGAAAAGAGACTTTTTTGTGTGTATTGTGGATATTTGGATGAGTCTAGCTGTAATCCTTGGCTTTGCTAACAATGTCGGAGCCAGGAATTCTCAAAAGAGGAATGAAAAGAATGCAAACTTGCACAGTGGGTGAATGTGTTGAGCCTTTTTGGTTGAAATTTATATGTATGATTGGAGTATAGAAAAAAAATTGTTTTTACCCTATTTGCTAAGTGTAACTTTTAAAGGGGATCCATTGAACCCCTTCTGTACACTTGGCTATACCTTTGTCTGCCAACAGATATTGGTCTATGACTTGAACGTTTTTATAAGGTTCTAGCACGTTAGTATGAGTTTCTTTCAAGAGTTACCTTTGGGAAGAAAACAAAAACAAGATTTTCAGAGGGTTGATAAATATTGCTTTATGGGTAAAATGACATTGTTTGTAGGTTCAGCAGAACCTTGTCAGTTGCTGATTAGTCATTAATGATTAATAAATATTAACTGATTTTAGAAATTAGGCATCCTAGGGGAAACAGAAGCGGAGGGGTACAATTGATTTGTTTGCTCATAGATACTGTCAAGGACTAGGTGTTATATTACCATTCTGATGTATTGGCTATCCTAGCATCATTGTGTTTCCAATACCTGGATTCCAAGTTTGTAAAGCTACAATTATGGTGGTACTGTGAATGAAAAGCAAGTGAAAAGAATTGTACTTTAAAAGTTTGATGTTGAGGGGTGTGAGTTTTACAAAGTAACGCTTGCTCGATCCTCATTCACCATAGGTAATTCAATCAATATCTTTTGTATGCTCACATTTTATGTGAAGGGAACTTTCTCACAAGCTACTGCAAAGACTAGTGACTTAGAAATTGAACCACTTGTTAGTTATCTGATGTTTAGGTATCCACATAATATTAATTTAACAGATAGTGGTTTAGATGCATTGGTAATTTGCCAGCTTGGGTGGGGAGTTCCTAATGACTGTCAGGTAAACTTCAATTATTGCCAGGTTTAGTCTTTGATGGTTTTCTGTTTTTGTTCCTTATAAATTATAGCCACTGTCCTGTAATCACATGGACTTGGGGTGAGATGCATGCATCTTAGTTGGATTTATGGATATTTAATGGCTTATTTGGGGGCAGCAAATGTTGCATACTTTTTAAACTTTCAAGTTGGGACATCGTTGAGGACCTGAACAAATAATATTCCTTCGCAACACTTTAGGTGTTTAAATGGAAGCAGTTCACTCAAATATGGTGTCAGATCATAGTAAGTCCTGAGCTCGAGTCTTACCACCACCCATTGGCAAAAATACTTCACATGGTTGGTCAAAAGAATTGGGCCTTCAGAAGATGGCATGTCGTTGACCTAAATATATAATAAAAGTTGGTAATTCCTCATCCAGTGATATAATACAGTAACTGCCATGTATATACCAGATTGGAAAGTGTCCATAGCTGCAAGTGTTGCATGTCACACACTTATTTTTCTTAACTGAAAATTCCATAATGTGTAGATCTATTGACAGTTGGATACTTACTGAAGTCCCATATCTGAATCACCACTTGTATCTATTAAATTCCTCACATACTAGTGCATTGGAAGTAGTGATATATGGATAACAAAATGAGAAGCATACTGAAGTATCACAAAGCCCCGATTTCTATTTCAGCTCACTTAGTTCTCAAAGTTAATGTTTAGCTAGCTTTGTTATGTCCGGTACTTTTCTTGCTTTCTTCCTAAGCAGACTTCAATCTATCTTTCTGGAAGCTCAGCTGCCAGAGTTTAGTGTTCTCTTTGATGTTCCGTTTTTTCTTTGTTTCATTTTGGGTAGCTTCCTATGTGCCATTAAAGCTATGACTTAGGAATGTCTGTGTATTTGACAGAAGTATGTGAGTTTCTCAAAATGAGAGTGTAATTTACACTTAAATCTCACTTCACATTGCAACTGATTTCATTTTATCCCCTTGTATCCGAAAAAACTGATCATTTACTTGTTAAAAAGATACACACGCAGGAAGGCAATAACTTGACCAAGCCTGTTCAAGAAAAGATCTTCATATATTAGAGGACTGATTTGGAGGACTGAAATCCGCGTCTTTTGCTGCTAGCAGTAATAAAACCAGAAAGAAGATTCAAGTATAAGACACCGCATTGTTTGTAAAATTCCTCCACAAAGGATATAGTTTTCTTATCTTTGCTATTTCTTCAGCTTTAATATCTCTTCAGATACTCTCCCAGAAATTTTGTGAC</genome_strand>
        <mrna_strand>AGGAATTGGGGCTGGTGAGAAAAAAATGGAGGGGAAAACGGAGAAGGAAAACAAGAGTGTAAAGAAGACGGCGTGTGATGTGGAGGCTCTGAAGAAGTGTTTGGAAGAAAATAAAGGCGACTATTTGAAATGTCAGTCTCATGTTGAAGCATTTAGGTCATCTTGCTCTATCAACAATTCTAATTCTTCTTCACCAAAGCTCAACTCCG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATACACACGCAGGAAGGCAATAACTTGACCAAGCCTGTTCAAGAAAAGATCTTCATATATTAGAGGACTGATTTGGAGGACTGAAATCCGCGTCTTTTGCTGCTAGCAGTAATAAAACCAGAAAGAAGATTCAAGTATAAGACACCGCATTGTTTGTAAAATTCCTCCACAAAGGATATAGTTTTCTTATCTTTGCTATTTCTTCAGCTTTAATATCTCTTCAGATACTCTCCCAGAAATTTTGTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285438" ref_strand="+" ref_description="SGN-E285438 [cLES-10-E19]">
      <seq>aaagctcaactccgatacacacgcaggaaggcaataacttgaccaagcctgttcaagaaaagatcttcatatattagaggactgatttggaggactgaaatccgcgtcttttgctgctagcagtaataaaaccagaaagaagattcaagtataagacaccgcattgtttgtaaaattcctccacaaaggatatagttttcttatctttgctatttcttcagctttaatatctcttcagatactctcccagaaattttgtgacaagtagcaagagagaactaatgaggaaaacaaaatgttggtggatgggcagttgaatattacattggctgcttttagtttgtacatgcacgtatttccagtaacaatatgaagaactgggtaatttaaagttcagtgtcaaatttagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="86861" stop="87857"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="87162" g_stop="87557" g_length="396"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="410" r_length="396" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E285438" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>396</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E285438" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="87162" e_stop="87557"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATACACACGCAGGAAGGCAATAACTTGACCAAGCCTGTTCAAGAAAAGATCTTCATATATTAGAGGACTGATTTGGAGGACTGAAATCCGCGTCTTTTGCTGCTAGCAGTAATAAAACCAGAAAGAAGATTCAAGTATAAGACACCGCATTGTTTGTAAAATTCCTCCACAAAGGATATAGTTTTCTTATCTTTGCTATTTCTTCAGCTTTAATATCTCTTCAGATACTCTCCCAGAAATTTTGTGACAAGTAGCAAGAGAGAACTAATGAGGAAAACAAAATGTTGGTGGATGGGCAGTTGAATATTACATTGGCTGCTTTTAGTTTGTACATGCACGTATTTCCAGTAACAATATGAAGAACTGGGTAATTTAAAGTTCAGTGTCAAATTTAGT</genome_strand>
        <mrna_strand>ATACACACGCAGGAAGGCAATAACTTGACCAAGCCTGTTCAAGAAAAGATCTTCATATATTAGAGGACTGATTTGGAGGACTGAAATCCGCGTCTTTTGCTGCTAGCAGTAATAAAACCAGAAAGAAGATTCAAGTATAAGACACCGCATTGTTTGTAAAATTCCTCCACAAAGGATATAGTTTTCTTATCTTTGCTATTTCTTCAGCTTTAATATCTCTTCAGATACTCTCCCAGAAATTTTGTGACAAGTAGCAAGAGAGAACTAATGAGGAAAACAAAATGTTGGTGGATGGGCAGTTGAATATTACATTGGCTGCTTTTAGTTTGTACATGCACGTATTTCCAGTAACAATATGAAGAACTGGGTAATTTAAAGTTCAGTGTCAAATTTAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E351738" ref_strand="+" ref_description="SGN-E351738 [cTOS-8-N13]">
      <seq>gatctcagcttggacctttctgccaaaaggaaacagcaagccattgcatgttctgcattctggacgtgagagttcaaaggggaattatagttattttgagatgaactccacactcaagtccagcgaaccattaatggcgactgtcattttgtatctatcaaatgtgacacagggtggtcagatcctcttccctgagtcagagaataagatattgtctgactgtacgaagagtagcgactccctgagaccaactaaaggaaatgcaattgtgttcttcaatgtccacctcgatgcatcccctgacaggagtagctcccatgcaagatgccctgttattgatggtgaaatgtggtatgccatcaaattcttttatctgagaagtataactgtgcaaaaggatccattacaatcagatggtgacacctattgtaccgatgaagatgagaactgtacgcgatgggctgctactggagagtgtgaaagggatcctgtttttatggttggttctcctgattattatggtacatgtangaaaagttgtaatgcttggtgatttcttatgtaacgattatatgtacctttactggcattgtttgtgacaaatcttnnctgatatattttttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="93584" stop="92165"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="93284" g_stop="93256" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="29" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="93255" i_stop="93133" i_length="123">
            <donor d_prob="0.981" d_score="0.00"/>
            <acceptor a_prob="0.949" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93132" g_stop="92960" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="202" r_length="173" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92959" i_stop="92871" i_length="89">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92870" g_stop="92447" g_length="424"/>
          <reference_exon_boundary r_type="cDNA" r_start="203" r_stop="624" r_length="422" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E351738" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>626</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E351738" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="93284" e_stop="93256"/>
          <exon e_start="93132" e_stop="92960"/>
          <exon e_start="92870" e_stop="92447"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCTCAGCTTGGACCTTTCTGCCAAAAGGTAGTTTTCATTGCCAGACATATAAGTTCCATTTGTTTCTTTCTAGGTACCCCTCCCAACTGAAGGTTTTGAGTCTGCCTTTTTCAGTGTTGTATGATTGACCGCTATCATCCTTGCCTTCAGGAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAGGTAAAATAGAGGTGCTTTGTACTTTAATTTCGTAATGACATCTTTTCTGTTTGTGCTTTTGTTTTAATTTATTTGAACTCCTGATGTAGAATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTGATGGTGAAATGTGGTATGCCATCAAATTCTTTTATCTGAGAAGTATAACTGTGCAAAAGGATCCATTACAATCAGATGGTGACACCTATTGTACCGATGAAGATGAGAACTGTACGCGATGGGCTGCTACTGGAGAGTGTGAAAGGAATCCTGTTTTTATGGTTGGTTCTCCTGATTATTATGGTACATGTAGGAAAAGTTGTAATGCTTGTTGATTCTTTATGTAACGATTATATGTACCTTTACTGGCATTGTTTGTGACAAAATCTTCTGATTATTATTTTTTTC</genome_strand>
        <mrna_strand>GATCTCAGCTTGGACCTTTCTGCCAAAAG...........................................................................................................................GAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAG.........................................................................................AATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTGATGGTGAAATGTGGTATGCCATCAAATTCTTTTATCTGAGAAGTATAACTGTGCAAAAGGATCCATTACAATCAGATGGTGACACCTATTGTACCGATGAAGATGAGAACTGTACGCGATGGGCTGCTACTGGAGAGTGTGAAAGGGATCCTGTTTTTATGGTTGGTTCTCCTGATTATTATGGTACATGTANGAAAAGTTGTAATGCTTGGTGATTTCTTATGTAACGATTATATGTACCTTTACTGGCATTGTTTGTGAC-AAATCTT-NNCTGATATATTTTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E377451" ref_strand="+" ref_description="SGN-E377451 [TUS-20-B5]">
      <seq>aattgagggctgaggaggtgaatggggatgccattatacagtcgggccatcctgtacgctctaatagatttgatccctcacgcgtcgttcaactctcgtggcgaccaagggttttcttgtatagagactttatgtcagcagaagagactgatcacttaatctcttcggtgcatggaatgagaaatggctccacaattgataatgcttctgtggatgcagtgaattttccaactatgggtattcctgtagatgcaaaggatcctacttcctcaaggatcgaagaaaggatctcagcttggacctttctgccaaaaggaaacagcaagccattgcatgttctgcattctggacgtgagagttcaaaggggaattatagttattttgagatgaactccacactcaagtccagcgaaccattaatggcgactgtcattttgtatctatcaaatgtgacacagggtggtcagatcctcttccctgagtcagagaataagatattgtctgactgtacgaagagtagcgactccctgagaccaactaaaggaaatgcaattgtgttcttcaatgtccacctcgatgcatcccctgacaggagtagctcccatgcaagatgccctgttattgatggtgaaatgtggtatgccatcaaattcttttatctgagaagtataactgtgcaaaaggaatcattacaatcagatggtgacacctattgtaccgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="94609" stop="92337"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94309" g_stop="94201" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="109" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94200" i_stop="93972" i_length="229">
            <donor d_prob="0.603" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93971" g_stop="93914" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="167" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93828" g_stop="93739" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="257" r_length="90" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93738" i_stop="93314" i_length="425">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.929" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93313" g_stop="93256" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="315" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93255" i_stop="93133" i_length="123">
            <donor d_prob="0.981" d_score="1.00"/>
            <acceptor a_prob="0.949" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="93132" g_stop="92960" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="488" r_length="173" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92959" i_stop="92871" i_length="89">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="92870" g_stop="92637" g_length="234"/>
          <reference_exon_boundary r_type="cDNA" r_start="489" r_stop="722" r_length="234" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E377451" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>722</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E377451" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94309" e_stop="94201"/>
          <exon e_start="93971" e_stop="93914"/>
          <exon e_start="93828" e_stop="93739"/>
          <exon e_start="93313" e_stop="93256"/>
          <exon e_start="93132" e_stop="92960"/>
          <exon e_start="92870" e_stop="92637"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAGGTCAGGTAGTCTATTCAATCATTAACCTTGTTACTTCTTCAATATGTGGTGGCATGTGAAGAAATTTTAAAAACGCAAAATTCTGCATTTAAGTAAGTTTACCCAAAAAGAGAAGAAGAAAAGTTTTCTTTGTTATGTTGGTGTTTTGAAGGCATGCTTGTTTGGCTTCCTGGTTAATAATTCTCTGTATGGACTATGGAGGAATAATGAATATTTTTTCTTGAAATAGGGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCGGTAAATCAATGCCTCACAACTTGTACTGCTATACTTTTTCTCTAGAAAGTTTCTAAAATGTGTCTTCGCATGAATCCATTTATAGGTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAGGTAAGTTCTTGTTATCTACACGGTTCTTTATATGAGCTAATGCTTTTTCAAAGCATAGATGTGACTAAGCATTTGTATTATTTAGATAGTGTTTAGTCTTGTAAATTGAAGATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGAAAATGGAATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGCGAATGGACTCCAGATATTAGTAATGATGCATTAGGGTGCTATAAACTCTGCTTATGCTTCCCATGAGAATGGTCTCCATGCTCACTGAATTTGCTGGTTGAGAAAGCAGTTTATGTTAATAAAACACAGTACTCAGTACTTGTAACATGTTTCTTTGTATTGTTCTTTAAATTCTAGGATCCTACTAATGTTACCTTTATCAAAAAATTCTAGGATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAGGTAGTTTTCATTGCCAGACATATAAGTTCCATTTGTTTCTTTCTAGGTACCCCTCCCAACTGAAGGTTTTGAGTCTGCCTTTTTCAGTGTTGTATGATTGACCGCTATCATCCTTGCCTTCAGGAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAGGTAAAATAGAGGTGCTTTGTACTTTAATTTCGTAATGACATCTTTTCTGTTTGTGCTTTTGTTTTAATTTATTTGAACTCCTGATGTAGAATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTGATGGTGAAATGTGGTATGCCATCAAATTCTTTTATCTGAGAAGTATAACTGTGCAAAAGGATCCATTACAATCAGATGGTGACACCTATTGTACCGAT</genome_strand>
        <mrna_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAG.....................................................................................................................................................................................................................................GGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG.....................................................................................GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAG...........................................................................................................................GAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAG.........................................................................................AATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTGATGGTGAAATGTGGTATGCCATCAAATTCTTTTATCTGAGAAGTATAACTGTGCAAAAGGAATCATTACAATCAGATGGTGACACCTATTGTACCGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E231853" ref_strand="+" ref_description="SGN-E231853 [cLED-7-I10]">
      <seq>aattgagggctgaggaggtgaatggggatgccattatacagtcgggccatcctgtacgctctaatagatttgatccctcacgcgtcgttcaactctcgtggcgaccaagggttttcttgtatagagactttatgtcagcagaagagactgatcacttaatctcttcggtgcatggaatgagaaatggctccacaattgataatgcttctgtggatgcagtgaattttccaactatgggtattcctgtagatgcaaaggatcctacttcctcaaggatcgaagaaaggatctcagcttggacctttctgccaaaaggaaacagcaagccattgcatgttctgcattctggacgtgagagttcaaaggggaattatagttattttgagatgaactccacactcaagtccagcgaaccattaatggcgactgtcattttgtatctatcaaatgtgacacagggtggtcagatcctcttccctgagtcagagaataagatattgtctgactgtacgaagagtagcgactccctgagaccaactaaaggaaatgcaattgtgttcttcaatgtccacctcgatgcatccactgacaggagtagctcccatgcaagatgccctgttattgatggtgaaatgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="94609" stop="92423"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94309" g_stop="94201" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="109" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94200" i_stop="93972" i_length="229">
            <donor d_prob="0.603" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93971" g_stop="93914" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="167" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93828" g_stop="93739" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="257" r_length="90" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93738" i_stop="93314" i_length="425">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.929" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93313" g_stop="93256" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="315" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93255" i_stop="93133" i_length="123">
            <donor d_prob="0.981" d_score="1.00"/>
            <acceptor a_prob="0.949" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="93132" g_stop="92960" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="488" r_length="173" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92959" i_stop="92871" i_length="89">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="92870" g_stop="92723" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="489" r_stop="636" r_length="148" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E231853" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>636</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E231853" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94309" e_stop="94201"/>
          <exon e_start="93971" e_stop="93914"/>
          <exon e_start="93828" e_stop="93739"/>
          <exon e_start="93313" e_stop="93256"/>
          <exon e_start="93132" e_stop="92960"/>
          <exon e_start="92870" e_stop="92723"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAGGTCAGGTAGTCTATTCAATCATTAACCTTGTTACTTCTTCAATATGTGGTGGCATGTGAAGAAATTTTAAAAACGCAAAATTCTGCATTTAAGTAAGTTTACCCAAAAAGAGAAGAAGAAAAGTTTTCTTTGTTATGTTGGTGTTTTGAAGGCATGCTTGTTTGGCTTCCTGGTTAATAATTCTCTGTATGGACTATGGAGGAATAATGAATATTTTTTCTTGAAATAGGGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCGGTAAATCAATGCCTCACAACTTGTACTGCTATACTTTTTCTCTAGAAAGTTTCTAAAATGTGTCTTCGCATGAATCCATTTATAGGTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAGGTAAGTTCTTGTTATCTACACGGTTCTTTATATGAGCTAATGCTTTTTCAAAGCATAGATGTGACTAAGCATTTGTATTATTTAGATAGTGTTTAGTCTTGTAAATTGAAGATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGAAAATGGAATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGCGAATGGACTCCAGATATTAGTAATGATGCATTAGGGTGCTATAAACTCTGCTTATGCTTCCCATGAGAATGGTCTCCATGCTCACTGAATTTGCTGGTTGAGAAAGCAGTTTATGTTAATAAAACACAGTACTCAGTACTTGTAACATGTTTCTTTGTATTGTTCTTTAAATTCTAGGATCCTACTAATGTTACCTTTATCAAAAAATTCTAGGATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAGGTAGTTTTCATTGCCAGACATATAAGTTCCATTTGTTTCTTTCTAGGTACCCCTCCCAACTGAAGGTTTTGAGTCTGCCTTTTTCAGTGTTGTATGATTGACCGCTATCATCCTTGCCTTCAGGAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAGGTAAAATAGAGGTGCTTTGTACTTTAATTTCGTAATGACATCTTTTCTGTTTGTGCTTTTGTTTTAATTTATTTGAACTCCTGATGTAGAATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTGATGGTGAAATGT</genome_strand>
        <mrna_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAG.....................................................................................................................................................................................................................................GGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG.....................................................................................GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAG...........................................................................................................................GAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAG.........................................................................................AATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCACTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTGATGGTGAAATGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E231848" ref_strand="+" ref_description="SGN-E231848 [cLED-7-G10]">
      <seq>aattgagggctgaggaggtgaatggggatgccattatacagtcgggccatcctgtacgctctaatagatttgatccctcacgcgtcgttcaactctcgtggcgaccaagggttttcttgtatagagactttatgtcagcagaagagactgatcacttaatctcttcggtgcatggaatgagaaatggctccacaattgataatgcttctgtggatgcagtgaattttccaactatgggtattcctgtagatgcaaaggatcctacttcctcaaggatcgaagaaaggatctcagcttggacctttctgccaaaaggaaacagcaagccattgcatgttctgcattctggacgtgagagttcaaaggggaattatagttattttgagatgaactccacactcaagtccagcgaaccattaatggcgactgtcattttgtatctatcaaatgtgacacagggtggtcagatcctcttccctgagtcagagaataagatattgtctgactgtacgaagagtagcgactccctgagaccaactaaaggaaatgcaattgtgttcttcaatgtccacctcgatgcatcccctgacaggagtagctcccatgcaagatgccctgttattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="94609" stop="92435"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94309" g_stop="94201" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="109" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94200" i_stop="93972" i_length="229">
            <donor d_prob="0.603" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93971" g_stop="93914" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="167" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93828" g_stop="93739" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="257" r_length="90" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93738" i_stop="93314" i_length="425">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.929" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93313" g_stop="93256" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="315" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93255" i_stop="93133" i_length="123">
            <donor d_prob="0.981" d_score="1.00"/>
            <acceptor a_prob="0.949" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="93132" g_stop="92960" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="488" r_length="173" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92959" i_stop="92871" i_length="89">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="92870" g_stop="92735" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="489" r_stop="624" r_length="136" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E231848" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>624</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E231848" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94309" e_stop="94201"/>
          <exon e_start="93971" e_stop="93914"/>
          <exon e_start="93828" e_stop="93739"/>
          <exon e_start="93313" e_stop="93256"/>
          <exon e_start="93132" e_stop="92960"/>
          <exon e_start="92870" e_stop="92735"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAGGTCAGGTAGTCTATTCAATCATTAACCTTGTTACTTCTTCAATATGTGGTGGCATGTGAAGAAATTTTAAAAACGCAAAATTCTGCATTTAAGTAAGTTTACCCAAAAAGAGAAGAAGAAAAGTTTTCTTTGTTATGTTGGTGTTTTGAAGGCATGCTTGTTTGGCTTCCTGGTTAATAATTCTCTGTATGGACTATGGAGGAATAATGAATATTTTTTCTTGAAATAGGGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCGGTAAATCAATGCCTCACAACTTGTACTGCTATACTTTTTCTCTAGAAAGTTTCTAAAATGTGTCTTCGCATGAATCCATTTATAGGTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAGGTAAGTTCTTGTTATCTACACGGTTCTTTATATGAGCTAATGCTTTTTCAAAGCATAGATGTGACTAAGCATTTGTATTATTTAGATAGTGTTTAGTCTTGTAAATTGAAGATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGAAAATGGAATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGCGAATGGACTCCAGATATTAGTAATGATGCATTAGGGTGCTATAAACTCTGCTTATGCTTCCCATGAGAATGGTCTCCATGCTCACTGAATTTGCTGGTTGAGAAAGCAGTTTATGTTAATAAAACACAGTACTCAGTACTTGTAACATGTTTCTTTGTATTGTTCTTTAAATTCTAGGATCCTACTAATGTTACCTTTATCAAAAAATTCTAGGATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAGGTAGTTTTCATTGCCAGACATATAAGTTCCATTTGTTTCTTTCTAGGTACCCCTCCCAACTGAAGGTTTTGAGTCTGCCTTTTTCAGTGTTGTATGATTGACCGCTATCATCCTTGCCTTCAGGAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAGGTAAAATAGAGGTGCTTTGTACTTTAATTTCGTAATGACATCTTTTCTGTTTGTGCTTTTGTTTTAATTTATTTGAACTCCTGATGTAGAATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTG</genome_strand>
        <mrna_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAG.....................................................................................................................................................................................................................................GGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG.....................................................................................GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAG...........................................................................................................................GAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAG.........................................................................................AATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E233185" ref_strand="+" ref_description="SGN-E233185 [cLED-6-J21]">
      <seq>aattgagggctgaggaggtgaatggggatgccattatacagtcgggccatcctgtacgctctaatagatttgatccctcacgcgtcgttcaactctcgtggcgaccaagggttttcttgtatagagactttatgtcagcagaagagactgatcacttaatctcttcggtgcatggaatgagaaatggctccacaattgataatgcttctgtggatgcagtgaattttccaactatgggtattcctgtagatgcaaaggatcctacttcctcaaggatcgaagaaaggatctcagcttggacctttctgccaaaaggaaacagcaagccattgcatgttctgcattctggacgtgagagttcaaaggggaattatagttattttgagatgaactccacactcaagtccagcgaaccattaatggcgactgtcattttgtatctatcaaatgtgacacagggtggtcagatcctcttccctgagtcagagaataagatattgtctgactgtacgaagagtagcgactccctgagaccaactaaaggaaatgcaattgtgttcttcaatgtccacctcgatgcatcccctgaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="94609" stop="92468"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94309" g_stop="94201" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="109" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94200" i_stop="93972" i_length="229">
            <donor d_prob="0.603" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93971" g_stop="93914" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="167" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93828" g_stop="93739" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="257" r_length="90" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93738" i_stop="93314" i_length="425">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.929" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93313" g_stop="93256" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="315" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93255" i_stop="93133" i_length="123">
            <donor d_prob="0.981" d_score="1.00"/>
            <acceptor a_prob="0.949" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="93132" g_stop="92960" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="488" r_length="173" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92959" i_stop="92871" i_length="89">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="92870" g_stop="92768" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="489" r_stop="591" r_length="103" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E233185" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>591</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E233185" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94309" e_stop="94201"/>
          <exon e_start="93971" e_stop="93914"/>
          <exon e_start="93828" e_stop="93739"/>
          <exon e_start="93313" e_stop="93256"/>
          <exon e_start="93132" e_stop="92960"/>
          <exon e_start="92870" e_stop="92768"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAGGTCAGGTAGTCTATTCAATCATTAACCTTGTTACTTCTTCAATATGTGGTGGCATGTGAAGAAATTTTAAAAACGCAAAATTCTGCATTTAAGTAAGTTTACCCAAAAAGAGAAGAAGAAAAGTTTTCTTTGTTATGTTGGTGTTTTGAAGGCATGCTTGTTTGGCTTCCTGGTTAATAATTCTCTGTATGGACTATGGAGGAATAATGAATATTTTTTCTTGAAATAGGGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCGGTAAATCAATGCCTCACAACTTGTACTGCTATACTTTTTCTCTAGAAAGTTTCTAAAATGTGTCTTCGCATGAATCCATTTATAGGTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAGGTAAGTTCTTGTTATCTACACGGTTCTTTATATGAGCTAATGCTTTTTCAAAGCATAGATGTGACTAAGCATTTGTATTATTTAGATAGTGTTTAGTCTTGTAAATTGAAGATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGAAAATGGAATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGCGAATGGACTCCAGATATTAGTAATGATGCATTAGGGTGCTATAAACTCTGCTTATGCTTCCCATGAGAATGGTCTCCATGCTCACTGAATTTGCTGGTTGAGAAAGCAGTTTATGTTAATAAAACACAGTACTCAGTACTTGTAACATGTTTCTTTGTATTGTTCTTTAAATTCTAGGATCCTACTAATGTTACCTTTATCAAAAAATTCTAGGATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAGGTAGTTTTCATTGCCAGACATATAAGTTCCATTTGTTTCTTTCTAGGTACCCCTCCCAACTGAAGGTTTTGAGTCTGCCTTTTTCAGTGTTGTATGATTGACCGCTATCATCCTTGCCTTCAGGAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAGGTAAAATAGAGGTGCTTTGTACTTTAATTTCGTAATGACATCTTTTCTGTTTGTGCTTTTGTTTTAATTTATTTGAACTCCTGATGTAGAATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACA</genome_strand>
        <mrna_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAG.....................................................................................................................................................................................................................................GGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG.....................................................................................GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAG...........................................................................................................................GAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAG.........................................................................................AATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E233102" ref_strand="+" ref_description="SGN-E233102 [cLED-6-F20]">
      <seq>aattgagggctgaggaggtgaatggggatgccattatacagtcgggccatcctgtacgctctaatagatttgatccctcacgcgtcgttcaactctcgtggcgaccaagggttttcttgtatagagactttatgtcagcagaagagactgatcacttaatctcttcggtgcatggaatgagaaatggctccacaattgataatgcttctgtggatgcagtgaattttccaactatgggtattcctgtagatgcaaaggatcctacttcctcaaggatcgaagaaaggatctcagcttggacctttctgccaaaaggaaacagcaagccattgcatgttctgcattctggacgtgagagttcaaaggggaattatagttattttgagatgaactccacactcaagtccagcgaaccattaatggcgactgtcattttgtatctatcaaatgtgacacagggtggtcagatcctcttccctgagtcagagaataagatattgtctgactgtacgaagagtagcgactccctgagaccaactaaaggaaatgcaattgtgttcttcaatgtccacctcgatgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="94609" stop="92478"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94309" g_stop="94201" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="109" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94200" i_stop="93972" i_length="229">
            <donor d_prob="0.603" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93971" g_stop="93914" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="167" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93828" g_stop="93739" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="257" r_length="90" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93738" i_stop="93314" i_length="425">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.929" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93313" g_stop="93256" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="315" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93255" i_stop="93133" i_length="123">
            <donor d_prob="0.981" d_score="1.00"/>
            <acceptor a_prob="0.949" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="93132" g_stop="92960" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="488" r_length="173" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92959" i_stop="92871" i_length="89">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="92870" g_stop="92778" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="489" r_stop="581" r_length="93" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E233102" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>581</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E233102" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94309" e_stop="94201"/>
          <exon e_start="93971" e_stop="93914"/>
          <exon e_start="93828" e_stop="93739"/>
          <exon e_start="93313" e_stop="93256"/>
          <exon e_start="93132" e_stop="92960"/>
          <exon e_start="92870" e_stop="92778"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAGGTCAGGTAGTCTATTCAATCATTAACCTTGTTACTTCTTCAATATGTGGTGGCATGTGAAGAAATTTTAAAAACGCAAAATTCTGCATTTAAGTAAGTTTACCCAAAAAGAGAAGAAGAAAAGTTTTCTTTGTTATGTTGGTGTTTTGAAGGCATGCTTGTTTGGCTTCCTGGTTAATAATTCTCTGTATGGACTATGGAGGAATAATGAATATTTTTTCTTGAAATAGGGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCGGTAAATCAATGCCTCACAACTTGTACTGCTATACTTTTTCTCTAGAAAGTTTCTAAAATGTGTCTTCGCATGAATCCATTTATAGGTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAGGTAAGTTCTTGTTATCTACACGGTTCTTTATATGAGCTAATGCTTTTTCAAAGCATAGATGTGACTAAGCATTTGTATTATTTAGATAGTGTTTAGTCTTGTAAATTGAAGATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGAAAATGGAATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGCGAATGGACTCCAGATATTAGTAATGATGCATTAGGGTGCTATAAACTCTGCTTATGCTTCCCATGAGAATGGTCTCCATGCTCACTGAATTTGCTGGTTGAGAAAGCAGTTTATGTTAATAAAACACAGTACTCAGTACTTGTAACATGTTTCTTTGTATTGTTCTTTAAATTCTAGGATCCTACTAATGTTACCTTTATCAAAAAATTCTAGGATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAGGTAGTTTTCATTGCCAGACATATAAGTTCCATTTGTTTCTTTCTAGGTACCCCTCCCAACTGAAGGTTTTGAGTCTGCCTTTTTCAGTGTTGTATGATTGACCGCTATCATCCTTGCCTTCAGGAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAGGTAAAATAGAGGTGCTTTGTACTTTAATTTCGTAATGACATCTTTTCTGTTTGTGCTTTTGTTTTAATTTATTTGAACTCCTGATGTAGAATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCA</genome_strand>
        <mrna_strand>AATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAG.....................................................................................................................................................................................................................................GGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG.....................................................................................GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAG...........................................................................................................................GAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAG.........................................................................................AATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E367702" ref_strand="+" ref_description="SGN-E367702 [cLPT-14-A5]">
      <seq>gcatgaagttccagatggcgtaggagtgagtcgaaacttcacagatcccttcggaaattcgaacaactgtgtcagtaaaactctgcatttccccaaaaaggttacaacaatggcgaactttctttgggttttcatcttcgtggctttggggatctgttccgagcttcttttcgctgaaaaaggccgaaaagaattgagggctgaggaggtaaatggggatgccattatacagtcgggccatcctttacgctctaatagatttgatccctcactcgtcgttcaagtctcgtggcaaccaaggtcagggttttcttgtatagagattttctgtcagatgaagagactgatcacttaatctcttcggtgcatggaatgagaaatagctccacaattgataatgcttctgtggatgcagtgaagtttccaactatgggtattcccgtaaatgcaaaggatcctacttcctcaaggatcgaagaaaggatctcagcttggacctttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="96153" stop="92964"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95853" g_stop="95674" g_length="180"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="180" r_length="180" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95673" i_stop="94321" i_length="1353">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94320" g_stop="94196" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="181" r_stop="305" r_length="125" r_score="0.960"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94195" i_stop="93972" i_length="224">
            <donor d_prob="0.982" d_score="0.94"/>
            <acceptor a_prob="0.974" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93971" g_stop="93914" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="306" r_stop="363" r_length="58" r_score="0.931"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85">
            <donor d_prob="0.976" d_score="0.92"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93828" g_stop="93739" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="364" r_stop="453" r_length="90" r_score="0.956"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93738" i_stop="93314" i_length="425">
            <donor d_prob="1.000" d_score="0.94"/>
            <acceptor a_prob="0.929" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="93313" g_stop="93264" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="454" r_stop="503" r_length="50" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E367702" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>503</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E367702" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95853" e_stop="95674"/>
          <exon e_start="94320" e_stop="94196"/>
          <exon e_start="93971" e_stop="93914"/>
          <exon e_start="93828" e_stop="93739"/>
          <exon e_start="93313" e_stop="93264"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCATGAAGTTCCAGATGGCGTAGGAGTGAGTCGAAACTTCACAGATCCCTTTGGAAATTCGAACAACTGTGTCAGTAAAACTCTGCATTTCCCCAAAAAGGTTACAACAATGGCGAACTTTCTTTGGGTTTTCATCTTCGTGGCTTTGGGGATCTGTTCCGAGCTTCTTTTCGCTGAAAAGTCAGTAAAGTTGTCCCAATTTCCCTGTATTTTATTATCTTTGATTTCTATTGCTCTTTTAAGTAATTGGTTCCTTAATACTCTATAGTAATCGCTATGTTGTTCATGATATTTGAATTCAAAACATATCTTGATCTGGGTTCATTATGTGATGTAGTTTTTATATGGGTATTCATAGTTTTTAAGGTTACTTAGCAGTACGATTGAAATAATCATAAAAGTCTTCATAAGTGAGTAATCAATTTGTTTGTTTGGTTTTGAGAAAGTAAAGAAATACTTTTTGAATCTTGTAAAAGGGGTGTGTTTGTTGCCAATCTGCATTTGAAAAACAGAATTACCGAAACTTTGCACGACGGCACGAGGGTTTCTATCTTTCCAACCCTTTTAACCATTACAATTAATAATAGGAGTCGTATTTTTCTTTCCATGGCTGATGAGTAACAAATGCCCTTTCATTAAAGCATAAAATGACTTTTCAAAGTTCCCAACTCTTCAAGTTCTCAACTTTTCAAGTTCCTCTATTTTCCATCTATTTTTGCTATATACCCAACAGTGTTTGCTACGAAGGAAAATGTTTTCCTTGAAGTCAAGTGTGTTTCTCACTTATTTTCTTTGTTTGGTAATTAAAAAGAAAATATTATACTAAGAGCATTTATATGTTATCTAGCAAACTTTATGGAGGTGGAATGGGGGGATTCGGAGGTGGCAAGGGTGGAATGGTCAAGGGTTGGGGGAATTGGGTGGGTGGGGAGGAGACAATACACTTGAAATGTCACTTATGAACTTGTTTTCCTACTTCCATTAGGAAAGTCATTTTTCTCATTTCGAAGAACTTCTTTTCCTAGAGGAAATGTTCTCCAAACCTTTTGAGTTTTGACCAACCAAACAGGAAGATTGGAAAACATGTACCAAAATACCCTTTAAATTTTGTGGTTTTAAACATGTTCATGTGGAAAGCTAAATTAAGAGTTGCCAAAAAAAGAAAAAAAACATTTCTTTTTGAAATGAACAAAAAAGAAAAGTAAGACAAAGAAATTTAAACTGAGAGTAGTATAAAGTGCCCTTTTCTGTTCTTTCCCCCCTAAAAGTTTCCGTCTTTTGAGCTTAGAAGTTGGCAGCTTCTATGAGTGTGTCAAAAATATTTTTTAATATTGGGAGTTCGGAAAAGAAACTGATTTATCTTGTTGGGTTGTGGTTTTCAAGAGAGACATTTTTCGACTGTACTGTAGAAGATATACTACTCAACTAGTTATAAGCTGCAAATTATTAAATGTAAGAAGATCAATGATAACCATTAATTTTGGAGTGATTTTTATAAATGGTGCTTGACATGATTACAACAATTTGTTTCAGAGGCCGAAAAGAATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAGGTCAGGTAGTCTATTCAATCATTAACCTTGTTACTTCTTCAATATGTGGTGGCATGTGAAGAAATTTTAAAAACGCAAAATTCTGCATTTAAGTAAGTTTACCCAAAAAGAGAAGAAGAAAAGTTTTCTTTGTTATGTTGGTGTTTTGAAGGCATGCTTGTTTGGCTTCCTGGTTAATAATTCTCTGTATGGACTATGGAGGAATAATGAATATTTTTTCTTGAAATAGGGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCGGTAAATCAATGCCTCACAACTTGTACTGCTATACTTTTTCTCTAGAAAGTTTCTAAAATGTGTCTTCGCATGAATCCATTTATAGGTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAGGTAAGTTCTTGTTATCTACACGGTTCTTTATATGAGCTAATGCTTTTTCAAAGCATAGATGTGACTAAGCATTTGTATTATTTAGATAGTGTTTAGTCTTGTAAATTGAAGATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGAAAATGGAATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGCGAATGGACTCCAGATATTAGTAATGATGCATTAGGGTGCTATAAACTCTGCTTATGCTTCCCATGAGAATGGTCTCCATGCTCACTGAATTTGCTGGTTGAGAAAGCAGTTTATGTTAATAAAACACAGTACTCAGTACTTGTAACATGTTTCTTTGTATTGTTCTTTAAATTCTAGGATCCTACTAATGTTACCTTTATCAAAAAATTCTAGGATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCT</genome_strand>
        <mrna_strand>GCATGAAGTTCCAGATGGCGTAGGAGTGAGTCGAAACTTCACAGATCCCTTCGGAAATTCGAACAACTGTGTCAGTAAAACTCTGCATTTCCCCAAAAAGGTTACAACAATGGCGAACTTTCTTTGGGTTTTCATCTTCGTGGCTTTGGGGATCTGTTCCGAGCTTCTTTTCGCTGAAAA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGCCGAAAAGAATTGAGGGCTGAGGAGGTAAATGGGGATGCCATTATACAGTCGGGCCATCCTTTACGCTCTAATAGATTTGATCCCTCACTCGTCGTTCAAGTCTCGTGGCAACCAAGGTCAG................................................................................................................................................................................................................................GGTTTTCTTGTATAGAGATTTTCTGTCAGATGAAGAGACTGATCACTTAATCTCTTCG.....................................................................................GTGCATGGAATGAGAAATAGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAAGTTTCCAACTATGGGTATTCCCGTAAATGCAAAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E250405" ref_strand="+" ref_description="SGN-E250405 [cLEG-6-F23]">
      <seq>tcttgtatagagactttatgtcagcagaagagactgatcacttaatctcttcggtgcatggaatgagaaatggctccacaattgataatgcttctgtggatgcagtgaattttccaactatgggtattcctgtagatgcaaaggtaagttcttgttatctacacggttctttatatgagctaatgctttttcaaagcatagatgtgactaagcatttgtattatttagatagtgtttagtcttgtaaattgaagatattagtaattatgcattagggttctataaactctgcttaccatgaaaatggaatattagtaattatgcattagggttctataaactctgcttaccatgcgaatggactccagatattagtaatgatgcattagggtgctataaactctgcttatgcttcccatgagaatggtctccatgctcactgaatttgctggttgagaaagcagtttatgttaataaaacacagtactcagtacttgtaacatgtttctttggattggtctttaaattctaagatcctactaatgttacctttatcaaaaaattc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="94266" stop="93017"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="93966" g_stop="93914" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93828" g_stop="93317" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="565" r_length="512" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E250405" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>565</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E250405" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="93966" e_stop="93914"/>
          <exon e_start="93828" e_stop="93317"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCGGTAAATCAATGCCTCACAACTTGTACTGCTATACTTTTTCTCTAGAAAGTTTCTAAAATGTGTCTTCGCATGAATCCATTTATAGGTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAGGTAAGTTCTTGTTATCTACACGGTTCTTTATATGAGCTAATGCTTTTTCAAAGCATAGATGTGACTAAGCATTTGTATTATTTAGATAGTGTTTAGTCTTGTAAATTGAAGATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGAAAATGGAATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGCGAATGGACTCCAGATATTAGTAATGATGCATTAGGGTGCTATAAACTCTGCTTATGCTTCCCATGAGAATGGTCTCCATGCTCACTGAATTTGCTGGTTGAGAAAGCAGTTTATGTTAATAAAACACAGTACTCAGTACTTGTAACATGTTTCTTTGTATTGTTCTTTAAATTCTAGGATCCTACTAATGTTACCTTTATCAAAAAATTC</genome_strand>
        <mrna_strand>TCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG.....................................................................................GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAGGTAAGTTCTTGTTATCTACACGGTTCTTTATATGAGCTAATGCTTTTTCAAAGCATAGATGTGACTAAGCATTTGTATTATTTAGATAGTGTTTAGTCTTGTAAATTGAAGATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGAAAATGGAATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGCGAATGGACTCCAGATATTAGTAATGATGCATTAGGGTGCTATAAACTCTGCTTATGCTTCCCATGAGAATGGTCTCCATGCTCACTGAATTTGCTGGTTGAGAAAGCAGTTTATGTTAATAAAACACAGTACTCAGTACTTGTAACATGTTTCTTTGGATTGGTCTTTAAATTCTAAGATCCTACTAATGTTACCTTTATCAAAAAATTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292662" ref_strand="+" ref_description="SGN-E292662 [cLET-11-E22]">
      <seq>tgagtcgaaacttcacagatccctttggaaattcgaacaactgtgtcagtaaaactctgcatttccccaaaaaggttacaacaatggcgaactttctttgggttttcatcttcgtggctttggggatctgttccgagcttcttttcgctgaaaaaggccgaaaagaattgagggctgaggaggtgaatggggatgccattatacagtcgggccatcctgtacgctctaatagatttgatccctcacgcgtcgttcaactctcgtggcgaccaaaggttttcttgtatagagactttatgtcagcagaagagactgatcacttaatctcttcggtgcatggaatgagaaatggctccacaattgataatgcttctgtggatgcagtgaattttccaactatgggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="96127" stop="93457"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95827" g_stop="95674" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="154" r_length="154" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95673" i_stop="94321" i_length="1353">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94320" g_stop="94201" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="155" r_stop="274" r_length="120" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94200" i_stop="93972" i_length="229">
            <donor d_prob="0.603" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93971" g_stop="93914" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="275" r_stop="332" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93828" g_stop="93757" g_length="72"/>
          <reference_exon_boundary r_type="cDNA" r_start="333" r_stop="404" r_length="72" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E292662" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>404</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292662" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95827" e_stop="95674"/>
          <exon e_start="94320" e_stop="94201"/>
          <exon e_start="93971" e_stop="93914"/>
          <exon e_start="93828" e_stop="93757"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAGTCGAAACTTCACAGATCCCTTTGGAAATTCGAACAACTGTGTCAGTAAAACTCTGCATTTCCCCAAAAAGGTTACAACAATGGCGAACTTTCTTTGGGTTTTCATCTTCGTGGCTTTGGGGATCTGTTCCGAGCTTCTTTTCGCTGAAAAGTCAGTAAAGTTGTCCCAATTTCCCTGTATTTTATTATCTTTGATTTCTATTGCTCTTTTAAGTAATTGGTTCCTTAATACTCTATAGTAATCGCTATGTTGTTCATGATATTTGAATTCAAAACATATCTTGATCTGGGTTCATTATGTGATGTAGTTTTTATATGGGTATTCATAGTTTTTAAGGTTACTTAGCAGTACGATTGAAATAATCATAAAAGTCTTCATAAGTGAGTAATCAATTTGTTTGTTTGGTTTTGAGAAAGTAAAGAAATACTTTTTGAATCTTGTAAAAGGGGTGTGTTTGTTGCCAATCTGCATTTGAAAAACAGAATTACCGAAACTTTGCACGACGGCACGAGGGTTTCTATCTTTCCAACCCTTTTAACCATTACAATTAATAATAGGAGTCGTATTTTTCTTTCCATGGCTGATGAGTAACAAATGCCCTTTCATTAAAGCATAAAATGACTTTTCAAAGTTCCCAACTCTTCAAGTTCTCAACTTTTCAAGTTCCTCTATTTTCCATCTATTTTTGCTATATACCCAACAGTGTTTGCTACGAAGGAAAATGTTTTCCTTGAAGTCAAGTGTGTTTCTCACTTATTTTCTTTGTTTGGTAATTAAAAAGAAAATATTATACTAAGAGCATTTATATGTTATCTAGCAAACTTTATGGAGGTGGAATGGGGGGATTCGGAGGTGGCAAGGGTGGAATGGTCAAGGGTTGGGGGAATTGGGTGGGTGGGGAGGAGACAATACACTTGAAATGTCACTTATGAACTTGTTTTCCTACTTCCATTAGGAAAGTCATTTTTCTCATTTCGAAGAACTTCTTTTCCTAGAGGAAATGTTCTCCAAACCTTTTGAGTTTTGACCAACCAAACAGGAAGATTGGAAAACATGTACCAAAATACCCTTTAAATTTTGTGGTTTTAAACATGTTCATGTGGAAAGCTAAATTAAGAGTTGCCAAAAAAAGAAAAAAAACATTTCTTTTTGAAATGAACAAAAAAGAAAAGTAAGACAAAGAAATTTAAACTGAGAGTAGTATAAAGTGCCCTTTTCTGTTCTTTCCCCCCTAAAAGTTTCCGTCTTTTGAGCTTAGAAGTTGGCAGCTTCTATGAGTGTGTCAAAAATATTTTTTAATATTGGGAGTTCGGAAAAGAAACTGATTTATCTTGTTGGGTTGTGGTTTTCAAGAGAGACATTTTTCGACTGTACTGTAGAAGATATACTACTCAACTAGTTATAAGCTGCAAATTATTAAATGTAAGAAGATCAATGATAACCATTAATTTTGGAGTGATTTTTATAAATGGTGCTTGACATGATTACAACAATTTGTTTCAGAGGCCGAAAAGAATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAGGTCAGGTAGTCTATTCAATCATTAACCTTGTTACTTCTTCAATATGTGGTGGCATGTGAAGAAATTTTAAAAACGCAAAATTCTGCATTTAAGTAAGTTTACCCAAAAAGAGAAGAAGAAAAGTTTTCTTTGTTATGTTGGTGTTTTGAAGGCATGCTTGTTTGGCTTCCTGGTTAATAATTCTCTGTATGGACTATGGAGGAATAATGAATATTTTTTCTTGAAATAGGGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCGGTAAATCAATGCCTCACAACTTGTACTGCTATACTTTTTCTCTAGAAAGTTTCTAAAATGTGTCTTCGCATGAATCCATTTATAGGTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGT</genome_strand>
        <mrna_strand>TGAGTCGAAACTTCACAGATCCCTTTGGAAATTCGAACAACTGTGTCAGTAAAACTCTGCATTTCCCCAAAAAGGTTACAACAATGGCGAACTTTCTTTGGGTTTTCATCTTCGTGGCTTTGGGGATCTGTTCCGAGCTTCTTTTCGCTGAAAA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGCCGAAAAGAATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAA.....................................................................................................................................................................................................................................GGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG.....................................................................................GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E374126" ref_strand="+" ref_description="SGN-E374126 [TUS-33-H23](-)">
      <seq>gaagggccctggaattgatgcaagagagagatcatgtgaaggaaattccagcaaagcaaaagatggagcgacaacagacattaactagagagcacaacgaggagcataaagctgctctacagagagctgtcaccttggctgttccacatgctttttcaccttctcattacggaacttttgatgaactagaggaagaacagtttgatacatcagttcgggattcatccccagggtcatcaagtagaagcaagaccaaagataactgggatgaactgattgagcgtctatatgagaaggatgaatcaggtcataagatattaataagatcaagatcccagtgatacacaatgttataaactcatcattctttgattaaaccatagtttttataatttcatttgattgacactatggtcctttttttttttatttgggtgtgtcagccagcaatggcttgtatcaatgtatttatagaacttacagaacatatggaaaatggatgtatttattagtcctttttttctgtaagtttattatgtgtgaagattcttttcatggagaattgctaagtagttgagcataaggtgaccgttatgttaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="98069" stop="96872"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97759" g_stop="97172" g_length="588"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="602" r_length="588" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E374126" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>588</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E374126" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97759" e_stop="97172"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGATGCAAGAGAGAGATCATGTGAAGGAAATTCCAGCAAAGCAAAAGATGGAGCGACAACAGACATTAACTAGAGAGCACAACGAGGAGCATAAAGCTGCTCTACAGAGAGCTGTCACCTTGGCTGTTCCACATGCTTTTTCACCTTCTCATTACGGAACTTTTGATGAACTAGAGGAAGAACAGTCTGATACATCAGTTCGGGATTCATCCCCAGGGTCATCAAGTAGAAGCAAGACCAAAGATAACTGGGATGAACTGATTGAGCGTCTATATGAGAAGGATGAATCAGGTCATAAGATATTAATAAGATCAAGATCCCAGTGATACACAATGTTATAAACTCATCATTCTTTGATTAAACCATAGTTCTTATAATCTCATTTGATTGACACTATGGTCCTTTTTTTTTTTATTTGGGTGTGTCAGCCAGCAATGGCTTGTATCAATGTATCTATAGAACTTACAGAACATATGGAAAATGGATGTATTTATTAGTCCTTTTTTTCTGTAAGTTTATTATGTGTGAAGATTCTTTTCATGGAGAATTGCTAAGTAGTTGAGCATAAGGTGACCGTTATGTTGAAA</genome_strand>
        <mrna_strand>TTGATGCAAGAGAGAGATCATGTGAAGGAAATTCCAGCAAAGCAAAAGATGGAGCGACAACAGACATTAACTAGAGAGCACAACGAGGAGCATAAAGCTGCTCTACAGAGAGCTGTCACCTTGGCTGTTCCACATGCTTTTTCACCTTCTCATTACGGAACTTTTGATGAACTAGAGGAAGAACAGTTTGATACATCAGTTCGGGATTCATCCCCAGGGTCATCAAGTAGAAGCAAGACCAAAGATAACTGGGATGAACTGATTGAGCGTCTATATGAGAAGGATGAATCAGGTCATAAGATATTAATAAGATCAAGATCCCAGTGATACACAATGTTATAAACTCATCATTCTTTGATTAAACCATAGTTTTTATAATTTCATTTGATTGACACTATGGTCCTTTTTTTTTTTATTTGGGTGTGTCAGCCAGCAATGGCTTGTATCAATGTATTTATAGAACTTACAGAACATATGGAAAATGGATGTATTTATTAGTCCTTTTTTTCTGTAAGTTTATTATGTGTGAAGATTCTTTTCATGGAGAATTGCTAAGTAGTTGAGCATAAGGTGACCGTTATGTTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E356258" ref_strand="+" ref_description="SGN-E356258 [cTOS-20-J20]">
      <seq>acaggtacctgctatttccaccaacacagctaccaggtaactctgcccaccaaggcttgaataaatggaaatcacctagtgttttttgcctttgcggggatctgaaccatttattgtactttatagttcaatactattatgtttctgttttaagtaaaagcatctattccgacagatttggcataacgaccaccataatggtttgcatagtacaatacagtcaatcatgataccattttacgctgcagtgttctactattaggtacatgattgcagcctctgattcatatagtaccatatttgtccattaaaacagatgtggacgatttccacctgttgtgaagactgcagttccagtggatgggagatttgagcacatagttctctcttgtaatgctacttctgatcatgcaattatctggatagagagagaagcacgaagggccctggaattgatgcaagagagagatcatgtgaaggaaattccagcaaagcaaaagatggagcgacaacagacattaactagagagcacaacgaggagcataaagctgctctacagagagctgtcaccttggctgttccacatgctttttcaccttctcattacggaacttttgatgaactagaggaagaacagtctgatacatcagttcgggattcatccccagggtcatncagtagaaagcagaccaaagataactgggatgaactgattgagcgtctatatgagaaggatgaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="99505" stop="97172"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="99205" g_stop="98754" g_length="452"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="452" r_length="452" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="98753" i_stop="97760" i_length="994">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="97759" g_stop="97472" g_length="288"/>
          <reference_exon_boundary r_type="cDNA" r_start="453" r_stop="740" r_length="288" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E356258" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>740</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E356258" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="99205" e_stop="98754"/>
          <exon e_start="97759" e_stop="97472"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAGGTACCTGCTATTTCCACCAACACAGCTACCAGGTAACTCTGCCCACCAAGGCTTGAATAAATGGAAATCACCTAGTGTTTTTTGCCTTTGCGGGGATCTGAACCATTTATTGTACTTTATAGTTCAATACTATTATGTTTCTGTTTTAAGTAAAAGCATCTATTCCGACAGATTTGGCATAACGACCACCATAATGGTTTGCATAGTACAATACAGTCAATCATGATACCATTTTACGCTGCAGTGTTCTACTATTAGGTACATGATTGCAGCCTCTGATTCATATAGTACCATATTTGTCCATTAAAACAGATGTGGACGATTTCCACCTGTTGTGAAGACTGCAGTTCCAGTGGATGGGAGATTTGAGCACATAGTTCTCTCTTGTAATGCTACTTCTGATCATGCAATTATCTGGATAGAGAGAGAAGCACGAAGGGCCCTGGAAGTAAGTTGTCTGCACTTCTTTGACTACTGATGGCTTTTTGTAATTCCAAACAAATTGTCTGTGTACTTTATACGGTCCTTTTACTTTTAAAGATGTGCGAGTTTGGCTGTAGGCTATCTGGAATAGATATTCCATAAATACATGGTTTTGCGTATGCCTACTGCATTCCGCAATAGACACAAAACAGAAATTTTACTGCTGCACTAACTTTGAATTGAGATGGTTCAAAGCTCAAACTAGCACCAATATGTTCAGGAATCCACATCATGTGCTCTCCACCTTATCTTATCAATGATATTGTCTGTACCCAATCCACCCTCGTAGGGCACTTGTGAGCTATCCATCATCAGTTAAGATAGTTTATCAGTGCAATCCTTCTTGGCACAAGTTCATCACTCTTAAGGGTGGTTGAATACAAGTTGCAGCTCTCTTGCGTCTTGATAAAAATTGGTTAAACTTTTTTTTTCCGCAAGTAGTCCATGCCTTTCATTTTATTAGCTGTTTCAGCACTAAGTTGTGAAATTTAAAGCAGCAAACGTGGTTGCATCTATTGGTTCCTTTTAGCCTGTGGATTGATGCGTTCTTGTAACTAGTAGTACTTGTGACTGTAGATGCGTTGAAGAATTTTAGCAACTTATAAGCTCTTTGGAAAAATTTAGAGGATTTTACATAGCCAACTTTGACTTGCTTGGTATTGATGCATAGCTTATTAATAAATTTAGAAGATCTTTAAATATTTCTGGGAAGCTTTGGTAATCAATTCATTTTTCGTACGCAAATATTATTAGTTAAGCCTCGAAATATGAGAGTGTTTTGGCTTGAATATACTTTTAGTGATCAGCTAGTATCTTGTGTCCAATTGAATTGTAAAATGATTTTGCTGCTCTGTTCTATTATGTGCTCCTTGTTTGTATCTATGTTGCTACACGGTAGGTGTTCAAGCTTAAATCGTTTTCAACAATTCTTCACATTCATATATTTTTTGTGCATCCAGTTGATGCAAGAGAGAGATCATGTGAAGGAAATTCCAGCAAAGCAAAAGATGGAGCGACAACAGACATTAACTAGAGAGCACAACGAGGAGCATAAAGCTGCTCTACAGAGAGCTGTCACCTTGGCTGTTCCACATGCTTTTTCACCTTCTCATTACGGAACTTTTGATGAACTAGAGGAAGAACAGTCTGATACATCAGTTCGGGATTCATCCCCAGGGTCATCAAGTAGAAGCAAGACCAAAGATAACTGGGATGAACTGATTGAGCGTCTATATGAGAAGGATGAA</genome_strand>
        <mrna_strand>ACAGGTACCTGCTATTTCCACCAACACAGCTACCAGGTAACTCTGCCCACCAAGGCTTGAATAAATGGAAATCACCTAGTGTTTTTTGCCTTTGCGGGGATCTGAACCATTTATTGTACTTTATAGTTCAATACTATTATGTTTCTGTTTTAAGTAAAAGCATCTATTCCGACAGATTTGGCATAACGACCACCATAATGGTTTGCATAGTACAATACAGTCAATCATGATACCATTTTACGCTGCAGTGTTCTACTATTAGGTACATGATTGCAGCCTCTGATTCATATAGTACCATATTTGTCCATTAAAACAGATGTGGACGATTTCCACCTGTTGTGAAGACTGCAGTTCCAGTGGATGGGAGATTTGAGCACATAGTTCTCTCTTGTAATGCTACTTCTGATCATGCAATTATCTGGATAGAGAGAGAAGCACGAAGGGCCCTGGAA..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGATGCAAGAGAGAGATCATGTGAAGGAAATTCCAGCAAAGCAAAAGATGGAGCGACAACAGACATTAACTAGAGAGCACAACGAGGAGCATAAAGCTGCTCTACAGAGAGCTGTCACCTTGGCTGTTCCACATGCTTTTTCACCTTCTCATTACGGAACTTTTGATGAACTAGAGGAAGAACAGTCTGATACATCAGTTCGGGATTCATCCCCAGGGTCATNCAGTAGAAAGCAGACCAAAGATAACTGGGATGAACTGATTGAGCGTCTATATGAGAAGGATGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E357849" ref_strand="+" ref_description="SGN-E357849 [cTOS-24-M2]">
      <seq>acaggtacctgctatttccaccaacacagctaccaggtaactctgcccaccaaggcttgaataaatggaaatcacctagtgttttttgcctttgcggggatctgaaccatttattgtactttatagttcaatactattatgtttctgttttaagtaaaagcatctattccgacagatttggcataacgaccaccataatggtttgcatagtacaatacagtcaatcatgataccatttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="99505" stop="98666"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="99205" g_stop="98966" g_length="240"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="240" r_length="240" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E357849" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>240</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E357849" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="99205" e_stop="98966"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAGGTACCTGCTATTTCCACCAACACAGCTACCAGGTAACTCTGCCCACCAAGGCTTGAATAAATGGAAATCACCTAGTGTTTTTTGCCTTTGCGGGGATCTGAACCATTTATTGTACTTTATAGTTCAATACTATTATGTTTCTGTTTTAAGTAAAAGCATCTATTCCGACAGATTTGGCATAACGACCACCATAATGGTTTGCATAGTACAATACAGTCAATCATGATACCATTTTA</genome_strand>
        <mrna_strand>ACAGGTACCTGCTATTTCCACCAACACAGCTACCAGGTAACTCTGCCCACCAAGGCTTGAATAAATGGAAATCACCTAGTGTTTTTTGCCTTTGCGGGGATCTGAACCATTTATTGTACTTTATAGTTCAATACTATTATGTTTCTGTTTTAAGTAAAAGCATCTATTCCGACAGATTTGGCATAACGACCACCATAATGGTTTGCATAGTACAATACAGTCAATCATGATACCATTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E374127" ref_strand="+" ref_description="SGN-E374127 [TUS-33-H23]">
      <seq>ggttatatactattgctaacaagtgagaatccacagcattgacttcagaattctcatcaacacttgaatctgctacttggggtgtcgatatttttatgcaaattctgcttttctgaggttcaggagccctaagatgaatgacccattttagactttgactagctgctagttagtctcaaggacattcttaatcaacagtctaacaattaggccataggcaataatgtccgttctctgtggtttaccccctctccttgaatgtgtatacggtgtagcttgtgcccgatgggcatggaagcggtgcctccatagtgcaggacatgacagtgaaaattggagtgttgccacggctgaagaatttgaacctgtccctaggctatgccgatacatattgggtgtatacgaagatgatcttagacaacctcagtgggaaccacctgaaggatatggaattaatccagactgtttaattgtgaagaaaaactatccagataccggtggtcgagcaccaccatatctcttatatttggatcatgatcatgctgacatagttcttgctattagaggtcttaatttggcgaaagagagtgattatgcagtcctgttggacaataagctgggaaaacggaaaatttgatgttgggtatgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="102614" stop="100855"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="102314" g_stop="102164" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="151" r_length="151" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.932" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="101652" g_stop="101155" g_length="498"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="650" r_length="499" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E374127" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>649</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E374127" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102314" e_stop="102164"/>
          <exon e_start="101652" e_stop="101155"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAGGTAATGTTTTCAATGTTCCAAGTGTTAAAGGTGTTGTCTTTGTACTGTTATTTTCCCCATTTATGGTTTATGTTATTGGGTATTAATGGATGTTTGAAGAAAGTATCTTTTTGATGCATGTAGAACTTTCTTATTTAGATTTAATTTTTGGCTCAAAATTAGAATCTTTGCATGAGTTTTTTTAAGATTCATGGATTTAAATGATTCTTCATATAAATTTCATTGAAGGAATTAGTCTTTTCAGGCTGTTTAGAGACTTGTACTCTTAGTTTAGGGTAAGATTGCTGAGATTCTCTACTTTCAAGGAAATCTTAGTTTACATCTGAAATGAGCTCAATTGGAACAGAGTGGATATTGAAGATTCATATAGCCAACCCCAACTAGTTTGAGATTTTGGCGTAGTTGATTGACTGATTATTTGTTTGAATGTTTGTCAACTACTGATTTAAGTTGTGGGCATTGTGGCTTTTATATTAAGGTATCCTTATTATCTGCTATGTTAATCTTGCAGACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTCTTGCTATTAGAGGTCTTAATTTGGCGAAGGAGAGTGATTATGCAGTCCTGTTGGACAATAAGCTGGGAAAACGG-AAATTTGATGGTGGGTATGTT</genome_strand>
        <mrna_strand>GGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTCTTGCTATTAGAGGTCTTAATTTGGCGAAAGAGAGTGATTATGCAGTCCTGTTGGACAATAAGCTGGGAAAACGGAAAATTTGATGTTGGGTATGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E314302" ref_strand="+" ref_description="SGN-E314302 [cTOA-21-E20]">
      <seq>agagagcaagagcatggccctctaaatactcaatattttagccaagccaagttgacttccaacaactcagcaataattgcattgacttcagaattctcatcaacacttgaatctgctacttggggtgtcgatatttttatgcaaattctgcttttctgaggttcaggagccctaagatgaatgacccattttagactttgactagctgctagttagtctcaaggacattcttaatcaacagtctaacaattaggccataggcaataatgtccgttctctgtggtttaccccctctccttgaatgtgtatacggtgtagcttgtgcccgatgggcatggaagcggtgcctccatagtgcaggacatgacagtgaaaattggagtgttgccacggctgaagaatttgaacctgtccctaggctatgccgatacatattgggtgtatacgaagatgatcttagacaacctcagtgggaaccacctgaaggatatggaattaatccagactgtttaattgtgaagaaaactatccagataccggtggtcgagcaccacatatctcttatatttggatcatgatcatgctgacatagttcttgctattagaggtcttaatttggcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="102747" stop="100924"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="102448" g_stop="102370" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="79" r_length="79" r_score="0.975"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="102369" i_stop="102279" i_length="91">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="102278" g_stop="102164" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="80" r_stop="194" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.932" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="101652" g_stop="101224" g_length="429"/>
          <reference_exon_boundary r_type="cDNA" r_start="195" r_stop="621" r_length="427" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E314302" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>623</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E314302" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102448" e_stop="102370"/>
          <exon e_start="102278" e_stop="102164"/>
          <exon e_start="101652" e_stop="101224"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGGAGCAAGAGCATGGCCCTCTAAATACTCAATATTTTAGCCAAGCCAAGTTGACTTCCAACAACTCAGCAATAATTGGTACACATCTGTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAGGTAATGTTTTCAATGTTCCAAGTGTTAAAGGTGTTGTCTTTGTACTGTTATTTTCCCCATTTATGGTTTATGTTATTGGGTATTAATGGATGTTTGAAGAAAGTATCTTTTTGATGCATGTAGAACTTTCTTATTTAGATTTAATTTTTGGCTCAAAATTAGAATCTTTGCATGAGTTTTTTTAAGATTCATGGATTTAAATGATTCTTCATATAAATTTCATTGAAGGAATTAGTCTTTTCAGGCTGTTTAGAGACTTGTACTCTTAGTTTAGGGTAAGATTGCTGAGATTCTCTACTTTCAAGGAAATCTTAGTTTACATCTGAAATGAGCTCAATTGGAACAGAGTGGATATTGAAGATTCATATAGCCAACCCCAACTAGTTTGAGATTTTGGCGTAGTTGATTGACTGATTATTTGTTTGAATGTTTGTCAACTACTGATTTAAGTTGTGGGCATTGTGGCTTTTATATTAAGGTATCCTTATTATCTGCTATGTTAATCTTGCAGACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTCTTGCTATTAGAGGTCTTAATTTGGCG</genome_strand>
        <mrna_strand>AGAGAGCAAGAGCATGGCCCTCTAAATACTCAATATTTTAGCCAAGCCAAGTTGACTTCCAACAACTCAGCAATAATTG...........................................................................................CATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAG-AAAACTATCCAGATACCGGTGGTCGAGCACCA-CATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTCTTGCTATTAGAGGTCTTAATTTGGCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E305627" ref_strand="+" ref_description="SGN-E305627 [cLEX-14-H11]">
      <seq>ggttatatactattgctaacaagtgagaatccacagcattgacttcagaattctcatcaacacttgaatctgctacttggggtgtcgatatttttatgcaaattctgcttttctgaggttcaggagccctaagatgaatgacccattttagactttgactagctgctagttagtctcaaggacattcttaatcaacagtctaacaattaggccataggcaataatgtccgttctctgtggtttaccccctctccttgaatgtgtatacggtgtagcttgtgcccgatgggcatggaagcggtgcctccatagtgcaggacatgacagtgaaaattggagtgttgccacggctgaagaatttgaacctgtccctaggctatgccgatacatattgggtgtatacgaagatgatcttagacaacctcagtgggaaccacctgaaggatatggaattaatccagactgtttaattgtgaagaaaaactatccagataccggtggtcgagcaccaccatatctcttatatttggatcatgatcatgctgacatagttcttgctattag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="102614" stop="100940"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="102314" g_stop="102164" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="151" r_length="151" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.932" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="101652" g_stop="101240" g_length="413"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="564" r_length="413" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E305627" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>564</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E305627" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102314" e_stop="102164"/>
          <exon e_start="101652" e_stop="101240"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAGGTAATGTTTTCAATGTTCCAAGTGTTAAAGGTGTTGTCTTTGTACTGTTATTTTCCCCATTTATGGTTTATGTTATTGGGTATTAATGGATGTTTGAAGAAAGTATCTTTTTGATGCATGTAGAACTTTCTTATTTAGATTTAATTTTTGGCTCAAAATTAGAATCTTTGCATGAGTTTTTTTAAGATTCATGGATTTAAATGATTCTTCATATAAATTTCATTGAAGGAATTAGTCTTTTCAGGCTGTTTAGAGACTTGTACTCTTAGTTTAGGGTAAGATTGCTGAGATTCTCTACTTTCAAGGAAATCTTAGTTTACATCTGAAATGAGCTCAATTGGAACAGAGTGGATATTGAAGATTCATATAGCCAACCCCAACTAGTTTGAGATTTTGGCGTAGTTGATTGACTGATTATTTGTTTGAATGTTTGTCAACTACTGATTTAAGTTGTGGGCATTGTGGCTTTTATATTAAGGTATCCTTATTATCTGCTATGTTAATCTTGCAGACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTCTTGCTATTAG</genome_strand>
        <mrna_strand>GGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTCTTGCTATTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E302544" ref_strand="+" ref_description="SGN-E302544 [cLEX-1-I23]">
      <seq>attggtacacatctgtctcctgatttcatttgatcatttcgatttctgcctcagttgtgggttatatactattgctaacaagtgagaatccacagcattgacttcagaattctcatcaacacttgaatctgctacttggggtgtcgatatttttatgcaaattctgcttttctgaggttcaggagccctaagatgaatgacccattttagactttgactagctgctagttagtctcaaggacattcttaatcaacagtctaacaattaggccataggcaataatgtccgttctctgtggtttaccccctctccttgaatgtgtatacggtgtagcttgtgcccgatgggcatggaagcggtgcctccatagtgcaggacatgacagtgaaaattggagtgttgccacggctgaagaatttgaacctgtccctaggctatgccgatacatattgggtgtatacgaagatgatcttagacaacctcagtgggaaccacctgaaggatatggaattaatccagactgtttaattgtgaagaaaaactatccagataccgggggtcgagcaccaccatatctcttatatttggatcatggtcatgctgacatagttcttgctatta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="102673" stop="100941"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="102373" g_stop="102164" g_length="210"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="210" r_length="210" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.932" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="101652" g_stop="101241" g_length="412"/>
          <reference_exon_boundary r_type="cDNA" r_start="211" r_stop="622" r_length="412" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E302544" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>622</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E302544" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102373" e_stop="102164"/>
          <exon e_start="101652" e_stop="101241"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTGGTACACATCTGTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAGGTAATGTTTTCAATGTTCCAAGTGTTAAAGGTGTTGTCTTTGTACTGTTATTTTCCCCATTTATGGTTTATGTTATTGGGTATTAATGGATGTTTGAAGAAAGTATCTTTTTGATGCATGTAGAACTTTCTTATTTAGATTTAATTTTTGGCTCAAAATTAGAATCTTTGCATGAGTTTTTTTAAGATTCATGGATTTAAATGATTCTTCATATAAATTTCATTGAAGGAATTAGTCTTTTCAGGCTGTTTAGAGACTTGTACTCTTAGTTTAGGGTAAGATTGCTGAGATTCTCTACTTTCAAGGAAATCTTAGTTTACATCTGAAATGAGCTCAATTGGAACAGAGTGGATATTGAAGATTCATATAGCCAACCCCAACTAGTTTGAGATTTTGGCGTAGTTGATTGACTGATTATTTGTTTGAATGTTTGTCAACTACTGATTTAAGTTGTGGGCATTGTGGCTTTTATATTAAGGTATCCTTATTATCTGCTATGTTAATCTTGCAGACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTCTTGCTATTA</genome_strand>
        <mrna_strand>ATTGGTACACATCTGTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGGGGTCGAGCACCACCATATCTCTTATATTTGGATCATGGTCATGCTGACATAGTTCTTGCTATTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E311860" ref_strand="+" ref_description="SGN-E311860 [cTOA-15-M12]">
      <seq>aaaaggacaacaaagaagtaccctttcgtgaaggagcaagagcatggccctctaaatactcaatattttagccaagccaagttgacttccaacaactcagcaataattgcattgacttcagaattctcatcaacacttgaatctgctacttggggtgtcgatatttttatgcaaattctgcttttctgaggttcaggagccctaagatgaatgacccattttagactttgactagctgctagttagtctcaaggacattcttaatcaacagtctaacaattaggccataggcaataatgtccgttctctgtggtttaccccctctccttgaatgtgtatacggtgtagcttgtgcccgatgggcatggaagcggtgcctccatagtgcaggacatgacagtgaaaattggagtgttgccacggctgaagaatttgaacctgtccctaggctatgccgatacatattgggtgtatacgaagatgatcttagacaacctcagtgggaaccacctgaaggatatggaattaatccagactgtttaattgtgaagaaaaactatccagataccggtggtcgagcaccaccatatctcttatatttggatcatgatcatgctgacatagttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="102778" stop="100950"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="102478" g_stop="102370" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="109" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="102369" i_stop="102279" i_length="91">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="102278" g_stop="102164" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="224" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.932" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="101652" g_stop="101250" g_length="403"/>
          <reference_exon_boundary r_type="cDNA" r_start="225" r_stop="627" r_length="403" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E311860" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>627</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E311860" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102478" e_stop="102370"/>
          <exon e_start="102278" e_stop="102164"/>
          <exon e_start="101652" e_stop="101250"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAGGACAACAAAGAAGTACCCTTTCGTGAAGGAGCAAGAGCATGGCCCTCTAAATACTCAATATTTTAGCCAAGCCAAGTTGACTTCCAACAACTCAGCAATAATTGGTACACATCTGTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAGGTAATGTTTTCAATGTTCCAAGTGTTAAAGGTGTTGTCTTTGTACTGTTATTTTCCCCATTTATGGTTTATGTTATTGGGTATTAATGGATGTTTGAAGAAAGTATCTTTTTGATGCATGTAGAACTTTCTTATTTAGATTTAATTTTTGGCTCAAAATTAGAATCTTTGCATGAGTTTTTTTAAGATTCATGGATTTAAATGATTCTTCATATAAATTTCATTGAAGGAATTAGTCTTTTCAGGCTGTTTAGAGACTTGTACTCTTAGTTTAGGGTAAGATTGCTGAGATTCTCTACTTTCAAGGAAATCTTAGTTTACATCTGAAATGAGCTCAATTGGAACAGAGTGGATATTGAAGATTCATATAGCCAACCCCAACTAGTTTGAGATTTTGGCGTAGTTGATTGACTGATTATTTGTTTGAATGTTTGTCAACTACTGATTTAAGTTGTGGGCATTGTGGCTTTTATATTAAGGTATCCTTATTATCTGCTATGTTAATCTTGCAGACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTC</genome_strand>
        <mrna_strand>AAAAGGACAACAAAGAAGTACCCTTTCGTGAAGGAGCAAGAGCATGGCCCTCTAAATACTCAATATTTTAGCCAAGCCAAGTTGACTTCCAACAACTCAGCAATAATTG...........................................................................................CATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E305075" ref_strand="+" ref_description="SGN-E305075 [cLEY-18-A11]">
      <seq>gtctcctgatttcatttgatcatttcgatttctgcctcagttgtgggttatatactattgctaacaagtgagaatccacagcattgacttcagaattctcatcaacacttgaatctgctacttggggtgtcgatatttttatgcaaattctgcttttctgaggttcaggagccctaagatgaatgacccattttagactttgactagctgctagttagtctcaaggacattcttaatcaacagtctaacaattaggccataggcaataatgtccgttctctgtggtttaccccctctccttgaatgtgtatacggtgtagcttgtgcccgatgggcatggaagcggtgcctccatagtgcaggacatgacagtgaaaattggagtgttgccacggctgaagaatttgaacctgtccctaggctatgccgatacatattgggtgtatacgaagatgatcttagacaacctcagtgggaaccacctgaaggatatggaattaatccagactgtttaattgtgaagaaaaactatccagataccggtggtcgagcaccaccatatctcttatatttggatcatgatcatgctgaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="102659" stop="100956"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="102359" g_stop="102164" g_length="196"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="196" r_length="196" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.932" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="101652" g_stop="101256" g_length="397"/>
          <reference_exon_boundary r_type="cDNA" r_start="197" r_stop="593" r_length="397" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E305075" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>593</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E305075" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102359" e_stop="102164"/>
          <exon e_start="101652" e_stop="101256"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAGGTAATGTTTTCAATGTTCCAAGTGTTAAAGGTGTTGTCTTTGTACTGTTATTTTCCCCATTTATGGTTTATGTTATTGGGTATTAATGGATGTTTGAAGAAAGTATCTTTTTGATGCATGTAGAACTTTCTTATTTAGATTTAATTTTTGGCTCAAAATTAGAATCTTTGCATGAGTTTTTTTAAGATTCATGGATTTAAATGATTCTTCATATAAATTTCATTGAAGGAATTAGTCTTTTCAGGCTGTTTAGAGACTTGTACTCTTAGTTTAGGGTAAGATTGCTGAGATTCTCTACTTTCAAGGAAATCTTAGTTTACATCTGAAATGAGCTCAATTGGAACAGAGTGGATATTGAAGATTCATATAGCCAACCCCAACTAGTTTGAGATTTTGGCGTAGTTGATTGACTGATTATTTGTTTGAATGTTTGTCAACTACTGATTTAAGTTGTGGGCATTGTGGCTTTTATATTAAGGTATCCTTATTATCTGCTATGTTAATCTTGCAGACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACA</genome_strand>
        <mrna_strand>GTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E302555" ref_strand="+" ref_description="SGN-E302555 [cLEX-1-K23]">
      <seq>ttggtacacatttgtctcctgatttcatttgatcatttcgattgctgcctcagttgtgggttatatactattgctaacaagtgagaattcacagcattgacttcagaattctaatcaacacttgaatctgctacttggggtgtcgatatttttatgcaaattctgcttttctgaggttcacgagccctaagatgaatgacccattttagactttgactagctgctagttagtctcaaggacattcttaatcaacacgtctgacaattaggccataggcaataatgtccgttctctgtggtttaccccctctccttgaatgtgtatacggtgtaacttgtgcccgatgggcatggaagcggtgcctccatagtgcaggacatgacagtgaaaattggagtgttgccaccgctgaagaatttgaacctgtccctaggctatgccgatacatattgggtgtatacgaagatgatcttatacaaccttagtgggaaccacctgaaggatatgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="102672" stop="101053"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="102372" g_stop="102164" g_length="209"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="209" r_length="209" r_score="0.976"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511">
            <donor d_prob="0.939" d_score="0.98"/>
            <acceptor a_prob="0.932" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="101652" g_stop="101353" g_length="300"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="510" r_length="301" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E302555" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>509</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E302555" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102372" e_stop="102164"/>
          <exon e_start="101652" e_stop="101353"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGGTACACATCTGTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAGGTAATGTTTTCAATGTTCCAAGTGTTAAAGGTGTTGTCTTTGTACTGTTATTTTCCCCATTTATGGTTTATGTTATTGGGTATTAATGGATGTTTGAAGAAAGTATCTTTTTGATGCATGTAGAACTTTCTTATTTAGATTTAATTTTTGGCTCAAAATTAGAATCTTTGCATGAGTTTTTTTAAGATTCATGGATTTAAATGATTCTTCATATAAATTTCATTGAAGGAATTAGTCTTTTCAGGCTGTTTAGAGACTTGTACTCTTAGTTTAGGGTAAGATTGCTGAGATTCTCTACTTTCAAGGAAATCTTAGTTTACATCTGAAATGAGCTCAATTGGAACAGAGTGGATATTGAAGATTCATATAGCCAACCCCAACTAGTTTGAGATTTTGGCGTAGTTGATTGACTGATTATTTGTTTGAATGTTTGTCAACTACTGATTTAAGTTGTGGGCATTGTGGCTTTTATATTAAGGTATCCTTATTATCTGCTATGTTAATCTTGCAGACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACA-GTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGA</genome_strand>
        <mrna_strand>TTGGTACACATTTGTCTCCTGATTTCATTTGATCATTTCGATTGCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATTCACAGCATTGACTTCAGAATTCTAATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCACGAGCCCTAAGATGAATGACCCATTTTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACACGTCTGACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAACTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACCGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTATACAACCTTAGTGGGAACCACCTGAAGGATATGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E315072" ref_strand="+" ref_description="SGN-E315072 [cTOB-4-K12]">
      <seq>acatctgtctcctgatttcatttgatcatttcgatttctgcctcagttgtgggttatatactattgctaacaagtgagaatccacagcattgacttcagaattctcatcaacacttgaatctgctacttggggtgtcgatatttttatgcaaattctgcttttctgaggttcaagagccctaagatgaatgacccattttagactttgactagctgctagttagtctcaaagacattcttaatcaacagtctaacaattaagccataggcaataatgtccgttctctgtggtttaccccctctccttgaatgtgtatacggcgtagcttgtgcccgatgggcatggaagcggtgcctccatagtgcaggacatgacagtgaaaattggagtgttgccacggctgaagaatttgaacctgtccctaggctatgccgatacatattgggtgtatacgaagatgatcttatacaacctcagtgggaaccacct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="102665" stop="101065"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="102365" g_stop="102164" g_length="202"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="202" r_length="202" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511">
            <donor d_prob="0.939" d_score="0.98"/>
            <acceptor a_prob="0.932" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="101652" g_stop="101365" g_length="288"/>
          <reference_exon_boundary r_type="cDNA" r_start="203" r_stop="490" r_length="288" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E315072" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>490</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E315072" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102365" e_stop="102164"/>
          <exon e_start="101652" e_stop="101365"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACATCTGTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAGGTAATGTTTTCAATGTTCCAAGTGTTAAAGGTGTTGTCTTTGTACTGTTATTTTCCCCATTTATGGTTTATGTTATTGGGTATTAATGGATGTTTGAAGAAAGTATCTTTTTGATGCATGTAGAACTTTCTTATTTAGATTTAATTTTTGGCTCAAAATTAGAATCTTTGCATGAGTTTTTTTAAGATTCATGGATTTAAATGATTCTTCATATAAATTTCATTGAAGGAATTAGTCTTTTCAGGCTGTTTAGAGACTTGTACTCTTAGTTTAGGGTAAGATTGCTGAGATTCTCTACTTTCAAGGAAATCTTAGTTTACATCTGAAATGAGCTCAATTGGAACAGAGTGGATATTGAAGATTCATATAGCCAACCCCAACTAGTTTGAGATTTTGGCGTAGTTGATTGACTGATTATTTGTTTGAATGTTTGTCAACTACTGATTTAAGTTGTGGGCATTGTGGCTTTTATATTAAGGTATCCTTATTATCTGCTATGTTAATCTTGCAGACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCT</genome_strand>
        <mrna_strand>ACATCTGTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAAGAGCCCTAAGATGAATGACCCATTTTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTTGACTAGCTGCTAGTTAGTCTCAAAGACATTCTTAATCAACAGTCTAACAATTAAGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGCGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTATACAACCTCAGTGGGAACCACCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E303393" ref_strand="+" ref_description="SGN-E303393 [cLEX-2-L21]">
      <seq>agaattctcatcaacacttgaatctgctacttggggtgtcgatatttttatgcaaattctgcttttctgaggttcaggagccctaagatgaatgacccattttagactttgactagctgctagttagtctcaaggacattcttaatcaacagtctaacaattaggccataggcaataatgtccgttctctgtggtttaccccctctccttgaatgtgtatacggtgtagcttgtgcccgatgggcatggaagcggtgcctccatagtgcaggacatgacagtgaaaattggagtgttgccacggctgaagaatttgaacctgtccctaggctatgccgatacatattgggtgtatacgaagatgatcttagacaacctcagtggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="102568" stop="101072"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="102268" g_stop="102164" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="105" r_length="105" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.932" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="101652" g_stop="101372" g_length="281"/>
          <reference_exon_boundary r_type="cDNA" r_start="106" r_stop="386" r_length="281" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E303393" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>386</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E303393" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102268" e_stop="102164"/>
          <exon e_start="101652" e_stop="101372"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAGGTAATGTTTTCAATGTTCCAAGTGTTAAAGGTGTTGTCTTTGTACTGTTATTTTCCCCATTTATGGTTTATGTTATTGGGTATTAATGGATGTTTGAAGAAAGTATCTTTTTGATGCATGTAGAACTTTCTTATTTAGATTTAATTTTTGGCTCAAAATTAGAATCTTTGCATGAGTTTTTTTAAGATTCATGGATTTAAATGATTCTTCATATAAATTTCATTGAAGGAATTAGTCTTTTCAGGCTGTTTAGAGACTTGTACTCTTAGTTTAGGGTAAGATTGCTGAGATTCTCTACTTTCAAGGAAATCTTAGTTTACATCTGAAATGAGCTCAATTGGAACAGAGTGGATATTGAAGATTCATATAGCCAACCCCAACTAGTTTGAGATTTTGGCGTAGTTGATTGACTGATTATTTGTTTGAATGTTTGTCAACTACTGATTTAAGTTGTGGGCATTGTGGCTTTTATATTAAGGTATCCTTATTATCTGCTATGTTAATCTTGCAGACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGA</genome_strand>
        <mrna_strand>AGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E732873" ref_strand="+" ref_description="SGN-E732873 [LB03BE05]">
      <seq>cagcttcatcacccgcctcaagactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacattttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107656" stop="109968"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107956" g_stop="108006" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="51" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="52" r_stop="150" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="348" r_length="198" r_score="0.990"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109678" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="349" r_stop="569" r_length="221" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E732873" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>571</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E732873" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107956" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109678"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGCTTCATCACCCGCCTCAAGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTG</genome_strand>
        <mrna_strand>CAGCTTCATCACCCGCCTCAAGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATC--AGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E723104" ref_strand="+" ref_description="SGN-E723104 [FC19BF09]">
      <seq>gattgacccgcctcaagactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaattgttgatccttgtgatgaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107664" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107961" g_stop="108006" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="46" r_length="46" r_score="0.913"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.91"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="145" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="146" r_stop="345" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109694" g_length="237"/>
          <reference_exon_boundary r_type="cDNA" r_start="346" r_stop="582" r_length="237" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="583" polyA_stop="604"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E723104" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>582</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E723104" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107961" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109694"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATCACCCGCCTCAAGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</genome_strand>
        <mrna_strand>GATTGACCCGCCTCAAGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734539" ref_strand="+" ref_description="SGN-E734539 [LB12DG05]">
      <seq>caagactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107674" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107974" g_stop="108006" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="33" r_length="33" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="132" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="133" r_stop="332" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="333" r_stop="522" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="523" polyA_stop="534"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E734539" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="0.978" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E734539" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107974" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>CAAGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E305740" ref_strand="+" ref_description="SGN-E305740 [cLEX-14-C4]">
      <seq>caagactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107674" stop="109932"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107974" g_stop="108006" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="33" r_length="33" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="132" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="133" r_stop="332" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109638" g_length="181"/>
          <reference_exon_boundary r_type="cDNA" r_start="333" r_stop="513" r_length="181" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E305740" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>513</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E305740" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107974" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109638"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTAC</genome_strand>
        <mrna_strand>CAAGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347922" ref_strand="+" ref_description="SGN-E347922 [cTOF-31-O8]">
      <seq>aagactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107675" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107975" g_stop="108006" g_length="32"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="32" r_length="32" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="131" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="132" r_stop="331" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="332" r_stop="521" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="522" polyA_stop="531"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E347922" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>521</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E347922" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107975" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>AAGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E353338" ref_strand="+" ref_description="SGN-E353338 [cTOS-15-O5]">
      <seq>aagactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatgggctttgattttcattgagattgtgacattttgctcaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107675" stop="109932"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107975" g_stop="108006" g_length="32"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="32" r_length="32" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="131" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="132" r_stop="331" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109635" g_length="178"/>
          <reference_exon_boundary r_type="cDNA" r_start="332" r_stop="509" r_length="178" r_score="0.955"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E353338" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>509</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E353338" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107975" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109635"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTC</genome_strand>
        <mrna_strand>AAGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGGCTTTGATTTTCATTGAGATTGTGACATTTTGCTCAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E321510" ref_strand="+" ref_description="SGN-E321510 [cTOB-23-F16]">
      <seq>aagactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107675" stop="109932"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107975" g_stop="108006" g_length="32"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="32" r_length="32" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="131" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="132" r_stop="331" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109632" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="332" r_stop="506" r_length="175" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E321510" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>506</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E321510" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107975" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109632"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAA</genome_strand>
        <mrna_strand>AAGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E711210" ref_strand="+" ref_description="SGN-E711210 [FB01BC09]">
      <seq>agactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaattgttgatccttgtgatgaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107676" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107976" g_stop="108006" g_length="31"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="31" r_length="31" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="130" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="330" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109694" g_length="237"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="567" r_length="237" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E711210" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>567</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E711210" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107976" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109694"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</genome_strand>
        <mrna_strand>AGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E352470" ref_strand="+" ref_description="SGN-E352470 [cTOS-9-G21]">
      <seq>agactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctncaacaagtctacattttagttaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107676" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107976" g_stop="108006" g_length="31"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="31" r_length="31" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="130" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="330" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="520" r_length="190" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="521" polyA_stop="536"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E352470" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>520</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E352470" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107976" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>AGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTNCAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320747" ref_strand="+" ref_description="SGN-E320747 [cTOB-27-J24]">
      <seq>agactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107676" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107976" g_stop="108006" g_length="31"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="31" r_length="31" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="130" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="330" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="520" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="521" polyA_stop="530"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E320747" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>520</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E320747" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107976" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>AGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E352293" ref_strand="+" ref_description="SGN-E352293 [cTOS-9-E19]">
      <seq>agactctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107676" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107976" g_stop="108006" g_length="31"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="31" r_length="31" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="130" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="330" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="520" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="521" polyA_stop="536"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E352293" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>520</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E352293" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107976" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>AGACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E310840" ref_strand="+" ref_description="SGN-E310840 [cLEZ-15-I10]">
      <seq>actctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaagaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttatgttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107678" stop="109975"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107978" g_stop="108006" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="29" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="128" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="129" r_stop="328" r_length="200" r_score="0.995"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109682" g_length="225"/>
          <reference_exon_boundary r_type="cDNA" r_start="329" r_stop="553" r_length="225" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E310840" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>553</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E310840" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107978" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109682"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGA</genome_strand>
        <mrna_strand>ACTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAAGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTATGTTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E357068" ref_strand="+" ref_description="SGN-E357068 [cTOS-22-B1]">
      <seq>actctcagcagatctagcaaaaatcaaaggggatggcgccgccgaacacaggattagcacctgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtaccctcaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107847" stop="109932"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107978" g_stop="108006" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="29" r_length="29" r_score="0.966"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="129" r_length="100" r_score="0.970"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="130" r_stop="329" r_length="200" r_score="0.995"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109637" g_length="180"/>
          <reference_exon_boundary r_type="cDNA" r_start="330" r_stop="509" r_length="180" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E357068" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>508</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E357068" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107978" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109637"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCA-GTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTA</genome_strand>
        <mrna_strand>ACTCTCAGCAGATCTAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCACCTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCTCAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E338355" ref_strand="+" ref_description="SGN-E338355 [cTOE-13-J12]">
      <seq>ctctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaatta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107679" stop="109888"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107979" g_stop="108006" g_length="28"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="28" r_length="28" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="29" r_stop="127" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="128" r_stop="327" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109588" g_length="131"/>
          <reference_exon_boundary r_type="cDNA" r_start="328" r_stop="458" r_length="131" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E338355" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>458</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E338355" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107979" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109588"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTA</genome_strand>
        <mrna_strand>CTCTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296819" ref_strand="+" ref_description="SGN-E296819 [cLET-26-H1]">
      <seq>ctcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagaaaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacacgagggcaaagaagaagagagaggaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107681" stop="109618"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107981" g_stop="108006" g_length="26"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="26" r_length="26" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="27" r_stop="125" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109318" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="126" r_stop="300" r_length="175" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E296819" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>300</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E296819" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107981" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109318"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGA</genome_strand>
        <mrna_strand>CTCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAAAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACACGAGGGCAAAGAAGAAGAGAGAGGAGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348214" ref_strand="+" ref_description="SGN-E348214 [cTOF-27-G19]">
      <seq>tcagcagatcgagcaaaaataaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattntagttatgttctgtattttacatttttgttaaattgttgatccttgtgatgaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107682" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107982" g_stop="108006" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="24" r_length="24" r_score="0.960"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="123" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="124" r_stop="323" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109694" g_length="237"/>
          <reference_exon_boundary r_type="cDNA" r_start="324" r_stop="560" r_length="237" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="561" polyA_stop="572"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E348214" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>561</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348214" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107982" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109694"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</genome_strand>
        <mrna_strand>TCAGCAGATCGAGCAAAAAT-AAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTNTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348602" ref_strand="+" ref_description="SGN-E348602 [cTOF-30-A4]">
      <seq>tcagcagatcgagcaaaaataaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaagaagttgggtacccacaagaagggcaaagaagaagagagaggagatgtccagcgttctccgtaagaatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaattgttgatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107682" stop="109984"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107982" g_stop="108006" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="24" r_length="24" r_score="0.960"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="123" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="124" r_stop="325" r_length="202" r_score="0.975"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109684" g_length="227"/>
          <reference_exon_boundary r_type="cDNA" r_start="326" r_stop="552" r_length="227" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E348602" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348602" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107982" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109684"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAG-AGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAG-ATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATC</genome_strand>
        <mrna_strand>TCAGCAGATCGAGCAAAAAT-AAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAAGAAGTTGGGTACCCACAAGAAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGAATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282148" ref_strand="+" ref_description="SGN-E282148 [cLES-4-G18]">
      <seq>tcagcagatcgagcaaaaatcaaaggggatggacccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107682" stop="109932"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107982" g_stop="108006" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="25" r_length="25" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="26" r_stop="124" r_length="99" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="324" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109632" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="325" r_stop="499" r_length="175" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E282148" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>499</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282148" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107982" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109632"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAA</genome_strand>
        <mrna_strand>TCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGACCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E337518" ref_strand="+" ref_description="SGN-E337518 [cTOE-11-H22]">
      <seq>tcagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaaatttcattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107682" stop="109907"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107982" g_stop="108006" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="25" r_length="25" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="26" r_stop="124" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="324" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109607" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="325" r_stop="474" r_length="150" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E337518" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>474</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E337518" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107982" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109607"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTG</genome_strand>
        <mrna_strand>TCAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAAATTTCATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292446" ref_strand="+" ref_description="SGN-E292446 [cLET-1-L12]">
      <seq>cagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaacagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgaaggcaaccggtggtggtgaaaagaagaagagaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107683" stop="109932"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107983" g_stop="108006" g_length="24"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="24" r_length="24" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="123" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="124" r_stop="323" r_length="200" r_score="0.990"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109632" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="324" r_stop="498" r_length="175" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="499" polyA_stop="510"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E292446" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>498</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E292446" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107983" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109632"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAA</genome_strand>
        <mrna_strand>CAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAACAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAA..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGAGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293223" ref_strand="+" ref_description="SGN-E293223 [cLET-12-F15]">
      <seq>cagcagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgggacattttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107683" stop="109923"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107983" g_stop="108006" g_length="24"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="24" r_length="24" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="123" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="124" r_stop="323" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109623" g_length="166"/>
          <reference_exon_boundary r_type="cDNA" r_start="324" r_stop="489" r_length="166" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E293223" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>489</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293223" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107983" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109623"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTG</genome_strand>
        <mrna_strand>CAGCAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGGGACATTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E715156" ref_strand="+" ref_description="SGN-E715156 [FB13CA10]">
      <seq>gcatatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107685" stop="109975"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107985" g_stop="108006" g_length="22"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="22" r_length="22" r_score="0.955"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="23" r_stop="121" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="321" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109674" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="322" r_stop="538" r_length="217" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="539" polyA_stop="548"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E715156" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="0.982" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E715156" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107985" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109674"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAA</genome_strand>
        <mrna_strand>GCATATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E391023" ref_strand="+" ref_description="SGN-E391023 [TUS-47-J11]">
      <seq>cagatcaagcaaaaatcaaaggggatggcgccgccgatcacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgctctgtattttacatttttgttaaattgttgatccttgtgatgaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107847" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107986" g_stop="108006" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="0.952"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="120" r_length="99" r_score="0.990"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="121" r_stop="320" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109702" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="321" r_stop="565" r_length="245" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E391023" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>565</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E391023" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107986" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109702"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGACACGGTGG</genome_strand>
        <mrna_strand>CAGATCAAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGATCACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGCTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E391022" ref_strand="+" ref_description="SGN-E391022 [TUS-47-J11](-)">
      <seq>cagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttttgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagctttttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctttaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaattgttgatccttgtgatgaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107686" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107986" g_stop="108006" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="120" r_length="99" r_score="0.990"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="121" r_stop="320" r_length="200" r_score="0.995"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109694" g_length="237"/>
          <reference_exon_boundary r_type="cDNA" r_start="321" r_stop="557" r_length="237" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E391022" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>557</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E391022" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107986" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109694"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</genome_strand>
        <mrna_strand>CAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTTTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTTTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTTTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E396317" ref_strand="+" ref_description="SGN-E396317 [TUS-47-I12](-)">
      <seq>cagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaattgttgatccttgtgaagaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107686" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107986" g_stop="108006" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="120" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="121" r_stop="320" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109690" g_length="233"/>
          <reference_exon_boundary r_type="cDNA" r_start="321" r_stop="553" r_length="233" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="554" polyA_stop="566"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E396317" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>553</cumulative_length_of_scored_exons>
        <coverage percentage="0.977" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E396317" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107986" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109690"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTG</genome_strand>
        <mrna_strand>CAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E357799" ref_strand="+" ref_description="SGN-E357799 [cTOS-24-K19]">
      <seq>cagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107686" stop="109975"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107986" g_stop="108006" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="120" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="121" r_stop="320" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109682" g_length="225"/>
          <reference_exon_boundary r_type="cDNA" r_start="321" r_stop="545" r_length="225" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E357799" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>545</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E357799" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107986" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109682"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGA</genome_strand>
        <mrna_strand>CAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E390748" ref_strand="+" ref_description="SGN-E390748 [TUS-47-I11]">
      <seq>cagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattcgggggactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107686" stop="109938"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107986" g_stop="108006" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="120" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="121" r_stop="320" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109638" g_length="181"/>
          <reference_exon_boundary r_type="cDNA" r_start="321" r_stop="501" r_length="181" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E390748" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>501</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E390748" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107986" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109638"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTAC</genome_strand>
        <mrna_strand>CAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCGGGGGACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E378289" ref_strand="+" ref_description="SGN-E378289 [TUS-32-A1]">
      <seq>cagatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaaattttcattgagattgtgacattttgctcaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107686" stop="109932"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107986" g_stop="108006" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="120" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="121" r_stop="320" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109632" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="321" r_stop="496" r_length="176" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="497" polyA_stop="507"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E378289" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>495</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E378289" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107986" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109632"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTG-AATTTTCATTGAGATTGTGACATTTTGCTCAAACAA</genome_strand>
        <mrna_strand>CAGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAAATTTTCATTGAGATTGTGACATTTTGCTCAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291677" ref_strand="+" ref_description="SGN-E291677 [cLET-6-M1]">
      <seq>caaatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagatgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107686" stop="109620"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107986" g_stop="108006" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="0.952"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="120" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109320" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="121" r_stop="297" r_length="177" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E291677" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>297</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291677" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107986" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109320"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATG</genome_strand>
        <mrna_strand>CAAATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGATGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283464" ref_strand="+" ref_description="SGN-E283464 [cLER-12-B16]">
      <seq>agatcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaattgttgatccttgtgatgaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107687" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107987" g_stop="108006" g_length="20"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="20" r_length="20" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="21" r_stop="119" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="120" r_stop="319" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109694" g_length="237"/>
          <reference_exon_boundary r_type="cDNA" r_start="320" r_stop="556" r_length="237" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E283464" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>556</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E283464" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107987" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109694"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</genome_strand>
        <mrna_strand>AGATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E217256" ref_strand="+" ref_description="SGN-E217256 [cLEL-21-M21](-)">
      <seq>gatcgagcaaaaatcaaaggggatggcgccgccgaacacaggatagccagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccctctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107688" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107988" g_stop="108006" g_length="19"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="19" r_length="19" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="20" r_stop="118" r_length="99" r_score="0.960"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="119" r_stop="318" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="319" r_stop="508" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="509" polyA_stop="525"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E217256" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>508</cumulative_length_of_scored_exons>
        <coverage percentage="0.968" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E217256" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107988" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>GATCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATAGCCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCCTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219052" ref_strand="+" ref_description="SGN-E219052 [cLEL-11-I6](-)">
      <seq>tcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107847" stop="109964"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107990" g_stop="108006" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="17" r_length="17" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="18" r_stop="116" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="117" r_stop="316" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109663" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="317" r_stop="522" r_length="206" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="523" polyA_stop="538"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E219052" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E219052" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107990" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109663"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTAC</genome_strand>
        <mrna_strand>TCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E310796" ref_strand="+" ref_description="SGN-E310796 [cLEZ-15-E9]">
      <seq>tcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctatgaattttcattgagattgtgacattttgctcaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107847" stop="109932"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107990" g_stop="108006" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="17" r_length="17" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="18" r_stop="116" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="117" r_stop="316" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109631" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="317" r_stop="490" r_length="174" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E310796" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>490</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E310796" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107990" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109631"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACA</genome_strand>
        <mrna_strand>TCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTATGAATTTTCATTGAGATTGTGACATTTTGCTCAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E337057" ref_strand="+" ref_description="SGN-E337057 [cTOE-7-G13]">
      <seq>tcgagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgaaanaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107847" stop="109918"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107990" g_stop="108006" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="17" r_length="17" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="18" r_stop="116" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="117" r_stop="316" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109629" g_length="172"/>
          <reference_exon_boundary r_type="cDNA" r_start="317" r_stop="488" r_length="172" r_score="0.948"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E337057" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>488</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E337057" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107990" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109629"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCGAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAA</genome_strand>
        <mrna_strand>TCGAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGAAANAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219401" ref_strand="+" ref_description="SGN-E219401 [cLEL-11-K6](-)">
      <seq>gagcaaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtacccaagaaggagttagctccacgcccttctgacagaaaaaggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107847" stop="109964"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107992" g_stop="108006" g_length="15"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="15" r_length="15" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="16" r_stop="114" r_length="99" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="0.96"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="115" r_stop="314" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109663" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="315" r_stop="520" r_length="206" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="521" polyA_stop="536"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E219401" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>520</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E219401" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107992" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109663"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGCAAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTAC</genome_strand>
        <mrna_strand>GAGCAAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTACCCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAAGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E277653" ref_strand="+" ref_description="SGN-E277653 [cLER-6-K12]">
      <seq>aaaaatcaaaggggatggcgccgccgaacacaggattagcagtgggattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttgtgagttagctataaaattctctaaactttgacac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107847" stop="109883"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="107996" g_stop="108006" g_length="11"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="11" r_length="11" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="110" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="111" r_stop="310" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109583" g_length="126"/>
          <reference_exon_boundary r_type="cDNA" r_start="311" r_stop="436" r_length="126" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E277653" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>436</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E277653" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="107996" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109583"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAATCAAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACAC</genome_strand>
        <mrna_strand>AAAAATCAAAG..............................................................................................................................................GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTGTGAGTTAGCTATAAAATTCTCTAAACTTTGACAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284850" ref_strand="+" ref_description="SGN-E284850 [cLER-19-G8]">
      <seq>aaatgggatggcgcctccggacacacgattagcagtgttattgaacaaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagctggtgaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctcacgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgatgaactgagtttattagttaatacatgatctttttgagttagctataatgttctctgaactttgacaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107847" stop="109884"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="108003" g_stop="108006" g_length="4"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="4" r_length="4" r_score="0.750"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108149" g_stop="108247" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="5" r_stop="103" r_length="99" r_score="0.949"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="104" r_stop="304" r_length="201" r_score="0.980"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="109458" g_stop="109584" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="305" r_stop="431" r_length="127" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E284850" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>430</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E284850" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="108003" e_stop="108006"/>
          <exon e_start="108149" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109584"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGGTAAGCTTTCGATCTTTCTTCACTGCTAAAGCTTGATGTGATGTTAGAACCAGTAAAAGGATGAACAATCTGTTAACCATTTGTGAAAAAAAATGAAATTTGAAATTGATTTTGTTTTTGCTGTATGGTTTGGTTTGATCAGGGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTC-CGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACA</genome_strand>
        <mrna_strand>AAAT..............................................................................................................................................GGGATGGCGCCTCCGGACACACGATTAGCAGTGTTATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGCTGGTGAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCACGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGATGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAATGTTCTCTGAACTTTGACACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296783" ref_strand="+" ref_description="SGN-E296783 [cLET-26-A4]">
      <seq>gggattgaacaaaggacacattgtcaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagctaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107881" stop="109621"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="108181" g_stop="108247" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="67" r_length="67" r_score="0.985"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109144" g_stop="109321" g_length="178"/>
          <reference_exon_boundary r_type="cDNA" r_start="68" r_stop="245" r_length="178" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E296783" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>245</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E296783" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="108181" e_stop="108247"/>
          <exon e_start="109144" e_stop="109321"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGT</genome_strand>
        <mrna_strand>GGGATTGAACAAAGGACACATTGTCACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCTAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E352272" ref_strand="+" ref_description="SGN-E352272 [cTOS-13-N10]">
      <seq>aaaggacacattgtaaccaagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttcaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107891" stop="109953"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="108191" g_stop="108247" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="257" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109458" g_stop="109654" g_length="197"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="454" r_length="197" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="455" polyA_stop="465"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E352272" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>454</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E352272" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="108191" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109654"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCT</genome_strand>
        <mrna_strand>AAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E266342" ref_strand="-" ref_description="SGN-E266342 [cLEI-3-G1]">
      <seq>aagaaggagttagctccacgcccttctgacagaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaaaaaaaaaaaaaaaaaactcgagacta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="107909" stop="109932"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="108209" g_stop="108247" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="39" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896">
            <donor d_prob="0.973" d_score="0.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="239" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109458" g_stop="109632" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="240" r_stop="414" r_length="175" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="415" polyA_stop="428"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E266342" ref_strand="-">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>414</cumulative_length_of_scored_exons>
        <coverage percentage="0.947" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E266342" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="108209" e_stop="108247"/>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109632"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGGGTAATTTTTCGTTCATTTTCTGAGCTATAGATTGTTGATTACTCTACTGGACTGTGCTTGTAATGTTTTGGATTTGAATTTAGGTCTTGTTGTATTTGAATCACGTAAACAAACTCAGGGGTTGTATTAAGATATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAA</genome_strand>
        <mrna_strand>AAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E269104" ref_strand="-" ref_description="SGN-E269104 [cLEI-16-C9]">
      <seq>tttttttatagctttttttttttttttaacaataatttcttcacttatttgccatatccggtggaatacactgctacttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="45875" stop="109964"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="108380" g_stop="108420" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="0.683"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108421" i_stop="109189" i_length="769">
            <donor d_prob="0.000" d_score="0.68"/>
            <acceptor a_prob="0.000" a_score="0.68"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109190" g_stop="109343" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="189" r_length="149" r_score="0.896"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="109458" g_stop="109669" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="190" r_stop="401" r_length="212" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E269104" ref_strand="-">
        <total_alignment_score>0.940</total_alignment_score>
        <cumulative_length_of_scored_exons>407</cumulative_length_of_scored_exons>
        <coverage percentage="1.015" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E269104" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="108380" e_stop="108420"/>
          <exon e_start="109190" e_stop="109343"/>
          <exon e_start="109458" e_stop="109669"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTATGCCAATCAAAGATAAAAGGATACACATGTTATATTAATGTTTAAGAGTTTGTGTATTGAATTAATGTAAAGGAGTTTAGAGTTTGTGTATTCAATTAATCTAGAGAGGTTTGATGTGTAATTGAGCACATTCTTGGAAACTTCAGTGTTTAGATTTGTCATTTGGCAGATGGTCCTAAATGTGTATTCATAAAACATTAAGGTTGTAGGTTTGCGTATACGTCACCTTTCTCGAAGTGTTAAGTCAAAAGTTCTGATAAACCAAAAAATGTTAGTTTACTAGAGTGAGTACACCTAGCACTCGCTCTTTTTTCTATTGGTATACAAAGGTTCCTCACCTGATTGTAAAACAAGTTTTGTAGCGACGGATATTGCTTTTTAAAAAGTTGAAAACAAACACTGGCTTCTATGGACTATTTTTTTGTTAGGTTCTTCTATACGTGATATAGAGCCTTCTGTAATATAGCTAATATCTACTCCGGTAACATAATTTCATTCATATAAAAGGAAATTACCAGTGTCTACAACAACTTTGTGTGATTTGTGTAGGTAGGGTTTTTCTGTATTCTTTTTCCTTTTTTATTAGGAAATATTCAGCTGTATAGTGATCCCATTACCTTTCAGTCTGAGGTTTCCAGTTTTGGATGTGCATGCCATGCTTTGCTTGCATGAATATTTGTTAAGTGACATTTGTTTCAATTGCCTAATTACTATGTTTATTCAGAAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTT</genome_strand>
        <mrna_strand>TTTTTTTATAGCTTTT-TTTTTTTTTTTAACAATAATTTCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCACT-TATTTG--CCATATCCG--GTGGAATACACTGCTACTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E356253" ref_strand="+" ref_description="SGN-E356253 [cTOS-20-H20]">
      <seq>agaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaattgttgatccttgtgatgaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108843" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="209" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109694" g_length="237"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="446" r_length="237" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="447" polyA_stop="456"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E356253" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>437</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E356253" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109694"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</genome_strand>
        <mrna_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E356295" ref_strand="+" ref_description="SGN-E356295 [cTOS-20-G13]">
      <seq>agaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacattttgttaaatttggtgatcccttgtgatgaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108843" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="209" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109677" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="428" r_length="219" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="447" polyA_stop="457"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E356295" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>420</cumulative_length_of_scored_exons>
        <coverage percentage="0.919" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E356295" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109677"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATT</genome_strand>
        <mrna_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACA-TTTTGTTAAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E230650" ref_strand="+" ref_description="SGN-E230650 [cLEL-35-A13](-)">
      <seq>gaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108843" stop="109975"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="208" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109674" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="209" r_stop="425" r_length="217" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="426" polyA_stop="441"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E230650" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>417</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E230650" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109674"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAA</genome_strand>
        <mrna_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E357094" ref_strand="+" ref_description="SGN-E357094 [cTOS-22-L1]">
      <seq>agggaaaacctttaaaagaatccacttcgtcaggagcctcatcagagaagtttcnggatttgctccatatttgaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108853" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="5" r_stop="204" r_length="200" r_score="0.965"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="205" r_stop="394" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="395" polyA_stop="406"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E357094" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>390</cumulative_length_of_scored_exons>
        <coverage percentage="0.961" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E357094" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>AAAACCTTTAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTTCNGGATTTGCTCCATATTTGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E217540" ref_strand="+" ref_description="SGN-E217540 [cLEL-21-M21](-)">
      <seq>aaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108843" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="7" r_stop="206" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="207" r_stop="396" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="397" polyA_stop="413"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E217540" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>390</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E217540" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E354400" ref_strand="+" ref_description="SGN-E354400 [cTOS-17-G18]">
      <seq>agaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108843" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="209" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="399" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="400" polyA_stop="411"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E354400" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>390</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E354400" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E354641" ref_strand="+" ref_description="SGN-E354641 [cTOS-17-F18]">
      <seq>agaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108843" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="209" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="399" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="400" polyA_stop="411"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E354641" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>390</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E354641" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E356148" ref_strand="+" ref_description="SGN-E356148 [cTOS-20-K21]">
      <seq>agaaaagggaaaaccagcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108843" stop="109948"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109144" g_stop="109343" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="209" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109647" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="399" r_length="190" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="400" polyA_stop="411"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E356148" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>390</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E356148" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109144" e_stop="109343"/>
          <exon e_start="109458" e_stop="109647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</genome_strand>
        <mrna_strand>AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E396438" ref_strand="+" ref_description="SGN-E396438 [TUS-47-I11](-)">
      <seq>agcaaaagaatccacttcgtcaggagcctcatcagagaagttgctggatttgctccatatgagaagaggattattgagattaaaaaaaatggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctttaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacatttaaggtatcttctgtattttacatttttgttaaattgttgatccgggtgatgaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108850" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109150" g_stop="109343" g_length="194"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="194" r_length="194" r_score="0.964"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109694" g_length="237"/>
          <reference_exon_boundary r_type="cDNA" r_start="195" r_stop="431" r_length="237" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E396438" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>431</cumulative_length_of_scored_exons>
        <coverage percentage="0.980" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E396438" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109150" e_stop="109343"/>
          <exon e_start="109458" e_stop="109694"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</genome_strand>
        <mrna_strand>AGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTATTGAGATTAAAAAAAATGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTTTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTAAGGTATCTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCGGGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E234035" ref_strand="+" ref_description="SGN-E234035 [cLEL-8-H11](-)">
      <seq>agcaaaagaatccacttcgtcaggagcctcatcagaaaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108850" stop="109975"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109150" g_stop="109343" g_length="194"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="194" r_length="194" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109674" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="195" r_stop="411" r_length="217" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="412" polyA_stop="427"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E234035" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>411</cumulative_length_of_scored_exons>
        <coverage percentage="0.963" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E234035" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109150" e_stop="109343"/>
          <exon e_start="109458" e_stop="109674"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAA</genome_strand>
        <mrna_strand>AGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAAAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E224128" ref_strand="+" ref_description="SGN-E224128 [cLEL-19-K13](-)">
      <seq>gaatccactttgtcagaagcctcatcaaagaagttgctggatttgctccatataagaagaggatttactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaaaaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaaatgttgatccttgtgatgaaacaccaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108857" stop="109997"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109157" g_stop="109343" g_length="187"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="188" r_length="188" r_score="0.968"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109698" g_length="241"/>
          <reference_exon_boundary r_type="cDNA" r_start="189" r_stop="429" r_length="241" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="432" polyA_stop="446"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E224128" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>428</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E224128" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109157" e_stop="109343"/>
          <exon e_start="109458" e_stop="109698"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGA-TTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGACACG</genome_strand>
        <mrna_strand>GAATCCACTTTGTCAGAAGCCTCATCAAAGAAGTTGCTGGATTTGCTCCATATAAGAAGAGGATTTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAAAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAAATGTTGATCCTTGTGATGAAACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219486" ref_strand="+" ref_description="SGN-E219486 [cLEL-11-K16](-)">
      <seq>gcctcatcagagaagttgctggatttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaaaaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaaatatggcctttgcaattttcattgagattgtgacattttgctcgaacaagtctacattttagttatgttctgcattttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108875" stop="109964"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109175" g_stop="109343" g_length="169"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="169" r_length="169" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109663" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="377" r_length="208" r_score="0.956"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="378" polyA_stop="393"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E219486" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>375</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E219486" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109175" e_stop="109343"/>
          <exon e_start="109458" e_stop="109663"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGG-CTTTG-AATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTAC</genome_strand>
        <mrna_strand>GCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAAAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAAATATGGCCTTTGCAATTTTCATTGAGATTGTGACATTTTGCTCGAACAAGTCTACATTTTAGTTATGTTCTGCATTTTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E224238" ref_strand="+" ref_description="SGN-E224238 [cLEL-19-K13](-)">
      <seq>agttgctggatttgctccatatgagaaaaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttacatttttgttaaattgttgatccttgtgatgaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108888" stop="109996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109188" g_stop="109343" g_length="156"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="156" r_length="156" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109694" g_length="237"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="393" r_length="237" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="394" polyA_stop="414"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E224238" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>393</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E224238" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109188" e_stop="109343"/>
          <exon e_start="109458" e_stop="109694"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</genome_strand>
        <mrna_strand>AGTTGCTGGATTTGCTCCATATGAGAAAAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E230582" ref_strand="+" ref_description="SGN-E230582 [cLEL-35-A13](-)">
      <seq>atttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggctttgaattttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgcattttacatttttgttcaaaccaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108897" stop="109975"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109197" g_stop="109343" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="147" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109674" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="148" r_stop="364" r_length="217" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="369" polyA_stop="380"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E230582" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>364</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E230582" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109197" e_stop="109343"/>
          <exon e_start="109458" e_stop="109674"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAA</genome_strand>
        <mrna_strand>ATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGCATTTTACATTTTTGTTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219642" ref_strand="+" ref_description="SGN-E219642 [cLEL-11-I6](-)">
      <seq>tttgctccatatgagaagaggattactgagcttcttaaagttggtaaggacaagcgtgcattgaaggtagccaagaggaagttgggtacccacaagagggcaaagaagaagagagaggagatgtccagcgttctccgtaagatgagggcaaccggtggtggtgaaaagaagaagtgaagtctctatccttattttgacaattgaggaactgagtttattagttaatacatgatctttttgagttagctataaaattctctaaactttgacacaattatggcttttgaatatttcattgagattgtgacattttgctcaaacaagtctacattttagttatgttctgtattttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="108898" stop="109964"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="109198" g_stop="109343" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="146" r_length="146" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="109458" g_stop="109663" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="354" r_length="208" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="355" polyA_stop="370"/>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E219642" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>352</cumulative_length_of_scored_exons>
        <coverage percentage="0.951" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E219642" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="109198" e_stop="109343"/>
          <exon e_start="109458" e_stop="109663"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAGGTGATGATGTCTTGTTTTCATTTGATTTCTTAACAGCAATGTCAGATTATTATTTCCCCATCTCTGAAGAAGAATGTGTCAATCCCCTGACTAATATTTCTTTCTGTTTTGCAGGGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGC-TTTGAAT-TTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTAC</genome_strand>
        <mrna_strand>TTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG..................................................................................................................GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTTGAATATTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E308399" ref_strand="+" ref_description="SGN-E308399 [cLEY-25-G7]">
      <seq>cgataccttccatcagcacattgattatttcagctgcttaatggtactacatacatgttaatgttggtactgaacttcttaactgtatttgcatgagtcctataacaaaagaatgactcctcctcctctggacaagacacacagataagagacaaactacgaaagctaatgatttcaaatcttcattttaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="110984" stop="110190"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="110684" g_stop="110488" g_length="197"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="197" r_length="197" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E308399" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>197</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E308399" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="110684" e_stop="110488"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGATACCTTCCATCAGCACATTGATTATTTCAGCTTCTTAATTGTACTACATACATGTTAATGTTGGTACTGAACTTCTTAACTGTATTTGCATGAGTCCTATAACAAAAGAATGACTCCTCCTCCTCTGGACAAGACACACAGATAAGAGACAAACTACGAAAGCTAATGATTTCAAATCTTCATTTTAAAAGATG</genome_strand>
        <mrna_strand>CGATACCTTCCATCAGCACATTGATTATTTCAGCTGCTTAATGGTACTACATACATGTTAATGTTGGTACTGAACTTCTTAACTGTATTTGCATGAGTCCTATAACAAAAGAATGACTCCTCCTCCTCTGGACAAGACACACAGATAAGAGACAAACTACGAAAGCTAATGATTTCAAATCTTCATTTTAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705951" ref_strand="+" ref_description="SGN-E705951 [FA28CD05]">
      <seq>gttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatcaaagtggtagttgacagtgacctgcaagaagaagccaatgctggagttacatggcagaatgctggaaatgagtccgctgaatcaactgttaatagtgctgaaacattagtggacaagctcaaggaaatggctgatacagtgagagggaaatcaagagagacaattcatatgattattgaaaaaataatgttgctgatcactatgctcaaggagtgggcattaaaggcaggcaagcaaacagaggagttaaaggatgctgccatgtcaaagatgggcaactcagtacaaggaatgcagcagagctcagctgaagttggctcggctctcaaggacggtgttaagcgctttgcagatgactgcaggggtggagttgagaaaatctcacagaaattcaagacatgaacatggtgttgtatgaaagactgttgtatccttttttgcctttttggtcaataaattcactgattggagcagtca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="112990" stop="110459"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="112690" g_stop="112400" g_length="291"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="291" r_length="291" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="111323" g_stop="110759" g_length="565"/>
          <reference_exon_boundary r_type="cDNA" r_start="292" r_stop="856" r_length="565" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E705951" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>856</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705951" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="112690" e_stop="112400"/>
          <exon e_start="111323" e_stop="110759"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATGCTCAAGGAGTGGGCATTAAAGGCAGGCAAGCAAACAGAGGAGTTAAAGGATGCTGCCATGTCAAAGATGGGCAACTCAGTACAAGGAATGCAGCAGAGCTCAGCTGAAGTTGGCTCGGCTCTCAAGGACGGTGTTAAGCGCTTTGCAGATGACTGCAGGGGTGGAGTTGAGAAAATCTCACAGAAATTCAAGACATGAACATGGTGTTGTATGAAAGACTGTTGTATCCTTTTTTGCCTTTTTGGTCAATAAATTCACTGATTGGAGCAGTCA</genome_strand>
        <mrna_strand>GTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATGCTCAAGGAGTGGGCATTAAAGGCAGGCAAGCAAACAGAGGAGTTAAAGGATGCTGCCATGTCAAAGATGGGCAACTCAGTACAAGGAATGCAGCAGAGCTCAGCTGAAGTTGGCTCGGCTCTCAAGGACGGTGTTAAGCGCTTTGCAGATGACTGCAGGGGTGGAGTTGAGAAAATCTCACAGAAATTCAAGACATGAACATGGTGTTGTATGAAAGACTGTTGTATCCTTTTTTGCCTTTTTGGTCAATAAATTCACTGATTGGAGCAGTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348581" ref_strand="+" ref_description="SGN-E348581 [cTOF-30-G19]">
      <seq>gaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatcaaagtggtagttgacagtgacctgcaagaagaagccaatgctggagttacatggcagaatgctggaaatgagtccgctgaatcaactgttaatagtgctgaaacattagtggacaagctcaaggaaatggctgatacagtgagagggaaatcaagagagacaattcatatgattattgaaaaaataatgttgctgatcactatgctcaaggagtgggcattaaaggcaggcaagcaaacgnaggagttaaaggatgctgccatgtcaaagatgggcaactcagtacaaggaatgcagcagagctcagctgaagttggctcggctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="112993" stop="110610"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="112693" g_stop="112400" g_length="294"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="294" r_length="294" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="111323" g_stop="110910" g_length="414"/>
          <reference_exon_boundary r_type="cDNA" r_start="295" r_stop="708" r_length="414" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E348581" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>708</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348581" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="112693" e_stop="112400"/>
          <exon e_start="111323" e_stop="110910"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATGCTCAAGGAGTGGGCATTAAAGGCAGGCAAGCAAACAGAGGAGTTAAAGGATGCTGCCATGTCAAAGATGGGCAACTCAGTACAAGGAATGCAGCAGAGCTCAGCTGAAGTTGGCTCGGCTCT</genome_strand>
        <mrna_strand>GAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATGCTCAAGGAGTGGGCATTAAAGGCAGGCAAGCAAACGNAGGAGTTAAAGGATGCTGCCATGTCAAAGATGGGCAACTCAGTACAAGGAATGCAGCAGAGCTCAGCTGAAGTTGGCTCGGCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348701" ref_strand="+" ref_description="SGN-E348701 [cTOF-30-H18]">
      <seq>gaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatcaaagtggtagttgacagtgacctgcaagaagaagccaatgctggagttacatggcagaatgctggaaatgagtccgctgaatcaactgttaatagtgctgaaacattagtggacaagctcaaggaaatggctgatacagtgagagggaaatcaagagagacaattcatatgattattgaaaaaataatgttgctgatcactatgctcaaggagtgggcattaaaggcaggcaagcaaacgnaggagttaaaggatgctgccatgtcaaagatgggcaactcagtacaaggaatgcagcagagctcagctgaagttggctcggctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="112993" stop="110611"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="112693" g_stop="112400" g_length="294"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="294" r_length="294" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="111323" g_stop="110911" g_length="413"/>
          <reference_exon_boundary r_type="cDNA" r_start="295" r_stop="707" r_length="413" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E348701" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>707</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348701" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="112693" e_stop="112400"/>
          <exon e_start="111323" e_stop="110911"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATGCTCAAGGAGTGGGCATTAAAGGCAGGCAAGCAAACAGAGGAGTTAAAGGATGCTGCCATGTCAAAGATGGGCAACTCAGTACAAGGAATGCAGCAGAGCTCAGCTGAAGTTGGCTCGGCTC</genome_strand>
        <mrna_strand>GAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATGCTCAAGGAGTGGGCATTAAAGGCAGGCAAGCAAACGNAGGAGTTAAAGGATGCTGCCATGTCAAAGATGGGCAACTCAGTACAAGGAATGCAGCAGAGCTCAGCTGAAGTTGGCTCGGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E338960" ref_strand="+" ref_description="SGN-E338960 [cTOF-6-C19]">
      <seq>gaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatcaaagtggtagttgacagtgacctgcaagaagaagccaatgctggagttacatggcagaatgctggaaatgagtccgctgaatcaactgttaatagtgctgaaacattagtggacaagctcaaggaaatggctgatacagtgagagggaaatcaagagagacaattcatatgattattgaaaaaataatgttgctgatcactatgctcaaggagtgggcattaaaggcaggcaagcaaacagaggagttaaaggatgctgccatgtcaaagatgggcaactcagtacaaggaatgcagcagagctcagcttgaagttggctcggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="112993" stop="110613"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="112693" g_stop="112400" g_length="294"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="294" r_length="294" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="111323" g_stop="110913" g_length="411"/>
          <reference_exon_boundary r_type="cDNA" r_start="295" r_stop="706" r_length="412" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E338960" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>705</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E338960" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="112693" e_stop="112400"/>
          <exon e_start="111323" e_stop="110913"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATGCTCAAGGAGTGGGCATTAAAGGCAGGCAAGCAAACAGAGGAGTTAAAGGATGCTGCCATGTCAAAGATGGGCAACTCAGTACAAGGAATGCAGCAGAGCTCAGC-TGAAGTTGGCTCGGC</genome_strand>
        <mrna_strand>GAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATGCTCAAGGAGTGGGCATTAAAGGCAGGCAAGCAAACAGAGGAGTTAAAGGATGCTGCCATGTCAAAGATGGGCAACTCAGTACAAGGAATGCAGCAGAGCTCAGCTTGAAGTTGGCTCGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E698882" ref_strand="+" ref_description="SGN-E698882 [FA07DE10]">
      <seq>gttttgagaaggaactcttattggaaagggaaaagattgaagccgtggagaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgcgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagctcaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcggaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatcaaagtggtagttgacaatgacctgcaagaagaagccaatgctggagttacatggcagaatgctggaaatgagtccgctgaatcaactgttaatagtgctgaaacattagtggacaagctcaaggaaatggctgatacagtgagagggaaatcaagagagacaattcatatgattattgaaaaaataatgttgctgatcactatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="113042" stop="110732"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="112742" g_stop="112400" g_length="343"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="343" r_length="343" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="111323" g_stop="111032" g_length="292"/>
          <reference_exon_boundary r_type="cDNA" r_start="344" r_stop="635" r_length="292" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E698882" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>635</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E698882" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="112742" e_stop="112400"/>
          <exon e_start="111323" e_stop="111032"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATG</genome_strand>
        <mrna_strand>GTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGCGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTCAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCGGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAATGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731450" ref_strand="+" ref_description="SGN-E731450 [LA27AF09]">
      <seq>gggaataatggcccttgcattcgggtacacaagactcttccaaccagataaacctgtgaccaaagcccaagctgctattgccctagcaaccggtgaagcttctgatatcgttggtgaggaacttgcacgcattgaggctgagtcgatggctgacaaagctgtttcagcccataatgctctggtagctgaagttgagaaagatgtaaatgcaagttttgagaaggaactcttattggaaagggaaaagattgaagccgtggagaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatcaaagtggtagttgacagtgacctgcaagaagaagccaatgctggagttacatggcagaatgctggaaatgagtccgctgaatcaactgttaatagtgctgaaacattagtggacaagctcaaggaaatggctgatacagtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="113332" stop="110794"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="113032" g_stop="113010" g_length="23"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="23" r_length="23" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="113009" i_stop="112932" i_length="78">
            <donor d_prob="0.923" d_score="0.00"/>
            <acceptor a_prob="0.314" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="112931" g_stop="112400" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="24" r_stop="555" r_length="532" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="111323" g_stop="111094" g_length="230"/>
          <reference_exon_boundary r_type="cDNA" r_start="556" r_stop="785" r_length="230" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E731450" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>785</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731450" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="113032" e_stop="113010"/>
          <exon e_start="112931" e_stop="112400"/>
          <exon e_start="111323" e_stop="111094"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGAATAATGGCCCTTGCATTCGGTGAGTACTATTAATTGTTTCTTATGAGGTTGGATCTGGGGAAGGGTAAGTTATGCTGTGACAAACCTGTCAATACAGGGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGA</genome_strand>
        <mrna_strand>GGGAATAATGGCCCTTGCATTCG..............................................................................GGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E300192" ref_strand="+" ref_description="SGN-E300192 [cLEW-17-M1]">
      <seq>aaagatgtaaatgcaagttttgagaaagaactcttattggaaagggaaaagattgaagccgtggagaagttagctgaggaagcaagaagagagttggagagtttgagagctcatcgggaggaagagaatttagcattaatgaaagaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttatgaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatcaaagtggtagttgacagtgacctgcaagaagaagccaatgctggagttacatggcagaatgctggaaatgagtccgctgaatcaactgttaatagtgctgaaacattagtggacaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="113058" stop="110817"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="112758" g_stop="112400" g_length="359"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="359" r_length="359" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="111323" g_stop="111117" g_length="207"/>
          <reference_exon_boundary r_type="cDNA" r_start="360" r_stop="566" r_length="207" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E300192" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>566</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E300192" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="112758" e_stop="112400"/>
          <exon e_start="111323" e_stop="111117"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCT</genome_strand>
        <mrna_strand>AAAGATGTAAATGCAAGTTTTGAGAAAGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCATCGGGAGGAAGAGAATTTAGCATTAATGAAAGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTATGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E736880" ref_strand="+" ref_description="SGN-E736880 [LC07CF09]">
      <seq>catgatcttgtcagctggaagatggcgatagagaaaagacagctaccaattgttgaccaaaagtctgttcagagagtctctgggttcatagatgttgacaagattcatccagatgcatggcctgcggtggtagctgacttatcatcaggtgaacagggaataatggcccttgcattcgggtacacaagactcttccaaccagataaacctgtgaccaaagcccaagctgctattgccctagcaaccggtgaagcttctgatatcgttggtgaggaacttgcacgcattgaggctgagtcgatggctgacaaagctgtttcagcccataatgctctggtagctgaagttgagaaagatgtaaatgcaagttttgagaaggaactcttattggaaagggaaaagattgaagccgtggagaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaagctagagaagcagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatcaaagtggtagttgacagtgacctgcaagaagaagccaatgctggagttacctggcagaatgctggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="113584" stop="110869"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="113284" g_stop="113222" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="63" r_length="63" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="113221" i_stop="113125" i_length="97">
            <donor d_prob="0.672" d_score="1.00"/>
            <acceptor a_prob="0.941" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="113124" g_stop="113010" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="64" r_stop="178" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="113009" i_stop="112932" i_length="78">
            <donor d_prob="0.923" d_score="1.00"/>
            <acceptor a_prob="0.314" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="112931" g_stop="112400" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="179" r_stop="710" r_length="532" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="111323" g_stop="111169" g_length="155"/>
          <reference_exon_boundary r_type="cDNA" r_start="711" r_stop="865" r_length="155" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E736880" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>865</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736880" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="113284" e_stop="113222"/>
          <exon e_start="113124" e_stop="113010"/>
          <exon e_start="112931" e_stop="112400"/>
          <exon e_start="111323" e_stop="111169"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAGGTTGCATACAAATTAAAGAATGGGTGGTTTCTATCTTGTTTATTACGCATAGTAAGTGACTATTCACTAATTTGGTACAATCTCTTTTCCTTGACAGTCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCGGTGAGTACTATTAATTGTTTCTTATGAGGTTGGATCTGGGGAAGGGTAAGTTATGCTGTGACAAACCTGTCAATACAGGGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAA</genome_strand>
        <mrna_strand>CATGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAG.................................................................................................TCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCG..............................................................................GGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAAGCTAGAGAAGCAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACCTGGCAGAATGCTGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E737670" ref_strand="+" ref_description="SGN-E737670 [LC10DC02]">
      <seq>caagatcttgtcagctggaagatggcgatagagaaaagacagctaccaattgttgaccaaaagtctgttcagagagtctctgggttcatagatgttgacaagattcatccagatgcatggcctgcggtggtagctgacttatcatcaggtgaacagggaataatggcccttgcattcgggtacacaagactcttccaaccagataaacctgtgaccaaagcccaagctgctattgccctagcaaccggtgaagcttctgatatcgttggtgaggaacttgcacgcattgaggctgagtcgatggctgacaaagctgtttcagcccataatgctctggtagctgaagttgagaaagatgtaaatgcaagttttgagaaggaactcttattggaaagggaaaagattgaagccgtggagaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatcaaagtggtagttgacagtgacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="113584" stop="110914"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="113284" g_stop="113222" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="63" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="113221" i_stop="113125" i_length="97">
            <donor d_prob="0.672" d_score="1.00"/>
            <acceptor a_prob="0.941" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="113124" g_stop="113010" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="64" r_stop="178" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="113009" i_stop="112932" i_length="78">
            <donor d_prob="0.923" d_score="1.00"/>
            <acceptor a_prob="0.314" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="112931" g_stop="112400" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="179" r_stop="710" r_length="532" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="111323" g_stop="111214" g_length="110"/>
          <reference_exon_boundary r_type="cDNA" r_start="711" r_stop="820" r_length="110" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E737670" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>820</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E737670" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="113284" e_stop="113222"/>
          <exon e_start="113124" e_stop="113010"/>
          <exon e_start="112931" e_stop="112400"/>
          <exon e_start="111323" e_stop="111214"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAGGTTGCATACAAATTAAAGAATGGGTGGTTTCTATCTTGTTTATTACGCATAGTAAGTGACTATTCACTAATTTGGTACAATCTCTTTTCCTTGACAGTCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCGGTGAGTACTATTAATTGTTTCTTATGAGGTTGGATCTGGGGAAGGGTAAGTTATGCTGTGACAAACCTGTCAATACAGGGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACC</genome_strand>
        <mrna_strand>CAAGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAG.................................................................................................TCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCG..............................................................................GGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E737781" ref_strand="+" ref_description="SGN-E737781 [LC11AH03]">
      <seq>caagatcttgtcagctggaagatggcgatagagaaaagacagctaccaattgttgaccaaaagtctgttcagagagtctctgggttcatagatgttgacaagattcatccagatgcatggcctgcggtggtagctgacttatcatcaggtgaacagggaataatggcccttgcattcgggtacacaagactcttccaaccagataaacctgtgaccaaagcccaagctgctattgccctagcaaccggtgaagcttctgatatcgttggtgaggaacttgcacgcattgaggctgagtcgatggctgacaaagctgtttcagcccataatgctctggtagctgaagttgagaaagatgtaaatgcaagttttgagaaggaactcttattggaaagggaaaagattgaagccgtggagaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaagctagagaccgctggcagaagcaaggcatcaaagtggtagttgaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="113584" stop="110920"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="113284" g_stop="113222" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="63" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="113221" i_stop="113125" i_length="97">
            <donor d_prob="0.672" d_score="1.00"/>
            <acceptor a_prob="0.941" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="113124" g_stop="113010" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="64" r_stop="178" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="113009" i_stop="112932" i_length="78">
            <donor d_prob="0.923" d_score="1.00"/>
            <acceptor a_prob="0.314" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="112931" g_stop="112400" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="179" r_stop="710" r_length="532" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="111323" g_stop="111220" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="711" r_stop="814" r_length="104" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E737781" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>814</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E737781" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="113284" e_stop="113222"/>
          <exon e_start="113124" e_stop="113010"/>
          <exon e_start="112931" e_stop="112400"/>
          <exon e_start="111323" e_stop="111220"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAGGTTGCATACAAATTAAAGAATGGGTGGTTTCTATCTTGTTTATTACGCATAGTAAGTGACTATTCACTAATTTGGTACAATCTCTTTTCCTTGACAGTCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCGGTGAGTACTATTAATTGTTTCTTATGAGGTTGGATCTGGGGAAGGGTAAGTTATGCTGTGACAAACCTGTCAATACAGGGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACA</genome_strand>
        <mrna_strand>CAAGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAG.................................................................................................TCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCG..............................................................................GGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAAGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E736927" ref_strand="+" ref_description="SGN-E736927 [LC07DC12]">
      <seq>cgcatgatcttgtcagctggaagatggcgatagagaaaagacagctaccaattgttgaccaaaagtctgttcagagagtctctgggttcatagatgttgacaagattcatccagatgcatggcctgcggtggtagctgacttatcatcaggtgaacagggaataatggcccttgcattcgggtacacaagactcttccaaccagataaacctgtgaccaaagcccaagctgctattgccctagcaaccggtgaagcttctgatatcgttggtgaggaacttgcacgcattgaggctgagtcgatggctgacaaagctgtttcagcccataatgctctggtagctgaagttgagaaagatgtaaatgcaagttttgagaaggaactcttattggaaagggaaaagattgaagccgtggagaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcagaagatgaggctaagaaggctagagagcaagcaaaagccttggaagaggctagagaccgctggcagaagcaaggcatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="113587" stop="110936"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="113287" g_stop="113222" g_length="66"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="65" r_length="65" r_score="0.970"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="113221" i_stop="113125" i_length="97">
            <donor d_prob="0.672" d_score="1.00"/>
            <acceptor a_prob="0.941" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="113124" g_stop="113010" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="66" r_stop="180" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="113009" i_stop="112932" i_length="78">
            <donor d_prob="0.923" d_score="1.00"/>
            <acceptor a_prob="0.314" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="112931" g_stop="112400" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="181" r_stop="712" r_length="532" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="111323" g_stop="111236" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="713" r_stop="800" r_length="88" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E736927" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>801</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736927" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="113287" e_stop="113222"/>
          <exon e_start="113124" e_stop="113010"/>
          <exon e_start="112931" e_stop="112400"/>
          <exon e_start="111323" e_stop="111236"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGTCAAGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAGGTTGCATACAAATTAAAGAATGGGTGGTTTCTATCTTGTTTATTACGCATAGTAAGTGACTATTCACTAATTTGGTACAATCTCTTTTCCTTGACAGTCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCGGTGAGTACTATTAATTGTTTCTTATGAGGTTGGATCTGGGGAAGGGTAAGTTATGCTGTGACAAACCTGTCAATACAGGGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAGGTAAGAAATGTATCATCTTAAATGTTTTTCTAGCTCGATCATAATTACAATGTTGATTCATCACATTCAAATGGCTCACCAAGGAGGATTTAACCTGCCTACTAGTTAGTGACAATCCCACAGTTCAATGGTCGTTTGTTATCATTCACTGAAAATTAGTTCAATATTGATATTTGAGTATTCTGAGGAATCTGTGACGATATCATGCATCATTAGAGTTGGTTACTAGTGCTACTCTGGCTTAAGTAATTCCTCGTCTCTGTGAAGGGGCTAAGAAAATCTATCCCATTTTCTTCTTTTGATAATTTTGAAGTGTGTTCCTTGTCTGGCCCAGTGTTATCAAAGGCACGCTTAAGCCCAAAAGTGTGGCTCAAAACATGTTGAGCGCTTCGCCTCACATTATACGCTTTTCGGTGTCATCATCGAGGTTCTAAGGCAAACTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAACAATTGATGTTTCACTTTATCATGATTTCTTTTTTTCTTTGGTCATAAATTTGTCATTCATATTTTTAATTATTACTATTGGACTAAACATGTATATATTTGTATTTTTTCTCCCTTTGCACCTTTTTTTCATTAAAGCCCATGCGTTATTTGCTCTTAAAGCCCCCACGGACCTTAGAGATTTTTTGCGCTTTTCGCCTTTGATAACAATGGTCTGATATGTTTAAGCTGTCGCCTTTGTTGTCCTTGTAATTCTGTTATTTTTCTGAACTTATGGTTGCTTTAGTATCATATAAAGCTGCATTTTCTGACAAATAGATTTAATTTGAAACTACCATCATCCATATTTTATTGTATGTATCATAGGTAACTCTAGCATCTTTGACATTAACTGTTACTGTTGGTCTGTTGCTCTAGTCACGCAGTCCCTCCTAATTTGCAAAATGACTTGTATTAAGGAACTTCCATCAGTACAGGACTACATGTTGAAACTTTTATCACATCATCTTTTGTTTGCTGCAATAATTTCGTCCCGTTCCCCCTTCGTTCTTTGCATCTACAGTTGATTGATATTTATTTCAATATTGCAACTAGGACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATC</genome_strand>
        <mrna_strand>CG-CATGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAG.................................................................................................TCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCG..............................................................................GGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E737920" ref_strand="+" ref_description="SGN-E737920 [LC11CH03]">
      <seq>gctgcaggaattcggcacgaggcaagatcttgtcagctggaagatggcgatagagaaaagacagctaccaattgttgaccaaaagtctgttcagagagtctctgggttcatagatgttgacaagattcatccagatgcatggcctgcggtggtagctgacttatcatcaggtgaacagggaataatggcccttgcattcgggtacacaagactcttccaaccagataaacctgtgaccaaagcccaagctgctattgccctagcaaccggtgaagcttctgatatcgttggtgaggaacttgcacgcattgaggctgagtcgatggctgacaaagctgtttcagcccataatgctctggtagctgaagttgagaaagatgtaaatgcaagttttgagaaggaactcttattggaaagggaaaagattgaagccgtggagaagttagctgaggaagcaagaagagagttggagagtttgagagctcagcgggaggaagagaatttagcattaatgaaggaacgtgctgttgttgattcagaaatggaaattctttccagattaagacgtgatgtagaggagcaattacagacccttgtgagcgacaaattagagatcacctatgacaaagagaggattgaaaagcttaggaaagatgcagaatttgaaacccaagagatagcacgtttgcagtatgagctggaggttgagagaaaagcattatccttggctaggacttgggcag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="113586" stop="112099"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="113297" g_stop="113222" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="85" r_length="75" r_score="0.895"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="113221" i_stop="113125" i_length="97">
            <donor d_prob="0.672" d_score="1.00"/>
            <acceptor a_prob="0.941" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="113124" g_stop="113010" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="86" r_stop="200" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="113009" i_stop="112932" i_length="78">
            <donor d_prob="0.923" d_score="1.00"/>
            <acceptor a_prob="0.314" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="112931" g_stop="112400" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="201" r_stop="732" r_length="532" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E737920" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>723</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E737920" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="113297" e_stop="113222"/>
          <exon e_start="113124" e_stop="113010"/>
          <exon e_start="112931" e_stop="112400"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCTTTATCACGTCAAGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAGGTTGCATACAAATTAAAGAATGGGTGGTTTCTATCTTGTTTATTACGCATAGTAAGTGACTATTCACTAATTTGGTACAATCTCTTTTCCTTGACAGTCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCGGTGAGTACTATTAATTGTTTCTTATGAGGTTGGATCTGGGGAAGGGTAAGTTATGCTGTGACAAACCTGTCAATACAGGGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG</genome_strand>
        <mrna_strand>TTCGGCA-CGAGGCAAGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAG.................................................................................................TCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCG..............................................................................GGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E314615" ref_strand="+" ref_description="SGN-E314615 [cTOA-20-D17]">
      <seq>caggaagaaatgtcaattgattctgacaatcataatgacacagttcaagaggagaaagctttaggtgataatgaattcaaagataatagcggtgaagagttagaggcaggtagaattagtgaggacactgatgatggcaatccaaccagtgttggtgtctttgttgatgatagtcatgagacccatattcagcatgatttggatgacgggaaagctagtgatgatgcagtagttgctagtgaagtcatatctgaatcccccgaaacaacctttgtcatgtcaagctacgaaagtgaggaagatagtcttattgctggaaaaccagaaccaacaactgaaccagaacagaagaactataatgatgacgaagttgctgctgcatcagttataagtccaaattcaacatatgaatttgataacgaggtgcgagtatctagtttggaaggacgaggacactccgaaatttcattggaatcccctcctattgagccttccaacctcaacactgctgttaatccgcaatcagaagcacttttagaacccatgattacacaagaagtgtatgtagagactcaaagctcattttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="116870" stop="115684"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="116570" g_stop="115984" g_length="587"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="587" r_length="587" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E314615" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>587</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E314615" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="116570" e_stop="115984"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGGAAGAAATGTCAATTGATTCTGACAATCATAATGACACAGTTCAAGAGGAGAAAGCTTTAGGTGATAATGAATTCAAAGATAATAGCGGTGAAGAGTTAGAGGCAGGTAGAATTAGTGAGGACACTGATGATGGCAATCCAACCAGTGTTGGTGTCTTTGTTGATGATAGTCATGAGACCCATATTCAGCATGATTTGGATGACGGGAAAGCTAGTGATGATGCAGTAGTTGCTAGTGAAGTCATATCTGAATCCCCCGAAACAACCTTTGTCATGTCAAGCTACGAAAGTGAGGAAGATAGTCTTATTGCTGGAAAACCAGAACCAACAACTGAACCAGAACAGAAGAACTATAATGATGACGAAGTTGCTGCTGCATCAGTTATAAGTCCAAATTCAACATATGAATTTGATAACGAGGTGCGAGTATCTAGTTTGGAAGGACGAGGACACTCCGAAATTTCATTGGAATCCCCTCCTATTGAGCCTTCCAACCTCAACACTGCTGTTAATCCGCAATCAGAAGCACTTTTAGAACCCATGATTACACAAGAAGTGTATGTAGAGACTCAAAGCTCATTTTC</genome_strand>
        <mrna_strand>CAGGAAGAAATGTCAATTGATTCTGACAATCATAATGACACAGTTCAAGAGGAGAAAGCTTTAGGTGATAATGAATTCAAAGATAATAGCGGTGAAGAGTTAGAGGCAGGTAGAATTAGTGAGGACACTGATGATGGCAATCCAACCAGTGTTGGTGTCTTTGTTGATGATAGTCATGAGACCCATATTCAGCATGATTTGGATGACGGGAAAGCTAGTGATGATGCAGTAGTTGCTAGTGAAGTCATATCTGAATCCCCCGAAACAACCTTTGTCATGTCAAGCTACGAAAGTGAGGAAGATAGTCTTATTGCTGGAAAACCAGAACCAACAACTGAACCAGAACAGAAGAACTATAATGATGACGAAGTTGCTGCTGCATCAGTTATAAGTCCAAATTCAACATATGAATTTGATAACGAGGTGCGAGTATCTAGTTTGGAAGGACGAGGACACTCCGAAATTTCATTGGAATCCCCTCCTATTGAGCCTTCCAACCTCAACACTGCTGTTAATCCGCAATCAGAAGCACTTTTAGAACCCATGATTACACAAGAAGTGTATGTAGAGACTCAAAGCTCATTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734236" ref_strand="+" ref_description="SGN-E734236 [LB12AE11]">
      <seq>ctgagaagttaatgagccaagtgctttttaagaagcttggagactatgaaatagcatgggttgatgctgaagtggggaagacggaaaacgacatgttctctttacttcctctttccggaccttctccaccccataaaacagttcttgttggagatttaaaaatgtctgatttcaagcagtttcttgcaagcaagggcgttcaggtagaatttggtggtggggctttacgttgtggggagtatgtcaccattcgcaaagttggagatgctagtcaaaaggttggaggtgcagctattcagcagattgtgcttgaaggtccattatcggaagagtactataaaattcgagagtacctatattcacatttttactccctctaaatatgaagagcagagtaactttttgtacttgtaacaaatgcagctttcctttttgtctcttttttctcttctcttgaatcttgactggctgtttttctagtaatttgtaacttattgtctcattggtttcgaaaaggtcacaattgttagaatttcctgcaggctatgtaggctgttgtatttatgctagtggaagttgatgaaaatttagaattactcttttgcaattaaagtaccccgagttgaggttagaattgaaaaacacaactaaatttagaaattttgaccatacaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="122848" stop="1594"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="122548" g_stop="122514" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="35" r_length="35" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="122513" i_stop="122062" i_length="452">
            <donor d_prob="0.993" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="122061" g_stop="121894" g_length="168"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="203" r_length="168" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="121893" i_stop="121798" i_length="96">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.902" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="121797" g_stop="121723" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="204" r_stop="278" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="121722" i_stop="121622" i_length="101">
            <donor d_prob="0.963" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="121621" g_stop="121221" g_length="401"/>
          <reference_exon_boundary r_type="cDNA" r_start="279" r_stop="679" r_length="401" r_score="0.993"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="121220" i_stop="121146" i_length="75">
            <donor d_prob="0.499" d_score="0.94"/>
            <acceptor a_prob="0.989" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="121145" g_stop="121134" g_length="12"/>
          <reference_exon_boundary r_type="cDNA" r_start="680" r_stop="691" r_length="12" r_score="0.250"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E734236" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>691</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E734236" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="122548" e_stop="122514"/>
          <exon e_start="122061" e_stop="121894"/>
          <exon e_start="121797" e_stop="121723"/>
          <exon e_start="121621" e_stop="121221"/>
          <exon e_start="121145" e_stop="121134"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAGGTAAGCTGGATATATTATGTATGACATCAATAAATGATTCCTTTACGAAATTTCTGCCACTTTAGGCTCTTGATGCATTTATAGAAGCAGCTGAAGTTAGTAATTTATGCACATCTAATTAAAACAAAAAGTTACCTAAGCACACTTGTGTCAATCACCCTTCATGTGTTGTATAAATGGATTGATGGAGTTTTTATCAAGGTACTCTTTGTTAAATGTTTTGTACATTTGCAGTTCAGTAGCTATCTTTTTGTCCTTGAATGTTGAGGCTCTGTACACTCCACACACTACAATGGGTTAGACATTTCAAGTGTTTGTACTAAAGTCTTCGGTGTGTAAGACTTTATGCTCCATTTGATCAGGAAGCTGCATACAAAGACTAATCTTGATCATTATTGTGTCTGTGTTTTCCCTTTGTCCTTGCTTAATTGTGTTCACATTTGCTATTGTAGCTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAAACAGTTCTTGTTGGAGATTTAAAAATGTCTGATTTCAAGCAGTTTCTTGCAAGCAAGGGCGTTCAGGTCTTTTCTCTTTTCTTTTATGTTATATTTTCTACTACTAATCATGATTTGGCTTTAGGTTAGCAAAATGTTGAGACCAGCTATTTTCATTTTCAGGTAGAATTTGGTGGTGGGGCTTTACGTTGTGGGGAGTATGTCACCATTCGCAAAGTTGGAGATGCTAGTCAAAAGGTGACCGCTTTTGATAATATCATCCAAGTGTTCTTCATATTATTAGCAAAATGAAGCCTTTTTCTTGGCATACTAAACTTCTGTTTGAAAATTTCTTGTAGGTTGGAGGTGCAGCTATTCAGCAGATTGTGCTTGAAGGTCCATTATCGGAAGAGTACTATAAAATTCGAGAGTACCTATATTCACATTTTTACTCCCTCTAAATATGAAGAGCAGAGTAACTTTTTGTACTTGTAACAAATGCAGCTTTCCTTTTTGTCTCTTTTTTCTCTTCTCTTGAATCTTGACTGGCTGTTTTTCTAGTAATTTGTAACTTATTGTCTCATTGGTTTCGAAAAGGTCACAATTGTTAGAATTTCCTGCAGGCTATGTAGGCTGTTGTATTTATGCTAGTGGAAGTTGATGAAAATTTAGAATTACTCTTTTGCAATTAAAGTACCCCGAGTTGAGGTTAGAATTGAAAAACACAACTAAATTTAGAAATTTTGACCATACAAAACTTGCATCCCTAGTTGAATTATTTTGTTGAGAACTTTACTGTTTCTTTTATTTTTCGATAACAATTCCCATGCAACAGGTTTTTTAATTA</genome_strand>
        <mrna_strand>CTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAAACAGTTCTTGTTGGAGATTTAAAAATGTCTGATTTCAAGCAGTTTCTTGCAAGCAAGGGCGTTCAG................................................................................................GTAGAATTTGGTGGTGGGGCTTTACGTTGTGGGGAGTATGTCACCATTCGCAAAGTTGGAGATGCTAGTCAAAAG.....................................................................................................GTTGGAGGTGCAGCTATTCAGCAGATTGTGCTTGAAGGTCCATTATCGGAAGAGTACTATAAAATTCGAGAGTACCTATATTCACATTTTTACTCCCTCTAAATATGAAGAGCAGAGTAACTTTTTGTACTTGTAACAAATGCAGCTTTCCTTTTTGTCTCTTTTTTCTCTTCTCTTGAATCTTGACTGGCTGTTTTTCTAGTAATTTGTAACTTATTGTCTCATTGGTTTCGAAAAGGTCACAATTGTTAGAATTTCCTGCAGGCTATGTAGGCTGTTGTATTTATGCTAGTGGAAGTTGATGAAAATTTAGAATTACTCTTTTGCAATTAAAGTACCCCGAGTTGAGGTTAGAATTGAAAAACACAACTAAATTTAGAAATTTTGACCATACAAAAAAA...........................................................................AAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E745666" ref_strand="+" ref_description="SGN-E745666 [GI|47105204]">
      <seq>gagggagagaaaacaaaaacccctactacacccccccgtcttcaccaagtccggcgactcactgtgggattaagcaaagagaagcggagagcgacggtggcggcatgggaacgtcggttcaggtgacgccactctgtggagtatacaatgagaacccactgtcttacctcgtctccatcgacggcttcaatttccttgtcgattgcggttggaatgaccactttgatacttctcttcttcaacccctatccagggtggcttcaacggtggatgctgtattgatttcacactctgatacatttcatcttggtgctttgccctatgccatgaaacaactcggtctttctgctcctatttatgccacagaaccagtgtacaggctagggttactaactatgtatgatcagtatctctcacggaagcaagtttcagagtttgatttattcaccttggatgacattgattcagcattccaaaatgtgaccagattaacctactctcaaaatcattacatgtctggaaaaggagaaggaattgtgattgctcccctggtagctggtcatctgttaggaggtaccacctggaggataacaaaagacggggaggatgtcatatacgctgttgacttcaatcaccgcaaagaaaggcatttgaacggaactgttttagaatcttttgtccgtccagctgttctaataacagatgcttttaatgctttaaacaatcaacctcctaggcgccaaagggaccaagagtttctggatgccatagagagaactcttaatgtcgggggaaatgttttactacctgttgatactgctggtcgagttttggagctcatcctgacattggaacagcactggacacaaaaacagttgtccactcccatctactttctatcatatgtatcctcaagtactattgactatgtaaagagtttccttgagtggatgagcgattcaattgcaaaatcttttgagcacactcgtgataatgcttttcttttaaggaaaattaagcttgtgatcaataagagtgctcttgaagaagctcctgggccgaaggttgttatggcttccatggctagtttagaagctggattttcgcatgacctctttgttgaatgggcagctgatccaaagaatcttgttatgttcaccgagagagggcagtttggcacattggcacgtatacttcagtcagatccacctcctaaagctgttaaagttaccatgtcacgtagaattcccttggttggtgaggagttggctgcttatgaggaggagcagaacaggataaaaagggaagaagctctcaaagctactcttgttaaagaggaggaatcaaaagcgtctgttggggcagaagtcgtcacagatgaccccatggccgttgacaccaatgtcacacatccttcctccaatgcttctggtctgcacagtggtgctttcaaggacgtgctgattgatggatttgtaacaacatcgtctagcatagccccaatgttccctttctatgataacacctctgagtgggatgactttggtgaagtcatcaatccagatgattatgtggtcaaagatgacaacatggagcagtcatttatgcatgttgatggagatttaaatggaaaacttgatgaaggatcagctaacctaatccttgatacaacaccctctaaagttgaatcttctgagttaacagtccaagtcaagtgttccttgttatacatggacttcgaaggtcgttctgatggtcgttcaatcaaatcaattcttgctcatgttgcgcccttaaagcttgtattggtgcatggatcagctgaagccactgaacatttgaagcaacattgtctgaaacatgtttgtccacaggtctatgctccacagttggaagaaacaattgatgtaacttcagatttgtgtgcttataaggtccaactttctgagaagttaatgagccaagtgctttttaagaagcttggagactatgaaatagcatgggttgatgctgaagtggggaagacggaaaacgacatgttctctttacttcctctttccggaccttctccaccccataaaacagttcttgttggagatttaaaaatgtctgatttcaagcagcttcttgcaagcaagggcgttcaggtagaatttggtggtggggctttacgttgtggggagtatgtcaccattcgcaaagttggagatgccagtcaaaaggttggaggtgcagctattcagcagattgtgcttgaaggtccattatcggaagagtactataaaattcgagagtacctatattcacatttttactccctctaaatatgaagagcagagtaactttttgtacttgtaacaaatgcagctttcctttttgtctcttttttctcttctcttgaatcttgactggctgtttttctagtaatttgtaacttattgtctcattggtttcgaaaaggtcacaattgttagaatttcctgcaggctatgtaggctgttgtatttatgctagtggaagttgataaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="140692" stop="121014"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="140392" g_stop="140140" g_length="253"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="253" r_length="253" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="140139" i_stop="139920" i_length="220">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="139919" g_stop="139751" g_length="169"/>
          <reference_exon_boundary r_type="cDNA" r_start="254" r_stop="422" r_length="169" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="139750" i_stop="139046" i_length="705">
            <donor d_prob="0.925" d_score="1.00"/>
            <acceptor a_prob="0.745" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="139045" g_stop="138949" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="423" r_stop="519" r_length="97" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="138948" i_stop="138703" i_length="246">
            <donor d_prob="0.940" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="138702" g_stop="138576" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="520" r_stop="646" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="138575" i_stop="138490" i_length="86">
            <donor d_prob="0.867" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="138489" g_stop="138374" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="647" r_stop="762" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="138373" i_stop="133017" i_length="5357">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="133016" g_stop="132922" g_length="95"/>
          <reference_exon_boundary r_type="cDNA" r_start="763" r_stop="857" r_length="95" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="132921" i_stop="132830" i_length="92">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="132829" g_stop="132678" g_length="152"/>
          <reference_exon_boundary r_type="cDNA" r_start="858" r_stop="1009" r_length="152" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="132677" i_stop="131087" i_length="1591">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="131086" g_stop="131032" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1010" r_stop="1064" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="131031" i_stop="130959" i_length="73">
            <donor d_prob="0.804" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="130958" g_stop="130851" g_length="108"/>
          <reference_exon_boundary r_type="cDNA" r_start="1065" r_stop="1172" r_length="108" r_score="1.000"/>
        </exon>
        <intron i_serial="9">
          <gDNA_intron_boundary i_start="130850" i_stop="130432" i_length="419">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="10">
          <gDNA_exon_boundary g_start="130431" g_stop="130179" g_length="253"/>
          <reference_exon_boundary r_type="cDNA" r_start="1173" r_stop="1425" r_length="253" r_score="1.000"/>
        </exon>
        <intron i_serial="10">
          <gDNA_intron_boundary i_start="130178" i_stop="129243" i_length="936">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="11">
          <gDNA_exon_boundary g_start="129242" g_stop="129058" g_length="185"/>
          <reference_exon_boundary r_type="cDNA" r_start="1426" r_stop="1610" r_length="185" r_score="1.000"/>
        </exon>
        <intron i_serial="11">
          <gDNA_intron_boundary i_start="129057" i_stop="127020" i_length="2038">
            <donor d_prob="0.900" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="12">
          <gDNA_exon_boundary g_start="127019" g_stop="126927" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="1611" r_stop="1703" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="12">
          <gDNA_intron_boundary i_start="126926" i_stop="125264" i_length="1663">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="13">
          <gDNA_exon_boundary g_start="125263" g_stop="125165" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="1704" r_stop="1802" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="13">
          <gDNA_intron_boundary i_start="125164" i_stop="122788" i_length="2377">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="14">
          <gDNA_exon_boundary g_start="122787" g_stop="122656" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="1803" r_stop="1934" r_length="132" r_score="1.000"/>
        </exon>
        <intron i_serial="14">
          <gDNA_intron_boundary i_start="122655" i_stop="122559" i_length="97">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.895" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="15">
          <gDNA_exon_boundary g_start="122558" g_stop="122514" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="1935" r_stop="1979" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="15">
          <gDNA_intron_boundary i_start="122513" i_stop="122062" i_length="452">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="16">
          <gDNA_exon_boundary g_start="122061" g_stop="121894" g_length="168"/>
          <reference_exon_boundary r_type="cDNA" r_start="1980" r_stop="2147" r_length="168" r_score="0.994"/>
        </exon>
        <intron i_serial="16">
          <gDNA_intron_boundary i_start="121893" i_stop="121798" i_length="96">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="0.902" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="17">
          <gDNA_exon_boundary g_start="121797" g_stop="121723" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="2148" r_stop="2222" r_length="75" r_score="0.987"/>
        </exon>
        <intron i_serial="17">
          <gDNA_intron_boundary i_start="121722" i_stop="121622" i_length="101">
            <donor d_prob="0.963" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="18">
          <gDNA_exon_boundary g_start="121621" g_stop="121305" g_length="317"/>
          <reference_exon_boundary r_type="cDNA" r_start="2223" r_stop="2539" r_length="317" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E745666" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>2539</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E745666" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="140392" e_stop="140140"/>
          <exon e_start="139919" e_stop="139751"/>
          <exon e_start="139045" e_stop="138949"/>
          <exon e_start="138702" e_stop="138576"/>
          <exon e_start="138489" e_stop="138374"/>
          <exon e_start="133016" e_stop="132922"/>
          <exon e_start="132829" e_stop="132678"/>
          <exon e_start="131086" e_stop="131032"/>
          <exon e_start="130958" e_stop="130851"/>
          <exon e_start="130431" e_stop="130179"/>
          <exon e_start="129242" e_stop="129058"/>
          <exon e_start="127019" e_stop="126927"/>
          <exon e_start="125263" e_stop="125165"/>
          <exon e_start="122787" e_stop="122656"/>
          <exon e_start="122558" e_stop="122514"/>
          <exon e_start="122061" e_stop="121894"/>
          <exon e_start="121797" e_stop="121723"/>
          <exon e_start="121621" e_stop="121305"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGGGAGAGAAAACAAAAACCCCTACTACACCCCCCCGTCTTCACCAAGTCCGGCGACTCACTGTGGGATTAAGCAAAGAGAAGCGGAGAGCGACGGTGGCGGCATGGGAACGTCGGTTCAGGTGACGCCACTCTGTGGAGTATACAATGAGAACCCACTGTCTTACCTCGTCTCCATCGACGGCTTCAATTTCCTTGTCGATTGCGGTTGGAATGACCACTTTGATACTTCTCTTCTTCAACCCCTATCCAGGTACTCCACAAACAAACACAGTATCAATTTCATTTTTCAATTCACTTCAATGTATATACTTTTGCTACTTCTCGGAGCAAAACAAGTATTTTACAGTGTAAACTCGTTTGCTGGCTTGTGCATTTGACGACAGATAGTTTGTTATTGGATTGATTCTTCATTTATTGATTGCTTTTAACTATTTCTGTGCTGAAACAATATATCTTGTTTTAATGTTTAGGGTGGCTTCAACGGTGGATGCTGTATTGATTTCACACTCTGATACATTTCATCTTGGTGCTTTGCCCTATGCCATGAAACAACTCGGTCTTTCTGCTCCTATTTATGCCACAGAACCAGTGTACAGGCTAGGGTTACTAACTATGTATGATCAGTATCTCTCACGGAAGGTGAAGCTTTACTCTGGAGTTATTTTTGAATTATTCAATGCAGTTGTTACCTGTTCATACTCCTTAATCTACGGACTCTGCGGGTTTTAGCTTATATGCTTTAAAATCGAACATTTCACCTGTATGTTGAGCATCGGTCCTTGACATAGATGTTGTGTATAAATGTTTAGCTTTGCAATGACTTATGTCAAGCTATAAAAAACAATGTTTGTTACTTGGAATATGTATTATAGGGATAATTTATCATGAATCCTTCCCTAATTATTGACAGAAATGATTAATTAAATTTCACTCTCCTTATTTGCGTAGTAAACTATGAATTCATATTACTGTTTTCAGATACTATCTACTTTTTATAGCATGTCCGTTAATGCTAGCCAGCCCTTTCAAATTAGAGAAGAAGTTAGAACCCTGGAAATATGATTGGTTAATGTGACTAACCATTATCAGTCACAAATATACTTACTTGAGTGTCACTTAATTTAATATAACTTTTCACTTATACTATCAGGGTTCAGAATTTTTGAAGGAAAAAAGAGAGTGGAAGTAATAGAACACGCCTCTATTGGGATTCCAGGACCTATAGAGCAATATTTGGCTGCTGAGAAACTAAAAGTCCAGTGTCTGACAAGATCATTTGTGTTTGTTACTTTTGAGTGTGTGATCGTGTAGAAGTAAGTCCATTGACACTCTCCTCTTGTGCAGCAAGTTTCAGAGTTTGATTTATTCACCTTGGATGACATTGATTCAGCATTCCAAAATGTGACCAGATTAACCTACTCTCAAAATCATTACATGTCTGGTAGGTCTCTTTTCTTGTTGCCACTTTTATCGAGTTTAACTCATGTCCGTATTGTGGTTTATTAAATCAAGTATAATGTAGTTTCATCCTTCATATTGTCAAGAAGGTAAAGTTAATTAAGACATTGATGATTAAAACTTCAACTGTTTCTAATAGTTTGTTTGGTTGCAAGTCTTGACCACCAACTAATTTTGAAGTAGTTACAACATCCCCTAATTAGTAAATGGAACTGCTGTTTTATTATAGGAAAAGGAGAAGGAATTGTGATTGCTCCCCTGGTAGCTGGTCATCTGTTAGGAGGTACCACCTGGAGGATAACAAAAGACGGGGAGGATGTCATATACGCTGTTGACTTCAATCACCGCAAAGAAAGGTCAAACTAGAACAGTCTTGTTATCCAGTTTAATGATTCTACTCTACTGTGATCCTAATATTATGATCTCTATCTTTTTCTTTCAGGCATTTGAACGGAACTGTTTTAGAATCTTTTGTCCGTCCAGCTGTTCTAATAACAGATGCTTTTAATGCTTTAAACAATCAACCTCCTAGGCGCCAAAGGGACCAAGAGTTTCTGGGTAATTGTTGTTCCTTTTTTTTTTTAATCTCTGAACTGCTTGTCCTTCTGACTTCAGTGGTTTAGCGGAATTACAGAATACACACGACACATTTTATAAATTCTACAATTTATTAACTTGCTTATTTAGAGGACTTTCAGATTATCATTTGCTCTTCCCTACCCTCATTCAAAAGAAAAAAAGATAATTAGTTTCAAATTTGAAGAACTTTGAGTAGACTTCATTGGGTTAGGGAAAGTGACAAATACACACATCACATTGTTTAAATTTTACAATTATTAAATTGTGTATTTGGAGGACTTTTAGATTGTCAAATCATCTTCCCTTCAAAGAGAAAAATAATGGTAGCATATGAACTTAAGTTTTACTGATCACTATATAGTCTTTTGTATGGCTAGTGTCGTAAAAATAATAGCATTTGAAAAAATCTAGTTAATGGATTAACCTACGTGAAAACAATCATAAAGAAAACAGTTTCAAAAGAACAATCATAAAGAAAATGAAGTGGATAGTTTCCAAAAAAGATAAGGAAGTGGATAAGTACAAACTAAACATGGTATCATAGTAGGACCCATCCCAATTCTTGTTTCCTAATGTTGATAGATTGTTCACACTTCTATTAGCGATAGTGTCTGGGCTTGCAGAGGGGTGGGGTGTGGGATGATGAATGAAGTATCACATTGGAAATGGATGGTCTCCTTGAACTCTTAATATTGTTTGGACAATCCTCCTCTTTGGAGCTTGCTTTTGTGATTGATTTAGGCTCAATGTTCATTCCTTTACTATACAAATTACACATAGTACTAGTTTTGAAATAAAAAACTTAGAAAAATCATGTTGAATAGGAACACAACGGTTAGGGTGTTCTAATTGTTGATGCTATAGGTCGTATGAAACAATGACATTGCATTTGGGAGGACCATCAACATCGCCTGGTGGCCACTCACACAGCTATTTTTTTCTCCATCCCCGAACCAATAGCGCCCCTATAGTAATATCCTTCACACGAAAAAAACGTGGAGAACATTTCATAGAGGTGTTATTATCTTGACAAAACTTAGAGACACAAATTAGTTTTTTCTTTTTTTTGATAACCGAGAAATCCGTCTGTGACCCATCCTTTTGAAACAATCACAACCTTCTAAACTCGGTGGATAATAGGCCTGCCCCTATACCCTTCTCGACTTAAATACCAGGCTTCGCTTTGCATGATGTGGGGCTTAAACTTGCAACCTAAGCCATAAATTTTTCACCTTTTTCCACTTGAGAGAGCAAATGATATGCCAATATGGTGGAGATGGAATTGGTGATTAGATGCATTAGGTTTCACATTATCAGTATGAGAAATTGGAATGTTATTTCCATTTCCATGAAGATATCCTACAAATTGTGGTAGTCTTGCATAGTGTCTAGACTCTGTGTCTTAAGGCAATATGGTGGGTTGCACCATTGTCAACGACCCATAAAGCTTGACTTATTTGAGAAGTGTGTAACATAATTATCATGCGCTTGAATATGGTTATGAGGTCATGTCTAACATACACAAGCAACAGGTGCTCTATCATTACAGAGTTAGTAGTAGAGGTTGCTTGTCAGCGGGACACAACATTCGATGCCTTCAACTTGTGATGGAGTGAACGAACATATCCTTTCTCTCCTAAACTCAAATATGCTTGCATAAATCTGAGTAAAAATTTTAATCATTACATTTGGTTCATTGGCCTAAATGAAGACATTATACATATCTTCCTCATTACAATGGGAAGGCTGTAATCTTAAATACATGACCCACAATGTACACAGAGCTTCTAGGACCTTGAACACTTAATACACACACTAAACTCAAAAATACCCGCTAGACTATAGTGGGGTCAACATAGTTGTTAAAGATAATAGAGGTATACCTAATGAATGACCACATCATTTTGAGAATTCATCCTGCATCATGAAAAGATGCAACATTCCTAACGAAAAAGGACGTGAATATCGTGGTATAGTACTCTTATGATAAAACAAAATCAAATGTAAGAGGATAACCTGACGCAACCCTATGTTGTAGGTCGAGGGGCCACCAACACAAGGAAACTTTGACAAAATCTTTGTTTATGCAACTAACTTTAAAGAACTTGACTAATATTAGTACTTCATCAAAAGAAGAACTTAACTAGTGTTTTAAAAAACGTTTTTGGGGTGAGTCCCAAGGCAAGTTTCGGGGTGGGGCGTACCAAAAACGCTTCGAGGCGTGAATGGAAGACGTAGATCTATAAGGCGTAAGTCCAAAAATTTGAGGCGTAAGCCCCGAGCATAAAAATATAAGTCCTGAGCGTAAAAACGTACTCCCAGGCGTTTTAAATTTATTTTTTTTCAACTTTTTTTGTTTTAAATAATATTTTTACTATTGGTGCAATGATATCTCCCAAATAGTAATTATAATATTTTTTCTTCATTATGGAGTATTAATACTTATTTGAAATAAGAATCATAAATCATTGAAAGGTTTATTTTTGCTTATTTTATTAGTAATAAAACTATAAAATCGAATATACATGAGACTATGCCCCGTAGATCTATAGGATTTACTCCCCGTAGATCCATATGATTTACACCCCGTGTCTCGGGACTTACGCCTCGCCGTATACGATATAAAACGCCCTGCTTCACGCTCCCGCCTTTCAAAACACTTAACGTAACTAATATTAATAGTGTTGCATATTTCTTGCTCATATGCCAACCTTTCAGTTATAACACTTGGAATTACAAAGGAGCTACAAGAAATAAGGAATTCGAAAACAAGAATTACAAAAAGGAAACCCACTAGCCGTTCACATATTTGTGTTGCCCAGTTGCGCGCCCCCAAGGCCTACTTTGGCCTCACTGTCACTCGCTTAGTTGCACGGACTCTTCACTTTTGATGTCACACCCGTGTTAGATTCTCCATAAATACACTACTTTTGGCGAATCTAACATGCACCTATTAACATTTTTGAAGAGTCCGGGCAACATAGGGCCTCACTTGCTACAATGGCCACTATTGACTCATTTGTTATTGCCATTGTCATGCTGCCACACGTCTTGGCCGCCTTTCACTTTGTCATGCTAACTCTTGTTTTGCTCGTGCCACTCTTTAGCTTTCACCTTGTGTTGCCTTGTCTCAGTTTTCTTTAACCTTTGGCATTAGTCCACCTTGATTTTCCCACACTTGGTTTGACCTTGGCATATGCCACATGCTATCGTGTCATTGCTCGTGCCGCCAATGCCTATGCCATACCATGGTGCACCAATTTGTGAGTTTGTTGTCAACTTGGCAATATGATTTATTCATCCCATACGTAGGCCTGCCCAAAGCAAGGTCATTCATGCTAACCCTTTGCTGCTGCCATGCCATTTTCAGACTAAAGAGCCAAGCCCTTTTCAGGTACTACCATTGCACCACCTTCTCTACCACAACACCCTTTCTTCATCTTTGCAAATGAATTTTCCACCATGGCTACCACCTCAAAAATCCTTGCCACAACACACAAACAACACATACCCAAACTCTTCACCTCCCAGAGTTTTTGCATCTTCACAAATCTCAATCATATTGAGGAGAAGGAGAGGGTTTAACTATAATTTTCAGCAATGATAGGGGGCAAAAGTGTAGAAGGGGAGGGGATTGCAGCAAGCAAGAAGACGAAACTGCTGAGGAGGGGGGGATAAGGGGAAGAGGATTAGGGAAATGATGAAAGGGTTTGGGGAAGACGACACAAATGGGGAAATGGTTAGGAAGGGAAGAAGTCAAAAAGGAGGGGTAACTTTGTGGTGGAAAAATGTGAAAAGAAGTAGTTAATTGGAGAAGTCAATACTTATCCTTGGCTGGTAGTGTCACAGTGAACAACAGTGACCTTGAGGCCATGCCAACCCATAAGATGCCCCTCTTTCCTATGCCGGGAAGATCATCAAAAAGCTTGATGCTATCAGAAGAAATTTCCTCTGGCAAGGTAATCAAGAAGGAGAAAAGAAATATCATTTGGTTAAGTGGATGCTGTTACAACCAACAAAAGAGAGGGAGGTTTGGAATTAAGAAGTTGAAAGATCAGAATAAGAGCCTTCTGTTAAAATGGCTATGGAGACTAGCATCAGATGATCGGGGCTTGTGGAAGGATATCATCGCTGCAAGATATGTAAGGGAAGGACCATGGACTACTAAAGATGTTAATATTCCTTATGGTGTGGGGCTATGGAGAACTATTAGTAATAAGTGGCCAAGCATGTAGAGTAAGTCTGTTATCAATGTGGGAAATGGGTGAAAAACCTTGTTCTAGAATGATATATGGGTGGAACAAACACCTTTGGGACAACAGTTCCCAGACATTTACATTCTTAGTCAGCAGGAAGCCAGAAAATGGCTACAATTCTCAAGTCATAAATGAAGAAGGCTGGAACTTGACCTTCAAAAGCCTCCTCAATGAGTGGAAAGTGGAGAGAATGACTCAATTCTGAACACCTTGGAACAAGCCAATAACCTTACCTGTGAGGAAGACAAATTGATATGGAAGTTGGATAAAGAAGAAAAGTTAAAGGTGAAATCAGTCTACAAGTTACTGGACATCTCAACTTAAACCAAGGAATTGTGGTATGGAAGATGATCTGGAAGGAAAGATACCACATAAGGTGGCTTGCTTCACATGGCTTGTTGCAAGACAAGTTTTTTTTGGACTCTGGACAACTTAATGAAAAGGGAGGACAGTTATGCCCCAGATGCTGTTTTTGTGAATCTGAGACTGAGACAATAAACCATCTCTTTTTTTTTGTGAAAAATAAACCATCTTTTTTTTGCATTGGAAAGTGATTGAGAAACTATGCCAGTGTTTCACTAGCCGGAGGCGTAGTAGATGGACCATGTCTAGGAATATTGCAGAAGTTATAGCATGTTGGAATAGAGATAGAAATTAGTCAGGACACAAGGAGAGATGGAAGATTTTCCCTACCTGCATCTGGTGGACAATATGGAGGGAGAGAAATCAGAGATGTTCTGAGAACAAGAGCATCCCCTTTCAAAGCATTAAAATGAACTGTTTAGTGACCTTTTTCTTTTGGTGTATCCATACTGTACCTAAGGACCCAGGGGACATCACCCTATATCTAGATAGTTTTTGTGGGGAGATAGGCGATTAGATTTTTTTTGACAGCCCCTCTATACTTCTGATGTAATTACTACAGGAGTACTTTATTGATTAACTTCTGTGTTATAATTCCAGTTTAACTTTCTCAAAAAAAGAAGTAAAAAGATCCTTATATCTTCCTTTTTGTTGCTGCAGGTCATAATTTTGCTTAGGTCTTGGTTCTTGTCTAATCTTTTTTTCTTTTACCCACAGATGCCATAGAGAGAACTCTTAATGTCGGGGGAAATGTTTTACTACCTGTTGATACTGCTGGTCGAGTTTTGGAGCTCATCCTGACATTGGAACAGGTTCATACATGAGAGTATTTCATCTCTTGGTCTCTTACTGTCTACAACTTATTAACTAACTTTTCTGATTTCTGGTTTTGGTGAAATTGCAGCACTGGACACAAAAACAGTTGTCCACTCCCATCTACTTTCTATCATATGTATCCTCAAGTACTATTGACTATGTAAAGAGTTTCCTTGAGTGGATGAGCGATTCAATTGCAAAATCTTTTGAGCACACTCGTGATAATGCTTTTCTTTTAAGGTAAGGCTAGTATACTTCACATGCTCTCAAATTCAGAGATTCTAGTTAATGAAATGACTTGCTTCAATGATGATTCTCTGAGGCTATTGAACCCCAAGGATAGGGTTTACTTTCATCTGTCTATTTATTTTAGGGTTTACCATCAGTTGTCTATCCAATTACAAGTCATCCAGCATCAAAATTCTAGAGGTTGTGTTAGCACTTCCTTGTGGTGAATGGCAAGTATTACCATGTAGTCAGAAGAAGGGCCAATGTTGGATTAAAATTATAAAGAAGTGAATAAGAACCAATAAATTTGTTACAAGACAGAAAATTATAAACGTTATCTGCATCAGCTGCTTGTTATTTTCCAGCCAAGCATGCGGGTACTCCATTTCTGCACTTGGTTTTAAAATCACAAGGCTGCACAGGTTCTTTGGCTACTTTATTTCTGAACCGCGGAAATAAATATCAGTGGAAAATCAGCTCATAGATAGATAGAATTAGTCGAAGTACATGTATTCGTGAGTTGAAAGTAATTGCATTTTGTAAGCAGAAACAATGTACATAATAGACAATGACAAGATAATAAGGATCTGTTCTATAGGCTCATTCATCTGTATCCTTGAATTCTAAAGGAAGATGCAACTGCATCATCAAATTGCATACTATGGATCAATTTGATGCGAATGCAATTTGATCAGTGCCCAAATGATCCATGACCTTCTGGCATCCTTTTTGGAGTCCAAATCTCCATCAAAACCTTTGTCTTTCTAGTCTTGTGCAAGCGGACATGTTCTTTCTTCGAACTATTTTCATCATTAATCTTTCTCCACTTTCTTTTACCAGTTGCATATGCATTGGCCGTGCAATAAAAGAAGTCAGTGCAACTTCCATCCTTTGTTGCACCTGAGACAAATTAAAGCATTATTGCTAACTCTTAATTCTTTTGGAATCATCTTCAAATAATTAAATCAGTCAATTGTATTTAGTCTATACTGAATTACTCAATTGCAACTCCTCGAATTCTCCAAATTTTTTTACTGCAAAGAAGAGAATGTTGTTTACCTACTGGTTTATGATTTAGTGTTATCAAAGGTGAAAAGCGCAAAAAAGGTCTAAGGTTCGTAGGGGCTTTAAGCGCAAAGCACAAATAAAGCGTGGCTTTAATGAAAAAAGGCACAAAGGGAGAAAAGAAATCAAATATATATGTTTAGTCCAAGACTAATAATTATAAACATGAATGACAATTATATGACCAAAGAAAATGAAAGAAATTTATGATAAAGTGATATGTCAATTATTTAGTGTCACTTCTTCATAAGAGGCTCATTGACAAGGAAATTTGCCTTAGAACCTTGATGACGACACTGAAGCGCAAATAAAGCGAGGCGAAGCGCTCAACCCGTTTTGAGCCTCGCTTCAGGGCTTAAGCGGGCTTAAAGCGCCCCTTTTGGTAACACATTGAAGGATAATTTATTTATCAATTGAAGGGTATTACAGTCACTTAAGTTTATTGGGCTATTTTGGCTTTCAATATTTTGATTTGGAAGTTCCCTCTTTTAGAATAGTACTGATTAGAAGTCTAATGAAGGGTTTACAACATATGCAGGAAAATTAAGCTTGTGATCAATAAGAGTGCTCTTGAAGAAGCTCCTGGGCCGAAGGTTCTCTTTCCTCATCTTTAGCAAATGAGGAGTCATCTTTATGTGTTCTCAGTTATCTGTATATGATATGTAGGTTGTTATGGCTTCCATGGCTAGTTTAGAAGCTGGATTTTCGCATGACCTCTTTGTTGAATGGGCAGCTGATCCAAAGAATCTTGTTATGTTCACCGAGAGAGGGCAGGTGTGCTTATATTCCGATTAATTAATCCTGTTTCAAGATTTGGGATTGCAACCAGTACTATTTATGCTAATTTAGAGTAAGACATGTCGCTTTCACCCTTTCTGAGGTTTTAAGATACTCGTCTGTTAAAATATCTTTATTACTTGTTGATGCATTTATTTTCCTATGTGTAATTTAGGTAGATTTCAGTGTTACACATTTTGTTGAGATATTAATAATTTGTTTTGTAGTGACAACTCATTTCATTGCTGGAAATTTGTTTACACATTTCCTTGCTTTTGTTCAACTTGCATGAAATAAAGAAAATAGCCATGTGTACTAAACTACTGATAAACATTTTAATAATCTTCATTCAGAACTTCTTGGTTTGTGGAAATTGTATGCTTATGTTTTTACTGATTCCTTTTACTTGAATATAGTTTGGCACATTGGCACGTATACTTCAGTCAGATCCACCTCCTAAAGCTGTTAAAGTTACCATGTCACGTAGAATTCCCTTGGTTGGTGAGGAGTTGGCTGCTTATGAGGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATGGTATAGTACAATTTGCTGATATGTGAATGAAAATATCCTTCACGCTTATCTTCCCTTTCATGCCTCTCTCTACAAATTGCTTATCCTAGACTTAAGTTCCTCTTTCTGTCTGTGCACTTTTGAATTTCTGCTGTTAGGGTCCTTTCTCCTACTTTATGGAACGCCAGCCTATTCCACTTCACTATTTGTCCACATACTCTATCTGAAATGCTCTTCTGAACCTCGAATCTCACTACCCACGTGGATTAACAAAATATTTATAGCTGATTACTGCTGGTTGTGTATCAATTTTGAATCTGGCAGCATATTGCTGGTTAAGGTTTACCTGAATTGATTTGGTTGGGTTCGGTTAAACGTACAAATTCAAAATATTGAAGGGAGATACCTTCGGGTGGCCCAGTGGTTTGAGCTTGGGACTTCCATGTTGGAGGTCTCAAGTTTGAAACCCCTTGCCAGCGAAAGCAAGGGGTTTGCCTTCTGAGTCGAGCTCGTCGCACCAGGCTTGTTTAGTGCGGGTTACCTCTCTTATGTGGTTTGTGAGCTATTGCATGGGAGTGGGGGTTTCACCTTGTGCGCATCCAAAGGGTAGCGGATGCGGGTTTCCCTTGTCATAAAAAATAAATAAATTTAAGGGAGATTTATGAAATAGTCCATCTCTGATGGTACTGCTTATAAGGAAGTACTTGAAAGGTGTGGGAATAATCAGAATAATGGTCTGTAATAAGCACACTAAACAACTCGCAGGCACTTATCTACAACTTTTTATTGGAGAGAGAATTTAAATATATTCTTCCTCTCTAAGAAAGAGAATCAGCTATGAGCTACCACAATATGAACAAGTAGGCACACAACATATTGATTTTTTAGTATCCATGCAGAGACTTCTTTTTTTAACGTGTTGATATAAGCTAATCAGAGGTCTTATTATATTTACAGCTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCATGTGAGTTAAAGTTGGTTTTATGTGCCTCCAATTGAGCAGTGGCATAGTTATCTGTTTGTTTGTGTGTTTTTGGTTGTTCAGTGCAGATAATTTAACTAGTCCATTCTGAGTCAAGAAAAGTGAACTTTGTGTCATTTTGCTGAAGATTGTTCAAATGTAATCATGCACTTCGTCAGAGTATCTGTTAGATATTAGTGATGGACTGCCCAATATTTTTTTTAAAAAGGATACTTATTAGTGGTGGACTGCCCAATATTTTTTTAAAAAAGGATACTTATTAGTGGTGGTTTGACTACTTTCTGATCTAGAATTTCTCACATTCCTGAACTTTTATTTATGTCATAGCTTATGAAGGGTGCTACTATTATTTCCATATGGCTTAAAATCGAATTTGAGGTTAACAAGTGTAACCTGCAGTCTGAAATAGACAATAAGGGGTCACTTGGTTAGAGGGTTAATAATATAATCTTTGCATTGTGTATGCATTGCGGTTGGCCGTACAAGAGAAAGTAGTTACAAAGTCTTATGCAGTGTTTTGTTGTCAGTATGAAATAATACTCGTGTTAAGTTATTGATGAATCTATGTATTATCTTATGTGCGATAGAATATGGGATAGAATATGTGTATTAGTATTACGGGTATTAAAGTATATTGAAGACAAATATGCCCTTAAAGTAAGTGATCCTTGGCTAAAAATCTTTACATGATTAATCGTATTTTAACAATCCCTACATTATTAATCACCGCATAACAATCTCTTCATTATTATTCACCGCATAAACGATCCCTCCCTTGCAATTCCCACTTATAGCATGTGAGCCAAACCACCCCGAAGTTTCTTATGGGAAGAAAGAGTGATTTGCTTGTCAATCATTATGCTACTTTGGCATGAAGCTTGTAGTAAAGTAATTTACATGTAAAAGATTTTGCTTTCGCAACCAAACGGTTTCGATAAAGCCAACTCTTTTAAAAGTTTACACATCTTCAAGACTATATGTGATGGATATTGGACATCCATGGTTAAAAAAGGAGCCATGTCCGTATCACATTTCGGGATTTTAAACTTTTCCTGCTATTTAATTCATAATACCGGCTATCTCCACGTGTATCATTTATGTCATGTGATAAGTGGAGAGTACTAGCAAGAGATATGACTCAACGGGAGAGGAAAATCTGTCATATCAATAAATTGGGAATATATTTTGTCATGGTTTATTTTAGTTCGTATGCCTTATTTGAGGTTTTATGCCAATATAAAATATGCAAAACTTCTAGTACATTTTATTTTTATTTTGTATCATGTCGGCCTGAGATAAATTTAAAGGGGGAAATATGGTCAGGAGGGTTCACAGAGCCGGCTCAACTTGTTTGGGATTGAGGTCTTGTTGTTGTTGACAAGTAGAGAGTACTAGGAAGATCTAGATCTATAATCGGCTTTTCCTGTTTGGGGAAGAATCAGCAGAATAGCTAAAAGCATAAAAACTAGTAATTGCTTTCTGTCATGTAAAGAAGAATGAAGGTCTCTTCCTTAAGTTAGAAGAGGGAGGAGAAGATGCATGGCGTGGGATGTTGCTCCACTAACACTTATGTGTACTTTTTGGAGAGAGAAAGAGGAGAGTTTCTGATATAATAGAGAAGAATTTTGTGCACTTGAGGAATAACATATTATCCCTTATTTCCTTTTGGTGCACCCATGAGGTACCTATAGGTATAGAAGATTGATGTTGTTTATAGAAAACCATATTTTTTTGTGAAGTTTTCTACCTTTTGGTATACTCCTTATATAATGGTATTTGTTATCCCCAATGTTCACAAAATTTTGTTACTTGATAAAAAAAAAGTTCAACTGAAACTTACTAGCATGGGCTGACACCTCAAGAATTCATGGACATGTTCCTTATTAGATTGGTAAATTTTCATCTCTGTCACATCGTGAGTACCTTGTTGTTACGTTTTCCTCCATCCAACTAGATAAAGTTTTATGGCGAATTGTTTTGTTAGTTCCTTGACTTTGATGTCTTTCTAATCTTCTGCTAGGTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACAGTAAGTTTCACTTTGATTTTTGATTTATCTTTTACCCTAATCAGACTCTAGCTAAAGGCTGGAAGGTGAATTTACCTGAAAGCCGCTCTAACATATCAGAGAGTATAATCTTAATTACAATGCAGTGACTAAAGTCTAAACAGTCTCTTCAAAATAAACAACTGACATTAAAATAGATTCATCTAATTTTGGTATCATGCTAGAGCAGGCCTGTTATTTGCTTTTTTAGTTTTCTTCTTATCAAAGTCAAAACCACTTCCCATCTTAGTGTAGAATTCTATGTTGCAATGCAGGGACTAAATAGTCCCTTCAAATTGGACAAATGACAACAGAATAGAGCAACCAAATTCTGTTCCATGCTAGAATACGGCCGTTATTTTCTTATCAAAGTTTAATGCACTTGATGCTCTGCTGTTACCTTTTCAAAAATTGCTTCAGGCCTGCGATGGTTTCGAAATGAGAAGTAAAAGATTATGTTTTTTCTCGAATATCTTGTTGAGCATTGAATTACTCCCTGTCCCAAATTTTTGGGCTTTAGCAATGTTTGGAGAATCACACGGTTTTTTTTTTGACTAAGATTTCTCAATTGTTTTAAAAATTCTCTCGTTATGAAAATTGTGATTTACAGTATTTGGGTATAATTTTATTTCAATGACTTTGAGAAATCAATATCCTAATTCACTCTGTAGCTTAGACAGATTGACACTCATACTTCAAACCCTCACATTATATCAGTGTTATCAAAGGCGCGCTTATGCTCTGAAGCGAGGCTCAAAACGTGTTGAGCGCTTCACCTCGCTTTATGTGCGCTTCAGCGTCATTATCAAGGTTCTAAGGCAAACGTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAATAATTGATATTTCACTTTATCATAATTTATTTTCAATTTCTTTGGACATATATTTGTCATTCATGTTTATAGTTATTAGTCTTTGACTAAATATATATATATTTGTATTCTTTTCTCTCTTTGCGCTTTTTTCATTAAAGCCCACGCTTTATTTGCGCTTAAAGCCCTCATGGACCTTAGAGCTTTATTGTGCTTTTTGCCTTTGATAACACTTCATTATATTGGACGGAGGGGGTATATGATTAGTCCTAGTTGGAAGTCATCTTGACTTTCAATTGATGCATCTTCAAAATCTCTGAATCTGAATTGACTCTTTACTTGCAAAATTGGCTCTTAAAAATGTCGCTTCAGTTGTGGAAATGTTAAATGTCACTTAGATATTGACATGTATTCCAGATATTCTGAAGCTCTAGTTTTGATGATCCATCCTTTGTGGTGTCACAAAGATACAGTTACATCCACTATTTAACCTTAAAAAAGAAGTCCTTTTTAGACAATCTGCCTTACCAGTCATCACCTATCTCAAAAGAATTGGAGCAGTTCGTCATTTTTTTGTCAATACGCTCAGCATTAGACCAACATCAAATTGATTATAGTATCCATGCTATAGCGTCAATTCGGATGGTGTGCTGCTATCTTTTCGTTCTTATATTTATTTTTTTCTGATTGCACTTGCTCATCAGCAAACATTCATGATGTTAATTACTGAATATTTTGATTAGCATCCTTATAATATGTTTTCCTTTCAATTTTCTTGCTCCCTTTTTTTCCTTTCACAGGTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCATGTTGCGCCCTTAAAGCTTGTATGAAGTTCTTTCCTTAACTGATATTACTAAATATGCTGACTTAATATAAACGGGAATCATGTTTTCTTTCATGCATTTTTACCATCTTTTCATAAGTAGCTATATCAGTAATAACACAATCGTTCTTGTGTGTTTTACAAGATGTTGACAGTTCCATCTCTTGTATGAGGCTCTCATTTTTCTGTGGTAATTAGTATTTAGTTGATAAATTTTGCATCTATGACGGATATTCACACACTTTCAGGCTTTTCTTAATCAACTAGTATTCAAAGGAAAAAATATATTCCTCATGCATGCTCTGAATATATTTTTGGCATAGTTGGATAATAGGCTTTCTTCTAACCTGAAGAATGAATTTCCAGTAATAAAGTGATCTGATTTTTTTTCGATAATGCCAACAGTTAATCTATATATTCACAGGTATACTACATCAAAATATGTAGTCCCCTTTCACAAGTATTACTACAACTTACAACTTGAACACCTATCTATTGTTTTCCTATAAATAATCTACAACATCACAGGTATCTTCTGTTTGATCTAATAGTTTCTGTTTTCACCAAAAATAAAATAGAGCTAAGCAATTCATTTGAAACTTCTGCAAGTTGGTCTGCTTGTCCACCAAATACATGCAGGGAAAATCTACTTCATTTTTTGCTTCCTTGACATCCTTGTTCCAGCAGCTTAACACTCCTTTTATGTTCCCTGGCTTCACCCACCTAATCTTCATCAGACAGACGAACATCTTCCACAGCTGGTCTGTCCACATACAATGTAAAAACAGATGGTTGATTGTCTCAGCTTGTTCCCCACATAGAAAAAATGTAGAGCATAGTTGAAAGTCTCTCTTATCCAAGTTCTCATTTGTCAATGCTGCGTCCTTTACCAGAAGCCAAGTAAGACAGTTCACTTTATAAAGAACTTTTGATTTTCCGGATCATCTTCCATGACCAATCTTCCTCCTGAAATATTTTGGTGATTCATTGGGTTTTCTTAAAAAAAAAGAGGATATTGCATCTTTATACTTGTGGGACCGGAGAATGCTTGTTTTAGTAAAACTGGGGATTCTATTCTTCTGATCTAACACTTCCATAAGCTTAAGGACAGCTAGTTCTGTGTGGTATAGCTTCATCCTTACAAGTTAAATTTTTATTTCTTATCAAAAAGACTTGTGAAACGCTTAACATACATTGGCAGAGAGTTTTGTTTGACATTATTAAACTACTTCAGAAGAAAATTATGTTTGTTTCCTCCAACCCCCACTTTGCCACCTTTAGAGGAAAAAGAAAGGCATTTCTATCCAACCTTTCCCGGTGAGTCAACTAACCTTGCTGGCCTTTGTTCTCAATCTGCTGAGGAAGTGGAAAGCAAAAAAGAAAGAAGACCTATAGCTCACATGTATTAAGTGTTCACTGCTATTGACCAAGCTTTTATCGTAGATGCAAAGGATATCTTTTTCACCTCAGTGCCACTCGTAGCTACTTTTTTACTTAAAGAAGCAAAGGATATCTTTTTCACCAATGTTGTATTGCGAACAATTCGAGTCGAAATTTTTGAAAGTCTCACATAATTGACTTAAATTTCCTGCAAAGACTTTGATTTTAGTTTTTTTATTTTCACTTTAAAGCTAAAATGATGACTGATTATCCTTAGTCTGAAAAATTCTGGAAATGAGGGTTATAGTTGTGGAAGCAATGGTAATAGCGTCTGCAAGGGACTAATTGAATCCATTCTGTCCTCCATTTGAAAAAAAAGAAGTGATGCATCGAATTATGATAAGAGGATGTGACCTAGTGATCAATGAAATGGTTGAGAACCTTGAAGTCTCAGGTTCAAAACTCAACGAAGAAAAAAAACATAAGGTGAATCTTCCAATTTGTCCTAGCCTGGTGGACGGAGTTACCTGGTGGTACTATGGGAGGTGGTAAGTATCCCGTGGAGTTAGTTGAGGTGCGCGAAATCTGGCCCGGGCACCACGGTTATCAAAAAACTAAAATGATAGAGGGTCTAGTATTAGCTGATTAGTATGTTGTTCAGTGTTCACAATGCTCAATACAGTAATGACTTTGTATCCTTTAATAACAAGGATTAGTTAGTTCATGTTGACTACAACTTCTCCTGGTTCACTTTTTTCTTAATTGAAGTTGGTATTTTTTTATTAGTAGTTTAAATAGCAGATAGATGGTCATTTTTGGATACTAATGTTTATATCTTTCTGCTTTTGACACCTATATAATATTCATTACCTGAACTTTCTGCCTGTTTTCCTATCAGTTAGTCTATCCGTGTCCTACTTTTCTTCTTCAACAGTGAAACAATTAGTTCTTTCAACTTCAACTAGTTGACTTGTTTTAATAGCTATTCTGTTTTATAGGTATTGGTGCATGGATCAGCTGAAGCCACTGAACATTTGAAGCAACATTGTCTGAAACATGTTTGTCCACAGGTCTATGCTCCACAGTTGGAAGAAACAATTGATGTAACTTCAGATTTGTGTGCTTATAAGGTTAGTCTACTTTCTTTGTATGTGCCTTTTGTGGTTTATACCTGTTTAAACAAAATACTAGTATAACATCCTTGGTCTATGTTTGCTTCCATGATAGGTCCAACTTTCTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAGGTAAGCTGGATATATTATGTATGACATCAATAAATGATTCCTTTACGAAATTTCTGCCACTTTAGGCTCTTGATGCATTTATAGAAGCAGCTGAAGTTAGTAATTTATGCACATCTAATTAAAACAAAAAGTTACCTAAGCACACTTGTGTCAATCACCCTTCATGTGTTGTATAAATGGATTGATGGAGTTTTTATCAAGGTACTCTTTGTTAAATGTTTTGTACATTTGCAGTTCAGTAGCTATCTTTTTGTCCTTGAATGTTGAGGCTCTGTACACTCCACACACTACAATGGGTTAGACATTTCAAGTGTTTGTACTAAAGTCTTCGGTGTGTAAGACTTTATGCTCCATTTGATCAGGAAGCTGCATACAAAGACTAATCTTGATCATTATTGTGTCTGTGTTTTCCCTTTGTCCTTGCTTAATTGTGTTCACATTTGCTATTGTAGCTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAAACAGTTCTTGTTGGAGATTTAAAAATGTCTGATTTCAAGCAGTTTCTTGCAAGCAAGGGCGTTCAGGTCTTTTCTCTTTTCTTTTATGTTATATTTTCTACTACTAATCATGATTTGGCTTTAGGTTAGCAAAATGTTGAGACCAGCTATTTTCATTTTCAGGTAGAATTTGGTGGTGGGGCTTTACGTTGTGGGGAGTATGTCACCATTCGCAAAGTTGGAGATGCTAGTCAAAAGGTGACCGCTTTTGATAATATCATCCAAGTGTTCTTCATATTATTAGCAAAATGAAGCCTTTTTCTTGGCATACTAAACTTCTGTTTGAAAATTTCTTGTAGGTTGGAGGTGCAGCTATTCAGCAGATTGTGCTTGAAGGTCCATTATCGGAAGAGTACTATAAAATTCGAGAGTACCTATATTCACATTTTTACTCCCTCTAAATATGAAGAGCAGAGTAACTTTTTGTACTTGTAACAAATGCAGCTTTCCTTTTTGTCTCTTTTTTCTCTTCTCTTGAATCTTGACTGGCTGTTTTTCTAGTAATTTGTAACTTATTGTCTCATTGGTTTCGAAAAGGTCACAATTGTTAGAATTTCCTGCAGGCTATGTAGGCTGTTGTATTTATGCTAGTGGAAGTTGATGAAAATTTAGAATT</genome_strand>
        <mrna_strand>GAGGGAGAGAAAACAAAAACCCCTACTACACCCCCCCGTCTTCACCAAGTCCGGCGACTCACTGTGGGATTAAGCAAAGAGAAGCGGAGAGCGACGGTGGCGGCATGGGAACGTCGGTTCAGGTGACGCCACTCTGTGGAGTATACAATGAGAACCCACTGTCTTACCTCGTCTCCATCGACGGCTTCAATTTCCTTGTCGATTGCGGTTGGAATGACCACTTTGATACTTCTCTTCTTCAACCCCTATCCAG............................................................................................................................................................................................................................GGTGGCTTCAACGGTGGATGCTGTATTGATTTCACACTCTGATACATTTCATCTTGGTGCTTTGCCCTATGCCATGAAACAACTCGGTCTTTCTGCTCCTATTTATGCCACAGAACCAGTGTACAGGCTAGGGTTACTAACTATGTATGATCAGTATCTCTCACGGAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAAGTTTCAGAGTTTGATTTATTCACCTTGGATGACATTGATTCAGCATTCCAAAATGTGACCAGATTAACCTACTCTCAAAATCATTACATGTCTG......................................................................................................................................................................................................................................................GAAAAGGAGAAGGAATTGTGATTGCTCCCCTGGTAGCTGGTCATCTGTTAGGAGGTACCACCTGGAGGATAACAAAAGACGGGGAGGATGTCATATACGCTGTTGACTTCAATCACCGCAAAGAAAG......................................................................................GCATTTGAACGGAACTGTTTTAGAATCTTTTGTCCGTCCAGCTGTTCTAATAACAGATGCTTTTAATGCTTTAAACAATCAACCTCCTAGGCGCCAAAGGGACCAAGAGTTTCTGG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................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GTCAGATCCACCTCCTAAAGCTGTTAAAGTTACCATGTCACGTAGAATTCCCTTGGTTGGTGAGGAGTTGGCTGCTTATGAGGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCAT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCATGTTGCGCCCTTAAAGCTT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTATTGGTGCATGGATCAGCTGAAGCCACTGAACATTTGAAGCAACATTGTCTGAAACATGTTTGTCCACAGGTCTATGCTCCACAGTTGGAAGAAACAATTGATGTAACTTCAGATTTGTGTGCTTATAAG.................................................................................................GTCCAACTTTCTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAAACAGTTCTTGTTGGAGATTTAAAAATGTCTGATTTCAAGCAGCTTCTTGCAAGCAAGGGCGTTCAG................................................................................................GTAGAATTTGGTGGTGGGGCTTTACGTTGTGGGGAGTATGTCACCATTCGCAAAGTTGGAGATGCCAGTCAAAAG.....................................................................................................GTTGGAGGTGCAGCTATTCAGCAGATTGTGCTTGAAGGTCCATTATCGGAAGAGTACTATAAAATTCGAGAGTACCTATATTCACATTTTTACTCCCTCTAAATATGAAGAGCAGAGTAACTTTTTGTACTTGTAACAAATGCAGCTTTCCTTTTTGTCTCTTTTTTCTCTTCTCTTGAATCTTGACTGGCTGTTTTTCTAGTAATTTGTAACTTATTGTCTCATTGGTTTCGAAAAGGTCACAATTGTTAGAATTTCCTGCAGGCTATGTAGGCTGTTGTATTTATGCTAGTGGAAGTTGATAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740285" ref_strand="+" ref_description="SGN-E740285 [LC20DC08]">
      <seq>cggaggagcagaacaggataaaaagggaagaagctctcaaagctactcttgttaaagaggaggaatcaaaagcgtctgttggggcagaagtcgtcacagatgaccccatggccgttgacaccaatgtcacacatccttcctccaatgcttctggtctgcacagtggtgctttcaaggacgtgctgattgatggatttgtaacaacatcgtctagcatagccccaatgttccctttctatgataacacctctgagtgggatgactttggtgaagtcatcaatccagatgattatgtggtcaaagatgacaacatggagcagtcatttatgcatgttgatggagatttaaatggaaaacttgatgaaggatcagctaacctaatccttgatacaacaccctctaaagttgaatcttctgagttaacagtccaagtcaagtgttccttgttatacatggacttcgaaggtcgttctgatggtcgttcaatcaaatcaattcttgctcatgttgcgcccttaaagcttgtattggtgcatggatcagctgaagccactgaacatttgaagcaacattgtctgaaacatgtttgtccacaggtctatgctccacagttggaagaaacaattgatgtaacttcagatttgtgtgcttataaggtccaactttctgagaagttaatgagccaagtgctttttaagaagcttggagactatgaaatagcatgggttgatgctgaagtggggaagacggaaaacgacatgttctctttacttcctctttccggaccttctccaccccataaaacagttcttgttggagatttaaaaatgtctgatttcaagcagtttctttgcagcaagggcgttcaggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="130624" stop="121592"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="130325" g_stop="130179" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="147" r_length="147" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="130178" i_stop="129243" i_length="936">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="129242" g_stop="129058" g_length="185"/>
          <reference_exon_boundary r_type="cDNA" r_start="148" r_stop="332" r_length="185" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="129057" i_stop="127020" i_length="2038">
            <donor d_prob="0.900" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="127019" g_stop="126927" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="333" r_stop="425" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="126926" i_stop="125264" i_length="1663">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="125263" g_stop="125165" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="426" r_stop="524" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="125164" i_stop="122788" i_length="2377">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="122787" g_stop="122656" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="525" r_stop="656" r_length="132" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="122655" i_stop="122559" i_length="97">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.895" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="122558" g_stop="122514" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="657" r_stop="701" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="122513" i_stop="122062" i_length="452">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="122061" g_stop="121894" g_length="168"/>
          <reference_exon_boundary r_type="cDNA" r_start="702" r_stop="869" r_length="168" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E740285" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>869</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740285" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="130325" e_stop="130179"/>
          <exon e_start="129242" e_stop="129058"/>
          <exon e_start="127019" e_stop="126927"/>
          <exon e_start="125263" e_stop="125165"/>
          <exon e_start="122787" e_stop="122656"/>
          <exon e_start="122558" e_stop="122514"/>
          <exon e_start="122061" e_stop="121894"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATGGTATAGTACAATTTGCTGATATGTGAATGAAAATATCCTTCACGCTTATCTTCCCTTTCATGCCTCTCTCTACAAATTGCTTATCCTAGACTTAAGTTCCTCTTTCTGTCTGTGCACTTTTGAATTTCTGCTGTTAGGGTCCTTTCTCCTACTTTATGGAACGCCAGCCTATTCCACTTCACTATTTGTCCACATACTCTATCTGAAATGCTCTTCTGAACCTCGAATCTCACTACCCACGTGGATTAACAAAATATTTATAGCTGATTACTGCTGGTTGTGTATCAATTTTGAATCTGGCAGCATATTGCTGGTTAAGGTTTACCTGAATTGATTTGGTTGGGTTCGGTTAAACGTACAAATTCAAAATATTGAAGGGAGATACCTTCGGGTGGCCCAGTGGTTTGAGCTTGGGACTTCCATGTTGGAGGTCTCAAGTTTGAAACCCCTTGCCAGCGAAAGCAAGGGGTTTGCCTTCTGAGTCGAGCTCGTCGCACCAGGCTTGTTTAGTGCGGGTTACCTCTCTTATGTGGTTTGTGAGCTATTGCATGGGAGTGGGGGTTTCACCTTGTGCGCATCCAAAGGGTAGCGGATGCGGGTTTCCCTTGTCATAAAAAATAAATAAATTTAAGGGAGATTTATGAAATAGTCCATCTCTGATGGTACTGCTTATAAGGAAGTACTTGAAAGGTGTGGGAATAATCAGAATAATGGTCTGTAATAAGCACACTAAACAACTCGCAGGCACTTATCTACAACTTTTTATTGGAGAGAGAATTTAAATATATTCTTCCTCTCTAAGAAAGAGAATCAGCTATGAGCTACCACAATATGAACAAGTAGGCACACAACATATTGATTTTTTAGTATCCATGCAGAGACTTCTTTTTTTAACGTGTTGATATAAGCTAATCAGAGGTCTTATTATATTTACAGCTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCATGTGAGTTAAAGTTGGTTTTATGTGCCTCCAATTGAGCAGTGGCATAGTTATCTGTTTGTTTGTGTGTTTTTGGTTGTTCAGTGCAGATAATTTAACTAGTCCATTCTGAGTCAAGAAAAGTGAACTTTGTGTCATTTTGCTGAAGATTGTTCAAATGTAATCATGCACTTCGTCAGAGTATCTGTTAGATATTAGTGATGGACTGCCCAATATTTTTTTTAAAAAGGATACTTATTAGTGGTGGACTGCCCAATATTTTTTTAAAAAAGGATACTTATTAGTGGTGGTTTGACTACTTTCTGATCTAGAATTTCTCACATTCCTGAACTTTTATTTATGTCATAGCTTATGAAGGGTGCTACTATTATTTCCATATGGCTTAAAATCGAATTTGAGGTTAACAAGTGTAACCTGCAGTCTGAAATAGACAATAAGGGGTCACTTGGTTAGAGGGTTAATAATATAATCTTTGCATTGTGTATGCATTGCGGTTGGCCGTACAAGAGAAAGTAGTTACAAAGTCTTATGCAGTGTTTTGTTGTCAGTATGAAATAATACTCGTGTTAAGTTATTGATGAATCTATGTATTATCTTATGTGCGATAGAATATGGGATAGAATATGTGTATTAGTATTACGGGTATTAAAGTATATTGAAGACAAATATGCCCTTAAAGTAAGTGATCCTTGGCTAAAAATCTTTACATGATTAATCGTATTTTAACAATCCCTACATTATTAATCACCGCATAACAATCTCTTCATTATTATTCACCGCATAAACGATCCCTCCCTTGCAATTCCCACTTATAGCATGTGAGCCAAACCACCCCGAAGTTTCTTATGGGAAGAAAGAGTGATTTGCTTGTCAATCATTATGCTACTTTGGCATGAAGCTTGTAGTAAAGTAATTTACATGTAAAAGATTTTGCTTTCGCAACCAAACGGTTTCGATAAAGCCAACTCTTTTAAAAGTTTACACATCTTCAAGACTATATGTGATGGATATTGGACATCCATGGTTAAAAAAGGAGCCATGTCCGTATCACATTTCGGGATTTTAAACTTTTCCTGCTATTTAATTCATAATACCGGCTATCTCCACGTGTATCATTTATGTCATGTGATAAGTGGAGAGTACTAGCAAGAGATATGACTCAACGGGAGAGGAAAATCTGTCATATCAATAAATTGGGAATATATTTTGTCATGGTTTATTTTAGTTCGTATGCCTTATTTGAGGTTTTATGCCAATATAAAATATGCAAAACTTCTAGTACATTTTATTTTTATTTTGTATCATGTCGGCCTGAGATAAATTTAAAGGGGGAAATATGGTCAGGAGGGTTCACAGAGCCGGCTCAACTTGTTTGGGATTGAGGTCTTGTTGTTGTTGACAAGTAGAGAGTACTAGGAAGATCTAGATCTATAATCGGCTTTTCCTGTTTGGGGAAGAATCAGCAGAATAGCTAAAAGCATAAAAACTAGTAATTGCTTTCTGTCATGTAAAGAAGAATGAAGGTCTCTTCCTTAAGTTAGAAGAGGGAGGAGAAGATGCATGGCGTGGGATGTTGCTCCACTAACACTTATGTGTACTTTTTGGAGAGAGAAAGAGGAGAGTTTCTGATATAATAGAGAAGAATTTTGTGCACTTGAGGAATAACATATTATCCCTTATTTCCTTTTGGTGCACCCATGAGGTACCTATAGGTATAGAAGATTGATGTTGTTTATAGAAAACCATATTTTTTTGTGAAGTTTTCTACCTTTTGGTATACTCCTTATATAATGGTATTTGTTATCCCCAATGTTCACAAAATTTTGTTACTTGATAAAAAAAAAGTTCAACTGAAACTTACTAGCATGGGCTGACACCTCAAGAATTCATGGACATGTTCCTTATTAGATTGGTAAATTTTCATCTCTGTCACATCGTGAGTACCTTGTTGTTACGTTTTCCTCCATCCAACTAGATAAAGTTTTATGGCGAATTGTTTTGTTAGTTCCTTGACTTTGATGTCTTTCTAATCTTCTGCTAGGTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACAGTAAGTTTCACTTTGATTTTTGATTTATCTTTTACCCTAATCAGACTCTAGCTAAAGGCTGGAAGGTGAATTTACCTGAAAGCCGCTCTAACATATCAGAGAGTATAATCTTAATTACAATGCAGTGACTAAAGTCTAAACAGTCTCTTCAAAATAAACAACTGACATTAAAATAGATTCATCTAATTTTGGTATCATGCTAGAGCAGGCCTGTTATTTGCTTTTTTAGTTTTCTTCTTATCAAAGTCAAAACCACTTCCCATCTTAGTGTAGAATTCTATGTTGCAATGCAGGGACTAAATAGTCCCTTCAAATTGGACAAATGACAACAGAATAGAGCAACCAAATTCTGTTCCATGCTAGAATACGGCCGTTATTTTCTTATCAAAGTTTAATGCACTTGATGCTCTGCTGTTACCTTTTCAAAAATTGCTTCAGGCCTGCGATGGTTTCGAAATGAGAAGTAAAAGATTATGTTTTTTCTCGAATATCTTGTTGAGCATTGAATTACTCCCTGTCCCAAATTTTTGGGCTTTAGCAATGTTTGGAGAATCACACGGTTTTTTTTTTGACTAAGATTTCTCAATTGTTTTAAAAATTCTCTCGTTATGAAAATTGTGATTTACAGTATTTGGGTATAATTTTATTTCAATGACTTTGAGAAATCAATATCCTAATTCACTCTGTAGCTTAGACAGATTGACACTCATACTTCAAACCCTCACATTATATCAGTGTTATCAAAGGCGCGCTTATGCTCTGAAGCGAGGCTCAAAACGTGTTGAGCGCTTCACCTCGCTTTATGTGCGCTTCAGCGTCATTATCAAGGTTCTAAGGCAAACGTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAATAATTGATATTTCACTTTATCATAATTTATTTTCAATTTCTTTGGACATATATTTGTCATTCATGTTTATAGTTATTAGTCTTTGACTAAATATATATATATTTGTATTCTTTTCTCTCTTTGCGCTTTTTTCATTAAAGCCCACGCTTTATTTGCGCTTAAAGCCCTCATGGACCTTAGAGCTTTATTGTGCTTTTTGCCTTTGATAACACTTCATTATATTGGACGGAGGGGGTATATGATTAGTCCTAGTTGGAAGTCATCTTGACTTTCAATTGATGCATCTTCAAAATCTCTGAATCTGAATTGACTCTTTACTTGCAAAATTGGCTCTTAAAAATGTCGCTTCAGTTGTGGAAATGTTAAATGTCACTTAGATATTGACATGTATTCCAGATATTCTGAAGCTCTAGTTTTGATGATCCATCCTTTGTGGTGTCACAAAGATACAGTTACATCCACTATTTAACCTTAAAAAAGAAGTCCTTTTTAGACAATCTGCCTTACCAGTCATCACCTATCTCAAAAGAATTGGAGCAGTTCGTCATTTTTTTGTCAATACGCTCAGCATTAGACCAACATCAAATTGATTATAGTATCCATGCTATAGCGTCAATTCGGATGGTGTGCTGCTATCTTTTCGTTCTTATATTTATTTTTTTCTGATTGCACTTGCTCATCAGCAAACATTCATGATGTTAATTACTGAATATTTTGATTAGCATCCTTATAATATGTTTTCCTTTCAATTTTCTTGCTCCCTTTTTTTCCTTTCACAGGTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCATGTTGCGCCCTTAAAGCTTGTATGAAGTTCTTTCCTTAACTGATATTACTAAATATGCTGACTTAATATAAACGGGAATCATGTTTTCTTTCATGCATTTTTACCATCTTTTCATAAGTAGCTATATCAGTAATAACACAATCGTTCTTGTGTGTTTTACAAGATGTTGACAGTTCCATCTCTTGTATGAGGCTCTCATTTTTCTGTGGTAATTAGTATTTAGTTGATAAATTTTGCATCTATGACGGATATTCACACACTTTCAGGCTTTTCTTAATCAACTAGTATTCAAAGGAAAAAATATATTCCTCATGCATGCTCTGAATATATTTTTGGCATAGTTGGATAATAGGCTTTCTTCTAACCTGAAGAATGAATTTCCAGTAATAAAGTGATCTGATTTTTTTTCGATAATGCCAACAGTTAATCTATATATTCACAGGTATACTACATCAAAATATGTAGTCCCCTTTCACAAGTATTACTACAACTTACAACTTGAACACCTATCTATTGTTTTCCTATAAATAATCTACAACATCACAGGTATCTTCTGTTTGATCTAATAGTTTCTGTTTTCACCAAAAATAAAATAGAGCTAAGCAATTCATTTGAAACTTCTGCAAGTTGGTCTGCTTGTCCACCAAATACATGCAGGGAAAATCTACTTCATTTTTTGCTTCCTTGACATCCTTGTTCCAGCAGCTTAACACTCCTTTTATGTTCCCTGGCTTCACCCACCTAATCTTCATCAGACAGACGAACATCTTCCACAGCTGGTCTGTCCACATACAATGTAAAAACAGATGGTTGATTGTCTCAGCTTGTTCCCCACATAGAAAAAATGTAGAGCATAGTTGAAAGTCTCTCTTATCCAAGTTCTCATTTGTCAATGCTGCGTCCTTTACCAGAAGCCAAGTAAGACAGTTCACTTTATAAAGAACTTTTGATTTTCCGGATCATCTTCCATGACCAATCTTCCTCCTGAAATATTTTGGTGATTCATTGGGTTTTCTTAAAAAAAAAGAGGATATTGCATCTTTATACTTGTGGGACCGGAGAATGCTTGTTTTAGTAAAACTGGGGATTCTATTCTTCTGATCTAACACTTCCATAAGCTTAAGGACAGCTAGTTCTGTGTGGTATAGCTTCATCCTTACAAGTTAAATTTTTATTTCTTATCAAAAAGACTTGTGAAACGCTTAACATACATTGGCAGAGAGTTTTGTTTGACATTATTAAACTACTTCAGAAGAAAATTATGTTTGTTTCCTCCAACCCCCACTTTGCCACCTTTAGAGGAAAAAGAAAGGCATTTCTATCCAACCTTTCCCGGTGAGTCAACTAACCTTGCTGGCCTTTGTTCTCAATCTGCTGAGGAAGTGGAAAGCAAAAAAGAAAGAAGACCTATAGCTCACATGTATTAAGTGTTCACTGCTATTGACCAAGCTTTTATCGTAGATGCAAAGGATATCTTTTTCACCTCAGTGCCACTCGTAGCTACTTTTTTACTTAAAGAAGCAAAGGATATCTTTTTCACCAATGTTGTATTGCGAACAATTCGAGTCGAAATTTTTGAAAGTCTCACATAATTGACTTAAATTTCCTGCAAAGACTTTGATTTTAGTTTTTTTATTTTCACTTTAAAGCTAAAATGATGACTGATTATCCTTAGTCTGAAAAATTCTGGAAATGAGGGTTATAGTTGTGGAAGCAATGGTAATAGCGTCTGCAAGGGACTAATTGAATCCATTCTGTCCTCCATTTGAAAAAAAAGAAGTGATGCATCGAATTATGATAAGAGGATGTGACCTAGTGATCAATGAAATGGTTGAGAACCTTGAAGTCTCAGGTTCAAAACTCAACGAAGAAAAAAAACATAAGGTGAATCTTCCAATTTGTCCTAGCCTGGTGGACGGAGTTACCTGGTGGTACTATGGGAGGTGGTAAGTATCCCGTGGAGTTAGTTGAGGTGCGCGAAATCTGGCCCGGGCACCACGGTTATCAAAAAACTAAAATGATAGAGGGTCTAGTATTAGCTGATTAGTATGTTGTTCAGTGTTCACAATGCTCAATACAGTAATGACTTTGTATCCTTTAATAACAAGGATTAGTTAGTTCATGTTGACTACAACTTCTCCTGGTTCACTTTTTTCTTAATTGAAGTTGGTATTTTTTTATTAGTAGTTTAAATAGCAGATAGATGGTCATTTTTGGATACTAATGTTTATATCTTTCTGCTTTTGACACCTATATAATATTCATTACCTGAACTTTCTGCCTGTTTTCCTATCAGTTAGTCTATCCGTGTCCTACTTTTCTTCTTCAACAGTGAAACAATTAGTTCTTTCAACTTCAACTAGTTGACTTGTTTTAATAGCTATTCTGTTTTATAGGTATTGGTGCATGGATCAGCTGAAGCCACTGAACATTTGAAGCAACATTGTCTGAAACATGTTTGTCCACAGGTCTATGCTCCACAGTTGGAAGAAACAATTGATGTAACTTCAGATTTGTGTGCTTATAAGGTTAGTCTACTTTCTTTGTATGTGCCTTTTGTGGTTTATACCTGTTTAAACAAAATACTAGTATAACATCCTTGGTCTATGTTTGCTTCCATGATAGGTCCAACTTTCTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAGGTAAGCTGGATATATTATGTATGACATCAATAAATGATTCCTTTACGAAATTTCTGCCACTTTAGGCTCTTGATGCATTTATAGAAGCAGCTGAAGTTAGTAATTTATGCACATCTAATTAAAACAAAAAGTTACCTAAGCACACTTGTGTCAATCACCCTTCATGTGTTGTATAAATGGATTGATGGAGTTTTTATCAAGGTACTCTTTGTTAAATGTTTTGTACATTTGCAGTTCAGTAGCTATCTTTTTGTCCTTGAATGTTGAGGCTCTGTACACTCCACACACTACAATGGGTTAGACATTTCAAGTGTTTGTACTAAAGTCTTCGGTGTGTAAGACTTTATGCTCCATTTGATCAGGAAGCTGCATACAAAGACTAATCTTGATCATTATTGTGTCTGTGTTTTCCCTTTGTCCTTGCTTAATTGTGTTCACATTTGCTATTGTAGCTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAAACAGTTCTTGTTGGAGATTTAAAAATGTCTGATTTCAAGCAGTTTCTTGCAAGCAAGGGCGTTCAG</genome_strand>
        <mrna_strand>CGGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCAT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCATGTTGCGCCCTTAAAGCTT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTATTGGTGCATGGATCAGCTGAAGCCACTGAACATTTGAAGCAACATTGTCTGAAACATGTTTGTCCACAGGTCTATGCTCCACAGTTGGAAGAAACAATTGATGTAACTTCAGATTTGTGTGCTTATAAG.................................................................................................GTCCAACTTTCTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAAACAGTTCTTGTTGGAGATTTAAAAATGTCTGATTTCAAGCAGTTTCTTTGCAGCAAGGGCGTTCAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740047" ref_strand="+" ref_description="SGN-E740047 [LC19DE01]">
      <seq>cgatgagcagaacaggataaaaagggaagaagctctcaaagctactcttgttaaagaggaggaatcaaaagcgtctgttggggcagaagtcgtcacagatgaccccatggccgttgacaccaatgtcacacatccttcctccaatgcttctggtctgcacagtggtgctttcaaggacgtgctgattgatggatttgtaacaacatcgtctagcatagccccaatgttccctttctatgataacacctctgagtgggatgactttggtgaagtcatcaatccagatgattatgtggtcaaagatgacaacatggagcagtcatttatgcatgttgatggagatttaaatggaaaacttgatgaaggatcagctaacctaatccttgatacaacaccctctaaagttgaatcttctgagttaacagtccaagtcaagtgttccttgttatacatggacttcgaaggtcgttctgatggtcgttcaatcaaatcaattcttgctcatgttgcgcccttaaagcttgtattggtgcatggatcagctgaagccactgaacatttgaagcaacattgtctgaaacatgtttgtccacaggtctatgctccacagttggaagaaacaattgatgtaacttcagatttgtgtgcttataaggtccaactttctgagaagttaatgagccaagtgctttttaagaagcttggagactatgaaatagcatgggttgatgctgaagtggggaagacggaaaacgacatgttctctttacttcctctttccggaccttctccaccccataaaacagttcttgttggagatttaaaaatgtctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="130623" stop="121629"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="130324" g_stop="130179" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="146" r_length="146" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="130178" i_stop="129243" i_length="936">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="129242" g_stop="129058" g_length="185"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="331" r_length="185" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="129057" i_stop="127020" i_length="2038">
            <donor d_prob="0.900" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="127019" g_stop="126927" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="332" r_stop="424" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="126926" i_stop="125264" i_length="1663">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="125263" g_stop="125165" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="425" r_stop="523" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="125164" i_stop="122788" i_length="2377">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="122787" g_stop="122656" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="524" r_stop="655" r_length="132" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="122655" i_stop="122559" i_length="97">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.895" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="122558" g_stop="122514" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="656" r_stop="700" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="122513" i_stop="122062" i_length="452">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="122061" g_stop="121929" g_length="133"/>
          <reference_exon_boundary r_type="cDNA" r_start="701" r_stop="833" r_length="133" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E740047" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>833</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740047" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="130324" e_stop="130179"/>
          <exon e_start="129242" e_stop="129058"/>
          <exon e_start="127019" e_stop="126927"/>
          <exon e_start="125263" e_stop="125165"/>
          <exon e_start="122787" e_stop="122656"/>
          <exon e_start="122558" e_stop="122514"/>
          <exon e_start="122061" e_stop="121929"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATGGTATAGTACAATTTGCTGATATGTGAATGAAAATATCCTTCACGCTTATCTTCCCTTTCATGCCTCTCTCTACAAATTGCTTATCCTAGACTTAAGTTCCTCTTTCTGTCTGTGCACTTTTGAATTTCTGCTGTTAGGGTCCTTTCTCCTACTTTATGGAACGCCAGCCTATTCCACTTCACTATTTGTCCACATACTCTATCTGAAATGCTCTTCTGAACCTCGAATCTCACTACCCACGTGGATTAACAAAATATTTATAGCTGATTACTGCTGGTTGTGTATCAATTTTGAATCTGGCAGCATATTGCTGGTTAAGGTTTACCTGAATTGATTTGGTTGGGTTCGGTTAAACGTACAAATTCAAAATATTGAAGGGAGATACCTTCGGGTGGCCCAGTGGTTTGAGCTTGGGACTTCCATGTTGGAGGTCTCAAGTTTGAAACCCCTTGCCAGCGAAAGCAAGGGGTTTGCCTTCTGAGTCGAGCTCGTCGCACCAGGCTTGTTTAGTGCGGGTTACCTCTCTTATGTGGTTTGTGAGCTATTGCATGGGAGTGGGGGTTTCACCTTGTGCGCATCCAAAGGGTAGCGGATGCGGGTTTCCCTTGTCATAAAAAATAAATAAATTTAAGGGAGATTTATGAAATAGTCCATCTCTGATGGTACTGCTTATAAGGAAGTACTTGAAAGGTGTGGGAATAATCAGAATAATGGTCTGTAATAAGCACACTAAACAACTCGCAGGCACTTATCTACAACTTTTTATTGGAGAGAGAATTTAAATATATTCTTCCTCTCTAAGAAAGAGAATCAGCTATGAGCTACCACAATATGAACAAGTAGGCACACAACATATTGATTTTTTAGTATCCATGCAGAGACTTCTTTTTTTAACGTGTTGATATAAGCTAATCAGAGGTCTTATTATATTTACAGCTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCATGTGAGTTAAAGTTGGTTTTATGTGCCTCCAATTGAGCAGTGGCATAGTTATCTGTTTGTTTGTGTGTTTTTGGTTGTTCAGTGCAGATAATTTAACTAGTCCATTCTGAGTCAAGAAAAGTGAACTTTGTGTCATTTTGCTGAAGATTGTTCAAATGTAATCATGCACTTCGTCAGAGTATCTGTTAGATATTAGTGATGGACTGCCCAATATTTTTTTTAAAAAGGATACTTATTAGTGGTGGACTGCCCAATATTTTTTTAAAAAAGGATACTTATTAGTGGTGGTTTGACTACTTTCTGATCTAGAATTTCTCACATTCCTGAACTTTTATTTATGTCATAGCTTATGAAGGGTGCTACTATTATTTCCATATGGCTTAAAATCGAATTTGAGGTTAACAAGTGTAACCTGCAGTCTGAAATAGACAATAAGGGGTCACTTGGTTAGAGGGTTAATAATATAATCTTTGCATTGTGTATGCATTGCGGTTGGCCGTACAAGAGAAAGTAGTTACAAAGTCTTATGCAGTGTTTTGTTGTCAGTATGAAATAATACTCGTGTTAAGTTATTGATGAATCTATGTATTATCTTATGTGCGATAGAATATGGGATAGAATATGTGTATTAGTATTACGGGTATTAAAGTATATTGAAGACAAATATGCCCTTAAAGTAAGTGATCCTTGGCTAAAAATCTTTACATGATTAATCGTATTTTAACAATCCCTACATTATTAATCACCGCATAACAATCTCTTCATTATTATTCACCGCATAAACGATCCCTCCCTTGCAATTCCCACTTATAGCATGTGAGCCAAACCACCCCGAAGTTTCTTATGGGAAGAAAGAGTGATTTGCTTGTCAATCATTATGCTACTTTGGCATGAAGCTTGTAGTAAAGTAATTTACATGTAAAAGATTTTGCTTTCGCAACCAAACGGTTTCGATAAAGCCAACTCTTTTAAAAGTTTACACATCTTCAAGACTATATGTGATGGATATTGGACATCCATGGTTAAAAAAGGAGCCATGTCCGTATCACATTTCGGGATTTTAAACTTTTCCTGCTATTTAATTCATAATACCGGCTATCTCCACGTGTATCATTTATGTCATGTGATAAGTGGAGAGTACTAGCAAGAGATATGACTCAACGGGAGAGGAAAATCTGTCATATCAATAAATTGGGAATATATTTTGTCATGGTTTATTTTAGTTCGTATGCCTTATTTGAGGTTTTATGCCAATATAAAATATGCAAAACTTCTAGTACATTTTATTTTTATTTTGTATCATGTCGGCCTGAGATAAATTTAAAGGGGGAAATATGGTCAGGAGGGTTCACAGAGCCGGCTCAACTTGTTTGGGATTGAGGTCTTGTTGTTGTTGACAAGTAGAGAGTACTAGGAAGATCTAGATCTATAATCGGCTTTTCCTGTTTGGGGAAGAATCAGCAGAATAGCTAAAAGCATAAAAACTAGTAATTGCTTTCTGTCATGTAAAGAAGAATGAAGGTCTCTTCCTTAAGTTAGAAGAGGGAGGAGAAGATGCATGGCGTGGGATGTTGCTCCACTAACACTTATGTGTACTTTTTGGAGAGAGAAAGAGGAGAGTTTCTGATATAATAGAGAAGAATTTTGTGCACTTGAGGAATAACATATTATCCCTTATTTCCTTTTGGTGCACCCATGAGGTACCTATAGGTATAGAAGATTGATGTTGTTTATAGAAAACCATATTTTTTTGTGAAGTTTTCTACCTTTTGGTATACTCCTTATATAATGGTATTTGTTATCCCCAATGTTCACAAAATTTTGTTACTTGATAAAAAAAAAGTTCAACTGAAACTTACTAGCATGGGCTGACACCTCAAGAATTCATGGACATGTTCCTTATTAGATTGGTAAATTTTCATCTCTGTCACATCGTGAGTACCTTGTTGTTACGTTTTCCTCCATCCAACTAGATAAAGTTTTATGGCGAATTGTTTTGTTAGTTCCTTGACTTTGATGTCTTTCTAATCTTCTGCTAGGTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACAGTAAGTTTCACTTTGATTTTTGATTTATCTTTTACCCTAATCAGACTCTAGCTAAAGGCTGGAAGGTGAATTTACCTGAAAGCCGCTCTAACATATCAGAGAGTATAATCTTAATTACAATGCAGTGACTAAAGTCTAAACAGTCTCTTCAAAATAAACAACTGACATTAAAATAGATTCATCTAATTTTGGTATCATGCTAGAGCAGGCCTGTTATTTGCTTTTTTAGTTTTCTTCTTATCAAAGTCAAAACCACTTCCCATCTTAGTGTAGAATTCTATGTTGCAATGCAGGGACTAAATAGTCCCTTCAAATTGGACAAATGACAACAGAATAGAGCAACCAAATTCTGTTCCATGCTAGAATACGGCCGTTATTTTCTTATCAAAGTTTAATGCACTTGATGCTCTGCTGTTACCTTTTCAAAAATTGCTTCAGGCCTGCGATGGTTTCGAAATGAGAAGTAAAAGATTATGTTTTTTCTCGAATATCTTGTTGAGCATTGAATTACTCCCTGTCCCAAATTTTTGGGCTTTAGCAATGTTTGGAGAATCACACGGTTTTTTTTTTGACTAAGATTTCTCAATTGTTTTAAAAATTCTCTCGTTATGAAAATTGTGATTTACAGTATTTGGGTATAATTTTATTTCAATGACTTTGAGAAATCAATATCCTAATTCACTCTGTAGCTTAGACAGATTGACACTCATACTTCAAACCCTCACATTATATCAGTGTTATCAAAGGCGCGCTTATGCTCTGAAGCGAGGCTCAAAACGTGTTGAGCGCTTCACCTCGCTTTATGTGCGCTTCAGCGTCATTATCAAGGTTCTAAGGCAAACGTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAATAATTGATATTTCACTTTATCATAATTTATTTTCAATTTCTTTGGACATATATTTGTCATTCATGTTTATAGTTATTAGTCTTTGACTAAATATATATATATTTGTATTCTTTTCTCTCTTTGCGCTTTTTTCATTAAAGCCCACGCTTTATTTGCGCTTAAAGCCCTCATGGACCTTAGAGCTTTATTGTGCTTTTTGCCTTTGATAACACTTCATTATATTGGACGGAGGGGGTATATGATTAGTCCTAGTTGGAAGTCATCTTGACTTTCAATTGATGCATCTTCAAAATCTCTGAATCTGAATTGACTCTTTACTTGCAAAATTGGCTCTTAAAAATGTCGCTTCAGTTGTGGAAATGTTAAATGTCACTTAGATATTGACATGTATTCCAGATATTCTGAAGCTCTAGTTTTGATGATCCATCCTTTGTGGTGTCACAAAGATACAGTTACATCCACTATTTAACCTTAAAAAAGAAGTCCTTTTTAGACAATCTGCCTTACCAGTCATCACCTATCTCAAAAGAATTGGAGCAGTTCGTCATTTTTTTGTCAATACGCTCAGCATTAGACCAACATCAAATTGATTATAGTATCCATGCTATAGCGTCAATTCGGATGGTGTGCTGCTATCTTTTCGTTCTTATATTTATTTTTTTCTGATTGCACTTGCTCATCAGCAAACATTCATGATGTTAATTACTGAATATTTTGATTAGCATCCTTATAATATGTTTTCCTTTCAATTTTCTTGCTCCCTTTTTTTCCTTTCACAGGTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCATGTTGCGCCCTTAAAGCTTGTATGAAGTTCTTTCCTTAACTGATATTACTAAATATGCTGACTTAATATAAACGGGAATCATGTTTTCTTTCATGCATTTTTACCATCTTTTCATAAGTAGCTATATCAGTAATAACACAATCGTTCTTGTGTGTTTTACAAGATGTTGACAGTTCCATCTCTTGTATGAGGCTCTCATTTTTCTGTGGTAATTAGTATTTAGTTGATAAATTTTGCATCTATGACGGATATTCACACACTTTCAGGCTTTTCTTAATCAACTAGTATTCAAAGGAAAAAATATATTCCTCATGCATGCTCTGAATATATTTTTGGCATAGTTGGATAATAGGCTTTCTTCTAACCTGAAGAATGAATTTCCAGTAATAAAGTGATCTGATTTTTTTTCGATAATGCCAACAGTTAATCTATATATTCACAGGTATACTACATCAAAATATGTAGTCCCCTTTCACAAGTATTACTACAACTTACAACTTGAACACCTATCTATTGTTTTCCTATAAATAATCTACAACATCACAGGTATCTTCTGTTTGATCTAATAGTTTCTGTTTTCACCAAAAATAAAATAGAGCTAAGCAATTCATTTGAAACTTCTGCAAGTTGGTCTGCTTGTCCACCAAATACATGCAGGGAAAATCTACTTCATTTTTTGCTTCCTTGACATCCTTGTTCCAGCAGCTTAACACTCCTTTTATGTTCCCTGGCTTCACCCACCTAATCTTCATCAGACAGACGAACATCTTCCACAGCTGGTCTGTCCACATACAATGTAAAAACAGATGGTTGATTGTCTCAGCTTGTTCCCCACATAGAAAAAATGTAGAGCATAGTTGAAAGTCTCTCTTATCCAAGTTCTCATTTGTCAATGCTGCGTCCTTTACCAGAAGCCAAGTAAGACAGTTCACTTTATAAAGAACTTTTGATTTTCCGGATCATCTTCCATGACCAATCTTCCTCCTGAAATATTTTGGTGATTCATTGGGTTTTCTTAAAAAAAAAGAGGATATTGCATCTTTATACTTGTGGGACCGGAGAATGCTTGTTTTAGTAAAACTGGGGATTCTATTCTTCTGATCTAACACTTCCATAAGCTTAAGGACAGCTAGTTCTGTGTGGTATAGCTTCATCCTTACAAGTTAAATTTTTATTTCTTATCAAAAAGACTTGTGAAACGCTTAACATACATTGGCAGAGAGTTTTGTTTGACATTATTAAACTACTTCAGAAGAAAATTATGTTTGTTTCCTCCAACCCCCACTTTGCCACCTTTAGAGGAAAAAGAAAGGCATTTCTATCCAACCTTTCCCGGTGAGTCAACTAACCTTGCTGGCCTTTGTTCTCAATCTGCTGAGGAAGTGGAAAGCAAAAAAGAAAGAAGACCTATAGCTCACATGTATTAAGTGTTCACTGCTATTGACCAAGCTTTTATCGTAGATGCAAAGGATATCTTTTTCACCTCAGTGCCACTCGTAGCTACTTTTTTACTTAAAGAAGCAAAGGATATCTTTTTCACCAATGTTGTATTGCGAACAATTCGAGTCGAAATTTTTGAAAGTCTCACATAATTGACTTAAATTTCCTGCAAAGACTTTGATTTTAGTTTTTTTATTTTCACTTTAAAGCTAAAATGATGACTGATTATCCTTAGTCTGAAAAATTCTGGAAATGAGGGTTATAGTTGTGGAAGCAATGGTAATAGCGTCTGCAAGGGACTAATTGAATCCATTCTGTCCTCCATTTGAAAAAAAAGAAGTGATGCATCGAATTATGATAAGAGGATGTGACCTAGTGATCAATGAAATGGTTGAGAACCTTGAAGTCTCAGGTTCAAAACTCAACGAAGAAAAAAAACATAAGGTGAATCTTCCAATTTGTCCTAGCCTGGTGGACGGAGTTACCTGGTGGTACTATGGGAGGTGGTAAGTATCCCGTGGAGTTAGTTGAGGTGCGCGAAATCTGGCCCGGGCACCACGGTTATCAAAAAACTAAAATGATAGAGGGTCTAGTATTAGCTGATTAGTATGTTGTTCAGTGTTCACAATGCTCAATACAGTAATGACTTTGTATCCTTTAATAACAAGGATTAGTTAGTTCATGTTGACTACAACTTCTCCTGGTTCACTTTTTTCTTAATTGAAGTTGGTATTTTTTTATTAGTAGTTTAAATAGCAGATAGATGGTCATTTTTGGATACTAATGTTTATATCTTTCTGCTTTTGACACCTATATAATATTCATTACCTGAACTTTCTGCCTGTTTTCCTATCAGTTAGTCTATCCGTGTCCTACTTTTCTTCTTCAACAGTGAAACAATTAGTTCTTTCAACTTCAACTAGTTGACTTGTTTTAATAGCTATTCTGTTTTATAGGTATTGGTGCATGGATCAGCTGAAGCCACTGAACATTTGAAGCAACATTGTCTGAAACATGTTTGTCCACAGGTCTATGCTCCACAGTTGGAAGAAACAATTGATGTAACTTCAGATTTGTGTGCTTATAAGGTTAGTCTACTTTCTTTGTATGTGCCTTTTGTGGTTTATACCTGTTTAAACAAAATACTAGTATAACATCCTTGGTCTATGTTTGCTTCCATGATAGGTCCAACTTTCTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAGGTAAGCTGGATATATTATGTATGACATCAATAAATGATTCCTTTACGAAATTTCTGCCACTTTAGGCTCTTGATGCATTTATAGAAGCAGCTGAAGTTAGTAATTTATGCACATCTAATTAAAACAAAAAGTTACCTAAGCACACTTGTGTCAATCACCCTTCATGTGTTGTATAAATGGATTGATGGAGTTTTTATCAAGGTACTCTTTGTTAAATGTTTTGTACATTTGCAGTTCAGTAGCTATCTTTTTGTCCTTGAATGTTGAGGCTCTGTACACTCCACACACTACAATGGGTTAGACATTTCAAGTGTTTGTACTAAAGTCTTCGGTGTGTAAGACTTTATGCTCCATTTGATCAGGAAGCTGCATACAAAGACTAATCTTGATCATTATTGTGTCTGTGTTTTCCCTTTGTCCTTGCTTAATTGTGTTCACATTTGCTATTGTAGCTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAAACAGTTCTTGTTGGAGATTTAAAAATGTCTG</genome_strand>
        <mrna_strand>CGATGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCAT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCATGTTGCGCCCTTAAAGCTT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTATTGGTGCATGGATCAGCTGAAGCCACTGAACATTTGAAGCAACATTGTCTGAAACATGTTTGTCCACAGGTCTATGCTCCACAGTTGGAAGAAACAATTGATGTAACTTCAGATTTGTGTGCTTATAAG.................................................................................................GTCCAACTTTCTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAAACAGTTCTTGTTGGAGATTTAAAAATGTCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E736820" ref_strand="+" ref_description="SGN-E736820 [LC07BF07]">
      <seq>ggaggagcagaacaggataaaaagggaagaagctctcaaagctactcttgttaaagaggaggaatcaaaagcgtctgttggggcagaagtcgtcacagatgaccccatggccgttgacaccaatgtcacacatccttcctccaatgcttctggtctgcacagtggtgctttcaaggacgtgctgattgatggatttgtaacaacatcgtctagcatagccccaatgttccctttctatgataacacctctgagtgggatgactttggtgaagtcatcaatccagatgattatgtggtcaaagatgacaacatggagcagtcatttatgcatgttgatggagatttaaatggaaaacttgatgaaggatcagctaacctaatccttgatacaacaccctctaaagttgaatcttctgagttaacagtccaagtcaagtgttccttgttatacatggacttcgaaggtcgttctgatggtcgttcaatcaaatcaattcttgctcatgttgcgcccttaaagcttgtattggtgcatggatcagctgaagccactgaacatttgaagcaacattgtctgaaacatgtttgtccacaggtctatgctccacagttggaagaaacaattgatgtaacttcagatttgtgtgcttataaggtccaactttctgagaagttaatgagcccagtgctttttaagaagcttggagactatgaaatagcatgggttgatgctgaagtggggaaaaaggaaaacgacatgttctctttacttcctctttccggaccttctccaccccataaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="130624" stop="121660"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="130324" g_stop="130179" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="146" r_length="146" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="130178" i_stop="129243" i_length="936">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="129242" g_stop="129058" g_length="185"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="331" r_length="185" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="129057" i_stop="127020" i_length="2038">
            <donor d_prob="0.900" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="127019" g_stop="126927" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="332" r_stop="424" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="126926" i_stop="125264" i_length="1663">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="125263" g_stop="125165" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="425" r_stop="523" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="125164" i_stop="122788" i_length="2377">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="122787" g_stop="122656" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="524" r_stop="655" r_length="132" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="122655" i_stop="122559" i_length="97">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.895" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="122558" g_stop="122514" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="656" r_stop="700" r_length="45" r_score="0.978"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="122513" i_stop="122062" i_length="452">
            <donor d_prob="0.993" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="122061" g_stop="121960" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="701" r_stop="802" r_length="102" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E736820" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>802</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736820" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="130324" e_stop="130179"/>
          <exon e_start="129242" e_stop="129058"/>
          <exon e_start="127019" e_stop="126927"/>
          <exon e_start="125263" e_stop="125165"/>
          <exon e_start="122787" e_stop="122656"/>
          <exon e_start="122558" e_stop="122514"/>
          <exon e_start="122061" e_stop="121960"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATGGTATAGTACAATTTGCTGATATGTGAATGAAAATATCCTTCACGCTTATCTTCCCTTTCATGCCTCTCTCTACAAATTGCTTATCCTAGACTTAAGTTCCTCTTTCTGTCTGTGCACTTTTGAATTTCTGCTGTTAGGGTCCTTTCTCCTACTTTATGGAACGCCAGCCTATTCCACTTCACTATTTGTCCACATACTCTATCTGAAATGCTCTTCTGAACCTCGAATCTCACTACCCACGTGGATTAACAAAATATTTATAGCTGATTACTGCTGGTTGTGTATCAATTTTGAATCTGGCAGCATATTGCTGGTTAAGGTTTACCTGAATTGATTTGGTTGGGTTCGGTTAAACGTACAAATTCAAAATATTGAAGGGAGATACCTTCGGGTGGCCCAGTGGTTTGAGCTTGGGACTTCCATGTTGGAGGTCTCAAGTTTGAAACCCCTTGCCAGCGAAAGCAAGGGGTTTGCCTTCTGAGTCGAGCTCGTCGCACCAGGCTTGTTTAGTGCGGGTTACCTCTCTTATGTGGTTTGTGAGCTATTGCATGGGAGTGGGGGTTTCACCTTGTGCGCATCCAAAGGGTAGCGGATGCGGGTTTCCCTTGTCATAAAAAATAAATAAATTTAAGGGAGATTTATGAAATAGTCCATCTCTGATGGTACTGCTTATAAGGAAGTACTTGAAAGGTGTGGGAATAATCAGAATAATGGTCTGTAATAAGCACACTAAACAACTCGCAGGCACTTATCTACAACTTTTTATTGGAGAGAGAATTTAAATATATTCTTCCTCTCTAAGAAAGAGAATCAGCTATGAGCTACCACAATATGAACAAGTAGGCACACAACATATTGATTTTTTAGTATCCATGCAGAGACTTCTTTTTTTAACGTGTTGATATAAGCTAATCAGAGGTCTTATTATATTTACAGCTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCATGTGAGTTAAAGTTGGTTTTATGTGCCTCCAATTGAGCAGTGGCATAGTTATCTGTTTGTTTGTGTGTTTTTGGTTGTTCAGTGCAGATAATTTAACTAGTCCATTCTGAGTCAAGAAAAGTGAACTTTGTGTCATTTTGCTGAAGATTGTTCAAATGTAATCATGCACTTCGTCAGAGTATCTGTTAGATATTAGTGATGGACTGCCCAATATTTTTTTTAAAAAGGATACTTATTAGTGGTGGACTGCCCAATATTTTTTTAAAAAAGGATACTTATTAGTGGTGGTTTGACTACTTTCTGATCTAGAATTTCTCACATTCCTGAACTTTTATTTATGTCATAGCTTATGAAGGGTGCTACTATTATTTCCATATGGCTTAAAATCGAATTTGAGGTTAACAAGTGTAACCTGCAGTCTGAAATAGACAATAAGGGGTCACTTGGTTAGAGGGTTAATAATATAATCTTTGCATTGTGTATGCATTGCGGTTGGCCGTACAAGAGAAAGTAGTTACAAAGTCTTATGCAGTGTTTTGTTGTCAGTATGAAATAATACTCGTGTTAAGTTATTGATGAATCTATGTATTATCTTATGTGCGATAGAATATGGGATAGAATATGTGTATTAGTATTACGGGTATTAAAGTATATTGAAGACAAATATGCCCTTAAAGTAAGTGATCCTTGGCTAAAAATCTTTACATGATTAATCGTATTTTAACAATCCCTACATTATTAATCACCGCATAACAATCTCTTCATTATTATTCACCGCATAAACGATCCCTCCCTTGCAATTCCCACTTATAGCATGTGAGCCAAACCACCCCGAAGTTTCTTATGGGAAGAAAGAGTGATTTGCTTGTCAATCATTATGCTACTTTGGCATGAAGCTTGTAGTAAAGTAATTTACATGTAAAAGATTTTGCTTTCGCAACCAAACGGTTTCGATAAAGCCAACTCTTTTAAAAGTTTACACATCTTCAAGACTATATGTGATGGATATTGGACATCCATGGTTAAAAAAGGAGCCATGTCCGTATCACATTTCGGGATTTTAAACTTTTCCTGCTATTTAATTCATAATACCGGCTATCTCCACGTGTATCATTTATGTCATGTGATAAGTGGAGAGTACTAGCAAGAGATATGACTCAACGGGAGAGGAAAATCTGTCATATCAATAAATTGGGAATATATTTTGTCATGGTTTATTTTAGTTCGTATGCCTTATTTGAGGTTTTATGCCAATATAAAATATGCAAAACTTCTAGTACATTTTATTTTTATTTTGTATCATGTCGGCCTGAGATAAATTTAAAGGGGGAAATATGGTCAGGAGGGTTCACAGAGCCGGCTCAACTTGTTTGGGATTGAGGTCTTGTTGTTGTTGACAAGTAGAGAGTACTAGGAAGATCTAGATCTATAATCGGCTTTTCCTGTTTGGGGAAGAATCAGCAGAATAGCTAAAAGCATAAAAACTAGTAATTGCTTTCTGTCATGTAAAGAAGAATGAAGGTCTCTTCCTTAAGTTAGAAGAGGGAGGAGAAGATGCATGGCGTGGGATGTTGCTCCACTAACACTTATGTGTACTTTTTGGAGAGAGAAAGAGGAGAGTTTCTGATATAATAGAGAAGAATTTTGTGCACTTGAGGAATAACATATTATCCCTTATTTCCTTTTGGTGCACCCATGAGGTACCTATAGGTATAGAAGATTGATGTTGTTTATAGAAAACCATATTTTTTTGTGAAGTTTTCTACCTTTTGGTATACTCCTTATATAATGGTATTTGTTATCCCCAATGTTCACAAAATTTTGTTACTTGATAAAAAAAAAGTTCAACTGAAACTTACTAGCATGGGCTGACACCTCAAGAATTCATGGACATGTTCCTTATTAGATTGGTAAATTTTCATCTCTGTCACATCGTGAGTACCTTGTTGTTACGTTTTCCTCCATCCAACTAGATAAAGTTTTATGGCGAATTGTTTTGTTAGTTCCTTGACTTTGATGTCTTTCTAATCTTCTGCTAGGTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACAGTAAGTTTCACTTTGATTTTTGATTTATCTTTTACCCTAATCAGACTCTAGCTAAAGGCTGGAAGGTGAATTTACCTGAAAGCCGCTCTAACATATCAGAGAGTATAATCTTAATTACAATGCAGTGACTAAAGTCTAAACAGTCTCTTCAAAATAAACAACTGACATTAAAATAGATTCATCTAATTTTGGTATCATGCTAGAGCAGGCCTGTTATTTGCTTTTTTAGTTTTCTTCTTATCAAAGTCAAAACCACTTCCCATCTTAGTGTAGAATTCTATGTTGCAATGCAGGGACTAAATAGTCCCTTCAAATTGGACAAATGACAACAGAATAGAGCAACCAAATTCTGTTCCATGCTAGAATACGGCCGTTATTTTCTTATCAAAGTTTAATGCACTTGATGCTCTGCTGTTACCTTTTCAAAAATTGCTTCAGGCCTGCGATGGTTTCGAAATGAGAAGTAAAAGATTATGTTTTTTCTCGAATATCTTGTTGAGCATTGAATTACTCCCTGTCCCAAATTTTTGGGCTTTAGCAATGTTTGGAGAATCACACGGTTTTTTTTTTGACTAAGATTTCTCAATTGTTTTAAAAATTCTCTCGTTATGAAAATTGTGATTTACAGTATTTGGGTATAATTTTATTTCAATGACTTTGAGAAATCAATATCCTAATTCACTCTGTAGCTTAGACAGATTGACACTCATACTTCAAACCCTCACATTATATCAGTGTTATCAAAGGCGCGCTTATGCTCTGAAGCGAGGCTCAAAACGTGTTGAGCGCTTCACCTCGCTTTATGTGCGCTTCAGCGTCATTATCAAGGTTCTAAGGCAAACGTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAATAATTGATATTTCACTTTATCATAATTTATTTTCAATTTCTTTGGACATATATTTGTCATTCATGTTTATAGTTATTAGTCTTTGACTAAATATATATATATTTGTATTCTTTTCTCTCTTTGCGCTTTTTTCATTAAAGCCCACGCTTTATTTGCGCTTAAAGCCCTCATGGACCTTAGAGCTTTATTGTGCTTTTTGCCTTTGATAACACTTCATTATATTGGACGGAGGGGGTATATGATTAGTCCTAGTTGGAAGTCATCTTGACTTTCAATTGATGCATCTTCAAAATCTCTGAATCTGAATTGACTCTTTACTTGCAAAATTGGCTCTTAAAAATGTCGCTTCAGTTGTGGAAATGTTAAATGTCACTTAGATATTGACATGTATTCCAGATATTCTGAAGCTCTAGTTTTGATGATCCATCCTTTGTGGTGTCACAAAGATACAGTTACATCCACTATTTAACCTTAAAAAAGAAGTCCTTTTTAGACAATCTGCCTTACCAGTCATCACCTATCTCAAAAGAATTGGAGCAGTTCGTCATTTTTTTGTCAATACGCTCAGCATTAGACCAACATCAAATTGATTATAGTATCCATGCTATAGCGTCAATTCGGATGGTGTGCTGCTATCTTTTCGTTCTTATATTTATTTTTTTCTGATTGCACTTGCTCATCAGCAAACATTCATGATGTTAATTACTGAATATTTTGATTAGCATCCTTATAATATGTTTTCCTTTCAATTTTCTTGCTCCCTTTTTTTCCTTTCACAGGTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCATGTTGCGCCCTTAAAGCTTGTATGAAGTTCTTTCCTTAACTGATATTACTAAATATGCTGACTTAATATAAACGGGAATCATGTTTTCTTTCATGCATTTTTACCATCTTTTCATAAGTAGCTATATCAGTAATAACACAATCGTTCTTGTGTGTTTTACAAGATGTTGACAGTTCCATCTCTTGTATGAGGCTCTCATTTTTCTGTGGTAATTAGTATTTAGTTGATAAATTTTGCATCTATGACGGATATTCACACACTTTCAGGCTTTTCTTAATCAACTAGTATTCAAAGGAAAAAATATATTCCTCATGCATGCTCTGAATATATTTTTGGCATAGTTGGATAATAGGCTTTCTTCTAACCTGAAGAATGAATTTCCAGTAATAAAGTGATCTGATTTTTTTTCGATAATGCCAACAGTTAATCTATATATTCACAGGTATACTACATCAAAATATGTAGTCCCCTTTCACAAGTATTACTACAACTTACAACTTGAACACCTATCTATTGTTTTCCTATAAATAATCTACAACATCACAGGTATCTTCTGTTTGATCTAATAGTTTCTGTTTTCACCAAAAATAAAATAGAGCTAAGCAATTCATTTGAAACTTCTGCAAGTTGGTCTGCTTGTCCACCAAATACATGCAGGGAAAATCTACTTCATTTTTTGCTTCCTTGACATCCTTGTTCCAGCAGCTTAACACTCCTTTTATGTTCCCTGGCTTCACCCACCTAATCTTCATCAGACAGACGAACATCTTCCACAGCTGGTCTGTCCACATACAATGTAAAAACAGATGGTTGATTGTCTCAGCTTGTTCCCCACATAGAAAAAATGTAGAGCATAGTTGAAAGTCTCTCTTATCCAAGTTCTCATTTGTCAATGCTGCGTCCTTTACCAGAAGCCAAGTAAGACAGTTCACTTTATAAAGAACTTTTGATTTTCCGGATCATCTTCCATGACCAATCTTCCTCCTGAAATATTTTGGTGATTCATTGGGTTTTCTTAAAAAAAAAGAGGATATTGCATCTTTATACTTGTGGGACCGGAGAATGCTTGTTTTAGTAAAACTGGGGATTCTATTCTTCTGATCTAACACTTCCATAAGCTTAAGGACAGCTAGTTCTGTGTGGTATAGCTTCATCCTTACAAGTTAAATTTTTATTTCTTATCAAAAAGACTTGTGAAACGCTTAACATACATTGGCAGAGAGTTTTGTTTGACATTATTAAACTACTTCAGAAGAAAATTATGTTTGTTTCCTCCAACCCCCACTTTGCCACCTTTAGAGGAAAAAGAAAGGCATTTCTATCCAACCTTTCCCGGTGAGTCAACTAACCTTGCTGGCCTTTGTTCTCAATCTGCTGAGGAAGTGGAAAGCAAAAAAGAAAGAAGACCTATAGCTCACATGTATTAAGTGTTCACTGCTATTGACCAAGCTTTTATCGTAGATGCAAAGGATATCTTTTTCACCTCAGTGCCACTCGTAGCTACTTTTTTACTTAAAGAAGCAAAGGATATCTTTTTCACCAATGTTGTATTGCGAACAATTCGAGTCGAAATTTTTGAAAGTCTCACATAATTGACTTAAATTTCCTGCAAAGACTTTGATTTTAGTTTTTTTATTTTCACTTTAAAGCTAAAATGATGACTGATTATCCTTAGTCTGAAAAATTCTGGAAATGAGGGTTATAGTTGTGGAAGCAATGGTAATAGCGTCTGCAAGGGACTAATTGAATCCATTCTGTCCTCCATTTGAAAAAAAAGAAGTGATGCATCGAATTATGATAAGAGGATGTGACCTAGTGATCAATGAAATGGTTGAGAACCTTGAAGTCTCAGGTTCAAAACTCAACGAAGAAAAAAAACATAAGGTGAATCTTCCAATTTGTCCTAGCCTGGTGGACGGAGTTACCTGGTGGTACTATGGGAGGTGGTAAGTATCCCGTGGAGTTAGTTGAGGTGCGCGAAATCTGGCCCGGGCACCACGGTTATCAAAAAACTAAAATGATAGAGGGTCTAGTATTAGCTGATTAGTATGTTGTTCAGTGTTCACAATGCTCAATACAGTAATGACTTTGTATCCTTTAATAACAAGGATTAGTTAGTTCATGTTGACTACAACTTCTCCTGGTTCACTTTTTTCTTAATTGAAGTTGGTATTTTTTTATTAGTAGTTTAAATAGCAGATAGATGGTCATTTTTGGATACTAATGTTTATATCTTTCTGCTTTTGACACCTATATAATATTCATTACCTGAACTTTCTGCCTGTTTTCCTATCAGTTAGTCTATCCGTGTCCTACTTTTCTTCTTCAACAGTGAAACAATTAGTTCTTTCAACTTCAACTAGTTGACTTGTTTTAATAGCTATTCTGTTTTATAGGTATTGGTGCATGGATCAGCTGAAGCCACTGAACATTTGAAGCAACATTGTCTGAAACATGTTTGTCCACAGGTCTATGCTCCACAGTTGGAAGAAACAATTGATGTAACTTCAGATTTGTGTGCTTATAAGGTTAGTCTACTTTCTTTGTATGTGCCTTTTGTGGTTTATACCTGTTTAAACAAAATACTAGTATAACATCCTTGGTCTATGTTTGCTTCCATGATAGGTCCAACTTTCTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAGGTAAGCTGGATATATTATGTATGACATCAATAAATGATTCCTTTACGAAATTTCTGCCACTTTAGGCTCTTGATGCATTTATAGAAGCAGCTGAAGTTAGTAATTTATGCACATCTAATTAAAACAAAAAGTTACCTAAGCACACTTGTGTCAATCACCCTTCATGTGTTGTATAAATGGATTGATGGAGTTTTTATCAAGGTACTCTTTGTTAAATGTTTTGTACATTTGCAGTTCAGTAGCTATCTTTTTGTCCTTGAATGTTGAGGCTCTGTACACTCCACACACTACAATGGGTTAGACATTTCAAGTGTTTGTACTAAAGTCTTCGGTGTGTAAGACTTTATGCTCCATTTGATCAGGAAGCTGCATACAAAGACTAATCTTGATCATTATTGTGTCTGTGTTTTCCCTTTGTCCTTGCTTAATTGTGTTCACATTTGCTATTGTAGCTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAA</genome_strand>
        <mrna_strand>GGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCAT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCATGTTGCGCCCTTAAAGCTT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTATTGGTGCATGGATCAGCTGAAGCCACTGAACATTTGAAGCAACATTGTCTGAAACATGTTTGTCCACAGGTCTATGCTCCACAGTTGGAAGAAACAATTGATGTAACTTCAGATTTGTGTGCTTATAAG.................................................................................................GTCCAACTTTCTGAGAAGTTAATGAGCCCAGTGCTTTTTAAGAAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAAAAGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326987" ref_strand="+" ref_description="SGN-E326987 [cTOC-18-I23]">
      <seq>gaagctggattttcgcatgacctctttgttgaatgggcagctgatccaaagaatcttgttatgttcaccgagagagggcagtttggcacattggcacgtatacttcagtcagatccacctcctaaagctgttaaagttaccatgtcacgtagaattcccttggttggtgaggagttggctgcttatgaggaggagcagaacaggataaaaagggaagaagctctcaaagctactcttgttaaagaggaggaatcaaaagcgtctgttggggcagaagtcgtcacagatgaccccatggccgttgacaccaatgtcacacatccttcctccaatgcttctggtctgcacagtggtgctttcaaggacgtgctgattgatggatttgtaacaacatcgtctagcatagccccaatgttccctttctatgataacacctctgagtgggatgactttggtgaagtcatcaatccagatgattatgtggtcaaagatgacaacatggagcagtcatttatgcatgttgatggagatttaaatggaaaacttgatgaaggatcagctaacctaatccttgatacaacaccctctaaagttgaatcttctgagttaacagtccaagtcaagtgttccttgttatacatggacttcgaaggtcgttctgatggtcgttcaatcaaatcaattcttgctcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="131231" stop="124883"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="130931" g_stop="130851" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="81" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="130850" i_stop="130432" i_length="419">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="130431" g_stop="130179" g_length="253"/>
          <reference_exon_boundary r_type="cDNA" r_start="82" r_stop="334" r_length="253" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="130178" i_stop="129243" i_length="936">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="129242" g_stop="129058" g_length="185"/>
          <reference_exon_boundary r_type="cDNA" r_start="335" r_stop="519" r_length="185" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="129057" i_stop="127020" i_length="2038">
            <donor d_prob="0.900" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="127019" g_stop="126927" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="520" r_stop="612" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="126926" i_stop="125264" i_length="1663">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="125263" g_stop="125183" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="613" r_stop="693" r_length="81" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E326987" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>693</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E326987" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="130931" e_stop="130851"/>
          <exon e_start="130431" e_stop="130179"/>
          <exon e_start="129242" e_stop="129058"/>
          <exon e_start="127019" e_stop="126927"/>
          <exon e_start="125263" e_stop="125183"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGCTGGATTTTCGCATGACCTCTTTGTTGAATGGGCAGCTGATCCAAAGAATCTTGTTATGTTCACCGAGAGAGGGCAGGTGTGCTTATATTCCGATTAATTAATCCTGTTTCAAGATTTGGGATTGCAACCAGTACTATTTATGCTAATTTAGAGTAAGACATGTCGCTTTCACCCTTTCTGAGGTTTTAAGATACTCGTCTGTTAAAATATCTTTATTACTTGTTGATGCATTTATTTTCCTATGTGTAATTTAGGTAGATTTCAGTGTTACACATTTTGTTGAGATATTAATAATTTGTTTTGTAGTGACAACTCATTTCATTGCTGGAAATTTGTTTACACATTTCCTTGCTTTTGTTCAACTTGCATGAAATAAAGAAAATAGCCATGTGTACTAAACTACTGATAAACATTTTAATAATCTTCATTCAGAACTTCTTGGTTTGTGGAAATTGTATGCTTATGTTTTTACTGATTCCTTTTACTTGAATATAGTTTGGCACATTGGCACGTATACTTCAGTCAGATCCACCTCCTAAAGCTGTTAAAGTTACCATGTCACGTAGAATTCCCTTGGTTGGTGAGGAGTTGGCTGCTTATGAGGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATGGTATAGTACAATTTGCTGATATGTGAATGAAAATATCCTTCACGCTTATCTTCCCTTTCATGCCTCTCTCTACAAATTGCTTATCCTAGACTTAAGTTCCTCTTTCTGTCTGTGCACTTTTGAATTTCTGCTGTTAGGGTCCTTTCTCCTACTTTATGGAACGCCAGCCTATTCCACTTCACTATTTGTCCACATACTCTATCTGAAATGCTCTTCTGAACCTCGAATCTCACTACCCACGTGGATTAACAAAATATTTATAGCTGATTACTGCTGGTTGTGTATCAATTTTGAATCTGGCAGCATATTGCTGGTTAAGGTTTACCTGAATTGATTTGGTTGGGTTCGGTTAAACGTACAAATTCAAAATATTGAAGGGAGATACCTTCGGGTGGCCCAGTGGTTTGAGCTTGGGACTTCCATGTTGGAGGTCTCAAGTTTGAAACCCCTTGCCAGCGAAAGCAAGGGGTTTGCCTTCTGAGTCGAGCTCGTCGCACCAGGCTTGTTTAGTGCGGGTTACCTCTCTTATGTGGTTTGTGAGCTATTGCATGGGAGTGGGGGTTTCACCTTGTGCGCATCCAAAGGGTAGCGGATGCGGGTTTCCCTTGTCATAAAAAATAAATAAATTTAAGGGAGATTTATGAAATAGTCCATCTCTGATGGTACTGCTTATAAGGAAGTACTTGAAAGGTGTGGGAATAATCAGAATAATGGTCTGTAATAAGCACACTAAACAACTCGCAGGCACTTATCTACAACTTTTTATTGGAGAGAGAATTTAAATATATTCTTCCTCTCTAAGAAAGAGAATCAGCTATGAGCTACCACAATATGAACAAGTAGGCACACAACATATTGATTTTTTAGTATCCATGCAGAGACTTCTTTTTTTAACGTGTTGATATAAGCTAATCAGAGGTCTTATTATATTTACAGCTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCATGTGAGTTAAAGTTGGTTTTATGTGCCTCCAATTGAGCAGTGGCATAGTTATCTGTTTGTTTGTGTGTTTTTGGTTGTTCAGTGCAGATAATTTAACTAGTCCATTCTGAGTCAAGAAAAGTGAACTTTGTGTCATTTTGCTGAAGATTGTTCAAATGTAATCATGCACTTCGTCAGAGTATCTGTTAGATATTAGTGATGGACTGCCCAATATTTTTTTTAAAAAGGATACTTATTAGTGGTGGACTGCCCAATATTTTTTTAAAAAAGGATACTTATTAGTGGTGGTTTGACTACTTTCTGATCTAGAATTTCTCACATTCCTGAACTTTTATTTATGTCATAGCTTATGAAGGGTGCTACTATTATTTCCATATGGCTTAAAATCGAATTTGAGGTTAACAAGTGTAACCTGCAGTCTGAAATAGACAATAAGGGGTCACTTGGTTAGAGGGTTAATAATATAATCTTTGCATTGTGTATGCATTGCGGTTGGCCGTACAAGAGAAAGTAGTTACAAAGTCTTATGCAGTGTTTTGTTGTCAGTATGAAATAATACTCGTGTTAAGTTATTGATGAATCTATGTATTATCTTATGTGCGATAGAATATGGGATAGAATATGTGTATTAGTATTACGGGTATTAAAGTATATTGAAGACAAATATGCCCTTAAAGTAAGTGATCCTTGGCTAAAAATCTTTACATGATTAATCGTATTTTAACAATCCCTACATTATTAATCACCGCATAACAATCTCTTCATTATTATTCACCGCATAAACGATCCCTCCCTTGCAATTCCCACTTATAGCATGTGAGCCAAACCACCCCGAAGTTTCTTATGGGAAGAAAGAGTGATTTGCTTGTCAATCATTATGCTACTTTGGCATGAAGCTTGTAGTAAAGTAATTTACATGTAAAAGATTTTGCTTTCGCAACCAAACGGTTTCGATAAAGCCAACTCTTTTAAAAGTTTACACATCTTCAAGACTATATGTGATGGATATTGGACATCCATGGTTAAAAAAGGAGCCATGTCCGTATCACATTTCGGGATTTTAAACTTTTCCTGCTATTTAATTCATAATACCGGCTATCTCCACGTGTATCATTTATGTCATGTGATAAGTGGAGAGTACTAGCAAGAGATATGACTCAACGGGAGAGGAAAATCTGTCATATCAATAAATTGGGAATATATTTTGTCATGGTTTATTTTAGTTCGTATGCCTTATTTGAGGTTTTATGCCAATATAAAATATGCAAAACTTCTAGTACATTTTATTTTTATTTTGTATCATGTCGGCCTGAGATAAATTTAAAGGGGGAAATATGGTCAGGAGGGTTCACAGAGCCGGCTCAACTTGTTTGGGATTGAGGTCTTGTTGTTGTTGACAAGTAGAGAGTACTAGGAAGATCTAGATCTATAATCGGCTTTTCCTGTTTGGGGAAGAATCAGCAGAATAGCTAAAAGCATAAAAACTAGTAATTGCTTTCTGTCATGTAAAGAAGAATGAAGGTCTCTTCCTTAAGTTAGAAGAGGGAGGAGAAGATGCATGGCGTGGGATGTTGCTCCACTAACACTTATGTGTACTTTTTGGAGAGAGAAAGAGGAGAGTTTCTGATATAATAGAGAAGAATTTTGTGCACTTGAGGAATAACATATTATCCCTTATTTCCTTTTGGTGCACCCATGAGGTACCTATAGGTATAGAAGATTGATGTTGTTTATAGAAAACCATATTTTTTTGTGAAGTTTTCTACCTTTTGGTATACTCCTTATATAATGGTATTTGTTATCCCCAATGTTCACAAAATTTTGTTACTTGATAAAAAAAAAGTTCAACTGAAACTTACTAGCATGGGCTGACACCTCAAGAATTCATGGACATGTTCCTTATTAGATTGGTAAATTTTCATCTCTGTCACATCGTGAGTACCTTGTTGTTACGTTTTCCTCCATCCAACTAGATAAAGTTTTATGGCGAATTGTTTTGTTAGTTCCTTGACTTTGATGTCTTTCTAATCTTCTGCTAGGTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACAGTAAGTTTCACTTTGATTTTTGATTTATCTTTTACCCTAATCAGACTCTAGCTAAAGGCTGGAAGGTGAATTTACCTGAAAGCCGCTCTAACATATCAGAGAGTATAATCTTAATTACAATGCAGTGACTAAAGTCTAAACAGTCTCTTCAAAATAAACAACTGACATTAAAATAGATTCATCTAATTTTGGTATCATGCTAGAGCAGGCCTGTTATTTGCTTTTTTAGTTTTCTTCTTATCAAAGTCAAAACCACTTCCCATCTTAGTGTAGAATTCTATGTTGCAATGCAGGGACTAAATAGTCCCTTCAAATTGGACAAATGACAACAGAATAGAGCAACCAAATTCTGTTCCATGCTAGAATACGGCCGTTATTTTCTTATCAAAGTTTAATGCACTTGATGCTCTGCTGTTACCTTTTCAAAAATTGCTTCAGGCCTGCGATGGTTTCGAAATGAGAAGTAAAAGATTATGTTTTTTCTCGAATATCTTGTTGAGCATTGAATTACTCCCTGTCCCAAATTTTTGGGCTTTAGCAATGTTTGGAGAATCACACGGTTTTTTTTTTGACTAAGATTTCTCAATTGTTTTAAAAATTCTCTCGTTATGAAAATTGTGATTTACAGTATTTGGGTATAATTTTATTTCAATGACTTTGAGAAATCAATATCCTAATTCACTCTGTAGCTTAGACAGATTGACACTCATACTTCAAACCCTCACATTATATCAGTGTTATCAAAGGCGCGCTTATGCTCTGAAGCGAGGCTCAAAACGTGTTGAGCGCTTCACCTCGCTTTATGTGCGCTTCAGCGTCATTATCAAGGTTCTAAGGCAAACGTTTCCTTGCCAATGAGCCTCTTATGAAGAAGTGACACTAAATAATTGATATTTCACTTTATCATAATTTATTTTCAATTTCTTTGGACATATATTTGTCATTCATGTTTATAGTTATTAGTCTTTGACTAAATATATATATATTTGTATTCTTTTCTCTCTTTGCGCTTTTTTCATTAAAGCCCACGCTTTATTTGCGCTTAAAGCCCTCATGGACCTTAGAGCTTTATTGTGCTTTTTGCCTTTGATAACACTTCATTATATTGGACGGAGGGGGTATATGATTAGTCCTAGTTGGAAGTCATCTTGACTTTCAATTGATGCATCTTCAAAATCTCTGAATCTGAATTGACTCTTTACTTGCAAAATTGGCTCTTAAAAATGTCGCTTCAGTTGTGGAAATGTTAAATGTCACTTAGATATTGACATGTATTCCAGATATTCTGAAGCTCTAGTTTTGATGATCCATCCTTTGTGGTGTCACAAAGATACAGTTACATCCACTATTTAACCTTAAAAAAGAAGTCCTTTTTAGACAATCTGCCTTACCAGTCATCACCTATCTCAAAAGAATTGGAGCAGTTCGTCATTTTTTTGTCAATACGCTCAGCATTAGACCAACATCAAATTGATTATAGTATCCATGCTATAGCGTCAATTCGGATGGTGTGCTGCTATCTTTTCGTTCTTATATTTATTTTTTTCTGATTGCACTTGCTCATCAGCAAACATTCATGATGTTAATTACTGAATATTTTGATTAGCATCCTTATAATATGTTTTCCTTTCAATTTTCTTGCTCCCTTTTTTTCCTTTCACAGGTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCAT</genome_strand>
        <mrna_strand>GAAGCTGGATTTTCGCATGACCTCTTTGTTGAATGGGCAGCTGATCCAAAGAATCTTGTTATGTTCACCGAGAGAGGGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGGCACATTGGCACGTATACTTCAGTCAGATCCACCTCCTAAAGCTGTTAAAGTTACCATGTCACGTAGAATTCCCTTGGTTGGTGAGGAGTTGGCTGCTTATGAGGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCAT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E739748" ref_strand="+" ref_description="SGN-E739748 [LC18CG10]">
      <seq>ccattcccccgtcttcaccaagtccggcgactcactgtgggattaagcaaagagaagcggagagcgacggtggcggcatgggaacgtcggttcaggtgacgccactctgtggagtatacaatgagaacccactgtcttacctcgtctccatcgacggcttcaatttccttgtcgattgcggttggaatgaccactttgatacttctcttcttcaacccctatccagggtggcttcaacggtggatgctgtattgatttcacactctgatacatttcatcttggtgctttgccctatgccatgaaacaactcggtctttctgctcctatttatgccacagaaccagtgtacaggctagggttactaactatgtatgatcagtatctctcacggaagcaagtttcagagtttgatttattcaccttggatgacattgattcagcattccaaaatgtgaccagattaacctactctcaaaatcattacatgtctggaaaaggagaaggaattgtgattgctcccctggtagctggtcatctgttaggaggtaccacctggaggataacaaaagacggggaggatgtcatatacgctgttgacttcaatcaccgcaaagaaaggcatttgaacggaactgttttagaatcttttgtccgtccagctgttctaataacagatgcttttaatgctttaaacaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="140664" stop="138112"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="140365" g_stop="140140" g_length="226"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="226" r_length="226" r_score="0.987"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="140139" i_stop="139920" i_length="220">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="139919" g_stop="139751" g_length="169"/>
          <reference_exon_boundary r_type="cDNA" r_start="227" r_stop="395" r_length="169" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="139750" i_stop="139046" i_length="705">
            <donor d_prob="0.925" d_score="1.00"/>
            <acceptor a_prob="0.745" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="139045" g_stop="138949" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="396" r_stop="492" r_length="97" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="138948" i_stop="138703" i_length="246">
            <donor d_prob="0.940" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="138702" g_stop="138576" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="619" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="138575" i_stop="138490" i_length="86">
            <donor d_prob="0.867" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="138489" g_stop="138412" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="620" r_stop="697" r_length="78" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E739748" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>697</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E739748" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="140365" e_stop="140140"/>
          <exon e_start="139919" e_stop="139751"/>
          <exon e_start="139045" e_stop="138949"/>
          <exon e_start="138702" e_stop="138576"/>
          <exon e_start="138489" e_stop="138412"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACCCCCCCGTCTTCACCAAGTCCGGCGACTCACTGTGGGATTAAGCAAAGAGAAGCGGAGAGCGACGGTGGCGGCATGGGAACGTCGGTTCAGGTGACGCCACTCTGTGGAGTATACAATGAGAACCCACTGTCTTACCTCGTCTCCATCGACGGCTTCAATTTCCTTGTCGATTGCGGTTGGAATGACCACTTTGATACTTCTCTTCTTCAACCCCTATCCAGGTACTCCACAAACAAACACAGTATCAATTTCATTTTTCAATTCACTTCAATGTATATACTTTTGCTACTTCTCGGAGCAAAACAAGTATTTTACAGTGTAAACTCGTTTGCTGGCTTGTGCATTTGACGACAGATAGTTTGTTATTGGATTGATTCTTCATTTATTGATTGCTTTTAACTATTTCTGTGCTGAAACAATATATCTTGTTTTAATGTTTAGGGTGGCTTCAACGGTGGATGCTGTATTGATTTCACACTCTGATACATTTCATCTTGGTGCTTTGCCCTATGCCATGAAACAACTCGGTCTTTCTGCTCCTATTTATGCCACAGAACCAGTGTACAGGCTAGGGTTACTAACTATGTATGATCAGTATCTCTCACGGAAGGTGAAGCTTTACTCTGGAGTTATTTTTGAATTATTCAATGCAGTTGTTACCTGTTCATACTCCTTAATCTACGGACTCTGCGGGTTTTAGCTTATATGCTTTAAAATCGAACATTTCACCTGTATGTTGAGCATCGGTCCTTGACATAGATGTTGTGTATAAATGTTTAGCTTTGCAATGACTTATGTCAAGCTATAAAAAACAATGTTTGTTACTTGGAATATGTATTATAGGGATAATTTATCATGAATCCTTCCCTAATTATTGACAGAAATGATTAATTAAATTTCACTCTCCTTATTTGCGTAGTAAACTATGAATTCATATTACTGTTTTCAGATACTATCTACTTTTTATAGCATGTCCGTTAATGCTAGCCAGCCCTTTCAAATTAGAGAAGAAGTTAGAACCCTGGAAATATGATTGGTTAATGTGACTAACCATTATCAGTCACAAATATACTTACTTGAGTGTCACTTAATTTAATATAACTTTTCACTTATACTATCAGGGTTCAGAATTTTTGAAGGAAAAAAGAGAGTGGAAGTAATAGAACACGCCTCTATTGGGATTCCAGGACCTATAGAGCAATATTTGGCTGCTGAGAAACTAAAAGTCCAGTGTCTGACAAGATCATTTGTGTTTGTTACTTTTGAGTGTGTGATCGTGTAGAAGTAAGTCCATTGACACTCTCCTCTTGTGCAGCAAGTTTCAGAGTTTGATTTATTCACCTTGGATGACATTGATTCAGCATTCCAAAATGTGACCAGATTAACCTACTCTCAAAATCATTACATGTCTGGTAGGTCTCTTTTCTTGTTGCCACTTTTATCGAGTTTAACTCATGTCCGTATTGTGGTTTATTAAATCAAGTATAATGTAGTTTCATCCTTCATATTGTCAAGAAGGTAAAGTTAATTAAGACATTGATGATTAAAACTTCAACTGTTTCTAATAGTTTGTTTGGTTGCAAGTCTTGACCACCAACTAATTTTGAAGTAGTTACAACATCCCCTAATTAGTAAATGGAACTGCTGTTTTATTATAGGAAAAGGAGAAGGAATTGTGATTGCTCCCCTGGTAGCTGGTCATCTGTTAGGAGGTACCACCTGGAGGATAACAAAAGACGGGGAGGATGTCATATACGCTGTTGACTTCAATCACCGCAAAGAAAGGTCAAACTAGAACAGTCTTGTTATCCAGTTTAATGATTCTACTCTACTGTGATCCTAATATTATGATCTCTATCTTTTTCTTTCAGGCATTTGAACGGAACTGTTTTAGAATCTTTTGTCCGTCCAGCTGTTCTAATAACAGATGCTTTTAATGCTTTAAACAA</genome_strand>
        <mrna_strand>CCATTCCCCCGTCTTCACCAAGTCCGGCGACTCACTGTGGGATTAAGCAAAGAGAAGCGGAGAGCGACGGTGGCGGCATGGGAACGTCGGTTCAGGTGACGCCACTCTGTGGAGTATACAATGAGAACCCACTGTCTTACCTCGTCTCCATCGACGGCTTCAATTTCCTTGTCGATTGCGGTTGGAATGACCACTTTGATACTTCTCTTCTTCAACCCCTATCCAG............................................................................................................................................................................................................................GGTGGCTTCAACGGTGGATGCTGTATTGATTTCACACTCTGATACATTTCATCTTGGTGCTTTGCCCTATGCCATGAAACAACTCGGTCTTTCTGCTCCTATTTATGCCACAGAACCAGTGTACAGGCTAGGGTTACTAACTATGTATGATCAGTATCTCTCACGGAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAAGTTTCAGAGTTTGATTTATTCACCTTGGATGACATTGATTCAGCATTCCAAAATGTGACCAGATTAACCTACTCTCAAAATCATTACATGTCTG......................................................................................................................................................................................................................................................GAAAAGGAGAAGGAATTGTGATTGCTCCCCTGGTAGCTGGTCATCTGTTAGGAGGTACCACCTGGAGGATAACAAAAGACGGGGAGGATGTCATATACGCTGTTGACTTCAATCACCGCAAAGAAAG......................................................................................GCATTTGAACGGAACTGTTTTAGAATCTTTTGTCCGTCCAGCTGTTCTAATAACAGATGCTTTTAATGCTTTAAACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E311508" ref_strand="+" ref_description="SGN-E311508 [cTOA-6-C1]">
      <seq>cctactacacccccccgtcttcaccaagtccggcgactcactgtgggattaagcaaagagaagcggagagcgacggtggcggcatgggaacgtcggttcaggtgacgccactctgtggagtatacaatgagaacccactgtcttacctcgtctccatcgacggcttcaatttccttgtcgattgcggttggaatgaccactttgatacttctcttcttcaacccctatccagggtggcttcaacggtggatgctgtattgatttcacactctgatacatttcatcttggtgctttgccctatgccatgaaacaactcggtctttctgctcctatttatgccacagaaccagtgtacaggctagggttactaactatgtatgatcagtatctctcacggaagcaagtttcagagtttgatttattcaccttggatgacattgattc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="140671" stop="138702"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="140371" g_stop="140140" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="232" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="140139" i_stop="139920" i_length="220">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="139919" g_stop="139751" g_length="169"/>
          <reference_exon_boundary r_type="cDNA" r_start="233" r_stop="401" r_length="169" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="139750" i_stop="139046" i_length="705">
            <donor d_prob="0.925" d_score="1.00"/>
            <acceptor a_prob="0.745" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="139045" g_stop="139002" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="402" r_stop="445" r_length="44" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E311508" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>445</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E311508" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="140371" e_stop="140140"/>
          <exon e_start="139919" e_stop="139751"/>
          <exon e_start="139045" e_stop="139002"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTACTACACCCCCCCGTCTTCACCAAGTCCGGCGACTCACTGTGGGATTAAGCAAAGAGAAGCGGAGAGCGACGGTGGCGGCATGGGAACGTCGGTTCAGGTGACGCCACTCTGTGGAGTATACAATGAGAACCCACTGTCTTACCTCGTCTCCATCGACGGCTTCAATTTCCTTGTCGATTGCGGTTGGAATGACCACTTTGATACTTCTCTTCTTCAACCCCTATCCAGGTACTCCACAAACAAACACAGTATCAATTTCATTTTTCAATTCACTTCAATGTATATACTTTTGCTACTTCTCGGAGCAAAACAAGTATTTTACAGTGTAAACTCGTTTGCTGGCTTGTGCATTTGACGACAGATAGTTTGTTATTGGATTGATTCTTCATTTATTGATTGCTTTTAACTATTTCTGTGCTGAAACAATATATCTTGTTTTAATGTTTAGGGTGGCTTCAACGGTGGATGCTGTATTGATTTCACACTCTGATACATTTCATCTTGGTGCTTTGCCCTATGCCATGAAACAACTCGGTCTTTCTGCTCCTATTTATGCCACAGAACCAGTGTACAGGCTAGGGTTACTAACTATGTATGATCAGTATCTCTCACGGAAGGTGAAGCTTTACTCTGGAGTTATTTTTGAATTATTCAATGCAGTTGTTACCTGTTCATACTCCTTAATCTACGGACTCTGCGGGTTTTAGCTTATATGCTTTAAAATCGAACATTTCACCTGTATGTTGAGCATCGGTCCTTGACATAGATGTTGTGTATAAATGTTTAGCTTTGCAATGACTTATGTCAAGCTATAAAAAACAATGTTTGTTACTTGGAATATGTATTATAGGGATAATTTATCATGAATCCTTCCCTAATTATTGACAGAAATGATTAATTAAATTTCACTCTCCTTATTTGCGTAGTAAACTATGAATTCATATTACTGTTTTCAGATACTATCTACTTTTTATAGCATGTCCGTTAATGCTAGCCAGCCCTTTCAAATTAGAGAAGAAGTTAGAACCCTGGAAATATGATTGGTTAATGTGACTAACCATTATCAGTCACAAATATACTTACTTGAGTGTCACTTAATTTAATATAACTTTTCACTTATACTATCAGGGTTCAGAATTTTTGAAGGAAAAAAGAGAGTGGAAGTAATAGAACACGCCTCTATTGGGATTCCAGGACCTATAGAGCAATATTTGGCTGCTGAGAAACTAAAAGTCCAGTGTCTGACAAGATCATTTGTGTTTGTTACTTTTGAGTGTGTGATCGTGTAGAAGTAAGTCCATTGACACTCTCCTCTTGTGCAGCAAGTTTCAGAGTTTGATTTATTCACCTTGGATGACATTGATTC</genome_strand>
        <mrna_strand>CCTACTACACCCCCCCGTCTTCACCAAGTCCGGCGACTCACTGTGGGATTAAGCAAAGAGAAGCGGAGAGCGACGGTGGCGGCATGGGAACGTCGGTTCAGGTGACGCCACTCTGTGGAGTATACAATGAGAACCCACTGTCTTACCTCGTCTCCATCGACGGCTTCAATTTCCTTGTCGATTGCGGTTGGAATGACCACTTTGATACTTCTCTTCTTCAACCCCTATCCAG............................................................................................................................................................................................................................GGTGGCTTCAACGGTGGATGCTGTATTGATTTCACACTCTGATACATTTCATCTTGGTGCTTTGCCCTATGCCATGAAACAACTCGGTCTTTCTGCTCCTATTTATGCCACAGAACCAGTGTACAGGCTAGGGTTACTAACTATGTATGATCAGTATCTCTCACGGAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAAGTTTCAGAGTTTGATTTATTCACCTTGGATGACATTGATTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E303086" ref_strand="+" ref_description="SGN-E303086 [cLEW-26-D16]">
      <seq>cccccccgtcttcaccaagtacggctactcactgtgggatttagcaaacacaagcggaaagcgactgtggcggcatgggaacttccggtcaagtgaccccactctgtggagaatacaatgagaacccactgtcttacctcgtctccatcgacggcttcaatttccttgtctattgcggggggaatgaccactttgatacttctcttcttcaacccctatccagggtggcttcaacggtggatgctgtattgatttcacactctgatacaccccatcttggtgctttgccctatgccatgaaacaactcggtctttctgctcctatttatgccacagaaccagtgtacaggctagggttactaactatgtatgatcagtatctctcacggaagcaagtttcagagtttgatttattcaccttggatgacattgatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="140662" stop="138703"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="140362" g_stop="140140" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="223" r_length="223" r_score="0.928"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="140139" i_stop="139920" i_length="220">
            <donor d_prob="0.998" d_score="0.96"/>
            <acceptor a_prob="0.998" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="139919" g_stop="139751" g_length="169"/>
          <reference_exon_boundary r_type="cDNA" r_start="224" r_stop="392" r_length="169" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="139750" i_stop="139046" i_length="705">
            <donor d_prob="0.925" d_score="1.00"/>
            <acceptor a_prob="0.745" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="139045" g_stop="139003" g_length="43"/>
          <reference_exon_boundary r_type="cDNA" r_start="393" r_stop="435" r_length="43" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E303086" ref_strand="+">
        <total_alignment_score>0.952</total_alignment_score>
        <cumulative_length_of_scored_exons>435</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E303086" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="140362" e_stop="140140"/>
          <exon e_start="139919" e_stop="139751"/>
          <exon e_start="139045" e_stop="139003"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCCCCCGTCTTCACCAAGTCCGGCGACTCACTGTGGGATTAAGCAAAGAGAAGCGGAGAGCGACGGTGGCGGCATGGGAACGTCGGTTCAGGTGACGCCACTCTGTGGAGTATACAATGAGAACCCACTGTCTTACCTCGTCTCCATCGACGGCTTCAATTTCCTTGTCGATTGCGGTTGGAATGACCACTTTGATACTTCTCTTCTTCAACCCCTATCCAGGTACTCCACAAACAAACACAGTATCAATTTCATTTTTCAATTCACTTCAATGTATATACTTTTGCTACTTCTCGGAGCAAAACAAGTATTTTACAGTGTAAACTCGTTTGCTGGCTTGTGCATTTGACGACAGATAGTTTGTTATTGGATTGATTCTTCATTTATTGATTGCTTTTAACTATTTCTGTGCTGAAACAATATATCTTGTTTTAATGTTTAGGGTGGCTTCAACGGTGGATGCTGTATTGATTTCACACTCTGATACATTTCATCTTGGTGCTTTGCCCTATGCCATGAAACAACTCGGTCTTTCTGCTCCTATTTATGCCACAGAACCAGTGTACAGGCTAGGGTTACTAACTATGTATGATCAGTATCTCTCACGGAAGGTGAAGCTTTACTCTGGAGTTATTTTTGAATTATTCAATGCAGTTGTTACCTGTTCATACTCCTTAATCTACGGACTCTGCGGGTTTTAGCTTATATGCTTTAAAATCGAACATTTCACCTGTATGTTGAGCATCGGTCCTTGACATAGATGTTGTGTATAAATGTTTAGCTTTGCAATGACTTATGTCAAGCTATAAAAAACAATGTTTGTTACTTGGAATATGTATTATAGGGATAATTTATCATGAATCCTTCCCTAATTATTGACAGAAATGATTAATTAAATTTCACTCTCCTTATTTGCGTAGTAAACTATGAATTCATATTACTGTTTTCAGATACTATCTACTTTTTATAGCATGTCCGTTAATGCTAGCCAGCCCTTTCAAATTAGAGAAGAAGTTAGAACCCTGGAAATATGATTGGTTAATGTGACTAACCATTATCAGTCACAAATATACTTACTTGAGTGTCACTTAATTTAATATAACTTTTCACTTATACTATCAGGGTTCAGAATTTTTGAAGGAAAAAAGAGAGTGGAAGTAATAGAACACGCCTCTATTGGGATTCCAGGACCTATAGAGCAATATTTGGCTGCTGAGAAACTAAAAGTCCAGTGTCTGACAAGATCATTTGTGTTTGTTACTTTTGAGTGTGTGATCGTGTAGAAGTAAGTCCATTGACACTCTCCTCTTGTGCAGCAAGTTTCAGAGTTTGATTTATTCACCTTGGATGACATTGATT</genome_strand>
        <mrna_strand>CCCCCCCGTCTTCACCAAGTACGGCTACTCACTGTGGGATTTAGCAAACACAAGCGGAAAGCGACTGTGGCGGCATGGGAACTTCCGGTCAAGTGACCCCACTCTGTGGAGAATACAATGAGAACCCACTGTCTTACCTCGTCTCCATCGACGGCTTCAATTTCCTTGTCTATTGCGGGGGGAATGACCACTTTGATACTTCTCTTCTTCAACCCCTATCCAG............................................................................................................................................................................................................................GGTGGCTTCAACGGTGGATGCTGTATTGATTTCACACTCTGATACACCCCATCTTGGTGCTTTGCCCTATGCCATGAAACAACTCGGTCTTTCTGCTCCTATTTATGCCACAGAACCAGTGTACAGGCTAGGGTTACTAACTATGTATGATCAGTATCTCTCACGGAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAAGTTTCAGAGTTTGATTTATTCACCTTGGATGACATTGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E746340" ref_strand="+" ref_description="SGN-E746340 [GI|47104714]">
      <seq>cgatattcactttcatttcactaaagcaactcacactgatacactgaatctccaagatcagaattgtcttctcttctccggttgaaacgttcgataagcaaaccctcttcgggccggatcgttgaggcgttggagaaagacgagttctggcaagttcatcaagtccaaggtttatttgaattgcggtgacgattgatcaaggtaaaggagcaacttctatatagtggaagggaaggaagtagaggaaacagtaggtgaacgaggtgtttggagaccttaagcatctttcgaaaagcaaaatctgggagtttatgaaaataaggagaagtgtttgatttttaacattattatacttcttaaaggaagtgtttataggtagcactaggaaaagtgtacaactttgttaagaatggagtctttatggaagttagtgtatttgcttgaaccagcacccatcgctcttattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaactatggcaaagaaatggagagaaatcgtgactggtctgaagcatcaattaccttagataggtctcaggctcttatgatcccggtagtgagctcttgcagcttgcttatgatgttctatttgttctcttcagtctcacagatcctcactgtgttcactgcagttgcctcagcatcatctctttacttttgccttttcccttatattgcccaaatcaagtctcgatttggcttagctgatcctttcgtatctcgctgttgttcgaagccatttactaggatccaaggccttttgacgttgctgtgcattggcacggttatagcgtggcttttctctgggcattggatactgaataatttgctgggcatctctctttgtattgcttttgtgagccatgttcgccttcctaacattaaggtttgtgcaatgctccttggctgcttgtttgtatatgatatattctgggttttctattccgagagattctttggtgcaaatgtcatggtgtctgtagcaacccagcaatcatccaatcctgtacacatagtggcaaatagattgagccttcctggattgcagttgataaccaaaaaactcgagttgcctgtcaagattgtgttccctagaaacttactgggtggtgtagtgcctggatatgctgctgttgatttcatgatgctgggtcttggcgacatggctattccttctatgcttttagcattggttctctgttttgaccatagaaagagcaaggactctggaagcatcatggatataccacctccaaaggaggatatatcatctccaaaggggttttacatctggtatgcgctagcaggatattcccttggactggttactgccttagcagctggtattttgactcactcgccacaaccagcacttctatacttggtaccatcaactttggggccgataattgtcatttcatggatgagaaaggagctagctgagctgtgggaaggatcaccgtcaaacataaatgagaaaactcgttttactgaagtctgagctcttgcattcttcccataaagctacatctagggagggcacatccaaacctgtaaatttacttagtatatttcagccccatctgttggatatttacaatttttgttggagctatgtcttgcgtatatttacgaggctgtcaatcttgagacagcgacaagcctcagacttatgttgcaattacaaacgctaatatttctattactggagttgcattgtctttattcctccccttaccccggtgatttcaaggtaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148947" stop="45871"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="148647" g_stop="148478" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="169" r_length="169" r_score="0.971"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="148477" i_stop="148016" i_length="462">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="148015" g_stop="146978" g_length="1038"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="1207" r_length="1038" r_score="0.987"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="146977" i_stop="145216" i_length="1762">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.897" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="145215" g_stop="144997" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="1208" r_stop="1426" r_length="219" r_score="0.995"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="144996" i_stop="142631" i_length="2366">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="142630" g_stop="142237" g_length="394"/>
          <reference_exon_boundary r_type="cDNA" r_start="1427" r_stop="1818" r_length="392" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E746340" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>1821</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E746340" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="148647" e_stop="148478"/>
          <exon e_start="148015" e_stop="146978"/>
          <exon e_start="145215" e_stop="144997"/>
          <exon e_start="142630" e_stop="142237"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGATATTCACTTTCATTTCACTAAAGCAACTCACACTGATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAGGTAAGTCCAACATTAGAAAGATCTCGTAAATTCACTGTTAAAAAAGCCCCAATTTGCATATTTTTAGTGTGGTATAATTCATTGATTTTCGTAATTATCATCATGAAGATCGATTGTTCTTCGCCTTTAGTTGATTGGGTAGAATACAGCTTTATTGATGTAATGGAACGTGGAGTTGTCGGTACCGATTGCTTGTTCTTAGATAAAGTTGATTTCGTCTGCTTGATGAAGCTACATGAATACGCATTTTCTTAAAAATAAAATAAAATTGAAGGATGATTGATCAATGTAAATTGGATGCTGTTTCTTGTACTTCAGTTGCTTTTTTATTTCTCAAACCTCTCTACTTTTGGGATTACGCTGGTTATGTTTTTGTTGTTGTTGTTGATTGATCAAGGTAATAATATGTGTGAATTATTACTAACAAAAAGAATTCATCAGTTTAGTTCTTTGTCCTTTCAGGTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATGGTAAATACATTTTCCTATTTGTGAAATAAGTAAAATGGTCAACGAATGTCTCGTTTTATACTCTTTTTGTTAGCATCTTAATTTTGTCTGCATTAAAAATATATAGAGGATAAGACACAACATTTGACATTTCAATTTTTCTCAATCTGATGAAGTTCTCCTTCATTCTTGGTCGAGCTCGTCGCATCGTGCTTGCCTAGTGCGGGTTACCTCTCCTGTGTGATTTGCGAGCTATTGCATAGGAGTGGGGTTTTTACCCTGTGCACACCCAAAGGGTAGCAGCTACAGGTTTTCCCTGTCACAAAAATAAATAAATAATGATGTATGGAATTCTTGTTCTATATTAATAGATATCAGCTGTTGTGCGTAATTGAACCATATATAGGCACTAGGTTTCATATTCTGACAGTAATAGCTCTTTTTCCACACTTTCAAGAATGTAGTATTAAAGTAGAAGGGAAAAGAAGACAATTGTGAGTAGTCAAACCATGCATTGCAGTAAAAGAAATTCTAGATGTGTTGGCTTGTATGATGAACAGATAGACCTTTTTCATGTTAGGGTAAGCTATGATTGGTAGCTGCATGGGCACTGGGAATTTCGTATATTTTTCTGGTAGTTAAGTGGATCTTTTTGGCGTAAACAAGAGATCATGATTGATGATCTGTGTTTCTGGTAGGGCTTGCATCACGGCTTTGAGGTGGCAAATTTGGACCCATTTCTTAGTGTTGTTGGTTATATTACCTTCTTTCTCATAGTCTCTATCTTTACTTGTTTTCTTGGTTATTATTAATTAGTTAATGTAATATCTGTACTCTTCCCTATTTCTTTTTCTTTTCTGTTTATTATTTTGGGTTGGTGGAAAAGGGGGGGGGGGGTTTCAAAGGCTTACTGTCACTACATTGGAGATCAATGAAAAACCTCAAGACAGTTTTTGCTGTTTTATTTATGCAAATGCATTTTTTGATTAGGTAATATATGCAAATGCGCTATATATTATTTCACATGTTCCCGGAAGGATTCTAAAAGGATTCAGAAGAAAGAATGTATCAAAAAAGAAAATAATCACTTCTCCCTATAGTCTATGATAGACATTTAATGTTGACATTAGTTTGATCGATTAATTAGGCTTCTATGTTACATTTTCTAGCAATGAAAAGTATAAAGGTAGAAGTTTGTAAATTTGATCTAGTAACCAGTATGTCATAACTCATATGGATGTTTTAAATCTGAGAAAGTAATTAATTCTTAAATCGTGTTAGTTATATAGTAATTATCACCCCAAGTGAAAATTCTGTCATAGAACGTAGGATAAGATCAATACAAAGTTTTGTCCCTAATCCATCCTACTTTGTCCGTGGAACCTTCACCACCAAACACATATTGCAGGTTTGTCTGGTAATTATTGTGTTTGTGCAAAGATAACTTCATACTGACGGCGAACAAAAAGTGAACCATGCTTAACATGGAAAAACCCTAAAAAGCTTTTCTTTTTCCCAATTCTTGAAATTTTGATTGATTCTGTCGGCAATTGTTCCAAAGATAAGTCTCTAATATTCAATGTTTAATATCTACGGCTAACTGCATAATGCATATACACATGAATCGTGATATGTGTTTCCATTTATTGAGTGTTAAATGAGTACAGTAAAGATCTCCACAGATTCTCCTGTTTGTGATTAGTCACGATGCAATACTTCCATAAATCCACCCGCTAAATAGTTTGACATGGACTGAGCTTTCATTTGTTTTATGTGTTTTCAGGCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATATACCACCTCCAAAGGAGGATATATCATCTCCAAAGGGGTTTTACATCTGGTATGCGCTAGCAGGATATTCCGTTGGACTGGTTACTGCCTTAGCAGCTGGTATTTTGACTCACTCGCCACAACCAGCACTTCTATACTTGGTATGTTATTTTTGCATGAAGCTCAACACCTCTTCCCAATTACTGCTGCAAGTCTTTTTTATTTGTGGGTTTTCAAGAGCCTGTTAAGTAACACAAAACCATGGTCCCTATGGGTGTGTTTAGTGTTGGACTGATAAATAAAGGCACACCATTTCGTGATATGAAGTAATTTTTTTAAACACTAGAGATTTTCTTAGTTTCATACTTGTTGTAAACGACCCTACATGTTATGTATCCGGTCATAATAAGAAGACTCCCGTGACCCGTCGCTTGGCAAGCCCAATATGAGTATAGGCAATAACAAAGGCTTATCCAATCTAGTTGGTATCACCTAGATGTGACCTTTTCTTCCATCTTATTATGTTCTTAGCTATGTCTGCATTGATTCCGGGATGGTATAGGTATATCAAGAAAAATTCTCTCCATCTGTTTAGGTCTACTCATCCCTTTCTTTTAATCACTTTAGTCATCATATTATCGCATCTACTGAGGGTTCATCGGCAGGTGGGACATACCAAATTATCTCAAGGCCTTTTTATTCTTCTTTTTGTTGATAATTTAAGCCTTTCTCTTATTTTATCCTATACATGTGCTACATACACCCTTTGTCGGATGTGGCCATTTCTAATATAGCCTAACTATATGCCAGAACATCTAGTTTGGCATCCACATTTTCATGACATTCATATCGTGGGTAAATGATGAGTCTCGACATTCACAATTCACTCTCATAAGTCATTCTAGTCCGTAACTAATATGTACGATTTGCTTACTCTTTGGAAGGTATCTTTCTACTGCATAACACTTTCATAACACTCTTCCATTTAAATCATCATATTTTAATTCTATATTGCATCTTCATTGTCATGCCATTCTCGTTAAAGTCTGAGCTTAGATATCATAGTTATCAACTTTTAGGCACTGCATTCGATCTCATATCATTTTCACTCTCCTTATTAGAGCTAAGTCTTGTAGTGCATATATTTATCGCACTACTACTTATCCTAAAATCTTTGGTCTCTTGAGTGGCTCTCTATATTTCTATCTTTTAGTTAACTCCCTTGATAGTTTCATCAATTTGACTCAGTCACCAGCAAATAGTGTACATCATGTAACATCATTCTCTATATTGTTGGTTGGTTCATCTGTACAGGAGTAAATGTGTATCAGCTCAAGGCAGATCTCTGGTATAAACCTGCGTTTAGTGGAAATACTTCTATATTTAGGGCATTATTCCCACATATGTGATTGCTCTTTCACACGTGTTCCTTTATGGATTTACATATAATTGAATTCTGTTTTGCCTGTGCACTAGCTTTTTGATCTTCAATCTCATAGTGTCGTATATATGGGTAGAAACTTACCTGGAAAAATGAGCTAAAAGTGCCTTAAAGGTTTCCAATTAAAAAAATAGGACAACTGGGCCCCCTTTACTTCTTTTCCTTTTTTAATTTTTAATATTAATAAAGAGACTTAACTAAGAACATTTTTCGTAGTTGTCTGGAGAACTACTGAAATTGTCTGGACAACTAAAGAAGTTGTCCACTACGACAGTTTTTTGGACTTGAGTGTAAAAGTTCAAAGTTTCAGACTATTTGAGAAAATATTTTTTATCCTAATTTATACTATTTGTCACTTCTACCCTATTTTTAAGACTTGAATGACTCCCACCTAATTGACTAACTAGTTTGTCCCTTTTAATAGACCTTCCCAACTTACCCCGTGCCCGGTGTTTACCCTAAACTAATAAATGCTAGACAGTGTTTGTAAGACACACATTTATCAGTTAACTGTGGTTAAGTGATGTGTATTCTCACTTTGATTTAACTGCTAATGTTAAATTGCTTAGCTTGGGTTTAAACATTGCATGCTAGTAACTTTTTAAGATGGCACATTTGGAGGTCTACCTAAATGTCCATTTAGATCAATGGTTTTATATCTTCGCAAATTTGTTTTCTTTTTCCTTATCAAATCCAAAAGCGTCGAGGTGGTGTCCAACCAGCGTGAATGTGAGACTCTTACATGCTGCCTAAGATTTGATCTAGTGCCTTCTAAGGGAAGAGTTTGCAACTTTGCATTGCAATTTGCACATATGATTCAGTTCATTGTTCACATTAATTTACTAGCCGGTGACTACTTTTTACTCTACAAACTCCAGAAATGAAAAAATAACTAAATGCAAGTAGAACTTGTAACAAATTTTTAGTAGTTTACTACTGTCTTTTGCAAAAACTTCTTGAGATTATCTCGTAAAAAAAAACTTCTTGAGATTATCCTCTTATGCTTGTTTAAGAAGTTCTGCTTCCATAACAAGCATGATCCAGTTTGGTCTTAGCTCATTTACTTACTATATTTGGCTAAAATAGGTACCATCAACTTTGGGGCCGATAATTGTCATTTCATGGATGAGAAAGGAGCTAGCTGAGCTGTGGGAAGGATCACCGTCAAACATAAATGAGAAAACTCGTTTTACTGAAGTCTGAGCTCTTGCATTCTTCCCATAAAGCTACATCTAGGGAGGGCACATCCAAACCTGTAAATTTACTTAGTATAATTCAGCCCCATCTGTTGGATATTTACAATTTTTGTTGGAGCTATATGTCTTGCGTATATTTACGAGGCTGTCAATCTTGAGACAGCGACTAGCCTCAGACTTATGTTGCAATTACAAACGCTAATATTTCTATTACTGGAGTTACATTGTCTTTATTCCTCCCCTTACCCCGGTGATTTCAAGGTAAAACTGGTAATACTATCTTA</genome_strand>
        <mrna_strand>CGATATTCACTTTCATTTCACTAAAGCAACTCACACTGATACACTGAATCTCCA-AGATCAGAATTGTCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCTTCGGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTATTTGAATTGCGGTGACGATTGATCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTCGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTTAAAGGAAGTGTTTATAGGTAGCACTAGGAAAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAACTATGGCAAAGAAATGGAGAGAAATCGTGACTGGTCTGAAGCATCAATTACCTTAGATAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCATCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCTTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTTTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCTTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCCAATCCTGTACACATAGTGGCAAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATATACCACCTCCAAAGGAGGATATATCATCTCCAAAGGGGTTTTACATCTGGTATGCGCTAGCAGGATATTCCCTTGGACTGGTTACTGCCTTAGCAGCTGGTATTTTGACTCACTCGCCACAACCAGCACTTCTATACTTG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACCATCAACTTTGGGGCCGATAATTGTCATTTCATGGATGAGAAAGGAGCTAGCTGAGCTGTGGGAAGGATCACCGTCAAACATAAATGAGAAAACTCGTTTTACTGAAGTCTGAGCTCTTGCATTCTTCCCATAAAGCTACATCTAGGGAGGGCACATCCAAACCTGTAAATTTACTTAGTATATTTCAGCCCCATCTGTTGGATATTTACAATTTTTGTTGGAGC--TATGTCTTGCGTATATTTACGAGGCTGTCAATCTTGAGACAGCGACAAGCCTCAGACTTATGTTGCAATTACAAACGCTAATATTTCTATTACTGGAGTTGCATTGTCTTTATTCCTCCCCTTACCCCGGTGATTTCAAGGTAAAAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E273366" ref_strand="+" ref_description="SGN-E273366 [cLEN-3-P15]">
      <seq>ttgtatatgatatattctgggttttctattccgagagattctttggtgcaaatgtcatggtgtctgtagcaacccagcaatcatcgaatcctgtacacatagtggcgaatagattgagccttcctggattgcagttgataaccaaaaaactcgagttgcctgtcaagattgtgttccctagaaacttactgggtggtgtagtgcctggatatgctgctgttgatttcatgatgctgggtcttggcgacatggctattccttctatgcttttagcattggttctctgttttgaccatagaaagagcaaggactctggaagcatcatggatataccacctccaaaggaggatatatcatctccaaaggggttttacatctggtatgcgctagcaggatattccgttggactggttactgccttagcagctggtattttgactcactcgccacaaccagcacttctatacttggtaccatcaactttggggccgataattgtcatttcatggatgagaaaggagctagctgagctgtgggaaggatcaccgtcaaacataaatgagaaaactcgttttactgaagtctgagctcttgcattcttcccataaagcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="147528" stop="142188"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147228" g_stop="146978" g_length="251"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="251" r_length="251" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="146977" i_stop="145216" i_length="1762">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.897" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="145215" g_stop="144997" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="252" r_stop="470" r_length="219" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="144996" i_stop="142631" i_length="2366">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="142630" g_stop="142488" g_length="143"/>
          <reference_exon_boundary r_type="cDNA" r_start="471" r_stop="613" r_length="143" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E273366" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>613</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E273366" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147228" e_stop="146978"/>
          <exon e_start="145215" e_stop="144997"/>
          <exon e_start="142630" e_stop="142488"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATGGTAAATACATTTTCCTATTTGTGAAATAAGTAAAATGGTCAACGAATGTCTCGTTTTATACTCTTTTTGTTAGCATCTTAATTTTGTCTGCATTAAAAATATATAGAGGATAAGACACAACATTTGACATTTCAATTTTTCTCAATCTGATGAAGTTCTCCTTCATTCTTGGTCGAGCTCGTCGCATCGTGCTTGCCTAGTGCGGGTTACCTCTCCTGTGTGATTTGCGAGCTATTGCATAGGAGTGGGGTTTTTACCCTGTGCACACCCAAAGGGTAGCAGCTACAGGTTTTCCCTGTCACAAAAATAAATAAATAATGATGTATGGAATTCTTGTTCTATATTAATAGATATCAGCTGTTGTGCGTAATTGAACCATATATAGGCACTAGGTTTCATATTCTGACAGTAATAGCTCTTTTTCCACACTTTCAAGAATGTAGTATTAAAGTAGAAGGGAAAAGAAGACAATTGTGAGTAGTCAAACCATGCATTGCAGTAAAAGAAATTCTAGATGTGTTGGCTTGTATGATGAACAGATAGACCTTTTTCATGTTAGGGTAAGCTATGATTGGTAGCTGCATGGGCACTGGGAATTTCGTATATTTTTCTGGTAGTTAAGTGGATCTTTTTGGCGTAAACAAGAGATCATGATTGATGATCTGTGTTTCTGGTAGGGCTTGCATCACGGCTTTGAGGTGGCAAATTTGGACCCATTTCTTAGTGTTGTTGGTTATATTACCTTCTTTCTCATAGTCTCTATCTTTACTTGTTTTCTTGGTTATTATTAATTAGTTAATGTAATATCTGTACTCTTCCCTATTTCTTTTTCTTTTCTGTTTATTATTTTGGGTTGGTGGAAAAGGGGGGGGGGGGTTTCAAAGGCTTACTGTCACTACATTGGAGATCAATGAAAAACCTCAAGACAGTTTTTGCTGTTTTATTTATGCAAATGCATTTTTTGATTAGGTAATATATGCAAATGCGCTATATATTATTTCACATGTTCCCGGAAGGATTCTAAAAGGATTCAGAAGAAAGAATGTATCAAAAAAGAAAATAATCACTTCTCCCTATAGTCTATGATAGACATTTAATGTTGACATTAGTTTGATCGATTAATTAGGCTTCTATGTTACATTTTCTAGCAATGAAAAGTATAAAGGTAGAAGTTTGTAAATTTGATCTAGTAACCAGTATGTCATAACTCATATGGATGTTTTAAATCTGAGAAAGTAATTAATTCTTAAATCGTGTTAGTTATATAGTAATTATCACCCCAAGTGAAAATTCTGTCATAGAACGTAGGATAAGATCAATACAAAGTTTTGTCCCTAATCCATCCTACTTTGTCCGTGGAACCTTCACCACCAAACACATATTGCAGGTTTGTCTGGTAATTATTGTGTTTGTGCAAAGATAACTTCATACTGACGGCGAACAAAAAGTGAACCATGCTTAACATGGAAAAACCCTAAAAAGCTTTTCTTTTTCCCAATTCTTGAAATTTTGATTGATTCTGTCGGCAATTGTTCCAAAGATAAGTCTCTAATATTCAATGTTTAATATCTACGGCTAACTGCATAATGCATATACACATGAATCGTGATATGTGTTTCCATTTATTGAGTGTTAAATGAGTACAGTAAAGATCTCCACAGATTCTCCTGTTTGTGATTAGTCACGATGCAATACTTCCATAAATCCACCCGCTAAATAGTTTGACATGGACTGAGCTTTCATTTGTTTTATGTGTTTTCAGGCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATATACCACCTCCAAAGGAGGATATATCATCTCCAAAGGGGTTTTACATCTGGTATGCGCTAGCAGGATATTCCGTTGGACTGGTTACTGCCTTAGCAGCTGGTATTTTGACTCACTCGCCACAACCAGCACTTCTATACTTGGTATGTTATTTTTGCATGAAGCTCAACACCTCTTCCCAATTACTGCTGCAAGTCTTTTTTATTTGTGGGTTTTCAAGAGCCTGTTAAGTAACACAAAACCATGGTCCCTATGGGTGTGTTTAGTGTTGGACTGATAAATAAAGGCACACCATTTCGTGATATGAAGTAATTTTTTTAAACACTAGAGATTTTCTTAGTTTCATACTTGTTGTAAACGACCCTACATGTTATGTATCCGGTCATAATAAGAAGACTCCCGTGACCCGTCGCTTGGCAAGCCCAATATGAGTATAGGCAATAACAAAGGCTTATCCAATCTAGTTGGTATCACCTAGATGTGACCTTTTCTTCCATCTTATTATGTTCTTAGCTATGTCTGCATTGATTCCGGGATGGTATAGGTATATCAAGAAAAATTCTCTCCATCTGTTTAGGTCTACTCATCCCTTTCTTTTAATCACTTTAGTCATCATATTATCGCATCTACTGAGGGTTCATCGGCAGGTGGGACATACCAAATTATCTCAAGGCCTTTTTATTCTTCTTTTTGTTGATAATTTAAGCCTTTCTCTTATTTTATCCTATACATGTGCTACATACACCCTTTGTCGGATGTGGCCATTTCTAATATAGCCTAACTATATGCCAGAACATCTAGTTTGGCATCCACATTTTCATGACATTCATATCGTGGGTAAATGATGAGTCTCGACATTCACAATTCACTCTCATAAGTCATTCTAGTCCGTAACTAATATGTACGATTTGCTTACTCTTTGGAAGGTATCTTTCTACTGCATAACACTTTCATAACACTCTTCCATTTAAATCATCATATTTTAATTCTATATTGCATCTTCATTGTCATGCCATTCTCGTTAAAGTCTGAGCTTAGATATCATAGTTATCAACTTTTAGGCACTGCATTCGATCTCATATCATTTTCACTCTCCTTATTAGAGCTAAGTCTTGTAGTGCATATATTTATCGCACTACTACTTATCCTAAAATCTTTGGTCTCTTGAGTGGCTCTCTATATTTCTATCTTTTAGTTAACTCCCTTGATAGTTTCATCAATTTGACTCAGTCACCAGCAAATAGTGTACATCATGTAACATCATTCTCTATATTGTTGGTTGGTTCATCTGTACAGGAGTAAATGTGTATCAGCTCAAGGCAGATCTCTGGTATAAACCTGCGTTTAGTGGAAATACTTCTATATTTAGGGCATTATTCCCACATATGTGATTGCTCTTTCACACGTGTTCCTTTATGGATTTACATATAATTGAATTCTGTTTTGCCTGTGCACTAGCTTTTTGATCTTCAATCTCATAGTGTCGTATATATGGGTAGAAACTTACCTGGAAAAATGAGCTAAAAGTGCCTTAAAGGTTTCCAATTAAAAAAATAGGACAACTGGGCCCCCTTTACTTCTTTTCCTTTTTTAATTTTTAATATTAATAAAGAGACTTAACTAAGAACATTTTTCGTAGTTGTCTGGAGAACTACTGAAATTGTCTGGACAACTAAAGAAGTTGTCCACTACGACAGTTTTTTGGACTTGAGTGTAAAAGTTCAAAGTTTCAGACTATTTGAGAAAATATTTTTTATCCTAATTTATACTATTTGTCACTTCTACCCTATTTTTAAGACTTGAATGACTCCCACCTAATTGACTAACTAGTTTGTCCCTTTTAATAGACCTTCCCAACTTACCCCGTGCCCGGTGTTTACCCTAAACTAATAAATGCTAGACAGTGTTTGTAAGACACACATTTATCAGTTAACTGTGGTTAAGTGATGTGTATTCTCACTTTGATTTAACTGCTAATGTTAAATTGCTTAGCTTGGGTTTAAACATTGCATGCTAGTAACTTTTTAAGATGGCACATTTGGAGGTCTACCTAAATGTCCATTTAGATCAATGGTTTTATATCTTCGCAAATTTGTTTTCTTTTTCCTTATCAAATCCAAAAGCGTCGAGGTGGTGTCCAACCAGCGTGAATGTGAGACTCTTACATGCTGCCTAAGATTTGATCTAGTGCCTTCTAAGGGAAGAGTTTGCAACTTTGCATTGCAATTTGCACATATGATTCAGTTCATTGTTCACATTAATTTACTAGCCGGTGACTACTTTTTACTCTACAAACTCCAGAAATGAAAAAATAACTAAATGCAAGTAGAACTTGTAACAAATTTTTAGTAGTTTACTACTGTCTTTTGCAAAAACTTCTTGAGATTATCTCGTAAAAAAAAACTTCTTGAGATTATCCTCTTATGCTTGTTTAAGAAGTTCTGCTTCCATAACAAGCATGATCCAGTTTGGTCTTAGCTCATTTACTTACTATATTTGGCTAAAATAGGTACCATCAACTTTGGGGCCGATAATTGTCATTTCATGGATGAGAAAGGAGCTAGCTGAGCTGTGGGAAGGATCACCGTCAAACATAAATGAGAAAACTCGTTTTACTGAAGTCTGAGCTCTTGCATTCTTCCCATAAAGCTA</genome_strand>
        <mrna_strand>TTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATATACCACCTCCAAAGGAGGATATATCATCTCCAAAGGGGTTTTACATCTGGTATGCGCTAGCAGGATATTCCGTTGGACTGGTTACTGCCTTAGCAGCTGGTATTTTGACTCACTCGCCACAACCAGCACTTCTATACTTG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACCATCAACTTTGGGGCCGATAATTGTCATTTCATGGATGAGAAAGGAGCTAGCTGAGCTGTGGGAAGGATCACCGTCAAACATAAATGAGAAAACTCGTTTTACTGAAGTCTGAGCTCTTGCATTCTTCCCATAAAGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E259214" ref_strand="+" ref_description="SGN-E259214 [cLEG-43-D5]">
      <seq>gatccaaggccttttgacgttgctgtgcattggcacggttatagcgtggcttctctctgggcattggatactgaataatttgctgggcatctctctttgtattgcgtttgtgagccatgttcgccttcctaacattaaggtttgtgcaatgctccttggctgcttgtttgtatatgatatattctgggttttctattccgagagattctttggtgcaaatgtcatggtgtctgtagcaacccagcaatcatcgaatcctgtacacatagtggcgaatagattgagccttcctggattgcagttgataaccaaaaaactcgagttgcctgtcaagattgtgttccctagaaacttactgggtggtgtagtgcctggatatgctgctgttgatttcatgatgctgggtcttggcgacatggctattccttctatgcttttagcattggttctctgttttgaccatagaaagagcaaggactctggaagcatcatggatataccacctccaaaggaggatatatcatctccaaaggggttttacatctggtatgcgctagcaggatattccgttggactggttactgccttagcagctggtattttgactcactcgccacaaccagcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="147695" stop="144708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147395" g_stop="146978" g_length="418"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="418" r_length="418" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="146977" i_stop="145216" i_length="1762">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.897" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="145215" g_stop="145008" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="419" r_stop="626" r_length="208" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E259214" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>626</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E259214" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147395" e_stop="146978"/>
          <exon e_start="145215" e_stop="145008"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATGGTAAATACATTTTCCTATTTGTGAAATAAGTAAAATGGTCAACGAATGTCTCGTTTTATACTCTTTTTGTTAGCATCTTAATTTTGTCTGCATTAAAAATATATAGAGGATAAGACACAACATTTGACATTTCAATTTTTCTCAATCTGATGAAGTTCTCCTTCATTCTTGGTCGAGCTCGTCGCATCGTGCTTGCCTAGTGCGGGTTACCTCTCCTGTGTGATTTGCGAGCTATTGCATAGGAGTGGGGTTTTTACCCTGTGCACACCCAAAGGGTAGCAGCTACAGGTTTTCCCTGTCACAAAAATAAATAAATAATGATGTATGGAATTCTTGTTCTATATTAATAGATATCAGCTGTTGTGCGTAATTGAACCATATATAGGCACTAGGTTTCATATTCTGACAGTAATAGCTCTTTTTCCACACTTTCAAGAATGTAGTATTAAAGTAGAAGGGAAAAGAAGACAATTGTGAGTAGTCAAACCATGCATTGCAGTAAAAGAAATTCTAGATGTGTTGGCTTGTATGATGAACAGATAGACCTTTTTCATGTTAGGGTAAGCTATGATTGGTAGCTGCATGGGCACTGGGAATTTCGTATATTTTTCTGGTAGTTAAGTGGATCTTTTTGGCGTAAACAAGAGATCATGATTGATGATCTGTGTTTCTGGTAGGGCTTGCATCACGGCTTTGAGGTGGCAAATTTGGACCCATTTCTTAGTGTTGTTGGTTATATTACCTTCTTTCTCATAGTCTCTATCTTTACTTGTTTTCTTGGTTATTATTAATTAGTTAATGTAATATCTGTACTCTTCCCTATTTCTTTTTCTTTTCTGTTTATTATTTTGGGTTGGTGGAAAAGGGGGGGGGGGGTTTCAAAGGCTTACTGTCACTACATTGGAGATCAATGAAAAACCTCAAGACAGTTTTTGCTGTTTTATTTATGCAAATGCATTTTTTGATTAGGTAATATATGCAAATGCGCTATATATTATTTCACATGTTCCCGGAAGGATTCTAAAAGGATTCAGAAGAAAGAATGTATCAAAAAAGAAAATAATCACTTCTCCCTATAGTCTATGATAGACATTTAATGTTGACATTAGTTTGATCGATTAATTAGGCTTCTATGTTACATTTTCTAGCAATGAAAAGTATAAAGGTAGAAGTTTGTAAATTTGATCTAGTAACCAGTATGTCATAACTCATATGGATGTTTTAAATCTGAGAAAGTAATTAATTCTTAAATCGTGTTAGTTATATAGTAATTATCACCCCAAGTGAAAATTCTGTCATAGAACGTAGGATAAGATCAATACAAAGTTTTGTCCCTAATCCATCCTACTTTGTCCGTGGAACCTTCACCACCAAACACATATTGCAGGTTTGTCTGGTAATTATTGTGTTTGTGCAAAGATAACTTCATACTGACGGCGAACAAAAAGTGAACCATGCTTAACATGGAAAAACCCTAAAAAGCTTTTCTTTTTCCCAATTCTTGAAATTTTGATTGATTCTGTCGGCAATTGTTCCAAAGATAAGTCTCTAATATTCAATGTTTAATATCTACGGCTAACTGCATAATGCATATACACATGAATCGTGATATGTGTTTCCATTTATTGAGTGTTAAATGAGTACAGTAAAGATCTCCACAGATTCTCCTGTTTGTGATTAGTCACGATGCAATACTTCCATAAATCCACCCGCTAAATAGTTTGACATGGACTGAGCTTTCATTTGTTTTATGTGTTTTCAGGCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATATACCACCTCCAAAGGAGGATATATCATCTCCAAAGGGGTTTTACATCTGGTATGCGCTAGCAGGATATTCCGTTGGACTGGTTACTGCCTTAGCAGCTGGTATTTTGACTCACTCGCCACAACCAGCAC</genome_strand>
        <mrna_strand>GATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATATACCACCTCCAAAGGAGGATATATCATCTCCAAAGGGGTTTTACATCTGGTATGCGCTAGCAGGATATTCCGTTGGACTGGTTACTGCCTTAGCAGCTGGTATTTTGACTCACTCGCCACAACCAGCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E261376" ref_strand="+" ref_description="SGN-E261376 [cLEG-57-G10]">
      <seq>gatccaaggccttttgacgttgctgtgcattggcacggttatagcgtggcttctctctgggcattggatactgaataatttgctgggcatctctctttgtattgcgtttgtgagccatgttcgccttcctaacattaaggtttgtgcaatgctccttggctgcttgtttgtatatgatatattctgggttttctattccgagagattctttggtgcaaatgtcatggtgtctgtagcaacccagcaatcatcgaatcctgtacacatagtggcgaatagattgagccttcctggattgcagttgataaccaaaaaactcgagttgcctgtcaagattgtgttccctagaaacttactgggtggtgtagtgcctggatatgctgctgttgatttcatgatgctgggtcttggcgacatggctattccttctatgcttttagcattggttctctgttttgaccatagaaagagcaaggactctggaagcatcatggatataccacctccaaaggaggatatatcatctccaaaggggttttacatctggtatgcgctagcaggatattccgttggac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="147695" stop="144759"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147395" g_stop="146978" g_length="418"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="418" r_length="418" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="146977" i_stop="145216" i_length="1762">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.897" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="145215" g_stop="145059" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="419" r_stop="575" r_length="157" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E261376" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>575</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E261376" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147395" e_stop="146978"/>
          <exon e_start="145215" e_stop="145059"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATGGTAAATACATTTTCCTATTTGTGAAATAAGTAAAATGGTCAACGAATGTCTCGTTTTATACTCTTTTTGTTAGCATCTTAATTTTGTCTGCATTAAAAATATATAGAGGATAAGACACAACATTTGACATTTCAATTTTTCTCAATCTGATGAAGTTCTCCTTCATTCTTGGTCGAGCTCGTCGCATCGTGCTTGCCTAGTGCGGGTTACCTCTCCTGTGTGATTTGCGAGCTATTGCATAGGAGTGGGGTTTTTACCCTGTGCACACCCAAAGGGTAGCAGCTACAGGTTTTCCCTGTCACAAAAATAAATAAATAATGATGTATGGAATTCTTGTTCTATATTAATAGATATCAGCTGTTGTGCGTAATTGAACCATATATAGGCACTAGGTTTCATATTCTGACAGTAATAGCTCTTTTTCCACACTTTCAAGAATGTAGTATTAAAGTAGAAGGGAAAAGAAGACAATTGTGAGTAGTCAAACCATGCATTGCAGTAAAAGAAATTCTAGATGTGTTGGCTTGTATGATGAACAGATAGACCTTTTTCATGTTAGGGTAAGCTATGATTGGTAGCTGCATGGGCACTGGGAATTTCGTATATTTTTCTGGTAGTTAAGTGGATCTTTTTGGCGTAAACAAGAGATCATGATTGATGATCTGTGTTTCTGGTAGGGCTTGCATCACGGCTTTGAGGTGGCAAATTTGGACCCATTTCTTAGTGTTGTTGGTTATATTACCTTCTTTCTCATAGTCTCTATCTTTACTTGTTTTCTTGGTTATTATTAATTAGTTAATGTAATATCTGTACTCTTCCCTATTTCTTTTTCTTTTCTGTTTATTATTTTGGGTTGGTGGAAAAGGGGGGGGGGGGTTTCAAAGGCTTACTGTCACTACATTGGAGATCAATGAAAAACCTCAAGACAGTTTTTGCTGTTTTATTTATGCAAATGCATTTTTTGATTAGGTAATATATGCAAATGCGCTATATATTATTTCACATGTTCCCGGAAGGATTCTAAAAGGATTCAGAAGAAAGAATGTATCAAAAAAGAAAATAATCACTTCTCCCTATAGTCTATGATAGACATTTAATGTTGACATTAGTTTGATCGATTAATTAGGCTTCTATGTTACATTTTCTAGCAATGAAAAGTATAAAGGTAGAAGTTTGTAAATTTGATCTAGTAACCAGTATGTCATAACTCATATGGATGTTTTAAATCTGAGAAAGTAATTAATTCTTAAATCGTGTTAGTTATATAGTAATTATCACCCCAAGTGAAAATTCTGTCATAGAACGTAGGATAAGATCAATACAAAGTTTTGTCCCTAATCCATCCTACTTTGTCCGTGGAACCTTCACCACCAAACACATATTGCAGGTTTGTCTGGTAATTATTGTGTTTGTGCAAAGATAACTTCATACTGACGGCGAACAAAAAGTGAACCATGCTTAACATGGAAAAACCCTAAAAAGCTTTTCTTTTTCCCAATTCTTGAAATTTTGATTGATTCTGTCGGCAATTGTTCCAAAGATAAGTCTCTAATATTCAATGTTTAATATCTACGGCTAACTGCATAATGCATATACACATGAATCGTGATATGTGTTTCCATTTATTGAGTGTTAAATGAGTACAGTAAAGATCTCCACAGATTCTCCTGTTTGTGATTAGTCACGATGCAATACTTCCATAAATCCACCCGCTAAATAGTTTGACATGGACTGAGCTTTCATTTGTTTTATGTGTTTTCAGGCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATATACCACCTCCAAAGGAGGATATATCATCTCCAAAGGGGTTTTACATCTGGTATGCGCTAGCAGGATATTCCGTTGGAC</genome_strand>
        <mrna_strand>GATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATATACCACCTCCAAAGGAGGATATATCATCTCCAAAGGGGTTTTACATCTGGTATGCGCTAGCAGGATATTCCGTTGGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E261414" ref_strand="+" ref_description="SGN-E261414 [cLEG-57-H17]">
      <seq>tattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaattatggcaaagaaatggagagaaatcgtgattggtctgaagcatcaattaccttagacaggtctcaggctcttatgatcccggtagtgagctcttgcagcttgcttatgatgttctatttgttctcttcagtctcacagatcctcactgtgttcactgcagttgcctcagcatcttctctttacttttgccttttcccttatattgcccaaatcaagtctcgatttggcttagctgatcccttcgtatctcgctgttgttcgaagccatttaccaggatccaaggccttttgacgttgctgtgcattggcacggttatagcgtggcttctctctgggcattggatactgaataatttgctgggcatctctctttgtattgcgtttgtgagccatgttcgccttcctaacattaaggtttgtgcaatgctccttggctgcttgtttgtatatgatatattctgggttttctattccgagagattctttggtgcaaatgtcatggtgtctgtagcaacccagcaatcatcgaatcctgtacacatagtggcgaatagattgagccttcctggattgcagttgataaccaaaaaactcgagttgcctgtcaagattgtgttccctagaacttactggggtggtgtagtgcctggatatgctgctgttgatttcatgatgctgggtcttggcgacatggctattccttctatgnctttagcattgtttctctgttttgaccatagaaagaagcaggactctggaagcatcatggatat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148022" stop="144836"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147722" g_stop="146978" g_length="745"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="745" r_length="745" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="146977" i_stop="145216" i_length="1762">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.897" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="145215" g_stop="145136" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="746" r_stop="825" r_length="80" r_score="0.925"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E261414" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>825</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E261414" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147722" e_stop="146978"/>
          <exon e_start="145215" e_stop="145136"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACT-GGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATGGTAAATACATTTTCCTATTTGTGAAATAAGTAAAATGGTCAACGAATGTCTCGTTTTATACTCTTTTTGTTAGCATCTTAATTTTGTCTGCATTAAAAATATATAGAGGATAAGACACAACATTTGACATTTCAATTTTTCTCAATCTGATGAAGTTCTCCTTCATTCTTGGTCGAGCTCGTCGCATCGTGCTTGCCTAGTGCGGGTTACCTCTCCTGTGTGATTTGCGAGCTATTGCATAGGAGTGGGGTTTTTACCCTGTGCACACCCAAAGGGTAGCAGCTACAGGTTTTCCCTGTCACAAAAATAAATAAATAATGATGTATGGAATTCTTGTTCTATATTAATAGATATCAGCTGTTGTGCGTAATTGAACCATATATAGGCACTAGGTTTCATATTCTGACAGTAATAGCTCTTTTTCCACACTTTCAAGAATGTAGTATTAAAGTAGAAGGGAAAAGAAGACAATTGTGAGTAGTCAAACCATGCATTGCAGTAAAAGAAATTCTAGATGTGTTGGCTTGTATGATGAACAGATAGACCTTTTTCATGTTAGGGTAAGCTATGATTGGTAGCTGCATGGGCACTGGGAATTTCGTATATTTTTCTGGTAGTTAAGTGGATCTTTTTGGCGTAAACAAGAGATCATGATTGATGATCTGTGTTTCTGGTAGGGCTTGCATCACGGCTTTGAGGTGGCAAATTTGGACCCATTTCTTAGTGTTGTTGGTTATATTACCTTCTTTCTCATAGTCTCTATCTTTACTTGTTTTCTTGGTTATTATTAATTAGTTAATGTAATATCTGTACTCTTCCCTATTTCTTTTTCTTTTCTGTTTATTATTTTGGGTTGGTGGAAAAGGGGGGGGGGGGTTTCAAAGGCTTACTGTCACTACATTGGAGATCAATGAAAAACCTCAAGACAGTTTTTGCTGTTTTATTTATGCAAATGCATTTTTTGATTAGGTAATATATGCAAATGCGCTATATATTATTTCACATGTTCCCGGAAGGATTCTAAAAGGATTCAGAAGAAAGAATGTATCAAAAAAGAAAATAATCACTTCTCCCTATAGTCTATGATAGACATTTAATGTTGACATTAGTTTGATCGATTAATTAGGCTTCTATGTTACATTTTCTAGCAATGAAAAGTATAAAGGTAGAAGTTTGTAAATTTGATCTAGTAACCAGTATGTCATAACTCATATGGATGTTTTAAATCTGAGAAAGTAATTAATTCTTAAATCGTGTTAGTTATATAGTAATTATCACCCCAAGTGAAAATTCTGTCATAGAACGTAGGATAAGATCAATACAAAGTTTTGTCCCTAATCCATCCTACTTTGTCCGTGGAACCTTCACCACCAAACACATATTGCAGGTTTGTCTGGTAATTATTGTGTTTGTGCAAAGATAACTTCATACTGACGGCGAACAAAAAGTGAACCATGCTTAACATGGAAAAACCCTAAAAAGCTTTTCTTTTTCCCAATTCTTGAAATTTTGATTGATTCTGTCGGCAATTGTTCCAAAGATAAGTCTCTAATATTCAATGTTTAATATCTACGGCTAACTGCATAATGCATATACACATGAATCGTGATATGTGTTTCCATTTATTGAGTGTTAAATGAGTACAGTAAAGATCTCCACAGATTCTCCTGTTTGTGATTAGTCACGATGCAATACTTCCATAAATCCACCCGCTAAATAGTTTGACATGGACTGAGCTTTCATTTGTTTTATGTGTTTTCAGGCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATAT</genome_strand>
        <mrna_strand>TATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACCAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAG-AACTTACTGGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTATTCCTTCTATGNCTTTAGCATTGTTTCTCTGTTTTGACCATAGAAAGAAGCAGGACTCTGGAAGCATCATGGATAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E255501" ref_strand="+" ref_description="SGN-E255501 [cLEG-30-B17]">
      <seq>cccccgggctgcaggctcgatttggcttagctgatcccttcgtatctcgctgttgttcgaagccatttactaggatccaaggccttttgacgttgctgtgcattggcacggttatagcgtggcttctctctgggcattggatactgaataatttgctgggcatctctctttgtattgcgtttgtgagccatgttcgccttcctaacattaaggtttgtgcaatgctccttggctgcttgtttgtatatgatatattctgggttttctattccgagagattctttggtgcaaatgtcatggtgtctgtagcaacccagcaatcatcgaatcctgtacacatagtggcgaatagattgagccttcctggattgcagttgataaccaaaaaactcgagttgcctgtcaagattgtgttccctagaaacttactgggtggtgtagtgcctggatatgctgctgttgatttcatgatgctgggtcttggcgacatggctattccttctatgcttttagca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="147756" stop="144892"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147454" g_stop="146978" g_length="477"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="491" r_length="477" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="146977" i_stop="145216" i_length="1762">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.897" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="145215" g_stop="145192" g_length="24"/>
          <reference_exon_boundary r_type="cDNA" r_start="492" r_stop="515" r_length="24" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E255501" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>501</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E255501" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147454" e_stop="146978"/>
          <exon e_start="145215" e_stop="145192"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATGGTAAATACATTTTCCTATTTGTGAAATAAGTAAAATGGTCAACGAATGTCTCGTTTTATACTCTTTTTGTTAGCATCTTAATTTTGTCTGCATTAAAAATATATAGAGGATAAGACACAACATTTGACATTTCAATTTTTCTCAATCTGATGAAGTTCTCCTTCATTCTTGGTCGAGCTCGTCGCATCGTGCTTGCCTAGTGCGGGTTACCTCTCCTGTGTGATTTGCGAGCTATTGCATAGGAGTGGGGTTTTTACCCTGTGCACACCCAAAGGGTAGCAGCTACAGGTTTTCCCTGTCACAAAAATAAATAAATAATGATGTATGGAATTCTTGTTCTATATTAATAGATATCAGCTGTTGTGCGTAATTGAACCATATATAGGCACTAGGTTTCATATTCTGACAGTAATAGCTCTTTTTCCACACTTTCAAGAATGTAGTATTAAAGTAGAAGGGAAAAGAAGACAATTGTGAGTAGTCAAACCATGCATTGCAGTAAAAGAAATTCTAGATGTGTTGGCTTGTATGATGAACAGATAGACCTTTTTCATGTTAGGGTAAGCTATGATTGGTAGCTGCATGGGCACTGGGAATTTCGTATATTTTTCTGGTAGTTAAGTGGATCTTTTTGGCGTAAACAAGAGATCATGATTGATGATCTGTGTTTCTGGTAGGGCTTGCATCACGGCTTTGAGGTGGCAAATTTGGACCCATTTCTTAGTGTTGTTGGTTATATTACCTTCTTTCTCATAGTCTCTATCTTTACTTGTTTTCTTGGTTATTATTAATTAGTTAATGTAATATCTGTACTCTTCCCTATTTCTTTTTCTTTTCTGTTTATTATTTTGGGTTGGTGGAAAAGGGGGGGGGGGGTTTCAAAGGCTTACTGTCACTACATTGGAGATCAATGAAAAACCTCAAGACAGTTTTTGCTGTTTTATTTATGCAAATGCATTTTTTGATTAGGTAATATATGCAAATGCGCTATATATTATTTCACATGTTCCCGGAAGGATTCTAAAAGGATTCAGAAGAAAGAATGTATCAAAAAAGAAAATAATCACTTCTCCCTATAGTCTATGATAGACATTTAATGTTGACATTAGTTTGATCGATTAATTAGGCTTCTATGTTACATTTTCTAGCAATGAAAAGTATAAAGGTAGAAGTTTGTAAATTTGATCTAGTAACCAGTATGTCATAACTCATATGGATGTTTTAAATCTGAGAAAGTAATTAATTCTTAAATCGTGTTAGTTATATAGTAATTATCACCCCAAGTGAAAATTCTGTCATAGAACGTAGGATAAGATCAATACAAAGTTTTGTCCCTAATCCATCCTACTTTGTCCGTGGAACCTTCACCACCAAACACATATTGCAGGTTTGTCTGGTAATTATTGTGTTTGTGCAAAGATAACTTCATACTGACGGCGAACAAAAAGTGAACCATGCTTAACATGGAAAAACCCTAAAAAGCTTTTCTTTTTCCCAATTCTTGAAATTTTGATTGATTCTGTCGGCAATTGTTCCAAAGATAAGTCTCTAATATTCAATGTTTAATATCTACGGCTAACTGCATAATGCATATACACATGAATCGTGATATGTGTTTCCATTTATTGAGTGTTAAATGAGTACAGTAAAGATCTCCACAGATTCTCCTGTTTGTGATTAGTCACGATGCAATACTTCCATAAATCCACCCGCTAAATAGTTTGACATGGACTGAGCTTTCATTTGTTTTATGTGTTTTCAGGCTATTCCTTCTATGCTTTTAGCA</genome_strand>
        <mrna_strand>GCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTATTCCTTCTATGCTTTTAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E261354" ref_strand="+" ref_description="SGN-E261354 [cLEG-57-K23]">
      <seq>tattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaattatggcaaagaaatggagagaaatcgtgattggtctgaagcatcaattaccttagacaggtctcaggctcttatgatcccggtagtgagctcttgcagcttgcttatgatgttctatttgttctcttcagtctcacagatcctcactgtgttcactgcagttgcctcagcatcttctctttacttttgccttttcccttatattgcccaaatcaagtctcgatttggcttagctgatcccttcgtatctcgctgttgttcgaagccatttaccaggatccaaggccttttgacgttgctgtgcattggcacggttatagcgtggcttctctctgggcattggatactgaataatttgctgggcatctctctttgtattgcgtttgtgagccatgttcgccttcctaacattaaggttagtgcaatgctccttggctgcttgtttgtatatgatatattctggggtttctattccgagagattctttggtgcaaatgtcatggtgtctgtagcaacccaggaatcatcgaatcctgtacacatagtggcgaataaattgagccttcctgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148022" stop="146802"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147722" g_stop="147102" g_length="621"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="621" r_length="621" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E261354" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>621</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E261354" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147722" e_stop="147102"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGG</genome_strand>
        <mrna_strand>TATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACCAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTAGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGGTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGGAATCATCGAATCCTGTACACATAGTGGCGAATAAATTGAGCCTTCCTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E255671" ref_strand="+" ref_description="SGN-E255671 [cLEG-36-J16]">
      <seq>tattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaattatggcaaagaaatggagagaaatcgtgattggtctgaagcatcaattaccttagacaggtctcaggctcttatgatcccggtagtgagctcttgcagcttgcttatgatgttctatttgttctcttcagtctcacagatcctcactgtgttcactgcagttgcctcagcatcttctctttacttttgccttttcccttatattgcccaaatcaagtctcgatttggcttagctgatcccttcgtatctcgctgttgttcgaagccatttaccaggatccaaggccttttgacgttgctgtgcattggcacggttatagcgtggcttctctctgggcattggatactgaataatttgctgggcatctctctttgtattgcgtttgtgagccatgttcgccttcctaacattaaggtttgtgcaatgctccttggctgcttgtttgtatatgatatattctgggttttctattccgagagattctttggtgcaaatgtcatggtgtctgtagcaacccagcaatcatcgaatcctgtacacatagtggcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148022" stop="146822"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147722" g_stop="147122" g_length="601"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="601" r_length="601" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E255671" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>601</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E255671" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147722" e_stop="147122"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCG</genome_strand>
        <mrna_strand>TATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACCAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E257095" ref_strand="+" ref_description="SGN-E257095 [cLEG-44-B12]">
      <seq>tattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaattatggcaaagaaatggagagaaatcgtgattggtctgaagcatcaattaccttagacaggtctcaggctcttatgatcccggtagtgagctcttgcagcttgcttatgatgttctatttgttctcttcagtctcacagatcctcactgtgttcactgcagttgcctcagcatcttctctttacttttgccttttcccttatattgcccaaatcaagtctcgatttggcttagctgatcccttcgtatctcgctgttgttcgaagccatttaccaggatccaaggccttttgacgttgctgtgcattggcacggttatagcgtggcttctctctgggcattggatactgaataatttgctgggcatctctctttgtattgcgtttgtgagccatgttcgccttcctaacattaaggtttgtgcaatgctccttggctgcttgtttgtatatgatatattctgggttttctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148022" stop="146900"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147722" g_stop="147200" g_length="523"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="523" r_length="523" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E257095" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>523</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E257095" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147722" e_stop="147200"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTAT</genome_strand>
        <mrna_strand>TATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACCAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E263572" ref_strand="+" ref_description="SGN-E263572 [cLEG-60-F15]">
      <seq>ctcttcattctccagatcctcactgtgttcactgcagttgcctcgtcatcatcgctttacttttgccttttcccttatattgcccaaatcaagtctcgatttggcttaactgatcccttcgtatctcgctgctgttcgaagccatttaccaggatccaaggccttttgacgttgctgtgcattggcacgggtatagcgtggcttctctctgggcattggata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="147848" stop="147026"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147548" g_stop="147326" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="222" r_length="222" r_score="0.955"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E263572" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>223</cumulative_length_of_scored_exons>
        <coverage percentage="1.005" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E263572" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147548" e_stop="147326"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATA</genome_strand>
        <mrna_strand>CTCTTCATTCTC-CAGATCCTCACTGTGTTCACTGCAGTTGCCTCGTCATCATCGCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAACTGATCCCTTCGTATCTCGCTGCTGTTCGAAGCCATTTACCAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGGTATAGCGTGGCTTCTCTCTGGGCATTGGATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327521" ref_strand="+" ref_description="SGN-E327521 [cTOC-20-C21]">
      <seq>agcaactcacactgatacactgaatctccagagaacagaattgccttctcttctccggttgaaacgttcgataagcaaaccctcatcaggccggatcgttgaggcgttggagaaagacgagttctggcaagttcatcaagtccaaggtttatttgaattgcggtgacgattggtcaaggtaaaggagcaacttctatatagtggaagggaaggaagtagaggaaacagtaggtgaacgaggtgtttggagaccttaagcatcttttgaaaagcaaaatctgggagtttatgaaaataaggagaagtgtttgatttttaacattattatacttctgaaaggaagtgtttataggcagcactaggagaagtgtacaactttgttaagaatggagtctttatggaagttagtgtatttgcttgaaccagcacccatcgctcttattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaattatggcaaagaaatggagagaaatcgtgattggtctgaagcatcaattaccttagacaggtctcaggctcttatgatcccggtagtgagctcttgcagcttgcttatgatgttctatttgttctcttcagtctcacagatcctcactgtgttcactgcagttgcctcagcatcttctctttacttttgcctttttccttatattgcccaaatncagtctcgatttggcttagctgatcccttcgtat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148923" stop="147124"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="148623" g_stop="148478" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="146" r_length="146" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="148477" i_stop="148016" i_length="462">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="148015" g_stop="147424" g_length="592"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="738" r_length="592" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E327521" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>738</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327521" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="148623" e_stop="148478"/>
          <exon e_start="148015" e_stop="147424"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCAACTCACACTGATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAGGTAAGTCCAACATTAGAAAGATCTCGTAAATTCACTGTTAAAAAAGCCCCAATTTGCATATTTTTAGTGTGGTATAATTCATTGATTTTCGTAATTATCATCATGAAGATCGATTGTTCTTCGCCTTTAGTTGATTGGGTAGAATACAGCTTTATTGATGTAATGGAACGTGGAGTTGTCGGTACCGATTGCTTGTTCTTAGATAAAGTTGATTTCGTCTGCTTGATGAAGCTACATGAATACGCATTTTCTTAAAAATAAAATAAAATTGAAGGATGATTGATCAATGTAAATTGGATGCTGTTTCTTGTACTTCAGTTGCTTTTTTATTTCTCAAACCTCTCTACTTTTGGGATTACGCTGGTTATGTTTTTGTTGTTGTTGTTGATTGATCAAGGTAATAATATGTGTGAATTATTACTAACAAAAAGAATTCATCAGTTTAGTTCTTTGTCCTTTCAGGTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTAT</genome_strand>
        <mrna_strand>AGCAACTCACACTGATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTTCCTTATATTGCCCAAATNCAGTCTCGATTTGGCTTAGCTGATCCCTTCGTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E332064" ref_strand="+" ref_description="SGN-E332064 [cTOD-16-G17]">
      <seq>caactcacactgatacactgaatctccagagaacagaattgccttctcttctccggttgaaacgttcgataagcaaaccctcatcaggccggatcgttgaggcgttggagaaagacgagttctggcaagttcatcaagtccaaggtttatttgaattgcggtgacgattggtcaaggtaaaggagcaacttctatatagtggaagggaaggaagtagaggaaacagtaggtgaacgaggtgtttggagaccttaagcatcttttgaaaagcaaaatctgggagtttatgaaaataaggagaagtgtttgatttttaacattattatacttctgaaaggaagtgtttataggcagcactaggagaagtgtacaactttgttaagaatggagtctttatggaagttagtgtatttgcttgaaccagcacccatcgctcttattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaattatggcaaagaaatggagagaaatcgtgattggtctgaagcatcaattaccttagacaggtctcaggctcttatgatcccggtagtgagctcttgcagcttgcttatgatgttctatttgttctcttcagnctcacagatcctcactgtgttcactgcagttgcctcagcatcttctctttactttttgctttttccctatattgcccaaatcaagtctcgatttggcttagctgatccctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148921" stop="147129"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="148621" g_stop="148478" g_length="144"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="144" r_length="144" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="148477" i_stop="148016" i_length="462">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="148015" g_stop="147429" g_length="587"/>
          <reference_exon_boundary r_type="cDNA" r_start="145" r_stop="731" r_length="587" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E332064" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>731</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E332064" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="148621" e_stop="148478"/>
          <exon e_start="148015" e_stop="147429"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAACTCACACTGATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAGGTAAGTCCAACATTAGAAAGATCTCGTAAATTCACTGTTAAAAAAGCCCCAATTTGCATATTTTTAGTGTGGTATAATTCATTGATTTTCGTAATTATCATCATGAAGATCGATTGTTCTTCGCCTTTAGTTGATTGGGTAGAATACAGCTTTATTGATGTAATGGAACGTGGAGTTGTCGGTACCGATTGCTTGTTCTTAGATAAAGTTGATTTCGTCTGCTTGATGAAGCTACATGAATACGCATTTTCTTAAAAATAAAATAAAATTGAAGGATGATTGATCAATGTAAATTGGATGCTGTTTCTTGTACTTCAGTTGCTTTTTTATTTCTCAAACCTCTCTACTTTTGGGATTACGCTGGTTATGTTTTTGTTGTTGTTGTTGATTGATCAAGGTAATAATATGTGTGAATTATTACTAACAAAAAGAATTCATCAGTTTAGTTCTTTGTCCTTTCAGGTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTT</genome_strand>
        <mrna_strand>CAACTCACACTGATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGNCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTTGCTTTTTCCCTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E252743" ref_strand="+" ref_description="SGN-E252743 [cLEG-16-H23]">
      <seq>actgggagtttatgaaaataaggagaagtgtttgatttttaacattattatacttctgaaaggaagtgtttataggccagcactaggagaagtgtacaactttgttaagaatggagtctttatggaagttagtgtatttgcttgaaccacaccatcgctcttattctgactgctagtcatttgcatctgccttcccgcctttaaattatggcaaagaaatggagagaaatcgtgattggtctgaagcatcaattaccttagacaggtctcaggctcttatgatcccggtagtgagctcttgcagcttgcttatgatgttctatttgttctcttcagtctcacagatcctcactgtgttcactgcagttgcctcagcatcttctctttacttttccttttcccttatattgcccaaatcaagtctcgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148183" stop="147148"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="147884" g_stop="147448" g_length="437"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="428" r_length="428" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E252743" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>437</cumulative_length_of_scored_exons>
        <coverage percentage="1.021" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E252743" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="147884" e_stop="147448"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGG-CAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGAT</genome_strand>
        <mrna_strand>ACTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCA-CA-CCATCGCTCTTATTCTGACTG-C-TA-----GTCATTTGCATCTGCCTTCCCGCCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTT-CCTTTTCCCTTATATTGCCCAAATCAAGTCTCGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328658" ref_strand="+" ref_description="SGN-E328658 [cTOC-23-E3]">
      <seq>agcaactcacactgatacactgaatctccagagaacagaattgccttctcttctccggttgaaacgttcgataagcaaaccctcatcaggccggatcgttgaggcgttggagaaagacgagttctggcaagttcatcaagtccaaggtttatttgaattgcggtgacgattggtcaaggtaaaggagcaacttctatatagtggaagggaaggaagtagaggaaacagtaggtgaacgaggtgtttggagaccttaagcatcttttgaaaagcaaaatctgggagtttatgaaaataaggagaagtgtttgatttttaacattattatacttctgaaaggaagtgtttataggcagcactaggagaagtgtacaactttgttaagaatggagtctttatggaagttagtgtatttgcttgaaccagcacccatcgctcttattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaattatggcaaagaaatggagagaaatcgtgattggtctgaagcatcaattaccttagacaggtctcaggctcttatgatcccggtagtgagctcttgcagcttgcttatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148923" stop="147263"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="148623" g_stop="148478" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="146" r_length="146" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="148477" i_stop="148016" i_length="462">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="148015" g_stop="147563" g_length="453"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="599" r_length="453" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E328658" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>599</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328658" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="148623" e_stop="148478"/>
          <exon e_start="148015" e_stop="147563"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCAACTCACACTGATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAGGTAAGTCCAACATTAGAAAGATCTCGTAAATTCACTGTTAAAAAAGCCCCAATTTGCATATTTTTAGTGTGGTATAATTCATTGATTTTCGTAATTATCATCATGAAGATCGATTGTTCTTCGCCTTTAGTTGATTGGGTAGAATACAGCTTTATTGATGTAATGGAACGTGGAGTTGTCGGTACCGATTGCTTGTTCTTAGATAAAGTTGATTTCGTCTGCTTGATGAAGCTACATGAATACGCATTTTCTTAAAAATAAAATAAAATTGAAGGATGATTGATCAATGTAAATTGGATGCTGTTTCTTGTACTTCAGTTGCTTTTTTATTTCTCAAACCTCTCTACTTTTGGGATTACGCTGGTTATGTTTTTGTTGTTGTTGTTGATTGATCAAGGTAATAATATGTGTGAATTATTACTAACAAAAAGAATTCATCAGTTTAGTTCTTTGTCCTTTCAGGTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATG</genome_strand>
        <mrna_strand>AGCAACTCACACTGATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319808" ref_strand="+" ref_description="SGN-E319808 [cTOB-12-L23]">
      <seq>atacactgaatctccagagaacagaattgccttctcttctccggttgaaacgttcgataagcaaaccctcatcaggccggatcgttgaggcgttggagaaagacgagttctggcaagttcatcaagtccaaggtttatttgaattgcggtgacgattggtcaaggtaaaggagcaacttctatatagtggaagggaaggaagtagaggaaacagtaggtgaacgaggtgtttggagaccttaagcatcttttgaaaagcaaaatctgggagtttatgaaaataaggagaagtgtttgatttttaacattattatacttctgaaaggaagtgtttataggcagcactaggagaagtgtacaactttgttaagaatggagtctttatggaagttagtgtatttgcttgaaccagcacccatcgctcttattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaattatggcaaagaaatggagagaaatcgtgattggtctgaagcatcaattaccttagacaggtctcaggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148909" stop="147303"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="148609" g_stop="148478" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="132" r_length="132" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="148477" i_stop="148016" i_length="462">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="148015" g_stop="147603" g_length="413"/>
          <reference_exon_boundary r_type="cDNA" r_start="133" r_stop="545" r_length="413" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E319808" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>545</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319808" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="148609" e_stop="148478"/>
          <exon e_start="148015" e_stop="147603"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAGGTAAGTCCAACATTAGAAAGATCTCGTAAATTCACTGTTAAAAAAGCCCCAATTTGCATATTTTTAGTGTGGTATAATTCATTGATTTTCGTAATTATCATCATGAAGATCGATTGTTCTTCGCCTTTAGTTGATTGGGTAGAATACAGCTTTATTGATGTAATGGAACGTGGAGTTGTCGGTACCGATTGCTTGTTCTTAGATAAAGTTGATTTCGTCTGCTTGATGAAGCTACATGAATACGCATTTTCTTAAAAATAAAATAAAATTGAAGGATGATTGATCAATGTAAATTGGATGCTGTTTCTTGTACTTCAGTTGCTTTTTTATTTCTCAAACCTCTCTACTTTTGGGATTACGCTGGTTATGTTTTTGTTGTTGTTGTTGATTGATCAAGGTAATAATATGTGTGAATTATTACTAACAAAAAGAATTCATCAGTTTAGTTCTTTGTCCTTTCAGGTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGC</genome_strand>
        <mrna_strand>ATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E357198" ref_strand="+" ref_description="SGN-E357198 [cLHT-17-P20]">
      <seq>gatattcactttcatttcactaaagcaactcacactgatacactgaatctccaagatcagaattgtcttctcttctccggttgaaacgttcgataagcaaaccctcttcgggccggatcgttgaggcgttggagaaagacgagttctggcaagttcatcaagtccaaggtttatttgaattgcggtgacgattgatcaaggtaaaggagcaacttctatatagtggaagggaaggaagtagaggaaacagtaggtgaacgaggtgtttggagaccttaagcatctttcgaaaagcaaaatctgggagtttatgaaaataaggagaagtgtttgatttttaacattattatacttcttaaaggaagtgtttataggtagcactaggaaaagtgtacaactctgttaagaatggagtctttatggaagttagtgtatttgcttgaaccagcacccatcgctcttattctgactgccatagctgtgtcatttgcatctgccttccgggctttaaactatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148946" stop="147367"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="148646" g_stop="148478" g_length="169"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="168" r_length="168" r_score="0.970"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="148477" i_stop="148016" i_length="462">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="148015" g_stop="147667" g_length="349"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="517" r_length="349" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E357198" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>518</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E357198" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="148646" e_stop="148478"/>
          <exon e_start="148015" e_stop="147667"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATATTCACTTTCATTTCACTAAAGCAACTCACACTGATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAGGTAAGTCCAACATTAGAAAGATCTCGTAAATTCACTGTTAAAAAAGCCCCAATTTGCATATTTTTAGTGTGGTATAATTCATTGATTTTCGTAATTATCATCATGAAGATCGATTGTTCTTCGCCTTTAGTTGATTGGGTAGAATACAGCTTTATTGATGTAATGGAACGTGGAGTTGTCGGTACCGATTGCTTGTTCTTAGATAAAGTTGATTTCGTCTGCTTGATGAAGCTACATGAATACGCATTTTCTTAAAAATAAAATAAAATTGAAGGATGATTGATCAATGTAAATTGGATGCTGTTTCTTGTACTTCAGTTGCTTTTTTATTTCTCAAACCTCTCTACTTTTGGGATTACGCTGGTTATGTTTTTGTTGTTGTTGTTGATTGATCAAGGTAATAATATGTGTGAATTATTACTAACAAAAAGAATTCATCAGTTTAGTTCTTTGTCCTTTCAGGTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATG</genome_strand>
        <mrna_strand>GATATTCACTTTCATTTCACTAAAGCAACTCACACTGATACACTGAATCTCCA-AGATCAGAATTGTCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCTTCGGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTATTTGAATTGCGGTGACGATTGATCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTCGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTTAAAGGAAGTGTTTATAGGTAGCACTAGGAAAAGTGTACAACTCTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAACTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285738" ref_strand="+" ref_description="SGN-E285738 [cLES-5-G21]">
      <seq>aacagaattgccttctcttctccggttgaaacgttcgataagcaaaccctcatcaggccggatcgttgaggcgttggagaaagacgagttctggcaagttcatcaagtccaaggtttatttgaattgcggtgacgattggtcaaggtaaaggagcaacttctatatagtggaagggaaggaagtagaggaaacagtaggtgaacgaggtgtttggagaccttaagcatcttttgaaaagcaaaatctgggagtttatgaaaataaggagaagtgtttgatttttaacattattatacttctgaaaggaagtgtttataggcagcactaggagaagtgtacaactttgttaagaatggagtctttatggaagttagtgtatttgcttgaaccagcacccatcgctcttattctgactgccatagctgtgtcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="-" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="148890" stop="147397"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="148590" g_stop="148478" g_length="113"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="113" r_length="113" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="148477" i_stop="148016" i_length="462">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="148015" g_stop="147697" g_length="319"/>
          <reference_exon_boundary r_type="cDNA" r_start="114" r_stop="432" r_length="319" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="-" ref_id="SGN-E285738" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>432</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285738" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="148590" e_stop="148478"/>
          <exon e_start="148015" e_stop="147697"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAGGTAAGTCCAACATTAGAAAGATCTCGTAAATTCACTGTTAAAAAAGCCCCAATTTGCATATTTTTAGTGTGGTATAATTCATTGATTTTCGTAATTATCATCATGAAGATCGATTGTTCTTCGCCTTTAGTTGATTGGGTAGAATACAGCTTTATTGATGTAATGGAACGTGGAGTTGTCGGTACCGATTGCTTGTTCTTAGATAAAGTTGATTTCGTCTGCTTGATGAAGCTACATGAATACGCATTTTCTTAAAAATAAAATAAAATTGAAGGATGATTGATCAATGTAAATTGGATGCTGTTTCTTGTACTTCAGTTGCTTTTTTATTTCTCAAACCTCTCTACTTTTGGGATTACGCTGGTTATGTTTTTGTTGTTGTTGTTGATTGATCAAGGTAATAATATGTGTGAATTATTACTAACAAAAAGAATTCATCAGTTTAGTTCTTTGTCCTTTCAGGTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCAT</genome_strand>
        <mrna_strand>AACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E260281" ref_strand="+" ref_description="SGN-E260281 [cLEG-53-L22]">
      <seq>atctatctctaaactacatgtgttagaggagagacgggagaagagtctgccgccgacgttgattcctctaacatcatcagccggcactgttttctgatcacaactcaaaggttgattttggagcatgatcaagtattaattcgagggttgatatggaaggtgtgaacggtaaaaaagtggggcatttatgtgaaaatattagcagctttgttcgccaatgtatattttctatacttagtgtgggtcctgttcctagtcacattgcttttatcatggatggaaaccgtagatattctaagaaacagaacttgcttgatgggaatggacatagagcgggattttcagctcttatcaatatgctaaaatattgttacgagcttggtgtaaaatatataacagtttatgcattcaacattgataacttcaagcgaaagcctgaagaaattgtatcactaatgaaactgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="158879" stop="160549"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="159179" g_stop="159295" g_length="117"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="110" r_length="110" r_score="0.940"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="159296" i_stop="159893" i_length="598">
            <donor d_prob="0.619" d_score="0.90"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="159894" g_stop="160249" g_length="356"/>
          <reference_exon_boundary r_type="cDNA" r_start="111" r_stop="466" r_length="356" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E260281" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="1.015" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E260281" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="159179" e_stop="159295"/>
          <exon e_start="159894" e_stop="160249"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTATCTCTAAACTACATGTGTTAGAGGAGAGACGGGGAGAAGAGTCTGCCGCCCGACGTTGATTCCTCTAAACATCATCAGCCCGGGCACTGTTTTTCTGATCACAACTCAAAGGGTGCACTGTTTAGTTCAAAAGTTGCACTGCTCTTTACTTTTACTTTAGTGTTATTCTGTCACTAAATCCTGTCTAAAGTATTAGATGCTATTGGTTGGTTGTTCTCTTTAGTTTTGGTTTTGCATTTGGCTTCTCTGTTGACCGACTCTCTCACAGATCTGAATTTTTATTCTCAAAATGTATAGCAGTGTTTCGTCTTAATTTGCATTACTTTTGTTGACATGTTATTTGTGTATTGAACTAAATCTAGTTATTGGATTTGATATGTTATTTGTGTATTTTCACTGATTTCTAGTTATTGCATTTGATGTGTGTATGTCATAAGAAGAACACTGGTTCTTAGTCAAGAGTAGTTTTGAGTTACTATAACTCGGGATTATTGTAGAACTCAAAGAAACTTCCTGGTGTCATTATTCGAAATTTAAAAGAGTCTAGTGCATGACAAAGAAGTAGCTCATTGTGCTAATTTTTATTTGTGATGCGAATTTTACTTTCTGTGATGATTTTCTCTTGTTTTGCATTTGTTTTTTTTTTAATGACAGAAAAAAAGTTGATTTTATTCGATTAGTTGACACAAAATTCTCTAATGTTTGATTAGGTTGATTTTGGAGCATGATCAAGTATTAATTCGAGGGTTGATATGGAAGGTGTGAACGGTAAAAAAGTGGGGCATTTATGTGAAAATATTAGCAGCTTTGTTCGCCAATGTATATTTTCTATACTTAGTGTGGGTCCTGTTCCTAGTCACATTGCTTTTATCATGGATGGAAACCGTAGATATTCTAAGAAACAGAACTTGCTTGATGGGAATGGACATAGAGCGGGATTTTCAGCTCTTATCAATATGCTAAAATATTGTTACGAGCTTGGTGTAAAATATATAACAGTTTATGCATTCAGCATTGATAACTTCAAGCGAAGGCCTGAAGAAGTTGTATCACTAATGAAACTGAT</genome_strand>
        <mrna_strand>ATCTATCTCTAAACTACATGTGTTAGAGGAGAGAC-GGGAGAAGAGTCTGCCG-CCGACGTTGATTCCTCT-AACATCATCAGC-CG-GCACTG-TTTTCTGATCACAACTCAAA-G......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGATTTTGGAGCATGATCAAGTATTAATTCGAGGGTTGATATGGAAGGTGTGAACGGTAAAAAAGTGGGGCATTTATGTGAAAATATTAGCAGCTTTGTTCGCCAATGTATATTTTCTATACTTAGTGTGGGTCCTGTTCCTAGTCACATTGCTTTTATCATGGATGGAAACCGTAGATATTCTAAGAAACAGAACTTGCTTGATGGGAATGGACATAGAGCGGGATTTTCAGCTCTTATCAATATGCTAAAATATTGTTACGAGCTTGGTGTAAAATATATAACAGTTTATGCATTCAACATTGATAACTTCAAGCGAAAGCCTGAAGAAATTGTATCACTAATGAAACTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E316712" ref_strand="+" ref_description="SGN-E316712 [cTOB-5-J20]">
      <seq>tctaaactacatgtgttagaggagagacgggagaagagtctgccgccgacgttgattcctctaacatcatcagccggcactgttttctgatcacaactcaaaggttgattttggagcatgatcaagtattaattcgagggttgatatggaaggtgtgaacggtaaaaaagtggggcatttatgtgaaaatattagcagctttgttcgccaatgtatattttctatacttagtgtgggtcctgttcctagtcacattgcttttatcatggatggaaaccgtagatattctaagaaacagaacttgcttgatgggaatggacatagagcgggattttcagctcttatcaatatgctaaaatattgttacgagcttggtgtaaaatatataacagtttatgcattcagcattgataacttcaagcgaaggcctgaagaagttgtatcactaatgaaactgatgcaggaaaaaattgatgaattaacaaaagaggagagcattgtaaaccgccttggtattagaatttactttcaaggaaaccttaaacttttgagtgaccatgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="158886" stop="160652"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="159186" g_stop="159295" g_length="110"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="103" r_length="103" r_score="0.936"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="159296" i_stop="159893" i_length="598">
            <donor d_prob="0.619" d_score="0.90"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="159894" g_stop="160352" g_length="459"/>
          <reference_exon_boundary r_type="cDNA" r_start="104" r_stop="562" r_length="459" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E316712" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>569</cumulative_length_of_scored_exons>
        <coverage percentage="1.012" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E316712" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="159186" e_stop="159295"/>
          <exon e_start="159894" e_stop="160352"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTAAACTACATGTGTTAGAGGAGAGACGGGGAGAAGAGTCTGCCGCCCGACGTTGATTCCTCTAAACATCATCAGCCCGGGCACTGTTTTTCTGATCACAACTCAAAGGGTGCACTGTTTAGTTCAAAAGTTGCACTGCTCTTTACTTTTACTTTAGTGTTATTCTGTCACTAAATCCTGTCTAAAGTATTAGATGCTATTGGTTGGTTGTTCTCTTTAGTTTTGGTTTTGCATTTGGCTTCTCTGTTGACCGACTCTCTCACAGATCTGAATTTTTATTCTCAAAATGTATAGCAGTGTTTCGTCTTAATTTGCATTACTTTTGTTGACATGTTATTTGTGTATTGAACTAAATCTAGTTATTGGATTTGATATGTTATTTGTGTATTTTCACTGATTTCTAGTTATTGCATTTGATGTGTGTATGTCATAAGAAGAACACTGGTTCTTAGTCAAGAGTAGTTTTGAGTTACTATAACTCGGGATTATTGTAGAACTCAAAGAAACTTCCTGGTGTCATTATTCGAAATTTAAAAGAGTCTAGTGCATGACAAAGAAGTAGCTCATTGTGCTAATTTTTATTTGTGATGCGAATTTTACTTTCTGTGATGATTTTCTCTTGTTTTGCATTTGTTTTTTTTTTAATGACAGAAAAAAAGTTGATTTTATTCGATTAGTTGACACAAAATTCTCTAATGTTTGATTAGGTTGATTTTGGAGCATGATCAAGTATTAATTCGAGGGTTGATATGGAAGGTGTGAACGGTAAAAAAGTGGGGCATTTATGTGAAAATATTAGCAGCTTTGTTCGCCAATGTATATTTTCTATACTTAGTGTGGGTCCTGTTCCTAGTCACATTGCTTTTATCATGGATGGAAACCGTAGATATTCTAAGAAACAGAACTTGCTTGATGGGAATGGACATAGAGCGGGATTTTCAGCTCTTATCAATATGCTAAAATATTGTTACGAGCTTGGTGTAAAATATATAACAGTTTATGCATTCAGCATTGATAACTTCAAGCGAAGGCCTGAAGAAGTTGTATCACTAATGAAACTGATGCAGGAAAAAATTGATGAATTAACAAAAGAGGAGAGCATTGTAAACCGCCTTGGTATTAGAATTTACTTTCAAGGAAACCTTAAACTTTTGAGTGACCATGTC</genome_strand>
        <mrna_strand>TCTAAACTACATGTGTTAGAGGAGAGAC-GGGAGAAGAGTCTGCCG-CCGACGTTGATTCCTCT-AACATCATCAG-CC-GGCACTGTTTT-CTGATCACAACTCAAA-G......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGATTTTGGAGCATGATCAAGTATTAATTCGAGGGTTGATATGGAAGGTGTGAACGGTAAAAAAGTGGGGCATTTATGTGAAAATATTAGCAGCTTTGTTCGCCAATGTATATTTTCTATACTTAGTGTGGGTCCTGTTCCTAGTCACATTGCTTTTATCATGGATGGAAACCGTAGATATTCTAAGAAACAGAACTTGCTTGATGGGAATGGACATAGAGCGGGATTTTCAGCTCTTATCAATATGCTAAAATATTGTTACGAGCTTGGTGTAAAATATATAACAGTTTATGCATTCAGCATTGATAACTTCAAGCGAAGGCCTGAAGAAGTTGTATCACTAATGAAACTGATGCAGGAAAAAATTGATGAATTAACAAAAGAGGAGAGCATTGTAAACCGCCTTGGTATTAGAATTTACTTTCAAGGAAACCTTAAACTTTTGAGTGACCATGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E692957" ref_strand="+" ref_description="SGN-E692957 [LH_Ea10B03]">
      <seq>ctttgattaggttgattttggtgcatgatcaagtattaattccagggttgatatggaaggtgtgaacggtaaaaaagtggggcatttatgtgaaaatattagcagctttgttcgccaatgtatattttctatacttagtgtgggtcctgttcctagtcacattgcttttatcatggatggaaaccgtagatattctaagaaacagaacttgcttgatgggaatggacatagagcgggattttcagctcttatcaatatgctaaaatattgttatgagcttggtgtaaaatatataacagtttatgccttcaacattgataacttcaagcgaaggcctgaagaagttgtatcgctaatgaaactgatgcaggaaaaaattgatgaattaacagaagaggagagcattgtaaaccgccttggtatcagaatttactttcaaggaaaccttaaacttttgagtgaccatgtcaggttagccgctgagagggctatggtaaagacatcaggtaattcaaaagctatattgtctatttgtgttgcctacacatcaacagatgagattgtgcatgctgttcaagaatcttgtgaagaaaaatgggacgagattagaaaactagatgtaaataatgatggaagcaatttaattagactcgaagaaaatgtgaaggacaagaatgagcaccggattggtgtgactaatgttgacagacatatgtacatgtcagtttgtcctgatccagacattattatacggacttctggagcaactcgtttaagcaattttcttttgtggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0031M05-zNzbq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0031M05.1" temp_strand="+" temp_description="C03HBa0031M05.1  AC238561.1 htgs_phase:2 submitted_to_sgn_as:gi|261249976|gb|AC238561.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0031m05, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="159585" stop="160977"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="159884" g_stop="160677" g_length="794"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="794" r_length="794" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0031M05.1" gen_strand="+" ref_id="SGN-E692957" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>794</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0031M05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E692957" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="159884" e_stop="160677"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTGATTAGGTTGATTTTGGAGCATGATCAAGTATTAATTCGAGGGTTGATATGGAAGGTGTGAACGGTAAAAAAGTGGGGCATTTATGTGAAAATATTAGCAGCTTTGTTCGCCAATGTATATTTTCTATACTTAGTGTGGGTCCTGTTCCTAGTCACATTGCTTTTATCATGGATGGAAACCGTAGATATTCTAAGAAACAGAACTTGCTTGATGGGAATGGACATAGAGCGGGATTTTCAGCTCTTATCAATATGCTAAAATATTGTTACGAGCTTGGTGTAAAATATATAACAGTTTATGCATTCAGCATTGATAACTTCAAGCGAAGGCCTGAAGAAGTTGTATCACTAATGAAACTGATGCAGGAAAAAATTGATGAATTAACAAAAGAGGAGAGCATTGTAAACCGCCTTGGTATTAGAATTTACTTTCAAGGAAACCTTAAACTTTTGAGTGACCATGTCAGGTTAGCCGCCGAGAGGGCTATGGTAAAGACATCAGGTAATTCAAAAGCTATATTGTCTATTTGTGTTGCCTACACATCAACAGATGAGATTGTCCATGCTGTTCAAGAATCTTGTGAAGAAAAATGGGACGAGATTAGAAAACTAGATGTAAATAATGATGGAAGCAATTTAATTAGACTCGAAGAAAATGTGAAGGACAAGAATGAGCACCGGATTGGTGTGACAAATGTTGACAGACATATGTACATGTCAGTTTGTCCTGATCCAGACATTATTATACGGACTTCTGGAGCAACTCGTTTAAGCAATTTTCTTTTGTGGC</genome_strand>
        <mrna_strand>CTTTGATTAGGTTGATTTTGGTGCATGATCAAGTATTAATTCCAGGGTTGATATGGAAGGTGTGAACGGTAAAAAAGTGGGGCATTTATGTGAAAATATTAGCAGCTTTGTTCGCCAATGTATATTTTCTATACTTAGTGTGGGTCCTGTTCCTAGTCACATTGCTTTTATCATGGATGGAAACCGTAGATATTCTAAGAAACAGAACTTGCTTGATGGGAATGGACATAGAGCGGGATTTTCAGCTCTTATCAATATGCTAAAATATTGTTATGAGCTTGGTGTAAAATATATAACAGTTTATGCCTTCAACATTGATAACTTCAAGCGAAGGCCTGAAGAAGTTGTATCGCTAATGAAACTGATGCAGGAAAAAATTGATGAATTAACAGAAGAGGAGAGCATTGTAAACCGCCTTGGTATCAGAATTTACTTTCAAGGAAACCTTAAACTTTTGAGTGACCATGTCAGGTTAGCCGCTGAGAGGGCTATGGTAAAGACATCAGGTAATTCAAAAGCTATATTGTCTATTTGTGTTGCCTACACATCAACAGATGAGATTGTGCATGCTGTTCAAGAATCTTGTGAAGAAAAATGGGACGAGATTAGAAAACTAGATGTAAATAATGATGGAAGCAATTTAATTAGACTCGAAGAAAATGTGAAGGACAAGAATGAGCACCGGATTGGTGTGACTAATGTTGACAGACATATGTACATGTCAGTTTGTCCTGATCCAGACATTATTATACGGACTTCTGGAGCAACTCGTTTAAGCAATTTTCTTTTGTGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>202</total_number_ESTs_reported>
    </alignment_module>
  <PGL_module xmlns="http://www.genomethreader.org/GTH_output/PGL_module/">
    <predicted_gene_location>
      <PGL_line PGL_serial="1" PGL_strand="-" PGL_start="10766" PGL_stop="8042"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="10766" e_stop="10689"/>
            <exon e_start="10206" e_stop="9975"/>
            <exon e_start="8878" e_stop="8799"/>
            <exon e_start="8232" e_stop="8042"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.999" e_score="0.962"/>
          <exon-intron don_prob="0.221" acc_prob="0.000" e_score="0.970"/>
          <exon-intron don_prob="0.978" acc_prob="0.922" e_score="0.962"/>
          <exon-only e_score="0.969"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.962">
            <gDNA_exon_boundary e_start="10766" e_stop="10689" e_length="78"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.999">
            <gDNA_intron_boundary i_start="10688" i_stop="10207" i_length="482"/>
          </intron>
          <exon e_serial="2" e_score="0.970">
            <gDNA_exon_boundary e_start="10206" e_stop="9975" e_length="232"/>
          </exon>
          <intron i_serial="2" don_prob="0.221" acc_prob="0.000">
            <gDNA_intron_boundary i_start="9974" i_stop="8879" i_length="1096"/>
          </intron>
          <exon e_serial="3" e_score="0.962">
            <gDNA_exon_boundary e_start="8878" e_stop="8799" e_length="80"/>
          </exon>
          <intron i_serial="3" don_prob="0.978" acc_prob="0.922">
            <gDNA_intron_boundary i_start="8798" i_stop="8233" i_length="566"/>
          </intron>
          <exon e_serial="4" e_score="0.969">
            <gDNA_exon_boundary e_start="8232" e_stop="8042" e_length="191"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="10766" stop="10689"/>
              <exon start="10206" stop="9975"/>
              <exon start="8878" stop="8799"/>
              <exon start="8232" stop="8042"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E362500" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CTGGATTCTCCCCAAACTCAACTGCTGAGGAAGTAACTCAAGCAATTGATGGCTCTGCTCTTACTGCCATTGTTACAG : GAGCATCAAGTGGGATTGGTGCGGAAACTGCACGTGTTCTTGCATTGCGAGGTGTGCATGTAATTATGGGGGTAAGGAATATCTCTGCTGGAAAACAGGTTAAAGAGACGATAACTAAAGCTGTACCGCAAGCTAAAATTGATGCCTTGGAGTTGGATCTCAGTTCACTTGCATCTGTGAGGAATTTCGCATCAAATTACAATTCTTTAGGCCTTCCTCTAAACCTGCTTAT : TAACAATGCAGGAATCATGGCAACCCCATTCGCACTTTCCAAGGATAACATTGAGCTGCAATTTGCAACAAACCATGTCG : GCCACTTCCTTTTGACAAATTTATTGCTGGACACCATGAAAAAAACAGCTCGTGAGAGTAGAAAGGAAGGGAGGATTGTTAATGTCTCCTCACGTCGCCACAAATTTTCTTACAATGAAGGGATTCGGTTTGACAAGATTAATGATCAATCAGGGTGAACATGCTATAATCTGACATATCTTTTGAGTGCT</gDNA_template>
            <first_frame> L  D  S  P  Q  T  Q  L  L  R  K  *  L  K  Q  L  M  A  L  L  L  L  P  L  L  Q  :  E  H  Q  V  G  L  V  R  K  L  H  V  F  L  H  C  E  V  C  M  *  L  W  G  *  G  I  S  L  L  E  N  R  L  K  R  R  *  L  K  L  Y  R  K  L  K  L  M  P  W  S  W  I  S  V  H  L  H  L  *  G  I  S  H  Q  I  T  I  L  *  A  F  L  *  T  C  L   : L  T  M  Q  E  S  W  Q  P  H  S  H  F  P  R  I  T  L  S  C  N  L  Q  Q  T  M  S  :  A  T  S  F  *  Q  I  Y  C  W  T  P  *  K  K  Q  L  V  R  V  E  R  K  G  G  L  L  M  S  P  H  V  A  T  N  F  L  T  M  K  G  F  G  L  T  R  L  M  I  N  Q  G  E  H  A  I  I  *  H  I  F  *  V   </first_frame>
            <second_frame>  W  I  L  P  K  L  N  C  *  G  S  N  S  S  N  *  W  L  C  S  Y  C  H  C  Y  R :   S  I  K  W  D  W  C  G  N  C  T  C  S  C  I  A  R  C  A  C  N  Y  G  G  K  E  Y  L  C  W  K  T  G  *  R  D  D  N  *  S  C  T  A  S  *  N  *  C  L  G  V  G  S  Q  F  T  C  I  C  E  E  F  R  I  K  L  Q  F  F  R  P  S  S  K  P  A  Y  :  *  Q  C  R  N  H  G  N  P  I  R  T  F  Q  G  *  H  *  A  A  I  C  N  K  P  C  R :   P  L  P  F  D  K  F  I  A  G  H  H  E  K  N  S  S  *  E  *  K  G  R  E  D  C  *  C  L  L  T  S  P  Q  I  F  L  Q  *  R  D  S  V  *  Q  D  *  *  S  I  R  V  N  M  L  *  S  D  I  S  F  E  C  </second_frame>
            <third_frame>   G  F  S  P  N  S  T  A  E  E  V  T  Q  A  I  D  G  S  A  L  T  A  I  V  T   : G  A  S  S  G  I  G  A  E  T  A  R  V  L  A  L  R  G  V  H  V  I  M  G  V  R  N  I  S  A  G  K  Q  V  K  E  T  I  T  K  A  V  P  Q  A  K  I  D  A  L  E  L  D  L  S  S  L  A  S  V  R  N  F  A  S  N  Y  N  S  L  G  L  P  L  N  L  L  I :   N  N  A  G  I  M  A  T  P  F  A  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  V   : G  H  F  L  L  T  N  L  L  L  D  T  M  K  K  T  A  R  E  S  R  K  E  G  R  I  V  N  V  S  S  R  R  H  K  F  S  Y  N  E  G  I  R  F  D  K  I  N  D  Q  S  G  *  T  C  Y  N  L  T  Y  L  L  S  A </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="10764" stop="10689"/>
                    <exon start="10206" stop="9975"/>
                    <exon start="8878" stop="8799"/>
                    <exon start="8232" stop="8075"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>543</number_coding_nucleotides>
                  <number_encoded_amino_acids>181</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GFSPNSTAEEVTQAIDGSALTAIVTGASSGIGAETARVLALRGVHVIMGVRNISAGKQVKETITKAVPQAKIDALELDLSSLASVRNFASNYNSLGLPLNLLINNAGIMATPFALSKDNIELQFATNHVGHFLLTNLLLDTMKKTARESRKEGRIVNVSSRRHKFSYNEGIRFDKINDQSG*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="16372" PGL_stop="19021"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="16372" e_stop="16657"/>
            <exon e_start="17426" e_stop="17617"/>
            <exon e_start="18277" e_stop="19021"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.983"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="16372" e_stop="16657" e_length="286"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="0.995">
            <gDNA_intron_boundary i_start="16658" i_stop="17425" i_length="768"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="17426" e_stop="17617" e_length="192"/>
          </exon>
          <intron i_serial="2" don_prob="0.994" acc_prob="0.999">
            <gDNA_intron_boundary i_start="17618" i_stop="18276" i_length="659"/>
          </intron>
          <exon e_serial="3" e_score="0.983">
            <gDNA_exon_boundary e_start="18277" e_stop="19021" e_length="745"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16372" stop="16657"/>
              <exon start="17426" stop="17617"/>
              <exon start="18277" stop="18560"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E718522" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16376" stop="16657"/>
              <exon start="17426" stop="17617"/>
              <exon start="18277" stop="18622"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E724836" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16392" stop="16657"/>
              <exon start="17426" stop="17617"/>
              <exon start="18277" stop="18478"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E394709" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16392" stop="16657"/>
              <exon start="17426" stop="17617"/>
              <exon start="18277" stop="18409"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393723" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16392" stop="16657"/>
              <exon start="17426" stop="17617"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393714" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="18481" stop="19021"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E394708" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="18485" stop="19021"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E398332" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="18555" stop="19021"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E394814" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="2" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATACAAATATCATAGAGTTCTTTTACTTTGCTCTAAAAGATATTAAATTTGTTTATATTTAAGCATTATGGTGTCTCTAAATAGGAACCTCATTTTGGCATTTTTGTGTGTTTTATTGTGCTTTGTTGTTAGCTTTAGCAATGCCCAATTATCAGCCAATTTTTATGGGACGTCGTGCCCTAATCTGCAGACAATTGTAAGAAATGCAATGACACAAGCTGTGAATAGAGAGGCCAGACTTGGTGCCTCTATTCTTCGATTGTTCTTCCATGATTGCTTCGTTAAC : GGGTGCGATGCATCAATACTACTGGATGACACATCAACTTTTATAGGAGAAAAGAATGCAAATCCAAACAGAAATTCAGCAAGAGGATATGAAGTGATAGACACCATTAAAACTCAAGTTGAAGCTGCTTGTCCTAACGTTATCTCTTGTGCGGATATTCTTGCTCTTGCTGCTCGAGAAGGCACCGTACTG : CTTGGAGGGCCATCATGGGCAGTGCCATTGGGCCGAAGAGACGCAAGGACCGCGAGCCAAAGCGCCGCCAACACCCAAATCCCCGCACCATCTTCCAGTCTTGCAACTTTAATTTCCATGTTCTCCGCCAAAGGCCTAAGTGCGCGTGACATGACGGCACTATCCGGCAGCCACACGATCGGCCAGGCTCGGTGCACCACTTTCAGAAACCGGATCTACAACGACACCAACATCGACCCGCAGTTCGCCGCCACGCGCAGGGCTACCTGCCCTGCTTCCGGCGGCGACGCCAATTTGGCCCCGTTGGATATCCAGACTCCGAACCGGTTCGATAATGATTATTATCAGAACCTAGTGGTTCGGCGTGGGTTGCTTCACTCGGATCAGGAATTGTTTAACGGTGGATCTCAGGATGCGTTGGTGAGGAGTTATAGTAACAATGGTGCGAGTTTTAGAAGTGATTTTGCTGCAGCTATGGTGAAGATGGGGAATATTAGTCCACTTACTGGAACTAATGGAGAGATTAGAACAAACTGCAGGGCTATTAACTAACTAAGTTGTTATTACGAATTTAAAATTGTCATATTTACTATCGTAAGTTGTTGTATCACTTCCTCTACCAAATATCAGTGTCAATCAGTTAACTAGACACCAAGTTTACGAAATAAATGGAGACTTTTGAATTTTATGATTTTAAATATCGGAAACATGAGTTAAATTTGAAAATACAACACCAAATCCATAT</gDNA_template>
            <first_frame> I  Q  I  S  *  S  S  F  T  L  L  *  K  I  L  N  L  F  I  F  K  H  Y  G  V  S  K  *  E  P  H  F  G  I  F  V  C  F  I  V  L  C  C  *  L  *  Q  C  P  I  I  S  Q  F  L  W  D  V  V  P  *  S  A  D  N  C  K  K  C  N  D  T  S  C  E  *  R  G  Q  T  W  C  L  Y  S  S  I  V  L  P  *  L  L  R  *   : R  V  R  C  I  N  T  T  G  *  H  I  N  F  Y  R  R  K  E  C  K  S  K  Q  K  F  S  K  R  I  *  S  D  R  H  H  *  N  S  S  *  S  C  L  S  *  R  Y  L  L  C  G  Y  S  C  S  C  C  S  R  R  H  R  T   : A  W  R  A  I  M  G  S  A  I  G  P  K  R  R  K  D  R  E  P  K  R  R  Q  H  P  N  P  R  T  I  F  Q  S  C  N  F  N  F  H  V  L  R  Q  R  P  K  C  A  *  H  D  G  T  I  R  Q  P  H  D  R  P  G  S  V  H  H  F  Q  K  P  D  L  Q  R  H  Q  H  R  P  A  V  R  R  H  A  Q  G  Y  L  P  C  F  R  R  R  R  Q  F  G  P  V  G  Y  P  D  S  E  P  V  R  *  *  L  L  S  E  P  S  G  S  A  W  V  A  S  L  G  S  G  I  V  *  R  W  I  S  G  C  V  G  E  E  L  *  *  Q  W  C  E  F  *  K  *  F  C  C  S  Y  G  E  D  G  E  Y  *  S  T  Y  W  N  *  W  R  D  *  N  K  L  Q  G  Y  *  L  T  K  L  L  L  R  I  *  N  C  H  I  Y  Y  R  K  L  L  Y  H  F  L  Y  Q  I  S  V  S  I  S  *  L  D  T  K  F  T  K  *  M  E  T  F  E  F  Y  D  F  K  Y  R  K  H  E  L  N  L  K  I  Q  H  Q  I  H   </first_frame>
            <second_frame>  Y  K  Y  H  R  V  L  L  L  C  S  K  R  Y  *  I  C  L  Y  L  S  I  M  V  S  L  N  R  N  L  I  L  A  F  L  C  V  L  L  C  F  V  V  S  F  S  N  A  Q  L  S  A  N  F  Y  G  T  S  C  P  N  L  Q  T  I  V  R  N  A  M  T  Q  A  V  N  R  E  A  R  L  G  A  S  I  L  R  L  F  F  H  D  C  F  V  N  :  G  C  D  A  S  I  L  L  D  D  T  S  T  F  I  G  E  K  N  A  N  P  N  R  N  S  A  R  G  Y  E  V  I  D  T  I  K  T  Q  V  E  A  A  C  P  N  V  I  S  C  A  D  I  L  A  L  A  A  R  E  G  T  V  L  :  L  G  G  P  S  W  A  V  P  L  G  R  R  D  A  R  T  A  S  Q  S  A  A  N  T  Q  I  P  A  P  S  S  S  L  A  T  L  I  S  M  F  S  A  K  G  L  S  A  R  D  M  T  A  L  S  G  S  H  T  I  G  Q  A  R  C  T  T  F  R  N  R  I  Y  N  D  T  N  I  D  P  Q  F  A  A  T  R  R  A  T  C  P  A  S  G  G  D  A  N  L  A  P  L  D  I  Q  T  P  N  R  F  D  N  D  Y  Y  Q  N  L  V  V  R  R  G  L  L  H  S  D  Q  E  L  F  N  G  G  S  Q  D  A  L  V  R  S  Y  S  N  N  G  A  S  F  R  S  D  F  A  A  A  M  V  K  M  G  N  I  S  P  L  T  G  T  N  G  E  I  R  T  N  C  R  A  I  N  *  L  S  C  Y  Y  E  F  K  I  V  I  F  T  I  V  S  C  C  I  T  S  S  T  K  Y  Q  C  Q  S  V  N  *  T  P  S  L  R  N  K  W  R  L  L  N  F  M  I  L  N  I  G  N  M  S  *  I  *  K  Y  N  T  K  S  I  </second_frame>
            <third_frame>   T  N  I  I  E  F  F  Y  F  A  L  K  D  I  K  F  V  Y  I  *  A  L  W  C  L  *  I  G  T  S  F  W  H  F  C  V  F  Y  C  A  L  L  L  A  L  A  M  P  N  Y  Q  P  I  F  M  G  R  R  A  L  I  C  R  Q  L  *  E  M  Q  *  H  K  L  *  I  E  R  P  D  L  V  P  L  F  F  D  C  S  S  M  I  A  S  L  T :   G  A  M  H  Q  Y  Y  W  M  T  H  Q  L  L  *  E  K  R  M  Q  I  Q  T  E  I  Q  Q  E  D  M  K  *  *  T  P  L  K  L  K  L  K  L  L  V  L  T  L  S  L  V  R  I  F  L  L  L  L  L  E  K  A  P  Y  C :   L  E  G  H  H  G  Q  C  H  W  A  E  E  T  Q  G  P  R  A  K  A  P  P  T  P  K  S  P  H  H  L  P  V  L  Q  L  *  F  P  C  S  P  P  K  A  *  V  R  V  T  *  R  H  Y  P  A  A  T  R  S  A  R  L  G  A  P  L  S  E  T  G  S  T  T  T  P  T  S  T  R  S  S  P  P  R  A  G  L  P  A  L  L  P  A  A  T  P  I  W  P  R  W  I  S  R  L  R  T  G  S  I  M  I  I  I  R  T  *  W  F  G  V  G  C  F  T  R  I  R  N  C  L  T  V  D  L  R  M  R  W  *  G  V  I  V  T  M  V  R  V  L  E  V  I  L  L  Q  L  W  *  R  W  G  I  L  V  H  L  L  E  L  M  E  R  L  E  Q  T  A  G  L  L  T  N  *  V  V  I  T  N  L  K  L  S  Y  L  L  S  *  V  V  V  S  L  P  L  P  N  I  S  V  N  Q  L  T  R  H  Q  V  Y  E  I  N  G  D  F  *  I  L  *  F  *  I  S  E  T  *  V  K  F  E  N  T  T  P  N  P  Y </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="16418" stop="16657"/>
                    <exon start="17426" stop="17617"/>
                    <exon start="18277" stop="18828"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>981</number_coding_nucleotides>
                  <number_encoded_amino_acids>327</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ICLYLSIMVSLNRNLILAFLCVLLCFVVSFSNAQLSANFYGTSCPNLQTIVRNAMTQAVNREARLGASILRLFFHDCFVNGCDASILLDDTSTFIGEKNANPNRNSARGYEVIDTIKTQVEAACPNVISCADILALAAREGTVLLGGPSWAVPLGRRDARTASQSAANTQIPAPSSSLATLISMFSAKGLSARDMTALSGSHTIGQARCTTFRNRIYNDTNIDPQFAATRRATCPASGGDANLAPLDIQTPNRFDNDYYQNLVVRRGLLHSDQELFNGGSQDALVRSYSNNGASFRSDFAAAMVKMGNISPLTGTNGEIRTNCRAIN*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="23148" PGL_stop="19360"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="23148" e_stop="22722"/>
            <exon e_start="22349" e_stop="22118"/>
            <exon e_start="22021" e_stop="21942"/>
            <exon e_start="21216" e_stop="21063"/>
            <exon e_start="20630" e_stop="20552"/>
            <exon e_start="20287" e_stop="20203"/>
            <exon e_start="19880" e_stop="19834"/>
            <exon e_start="19732" e_stop="19360"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.802" acc_prob="0.879" e_score="1.000"/>
          <exon-intron don_prob="0.557" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.980" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.991" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.857" e_score="1.000"/>
          <exon-intron don_prob="0.977" acc_prob="0.771" e_score="1.000"/>
          <exon-only e_score="0.989"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="23148" e_stop="22722" e_length="427"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.996">
            <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="22349" e_stop="22118" e_length="232"/>
          </exon>
          <intron i_serial="2" don_prob="0.802" acc_prob="0.879">
            <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="22021" e_stop="21942" e_length="80"/>
          </exon>
          <intron i_serial="3" don_prob="0.557" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="21216" e_stop="21063" e_length="154"/>
          </exon>
          <intron i_serial="4" don_prob="0.980" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="20630" e_stop="20552" e_length="79"/>
          </exon>
          <intron i_serial="5" don_prob="0.991" acc_prob="0.999">
            <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="20287" e_stop="20203" e_length="85"/>
          </exon>
          <intron i_serial="6" don_prob="0.999" acc_prob="0.857">
            <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="19880" e_stop="19834" e_length="47"/>
          </exon>
          <intron i_serial="7" don_prob="0.977" acc_prob="0.771">
            <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101"/>
          </intron>
          <exon e_serial="8" e_score="0.989">
            <gDNA_exon_boundary e_start="19732" e_stop="19360" e_length="373"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22722"/>
              <exon start="22349" stop="22245"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243775" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22722"/>
              <exon start="22349" stop="22252"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E241920" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22750"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243594" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23140" stop="22722"/>
              <exon start="22349" stop="22307"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228416" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22955" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="22014"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324276" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22953" stop="22722"/>
              <exon start="22349" stop="22129"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219462" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22937" stop="22722"/>
              <exon start="22349" stop="22123"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219033" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20576"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326490" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20613"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370789" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21143"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371218" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22176"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328241" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22751"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271878" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22921" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20251"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317077" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22911" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21167"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271051" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22906" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19726"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E707589" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22898" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21096"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340774" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22898" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21133"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298566" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22896" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21945"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339605" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22883" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19700"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E705047" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22883" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20212"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E705612" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22874" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21084"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211860" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22864" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19725"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E708937" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22858" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21960"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295428" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22842" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20230"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317465" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22301" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20214"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E204377" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22217" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19700"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E272318" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21998" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19490"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323174" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21994" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19665"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E253142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21170" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19434"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E345159" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21133" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19448"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E552036" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21133" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19448"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E552273" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="20599" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19360"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371217" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG : GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT : TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG : GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG : CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG : GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG : GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG : GGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATCGTTTATCGATTTACCCAATAAGAAAATGTTCATAAAATATATATATATATATATAATTTCTCACTTCTCTATTTGACATAATACAATG</gDNA_template>
            <first_frame> S  K  K  I  A  H  L  L  N  R  D  L  E  F  *  I  *  F  F  F  L  I  K  S  T  F  I  F  G  *  K  F  I  Y  V  L  C  V  F  *  S  F  E  *  E  N  I  *  R  F  N  K  Q  K  N  K  N  H  N  I  V  M  S  N  A  I  N  I  R  A  S  *  V  F  V  C  C  T  I  F  S  V  A  Q  F  S  I  A  S  E  *  S  E  *  Y  R  N  K  Q  S  S  K  L  N  L  K  T  M  W  L  F  K  R  N  G  P  S  G  F  S  Y  S  S  T  A  E  E  V  T  H  G  I  D  G  S  G  L  T  A  I  V  T   : G  A  S  S  G  I  G  A  E  T  S  R  V  L  A  L  R  G  V  H  V  I  M  A  V  R  N  M  T  A  G  K  D  V  K  E  A  I  V  K  E  I  P  A  A  K  V  D  V  M  E  L  D  L  S  S  F  D  S  V  K  K  F  A  A  D  F  I  S  S  G  H  S  L  N  I  L  I :   N  N  A  G  V  M  A  I  P  F  M  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  L   : G  H  F  L  L  T  N  L  L  L  E  K  M  K  E  T  A  S  E  T  K  R  E  G  R  I  V  N  V  A  S  D  A  H  Y  V  T  Y  R  E  G  I  L  F  D  K  I  N  D  Q  E  S :   Y  R  K  F  S  A  Y  G  Q  S  K  M  A  N  I  L  S  T  Y  E  L  A  K  R  L  K  :  E  D  G  V  E  I  T  A  N  T  L  N  P  G  A  I  S  S  N  L  F  R  H  M  T  I  V  N   : G  L  V  S  T  I  G  K  L  L  L  K  N  V  Q  Q  :  G  A  S  T  T  C  Y  I  A  L  N  P  Q  V  K  G  V  S  G  E  Y  F  Q  D  N  N  L  A  T  P  S  K  K  A  R  D  M  D  L  A  K  K  L  W  D  F  S  V  D  L  V  K  *  Q  T  T  Y  I  S  K  *  V  V  V  C  I  S  R  F  D  S  I  L  C  I  I  G  F  Q  F  L  N  K  L  N  Q  *  *  N  N  K  I  F  F  I  V  Y  R  F  T  Q  *  E  N  V  H  K  I  Y  I  Y  I  Y  N  F  S  L  L  Y  L  T  *  Y  N  </first_frame>
            <second_frame>  Q  R  R  L  L  I  S  *  I  E  I  L  S  F  K  Y  N  F  F  F  *  *  K  V  L  S  S  L  G  K  N  L  F  M  Y  Y  A  F  F  N  L  S  S  K  K  I  Y  R  D  L  T  N  K  K  T  K  I  T  I  *  *  *  V  M  P  S  I  S  V  Q  A  E  F  L  S  V  A  P  F  S  Q  L  H  N  F  P  *  L  V  N  R  V  S  D  T  E  T  S  R  A  A  N  *  T  L  K  L  C  G  F  S  K  E  M  D  H  L  G  F  R  I  P  L  L  L  K  K  *  P  M  E  S  T  A  P  V  S  P  P  L  L  Q  :  E  H  L  V  V  L  V  L  K  L  A  V  F  L  L  C  A  E  F  M  L  S  W  L  L  G  I  *  L  L  E  K  M  L  K  K  Q  *  L  R  K  S  L  L  P  K  *  M  *  W  N  *  I  L  V  H  L  I  Q  *  R  N  L  Q  L  I  L  Y  H  R  V  T  H  *  T  S  *   : L  I  M  Q  A  *  W  Q  F  P  L  C  S  P  K  T  I  *  S  C  N  L  P  Q  I  I  *  :  V  T  S  F  *  Q  I  C  C  W  R  R  *  R  R  Q  H  L  K  Q  R  E  R  E  G  *  S  M  L  H  Q  T  L  I  M  L  H  I  V  R  E  F  C  L  T  K  L  M  T  R  K   : A  T  E  S  S  R  H  M  A  N  Q  R  W  L  T  Y  C  Q  H  M  S  S  R  S  A  *  R :   K  T  V  W  K  *  L  Q  T  H  L  I  L  E  Q  S  Q  A  I  F  S  V  I  *  L  S  L  M  :  A  *  *  A  R  L  E  N  S  C  L  K  M  F  N  R :   E  H  Q  P  P  V  I  *  H  *  I  H  K  *  R  G  *  V  V  N  I  F  R  T  T  I  W  P  P  H  R  R  R  L  G  T  W  I  W  L  R  N  S  G  I  L  V  W  I  W  L  S  N  K  Q  H  I  S  V  S  K  L  W  C  A  L  V  G  L  I  R  F  Y  V  L  S  V  F  N  F  *  I  S  *  T  N  N  K  I  I  R  Y  F  L  S  F  I  D  L  P  N  K  K  M  F  I  K  Y  I  Y  I  Y  I  I  S  H  F  S  I  *  H  N  T  M </second_frame>
            <third_frame>   K  E  D  C  S  S  L  K  *  R  S  *  V  L  N  I  I  F  F  F  N  K  K  Y  F  H  L  W  V  K  I  Y  L  C  I  M  R  F  L  I  F  R  V  R  K  Y  I  E  I  *  Q  T  K  K  Q  K  S  Q  Y  S  N  E  *  C  H  Q  Y  P  C  K  L  S  F  C  L  L  H  H  F  L  S  C  T  I  F  H  S  *  *  I  E  *  V  I  Q  K  Q  A  E  Q  Q  I  E  P  *  N  Y  V  A  F  Q  K  K  W  T  I  W  V  F  V  F  L  Y  C  *  R  S  N  P  W  N  R  R  L  R  S  H  R  H  C  Y  R :   S  I  *  W  Y  W  C  *  N  *  P  C  S  C  S  A  R  S  S  C  Y  H  G  C  *  E  Y  D  C  W  K  R  C  *  R  S  N  S  *  G  N  P  C  C  Q  S  R  C  N  G  I  R  S  *  F  I  *  F  S  E  E  I  C  S  *  F  Y  I  I  G  S  L  I  E  H  L  N  :  *  *  C  R  R  D  G  N  S  L  Y  A  L  Q  R  Q  Y  R  A  A  I  C  H  K  S  S  R :   S  L  P  F  D  K  F  V  V  G  E  D  E  G  D  S  I  *  N  K  E  R  G  K  D  S  Q  C  C  I  R  R  S  L  C  Y  I  S  *  G  N  S  V  *  Q  N  *  *  P  G  K  :  L  Q  K  V  L  G  I  W  P  I  K  D  G  *  H  T  V  N  I  *  A  R  E  A  L  K   : G  R  R  C  G  N  N  C  K  H  T  *  S  W  S  N  L  K  Q  S  F  P  S  Y  D  Y  R  *  W :   L  S  K  H  D  W  K  T  P  A  *  K  C  S  T   : G  S  I  N  H  L  L  Y  S  I  E  S  T  S  E  G  G  E  W  *  I  F  S  G  Q  Q  F  G  H  P  I  E  E  G  *  G  H  G  F  G  *  E  T  L  G  F  *  C  G  F  G  *  V  T  N  N  I  Y  Q  *  V  S  C  G  V  H  *  S  V  *  F  D  S  M  Y  Y  R  F  S  I  F  K  *  A  K  P  I  I  K  *  *  D  I  F  Y  R  L  S  I  Y  P  I  R  K  C  S  *  N  I  Y  I  Y  I  *  F  L  T  S  L  F  D  I  I  Q   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22866" stop="22722"/>
                    <exon start="22349" stop="22118"/>
                    <exon start="22021" stop="21942"/>
                    <exon start="21216" stop="21063"/>
                    <exon start="20630" stop="20552"/>
                    <exon start="20287" stop="20203"/>
                    <exon start="19880" stop="19834"/>
                    <exon start="19732" stop="19574"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>978</number_coding_nucleotides>
                  <number_encoded_amino_acids>326</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>YRNKQSSKLNLKTMWLFKRNGPSGFSYSSTAEEVTHGIDGSGLTAIVTGASSGIGAETSRVLALRGVHVIMAVRNMTAGKDVKEAIVKEIPAAKVDVMELDLSSFDSVKKFAADFISSGHSLNILINNAGVMAIPFMLSKDNIELQFATNHLGHFLLTNLLLEKMKETASETKREGRIVNVASDAHYVTYREGILFDKINDQESYRKFSAYGQSKMANILSTYELAKRLKEDGVEITANTLNPGAISSNLFRHMTIVNGLVSTIGKLLLKNVQQGASTTCYIALNPQVKGVSGEYFQDNNLATPSKKARDMDLAKKLWDFSVDLVK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="23148" e_stop="22722"/>
            <exon e_start="22349" e_stop="22118"/>
            <exon e_start="22021" e_stop="21942"/>
            <exon e_start="21216" e_stop="20457"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.802" acc_prob="0.879" e_score="1.000"/>
          <exon-intron don_prob="0.557" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.999"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="23148" e_stop="22722" e_length="427"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.996">
            <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="22349" e_stop="22118" e_length="232"/>
          </exon>
          <intron i_serial="2" don_prob="0.802" acc_prob="0.879">
            <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="22021" e_stop="21942" e_length="80"/>
          </exon>
          <intron i_serial="3" don_prob="0.557" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725"/>
          </intron>
          <exon e_serial="4" e_score="0.999">
            <gDNA_exon_boundary e_start="21216" e_stop="20457" e_length="760"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22722"/>
              <exon start="22349" stop="22245"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243775" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22722"/>
              <exon start="22349" stop="22252"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E241920" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22750"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243594" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23140" stop="22722"/>
              <exon start="22349" stop="22307"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228416" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22955" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="22014"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324276" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22953" stop="22722"/>
              <exon start="22349" stop="22129"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219462" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22937" stop="22722"/>
              <exon start="22349" stop="22123"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219033" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21143"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371218" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22176"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328241" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22751"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271878" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22911" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21167"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271051" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22898" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21096"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340774" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22898" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21133"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298566" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22896" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21945"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339605" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22874" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21084"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211860" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22858" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21960"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295428" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21152" stop="20457"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E689293" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21148" stop="20460"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326074" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21148" stop="20466"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327044" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG : GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT : TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG : GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAGGTAATCATAATTATGTTTCGGTATTAGTTCAATCAAGTCTATAAGAGTGTGAAGTTCAAATGTCAAAATATCTACCAGTGCCGTTATGTATTTATTACCTGCAAGATGCTTAGTAACTAACTATCCACCTCACTACAAATCACTCTTAATCAGTGCTTATCCTCGTGACAAATATAGTAAACTAACAGCCTACTTATCCATTCTCAATTAAAGGAAACCTCCATTTGCTCAGAATCATTGCTTCAGTTGCTTGATGACTTCTGTAAGAATATGGGATAGTTCTGTCTTACAGCTCCAGAATTTCTATGCTTGCTGTGTTCTATTGCTGTACCTTCTTGGTACTAGCTACTATAGTGAAATTTATTAAGAAAAACACACATTTGGCCATTGTAAATTCATTTATACTTTTTGTTGTTTCTAACCTGTTTGCAGCTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAGGTGTTTTCTCAGAAATATATCTTACATGCTGCTTTCTCATCTTATTTTCATATTGGGTTTATGTGTAACTCACAGTTTTGCTCCATTCCAAGAGA</gDNA_template>
            <first_frame> S  K  K  I  A  H  L  L  N  R  D  L  E  F  *  I  *  F  F  F  L  I  K  S  T  F  I  F  G  *  K  F  I  Y  V  L  C  V  F  *  S  F  E  *  E  N  I  *  R  F  N  K  Q  K  N  K  N  H  N  I  V  M  S  N  A  I  N  I  R  A  S  *  V  F  V  C  C  T  I  F  S  V  A  Q  F  S  I  A  S  E  *  S  E  *  Y  R  N  K  Q  S  S  K  L  N  L  K  T  M  W  L  F  K  R  N  G  P  S  G  F  S  Y  S  S  T  A  E  E  V  T  H  G  I  D  G  S  G  L  T  A  I  V  T   : G  A  S  S  G  I  G  A  E  T  S  R  V  L  A  L  R  G  V  H  V  I  M  A  V  R  N  M  T  A  G  K  D  V  K  E  A  I  V  K  E  I  P  A  A  K  V  D  V  M  E  L  D  L  S  S  F  D  S  V  K  K  F  A  A  D  F  I  S  S  G  H  S  L  N  I  L  I :   N  N  A  G  V  M  A  I  P  F  M  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  L   : G  H  F  L  L  T  N  L  L  L  E  K  M  K  E  T  A  S  E  T  K  R  E  G  R  I  V  N  V  A  S  D  A  H  Y  V  T  Y  R  E  G  I  L  F  D  K  I  N  D  Q  E  R  *  S  *  L  C  F  G  I  S  S  I  K  S  I  R  V  *  S  S  N  V  K  I  S  T  S  A  V  M  Y  L  L  P  A  R  C  L  V  T  N  Y  P  P  H  Y  K  S  L  L  I  S  A  Y  P  R  D  K  Y  S  K  L  T  A  Y  L  S  I  L  N  *  R  K  P  P  F  A  Q  N  H  C  F  S  C  L  M  T  S  V  R  I  W  D  S  S  V  L  Q  L  Q  N  F  Y  A  C  C  V  L  L  L  Y  L  L  G  T  S  Y  Y  S  E  I  Y  *  E  K  H  T  F  G  H  C  K  F  I  Y  T  F  C  C  F  *  P  V  C  S  Y  R  K  F  S  A  Y  G  Q  S  K  M  A  N  I  L  S  T  Y  E  L  A  K  R  L  K  V  F  S  Q  K  Y  I  L  H  A  A  F  S  S  Y  F  H  I  G  F  M  C  N  S  Q  F  C  S  I  P  R   </first_frame>
            <second_frame>  Q  R  R  L  L  I  S  *  I  E  I  L  S  F  K  Y  N  F  F  F  *  *  K  V  L  S  S  L  G  K  N  L  F  M  Y  Y  A  F  F  N  L  S  S  K  K  I  Y  R  D  L  T  N  K  K  T  K  I  T  I  *  *  *  V  M  P  S  I  S  V  Q  A  E  F  L  S  V  A  P  F  S  Q  L  H  N  F  P  *  L  V  N  R  V  S  D  T  E  T  S  R  A  A  N  *  T  L  K  L  C  G  F  S  K  E  M  D  H  L  G  F  R  I  P  L  L  L  K  K  *  P  M  E  S  T  A  P  V  S  P  P  L  L  Q  :  E  H  L  V  V  L  V  L  K  L  A  V  F  L  L  C  A  E  F  M  L  S  W  L  L  G  I  *  L  L  E  K  M  L  K  K  Q  *  L  R  K  S  L  L  P  K  *  M  *  W  N  *  I  L  V  H  L  I  Q  *  R  N  L  Q  L  I  L  Y  H  R  V  T  H  *  T  S  *   : L  I  M  Q  A  *  W  Q  F  P  L  C  S  P  K  T  I  *  S  C  N  L  P  Q  I  I  *  :  V  T  S  F  *  Q  I  C  C  W  R  R  *  R  R  Q  H  L  K  Q  R  E  R  E  G  *  S  M  L  H  Q  T  L  I  M  L  H  I  V  R  E  F  C  L  T  K  L  M  T  R  K  G  N  H  N  Y  V  S  V  L  V  Q  S  S  L  *  E  C  E  V  Q  M  S  K  Y  L  P  V  P  L  C  I  Y  Y  L  Q  D  A  *  *  L  T  I  H  L  T  T  N  H  S  *  S  V  L  I  L  V  T  N  I  V  N  *  Q  P  T  Y  P  F  S  I  K  G  N  L  H  L  L  R  I  I  A  S  V  A  *  *  L  L  *  E  Y  G  I  V  L  S  Y  S  S  R  I  S  M  L  A  V  F  Y  C  C  T  F  L  V  L  A  T  I  V  K  F  I  K  K  N  T  H  L  A  I  V  N  S  F  I  L  F  V  V  S  N  L  F  A  A  T  E  S  S  R  H  M  A  N  Q  R  W  L  T  Y  C  Q  H  M  S  S  R  S  A  *  R  C  F  L  R  N  I  S  Y  M  L  L  S  H  L  I  F  I  L  G  L  C  V  T  H  S  F  A  P  F  Q  E  </second_frame>
            <third_frame>   K  E  D  C  S  S  L  K  *  R  S  *  V  L  N  I  I  F  F  F  N  K  K  Y  F  H  L  W  V  K  I  Y  L  C  I  M  R  F  L  I  F  R  V  R  K  Y  I  E  I  *  Q  T  K  K  Q  K  S  Q  Y  S  N  E  *  C  H  Q  Y  P  C  K  L  S  F  C  L  L  H  H  F  L  S  C  T  I  F  H  S  *  *  I  E  *  V  I  Q  K  Q  A  E  Q  Q  I  E  P  *  N  Y  V  A  F  Q  K  K  W  T  I  W  V  F  V  F  L  Y  C  *  R  S  N  P  W  N  R  R  L  R  S  H  R  H  C  Y  R :   S  I  *  W  Y  W  C  *  N  *  P  C  S  C  S  A  R  S  S  C  Y  H  G  C  *  E  Y  D  C  W  K  R  C  *  R  S  N  S  *  G  N  P  C  C  Q  S  R  C  N  G  I  R  S  *  F  I  *  F  S  E  E  I  C  S  *  F  Y  I  I  G  S  L  I  E  H  L  N  :  *  *  C  R  R  D  G  N  S  L  Y  A  L  Q  R  Q  Y  R  A  A  I  C  H  K  S  S  R :   S  L  P  F  D  K  F  V  V  G  E  D  E  G  D  S  I  *  N  K  E  R  G  K  D  S  Q  C  C  I  R  R  S  L  C  Y  I  S  *  G  N  S  V  *  Q  N  *  *  P  G  K  V  I  I  I  M  F  R  Y  *  F  N  Q  V  Y  K  S  V  K  F  K  C  Q  N  I  Y  Q  C  R  Y  V  F  I  T  C  K  M  L  S  N  *  L  S  T  S  L  Q  I  T  L  N  Q  C  L  S  S  *  Q  I  *  *  T  N  S  L  L  I  H  S  Q  L  K  E  T  S  I  C  S  E  S  L  L  Q  L  L  D  D  F  C  K  N  M  G  *  F  C  L  T  A  P  E  F  L  C  L  L  C  S  I  A  V  P  S  W  Y  *  L  L  *  *  N  L  L  R  K  T  H  I  W  P  L  *  I  H  L  Y  F  L  L  F  L  T  C  L  Q  L  Q  K  V  L  G  I  W  P  I  K  D  G  *  H  T  V  N  I  *  A  R  E  A  L  K  G  V  F  S  E  I  Y  L  T  C  C  F  L  I  L  F  S  Y  W  V  Y  V  *  L  T  V  L  L  H  S  K  R </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22866" stop="22722"/>
                    <exon start="22349" stop="22118"/>
                    <exon start="22021" stop="21942"/>
                    <exon start="21216" stop="21059"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>612</number_coding_nucleotides>
                  <number_encoded_amino_acids>204</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>YRNKQSSKLNLKTMWLFKRNGPSGFSYSSTAEEVTHGIDGSGLTAIVTGASSGIGAETSRVLALRGVHVIMAVRNMTAGKDVKEAIVKEIPAAKVDVMELDLSSFDSVKKFAADFISSGHSLNILINNAGVMAIPFMLSKDNIELQFATNHLGHFLLTNLLLEKMKETASETKREGRIVNVASDAHYVTYREGILFDKINDQER*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="2" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="20796" stop="20554"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>240</number_coding_nucleotides>
                  <number_encoded_amino_acids>80</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EYGIVLSYSSRISMLAVFYCCTFLVLATIVKFIKKNTHLAIVNSFILFVVSNLFAATESSRHMANQRWLTYCQHMSSRSA*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="23148" e_stop="22722"/>
            <exon e_start="22349" e_stop="22118"/>
            <exon e_start="22021" e_stop="21942"/>
            <exon e_start="21216" e_stop="21063"/>
            <exon e_start="20630" e_stop="20552"/>
            <exon e_start="20476" e_stop="20466"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.802" acc_prob="0.879" e_score="1.000"/>
          <exon-intron don_prob="0.557" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.980" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.991" acc_prob="0.754" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="23148" e_stop="22722" e_length="427"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.996">
            <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="22349" e_stop="22118" e_length="232"/>
          </exon>
          <intron i_serial="2" don_prob="0.802" acc_prob="0.879">
            <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="22021" e_stop="21942" e_length="80"/>
          </exon>
          <intron i_serial="3" don_prob="0.557" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="21216" e_stop="21063" e_length="154"/>
          </exon>
          <intron i_serial="4" don_prob="0.980" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="20630" e_stop="20552" e_length="79"/>
          </exon>
          <intron i_serial="5" don_prob="0.991" acc_prob="0.754">
            <gDNA_intron_boundary i_start="20551" i_stop="20477" i_length="75"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="20476" e_stop="20466" e_length="11"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22722"/>
              <exon start="22349" stop="22245"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243775" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22722"/>
              <exon start="22349" stop="22252"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E241920" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22750"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243594" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23140" stop="22722"/>
              <exon start="22349" stop="22307"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228416" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22955" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="22014"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324276" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22953" stop="22722"/>
              <exon start="22349" stop="22129"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219462" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22937" stop="22722"/>
              <exon start="22349" stop="22123"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219033" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20576"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326490" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20613"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370789" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21143"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371218" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22176"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328241" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22751"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271878" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22911" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21167"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271051" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22898" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21096"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340774" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22898" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21133"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298566" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22896" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21945"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339605" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22874" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21084"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211860" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22863" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20476" stop="20466"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327307" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22858" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21960"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295428" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG : GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT : TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG : GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG : CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG : TTTTGCTCCAT</gDNA_template>
            <first_frame> S  K  K  I  A  H  L  L  N  R  D  L  E  F  *  I  *  F  F  F  L  I  K  S  T  F  I  F  G  *  K  F  I  Y  V  L  C  V  F  *  S  F  E  *  E  N  I  *  R  F  N  K  Q  K  N  K  N  H  N  I  V  M  S  N  A  I  N  I  R  A  S  *  V  F  V  C  C  T  I  F  S  V  A  Q  F  S  I  A  S  E  *  S  E  *  Y  R  N  K  Q  S  S  K  L  N  L  K  T  M  W  L  F  K  R  N  G  P  S  G  F  S  Y  S  S  T  A  E  E  V  T  H  G  I  D  G  S  G  L  T  A  I  V  T   : G  A  S  S  G  I  G  A  E  T  S  R  V  L  A  L  R  G  V  H  V  I  M  A  V  R  N  M  T  A  G  K  D  V  K  E  A  I  V  K  E  I  P  A  A  K  V  D  V  M  E  L  D  L  S  S  F  D  S  V  K  K  F  A  A  D  F  I  S  S  G  H  S  L  N  I  L  I :   N  N  A  G  V  M  A  I  P  F  M  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  L   : G  H  F  L  L  T  N  L  L  L  E  K  M  K  E  T  A  S  E  T  K  R  E  G  R  I  V  N  V  A  S  D  A  H  Y  V  T  Y  R  E  G  I  L  F  D  K  I  N  D  Q  E  S :   Y  R  K  F  S  A  Y  G  Q  S  K  M  A  N  I  L  S  T  Y  E  L  A  K  R  L  K  :  F  C  S   </first_frame>
            <second_frame>  Q  R  R  L  L  I  S  *  I  E  I  L  S  F  K  Y  N  F  F  F  *  *  K  V  L  S  S  L  G  K  N  L  F  M  Y  Y  A  F  F  N  L  S  S  K  K  I  Y  R  D  L  T  N  K  K  T  K  I  T  I  *  *  *  V  M  P  S  I  S  V  Q  A  E  F  L  S  V  A  P  F  S  Q  L  H  N  F  P  *  L  V  N  R  V  S  D  T  E  T  S  R  A  A  N  *  T  L  K  L  C  G  F  S  K  E  M  D  H  L  G  F  R  I  P  L  L  L  K  K  *  P  M  E  S  T  A  P  V  S  P  P  L  L  Q  :  E  H  L  V  V  L  V  L  K  L  A  V  F  L  L  C  A  E  F  M  L  S  W  L  L  G  I  *  L  L  E  K  M  L  K  K  Q  *  L  R  K  S  L  L  P  K  *  M  *  W  N  *  I  L  V  H  L  I  Q  *  R  N  L  Q  L  I  L  Y  H  R  V  T  H  *  T  S  *   : L  I  M  Q  A  *  W  Q  F  P  L  C  S  P  K  T  I  *  S  C  N  L  P  Q  I  I  *  :  V  T  S  F  *  Q  I  C  C  W  R  R  *  R  R  Q  H  L  K  Q  R  E  R  E  G  *  S  M  L  H  Q  T  L  I  M  L  H  I  V  R  E  F  C  L  T  K  L  M  T  R  K   : A  T  E  S  S  R  H  M  A  N  Q  R  W  L  T  Y  C  Q  H  M  S  S  R  S  A  *  S :   F  A  P  </second_frame>
            <third_frame>   K  E  D  C  S  S  L  K  *  R  S  *  V  L  N  I  I  F  F  F  N  K  K  Y  F  H  L  W  V  K  I  Y  L  C  I  M  R  F  L  I  F  R  V  R  K  Y  I  E  I  *  Q  T  K  K  Q  K  S  Q  Y  S  N  E  *  C  H  Q  Y  P  C  K  L  S  F  C  L  L  H  H  F  L  S  C  T  I  F  H  S  *  *  I  E  *  V  I  Q  K  Q  A  E  Q  Q  I  E  P  *  N  Y  V  A  F  Q  K  K  W  T  I  W  V  F  V  F  L  Y  C  *  R  S  N  P  W  N  R  R  L  R  S  H  R  H  C  Y  R :   S  I  *  W  Y  W  C  *  N  *  P  C  S  C  S  A  R  S  S  C  Y  H  G  C  *  E  Y  D  C  W  K  R  C  *  R  S  N  S  *  G  N  P  C  C  Q  S  R  C  N  G  I  R  S  *  F  I  *  F  S  E  E  I  C  S  *  F  Y  I  I  G  S  L  I  E  H  L  N  :  *  *  C  R  R  D  G  N  S  L  Y  A  L  Q  R  Q  Y  R  A  A  I  C  H  K  S  S  R :   S  L  P  F  D  K  F  V  V  G  E  D  E  G  D  S  I  *  N  K  E  R  G  K  D  S  Q  C  C  I  R  R  S  L  C  Y  I  S  *  G  N  S  V  *  Q  N  *  *  P  G  K  :  L  Q  K  V  L  G  I  W  P  I  K  D  G  *  H  T  V  N  I  *  A  R  E  A  L  K   : V  L  L  H </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22866" stop="22722"/>
                    <exon start="22349" stop="22118"/>
                    <exon start="22021" stop="21942"/>
                    <exon start="21216" stop="21063"/>
                    <exon start="20630" stop="20552"/>
                    <exon start="20476" stop="20468"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>699</number_coding_nucleotides>
                  <number_encoded_amino_acids>233</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>YRNKQSSKLNLKTMWLFKRNGPSGFSYSSTAEEVTHGIDGSGLTAIVTGASSGIGAETSRVLALRGVHVIMAVRNMTAGKDVKEAIVKEIPAAKVDVMELDLSSFDSVKKFAADFISSGHSLNILINNAGVMAIPFMLSKDNIELQFATNHLGHFLLTNLLLEKMKETASETKREGRIVNVASDAHYVTYREGILFDKINDQESYRKFSAYGQSKMANILSTYELAKRLKFCS</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="4">
          <exon_coordinates>
            <exon e_start="23148" e_stop="22722"/>
            <exon e_start="22349" e_stop="22118"/>
            <exon e_start="22021" e_stop="21942"/>
            <exon e_start="21216" e_stop="21063"/>
            <exon e_start="20630" e_stop="20552"/>
            <exon e_start="20382" e_stop="20311"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.802" acc_prob="0.879" e_score="1.000"/>
          <exon-intron don_prob="0.557" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.980" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.991" acc_prob="0.816" e_score="1.000"/>
          <exon-only e_score="0.958"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="23148" e_stop="22722" e_length="427"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.996">
            <gDNA_intron_boundary i_start="22721" i_stop="22350" i_length="372"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="22349" e_stop="22118" e_length="232"/>
          </exon>
          <intron i_serial="2" don_prob="0.802" acc_prob="0.879">
            <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="22021" e_stop="21942" e_length="80"/>
          </exon>
          <intron i_serial="3" don_prob="0.557" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="21216" e_stop="21063" e_length="154"/>
          </exon>
          <intron i_serial="4" don_prob="0.980" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="20630" e_stop="20552" e_length="79"/>
          </exon>
          <intron i_serial="5" don_prob="0.991" acc_prob="0.816">
            <gDNA_intron_boundary i_start="20551" i_stop="20383" i_length="169"/>
          </intron>
          <exon e_serial="6" e_score="0.958">
            <gDNA_exon_boundary e_start="20382" e_stop="20311" e_length="72"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22722"/>
              <exon start="22349" stop="22245"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243775" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22722"/>
              <exon start="22349" stop="22252"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E241920" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23148" stop="22750"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243594" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23140" stop="22722"/>
              <exon start="22349" stop="22307"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228416" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22955" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="22014"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324276" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22953" stop="22722"/>
              <exon start="22349" stop="22129"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219462" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22937" stop="22722"/>
              <exon start="22349" stop="22123"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219033" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20576"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326490" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20613"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370789" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21143"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371218" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22722"/>
              <exon start="22349" stop="22176"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328241" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22751"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271878" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22911" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21167"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271051" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22898" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21096"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340774" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22898" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21133"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298566" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22896" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21945"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339605" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22886" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20382" stop="20311"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E730268" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22874" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21084"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211860" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22858" stop="22722"/>
              <exon start="22349" stop="22118"/>
              <exon start="22021" stop="21960"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295428" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="4" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCAAAGAAGATTGCTCATCTCTTAAATAGAGATCTTGAGTTTTAAATATAATTTTTTTTTTTAATAAAAAGTACTTTCATCTTTGGGTAAAAATTTATTTATGTATTATGCGTTTTTTAATCTTTCGAGTAAGAAAATATATAGAGATTTAACAAACAAAAAAACAAAAATCACAATATAGTAATGAGTAATGCCATCAATATCCGTGCAAGCTGAGTTTTTGTCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCCATGGAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG : GAGCATCTAGTGGTATTGGTGCTGAAACTAGCCGTGTTCTTGCTCTGCGCGGAGTTCATGTTATCATGGCTGTTAGGAATATGACTGCTGGAAAAGATGTTAAAGAAGCAATAGTTAAGGAAATCCCTGCTGCCAAAGTAGATGTAATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT : TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG : GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG : CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG : TTCCTGGCCTCTGTATTCAATCATAGCTAGAGCTGAGGGGTCCATGTTATGCAACTAAACTCTTAAGAATTT</gDNA_template>
            <first_frame> S  K  K  I  A  H  L  L  N  R  D  L  E  F  *  I  *  F  F  F  L  I  K  S  T  F  I  F  G  *  K  F  I  Y  V  L  C  V  F  *  S  F  E  *  E  N  I  *  R  F  N  K  Q  K  N  K  N  H  N  I  V  M  S  N  A  I  N  I  R  A  S  *  V  F  V  C  C  T  I  F  S  V  A  Q  F  S  I  A  S  E  *  S  E  *  Y  R  N  K  Q  S  S  K  L  N  L  K  T  M  W  L  F  K  R  N  G  P  S  G  F  S  Y  S  S  T  A  E  E  V  T  H  G  I  D  G  S  G  L  T  A  I  V  T   : G  A  S  S  G  I  G  A  E  T  S  R  V  L  A  L  R  G  V  H  V  I  M  A  V  R  N  M  T  A  G  K  D  V  K  E  A  I  V  K  E  I  P  A  A  K  V  D  V  M  E  L  D  L  S  S  F  D  S  V  K  K  F  A  A  D  F  I  S  S  G  H  S  L  N  I  L  I :   N  N  A  G  V  M  A  I  P  F  M  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  L   : G  H  F  L  L  T  N  L  L  L  E  K  M  K  E  T  A  S  E  T  K  R  E  G  R  I  V  N  V  A  S  D  A  H  Y  V  T  Y  R  E  G  I  L  F  D  K  I  N  D  Q  E  S :   Y  R  K  F  S  A  Y  G  Q  S  K  M  A  N  I  L  S  T  Y  E  L  A  K  R  L  K  :  F  L  A  S  V  F  N  H  S  *  S  *  G  V  H  V  M  Q  L  N  S  *  E  F </first_frame>
            <second_frame>  Q  R  R  L  L  I  S  *  I  E  I  L  S  F  K  Y  N  F  F  F  *  *  K  V  L  S  S  L  G  K  N  L  F  M  Y  Y  A  F  F  N  L  S  S  K  K  I  Y  R  D  L  T  N  K  K  T  K  I  T  I  *  *  *  V  M  P  S  I  S  V  Q  A  E  F  L  S  V  A  P  F  S  Q  L  H  N  F  P  *  L  V  N  R  V  S  D  T  E  T  S  R  A  A  N  *  T  L  K  L  C  G  F  S  K  E  M  D  H  L  G  F  R  I  P  L  L  L  K  K  *  P  M  E  S  T  A  P  V  S  P  P  L  L  Q  :  E  H  L  V  V  L  V  L  K  L  A  V  F  L  L  C  A  E  F  M  L  S  W  L  L  G  I  *  L  L  E  K  M  L  K  K  Q  *  L  R  K  S  L  L  P  K  *  M  *  W  N  *  I  L  V  H  L  I  Q  *  R  N  L  Q  L  I  L  Y  H  R  V  T  H  *  T  S  *   : L  I  M  Q  A  *  W  Q  F  P  L  C  S  P  K  T  I  *  S  C  N  L  P  Q  I  I  *  :  V  T  S  F  *  Q  I  C  C  W  R  R  *  R  R  Q  H  L  K  Q  R  E  R  E  G  *  S  M  L  H  Q  T  L  I  M  L  H  I  V  R  E  F  C  L  T  K  L  M  T  R  K   : A  T  E  S  S  R  H  M  A  N  Q  R  W  L  T  Y  C  Q  H  M  S  S  R  S  A  *  S :   S  W  P  L  Y  S  I  I  A  R  A  E  G  S  M  L  C  N  *  T  L  K  N   </second_frame>
            <third_frame>   K  E  D  C  S  S  L  K  *  R  S  *  V  L  N  I  I  F  F  F  N  K  K  Y  F  H  L  W  V  K  I  Y  L  C  I  M  R  F  L  I  F  R  V  R  K  Y  I  E  I  *  Q  T  K  K  Q  K  S  Q  Y  S  N  E  *  C  H  Q  Y  P  C  K  L  S  F  C  L  L  H  H  F  L  S  C  T  I  F  H  S  *  *  I  E  *  V  I  Q  K  Q  A  E  Q  Q  I  E  P  *  N  Y  V  A  F  Q  K  K  W  T  I  W  V  F  V  F  L  Y  C  *  R  S  N  P  W  N  R  R  L  R  S  H  R  H  C  Y  R :   S  I  *  W  Y  W  C  *  N  *  P  C  S  C  S  A  R  S  S  C  Y  H  G  C  *  E  Y  D  C  W  K  R  C  *  R  S  N  S  *  G  N  P  C  C  Q  S  R  C  N  G  I  R  S  *  F  I  *  F  S  E  E  I  C  S  *  F  Y  I  I  G  S  L  I  E  H  L  N  :  *  *  C  R  R  D  G  N  S  L  Y  A  L  Q  R  Q  Y  R  A  A  I  C  H  K  S  S  R :   S  L  P  F  D  K  F  V  V  G  E  D  E  G  D  S  I  *  N  K  E  R  G  K  D  S  Q  C  C  I  R  R  S  L  C  Y  I  S  *  G  N  S  V  *  Q  N  *  *  P  G  K  :  L  Q  K  V  L  G  I  W  P  I  K  D  G  *  H  T  V  N  I  *  A  R  E  A  L  K   : V  P  G  L  C  I  Q  S  *  L  E  L  R  G  P  C  Y  A  T  K  L  L  R  I  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="4" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22866" stop="22722"/>
                    <exon start="22349" stop="22118"/>
                    <exon start="22021" stop="21942"/>
                    <exon start="21216" stop="21063"/>
                    <exon start="20630" stop="20552"/>
                    <exon start="20382" stop="20353"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>717</number_coding_nucleotides>
                  <number_encoded_amino_acids>239</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>YRNKQSSKLNLKTMWLFKRNGPSGFSYSSTAEEVTHGIDGSGLTAIVTGASSGIGAETSRVLALRGVHVIMAVRNMTAGKDVKEAIVKEIPAAKVDVMELDLSSFDSVKKFAADFISSGHSLNILINNAGVMAIPFMLSKDNIELQFATNHLGHFLLTNLLLEKMKETASETKREGRIVNVASDAHYVTYREGILFDKINDQESYRKFSAYGQSKMANILSTYELAKRLKFLASVFNHS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="5">
          <exon_coordinates>
            <exon e_start="22925" e_stop="22761"/>
            <exon e_start="22203" e_stop="22118"/>
            <exon e_start="22021" e_stop="21942"/>
            <exon e_start="21216" e_stop="21063"/>
            <exon e_start="20630" e_stop="20552"/>
            <exon e_start="20287" e_stop="20203"/>
            <exon e_start="19880" e_stop="19834"/>
            <exon e_start="19732" e_stop="19360"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.802" acc_prob="0.879" e_score="1.000"/>
          <exon-intron don_prob="0.557" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.980" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.991" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.857" e_score="1.000"/>
          <exon-intron don_prob="0.977" acc_prob="0.771" e_score="1.000"/>
          <exon-only e_score="0.989"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="22925" e_stop="22761" e_length="165"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="22760" i_stop="22204" i_length="557"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="22203" e_stop="22118" e_length="86"/>
          </exon>
          <intron i_serial="2" don_prob="0.802" acc_prob="0.879">
            <gDNA_intron_boundary i_start="22117" i_stop="22022" i_length="96"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="22021" e_stop="21942" e_length="80"/>
          </exon>
          <intron i_serial="3" don_prob="0.557" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21941" i_stop="21217" i_length="725"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="21216" e_stop="21063" e_length="154"/>
          </exon>
          <intron i_serial="4" don_prob="0.980" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21062" i_stop="20631" i_length="432"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="20630" e_stop="20552" e_length="79"/>
          </exon>
          <intron i_serial="5" don_prob="0.991" acc_prob="0.999">
            <gDNA_intron_boundary i_start="20551" i_stop="20288" i_length="264"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="20287" e_stop="20203" e_length="85"/>
          </exon>
          <intron i_serial="6" don_prob="0.999" acc_prob="0.857">
            <gDNA_intron_boundary i_start="20202" i_stop="19881" i_length="322"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="19880" e_stop="19834" e_length="47"/>
          </exon>
          <intron i_serial="7" don_prob="0.977" acc_prob="0.771">
            <gDNA_intron_boundary i_start="19833" i_stop="19733" i_length="101"/>
          </intron>
          <exon e_serial="8" e_score="0.989">
            <gDNA_exon_boundary e_start="19732" e_stop="19360" e_length="373"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22925" stop="22761"/>
              <exon start="22203" stop="22118"/>
              <exon start="22021" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19701"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339977" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21998" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19490"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323174" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21994" stop="21942"/>
              <exon start="21216" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19665"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E253142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21170" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19434"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E345159" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21133" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19448"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E552036" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21133" stop="21063"/>
              <exon start="20630" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19448"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E552273" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="20599" stop="20552"/>
              <exon start="20287" stop="20203"/>
              <exon start="19880" stop="19834"/>
              <exon start="19732" stop="19360"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371217" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="5" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCTGTTGCACCATTTTCTCAGTTGCACAATTTTCCATAGCTAGTGAATAGAGTGAGTGATACAGAAACAAGCAGAGCAGCAAATTGAACCTTAAAACTATGTGGCTTTTCAAAAGAAATGGACCATCTGGGTTTTCGTATTCCTCTACTGCTGAAGAAGTAACCC : ATGGAATTAGATCTTAGTTCATTTGATTCAGTGAAGAAATTTGCAGCTGATTTTATATCATCGGGTCACTCATTGAACATCTTAAT : TAATAATGCAGGCGTGATGGCAATTCCCTTTATGCTCTCCAAAGACAATATAGAGCTGCAATTTGCCACAAATCATCTAG : GTCACTTCCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCATCTGAAACAAAGAGAGAGGGAAGGATAGTCAATGTTGCATCAGACGCTCATTATGTTACATATCGTGAGGGAATTCTGTTTGACAAAATTAATGACCAGGAAAG : CTACAGAAAGTTCTCGGCATATGGCCAATCAAAGATGGCTAACATACTGTCAACATATGAGCTCGCGAAGCGCTTAAAG : GAAGACGGTGTGGAAATAACTGCAAACACACTTAATCCTGGAGCAATCTCAAGCAATCTTTTCCGTCATATGACTATCGTTAATG : GCTTAGTAAGCACGATTGGAAAACTCCTGCTTAAAAATGTTCAACAG : GGAGCATCAACCACCTGTTATATAGCATTGAATCCACAAGTGAAGGGGGTGAGTGGTGAATATTTTCAGGACAACAATTTGGCCACCCCATCGAAGAAGGCTAGGGACATGGATTTGGCTAAGAAACTCTGGGATTTTAGTGTGGATTTGGTTAAGTAACAAACAACATATATCAGTAAGTAAGTTGTGGTGTGCATTAGTCGGTTTGATTCGATTCTATGTATTATCGGTTTTCAATTTTTAAATAAGCTAAACCAATAATAAAATAATAAGATATTTTTTATCGTTTATCGATTTACCCAATAAGAAAATGTTCATAAAATATATATATATATATATAATTTCTCACTTCTCTATTTGACATAATACAATG</gDNA_template>
            <first_frame> S  V  A  P  F  S  Q  L  H  N  F  P  *  L  V  N  R  V  S  D  T  E  T  S  R  A  A  N  *  T  L  K  L  C  G  F  S  K  E  M  D  H  L  G  F  R  I  P  L  L  L  K  K  *  P  :  M  E  L  D  L  S  S  F  D  S  V  K  K  F  A  A  D  F  I  S  S  G  H  S  L  N  I  L  I :   N  N  A  G  V  M  A  I  P  F  M  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  L   : G  H  F  L  L  T  N  L  L  L  E  K  M  K  E  T  A  S  E  T  K  R  E  G  R  I  V  N  V  A  S  D  A  H  Y  V  T  Y  R  E  G  I  L  F  D  K  I  N  D  Q  E  S :   Y  R  K  F  S  A  Y  G  Q  S  K  M  A  N  I  L  S  T  Y  E  L  A  K  R  L  K  :  E  D  G  V  E  I  T  A  N  T  L  N  P  G  A  I  S  S  N  L  F  R  H  M  T  I  V  N   : G  L  V  S  T  I  G  K  L  L  L  K  N  V  Q  Q  :  G  A  S  T  T  C  Y  I  A  L  N  P  Q  V  K  G  V  S  G  E  Y  F  Q  D  N  N  L  A  T  P  S  K  K  A  R  D  M  D  L  A  K  K  L  W  D  F  S  V  D  L  V  K  *  Q  T  T  Y  I  S  K  *  V  V  V  C  I  S  R  F  D  S  I  L  C  I  I  G  F  Q  F  L  N  K  L  N  Q  *  *  N  N  K  I  F  F  I  V  Y  R  F  T  Q  *  E  N  V  H  K  I  Y  I  Y  I  Y  N  F  S  L  L  Y  L  T  *  Y  N  </first_frame>
            <second_frame>  L  L  H  H  F  L  S  C  T  I  F  H  S  *  *  I  E  *  V  I  Q  K  Q  A  E  Q  Q  I  E  P  *  N  Y  V  A  F  Q  K  K  W  T  I  W  V  F  V  F  L  Y  C  *  R  S  N  P :   W  N  *  I  L  V  H  L  I  Q  *  R  N  L  Q  L  I  L  Y  H  R  V  T  H  *  T  S  *   : L  I  M  Q  A  *  W  Q  F  P  L  C  S  P  K  T  I  *  S  C  N  L  P  Q  I  I  *  :  V  T  S  F  *  Q  I  C  C  W  R  R  *  R  R  Q  H  L  K  Q  R  E  R  E  G  *  S  M  L  H  Q  T  L  I  M  L  H  I  V  R  E  F  C  L  T  K  L  M  T  R  K   : A  T  E  S  S  R  H  M  A  N  Q  R  W  L  T  Y  C  Q  H  M  S  S  R  S  A  *  R :   K  T  V  W  K  *  L  Q  T  H  L  I  L  E  Q  S  Q  A  I  F  S  V  I  *  L  S  L  M  :  A  *  *  A  R  L  E  N  S  C  L  K  M  F  N  R :   E  H  Q  P  P  V  I  *  H  *  I  H  K  *  R  G  *  V  V  N  I  F  R  T  T  I  W  P  P  H  R  R  R  L  G  T  W  I  W  L  R  N  S  G  I  L  V  W  I  W  L  S  N  K  Q  H  I  S  V  S  K  L  W  C  A  L  V  G  L  I  R  F  Y  V  L  S  V  F  N  F  *  I  S  *  T  N  N  K  I  I  R  Y  F  L  S  F  I  D  L  P  N  K  K  M  F  I  K  Y  I  Y  I  Y  I  I  S  H  F  S  I  *  H  N  T  M </second_frame>
            <third_frame>   C  C  T  I  F  S  V  A  Q  F  S  I  A  S  E  *  S  E  *  Y  R  N  K  Q  S  S  K  L  N  L  K  T  M  W  L  F  K  R  N  G  P  S  G  F  S  Y  S  S  T  A  E  E  V  T   : H  G  I  R  S  *  F  I  *  F  S  E  E  I  C  S  *  F  Y  I  I  G  S  L  I  E  H  L  N  :  *  *  C  R  R  D  G  N  S  L  Y  A  L  Q  R  Q  Y  R  A  A  I  C  H  K  S  S  R :   S  L  P  F  D  K  F  V  V  G  E  D  E  G  D  S  I  *  N  K  E  R  G  K  D  S  Q  C  C  I  R  R  S  L  C  Y  I  S  *  G  N  S  V  *  Q  N  *  *  P  G  K  :  L  Q  K  V  L  G  I  W  P  I  K  D  G  *  H  T  V  N  I  *  A  R  E  A  L  K   : G  R  R  C  G  N  N  C  K  H  T  *  S  W  S  N  L  K  Q  S  F  P  S  Y  D  Y  R  *  W :   L  S  K  H  D  W  K  T  P  A  *  K  C  S  T   : G  S  I  N  H  L  L  Y  S  I  E  S  T  S  E  G  G  E  W  *  I  F  S  G  Q  Q  F  G  H  P  I  E  E  G  *  G  H  G  F  G  *  E  T  L  G  F  *  C  G  F  G  *  V  T  N  N  I  Y  Q  *  V  S  C  G  V  H  *  S  V  *  F  D  S  M  Y  Y  R  F  S  I  F  K  *  A  K  P  I  I  K  *  *  D  I  F  Y  R  L  S  I  Y  P  I  R  K  C  S  *  N  I  Y  I  Y  I  *  F  L  T  S  L  F  D  I  I  Q   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="5" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22763" stop="22761"/>
                    <exon start="22203" stop="22118"/>
                    <exon start="22021" stop="21942"/>
                    <exon start="21216" stop="21063"/>
                    <exon start="20630" stop="20552"/>
                    <exon start="20287" stop="20203"/>
                    <exon start="19880" stop="19834"/>
                    <exon start="19732" stop="19574"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>690</number_coding_nucleotides>
                  <number_encoded_amino_acids>230</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PMELDLSSFDSVKKFAADFISSGHSLNILINNAGVMAIPFMLSKDNIELQFATNHLGHFLLTNLLLEKMKETASETKREGRIVNVASDAHYVTYREGILFDKINDQESYRKFSAYGQSKMANILSTYELAKRLKEDGVEITANTLNPGAISSNLFRHMTIVNGLVSTIGKLLLKNVQQGASTTCYIALNPQVKGVSGEYFQDNNLATPSKKARDMDLAKKLWDFSVDLVK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="29158" PGL_stop="25057"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="29158" e_stop="29008"/>
            <exon e_start="27817" e_stop="27586"/>
            <exon e_start="27454" e_stop="27375"/>
            <exon e_start="26901" e_stop="26745"/>
            <exon e_start="26438" e_stop="25999"/>
            <exon e_start="25546" e_stop="25500"/>
            <exon e_start="25366" e_stop="25057"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.936" acc_prob="0.964" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.982" acc_prob="0.717" e_score="1.000"/>
          <exon-only e_score="0.984"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="29158" e_stop="29008" e_length="151"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.990">
            <gDNA_intron_boundary i_start="29007" i_stop="27818" i_length="1190"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="27817" e_stop="27586" e_length="232"/>
          </exon>
          <intron i_serial="2" don_prob="0.936" acc_prob="0.964">
            <gDNA_intron_boundary i_start="27585" i_stop="27455" i_length="131"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="27454" e_stop="27375" e_length="80"/>
          </exon>
          <intron i_serial="3" don_prob="0.000" acc_prob="1.000">
            <gDNA_intron_boundary i_start="27374" i_stop="26902" i_length="473"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="26901" e_stop="26745" e_length="157"/>
          </exon>
          <intron i_serial="4" don_prob="0.999" acc_prob="0.999">
            <gDNA_intron_boundary i_start="26744" i_stop="26439" i_length="306"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="26438" e_stop="25999" e_length="440"/>
          </exon>
          <intron i_serial="5" don_prob="0.999" acc_prob="0.990">
            <gDNA_intron_boundary i_start="25998" i_stop="25547" i_length="452"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="25546" e_stop="25500" e_length="47"/>
          </exon>
          <intron i_serial="6" don_prob="0.982" acc_prob="0.717">
            <gDNA_intron_boundary i_start="25499" i_stop="25367" i_length="133"/>
          </intron>
          <exon e_serial="7" e_score="0.984">
            <gDNA_exon_boundary e_start="25366" e_stop="25057" e_length="310"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29158" stop="29008"/>
              <exon start="27817" stop="27586"/>
              <exon start="27454" stop="27375"/>
              <exon start="26901" stop="26745"/>
              <exon start="26438" stop="26372"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E697621" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29137" stop="29008"/>
              <exon start="27817" stop="27586"/>
              <exon start="27454" stop="27375"/>
              <exon start="26901" stop="26877"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323404" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29089" stop="29008"/>
              <exon start="27817" stop="27586"/>
              <exon start="27454" stop="27375"/>
              <exon start="26901" stop="26745"/>
              <exon start="26438" stop="26374"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E248593" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29083" stop="29008"/>
              <exon start="27817" stop="27586"/>
              <exon start="27454" stop="27375"/>
              <exon start="26901" stop="26745"/>
              <exon start="26438" stop="26148"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E378262" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29083" stop="29008"/>
              <exon start="27817" stop="27586"/>
              <exon start="27454" stop="27375"/>
              <exon start="26901" stop="26745"/>
              <exon start="26438" stop="26244"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E369501" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="26347" stop="25999"/>
              <exon start="25546" stop="25500"/>
              <exon start="25366" stop="25057"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E369500" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AAGCAACGGGAGAGAAGTAAATAAACTACTGGTTCCTGTACTATGTGGGTTTTTAATAGATCAAAAGGGCGATCTGGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG : GAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAAT : TAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAG : GTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAG : CTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCACAAGACGCTTAAAGGTGCTTTTCAGAAAATAAATAATCACATGTTTTTTTTTTGTGTTCTAATAATTTTTGTTTTGGCGGTTCTTGTGTAGTCATGACATGTCTCCATTCCTCGCGACCAAACACATATTTCTTGGAGTTGATATTTGGTATTCCATTTTGCACATTGAGAAATCGTGATTTAATTTCCAGTATCTGATTTCTGTAGCCACAGCCATAGCTTTGGCTTAGGGGTTCGATGCCATTCAATTGAACTCTAAAAATCTGAGTGCTCTTTGTTATTTTGAATAGGAAGGAGGAGTGGAAATAACAGCAAATTCACTTCATCCTGGAACAATCACAACCAATATGTTTCGTCATCTGGGCATTTTTGATG : GTCTTGTAAGCAAGTTTGGGAAGTTTATTTTTAAAAACGTTCAACAG : GGAGCATCAACCACTTGCTATGTTGCATTGCATCCACAATTGAAGGGGATAAGTGGTGAATATTTTTGTGACAACAATTTGGGGACAACAACAGCTATTGCTAGAGATATGGATTTAGCTAAAAGGCTCTGGGATTTTAGTATGGAATTAGTTAAGGAGTAACATGTAAGATGTTGTACCAGTAAGAGAGAAAAAATAACTTTGTATTTAATAGTTTGTGATGTTTATTTTTGTATCATATAGAGAAATAAGATGTTGTACCTAACTGAGAGTGTTCACCGAAGAAAAAGCTTTTTCGAGTAGTGAGGAA</gDNA_template>
            <first_frame> K  Q  R  E  R  S  K  *  T  T  G  S  C  T  M  W  V  F  N  R  S  K  G  R  S  G  F  S  Y  S  S  T  A  E  E  V  T  D  E  I  D  G  S  G  L  T  A  I  V  T   : G  A  S  R  G  I  G  A  E  T  S  R  V  L  A  L  R  G  V  H  V  I  M  A  V  R  N  I  A  A  G  K  D  V  K  E  A  I  V  K  E  I  S  A  A  K  V  D  I  M  E  L  D  L  S  S  L  A  S  V  R  K  F  A  A  D  F  I  S  S  G  H  S  L  N  M  L  I :   N  N  A  G  V  V  G  I  P  F  M  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  L   : G  H  F  L  L  T  N  L  L  L  D  K  M  K  E  T  T  R  K  T  E  R  E  G  R  I  I  N  V  S  S  V  A  Y  C  M  F  T  Y  R  E  G  I  R  F  G  K  I  N  D  P  K  S :   Y  C  S  F  W  A  Y  G  Q  S  K  L  A  N  I  L  H  A  Y  E  L  T  R  R  L  K  V  L  F  R  K  *  I  I  T  C  F  F  F  V  F  *  *  F  L  F  W  R  F  L  C  S  H  D  M  S  P  F  L  A  T  K  H  I  F  L  G  V  D  I  W  Y  S  I  L  H  I  E  K  S  *  F  N  F  Q  Y  L  I  S  V  A  T  A  I  A  L  A  *  G  F  D  A  I  Q  L  N  S  K  N  L  S  A  L  C  Y  F  E  *  E  G  G  V  E  I  T  A  N  S  L  H  P  G  T  I  T  T  N  M  F  R  H  L  G  I  F  D   : G  L  V  S  K  F  G  K  F  I  F  K  N  V  Q  Q  :  G  A  S  T  T  C  Y  V  A  L  H  P  Q  L  K  G  I  S  G  E  Y  F  C  D  N  N  L  G  T  T  T  A  I  A  R  D  M  D  L  A  K  R  L  W  D  F  S  M  E  L  V  K  E  *  H  V  R  C  C  T  S  K  R  E  K  I  T  L  Y  L  I  V  C  D  V  Y  F  C  I  I  *  R  N  K  M  L  Y  L  T  E  S  V  H  R  R  K  S  F  F  E  *  *  G  </first_frame>
            <second_frame>  S  N  G  R  E  V  N  K  L  L  V  P  V  L  C  G  F  L  I  D  Q  K  G  D  L  G  F  P  I  P  P  L  L  K  K  S  P  M  K  S  T  A  P  V  S  P  P  L  L  Q  :  E  H  Q  G  V  L  V  L  K  L  A  V  F  *  L  C  V  E  F  M  L  S  W  L  S  G  I  *  L  L  E  K  M  L  K  K  Q  *  *  R  K  S  Q  Q  L  K  L  I  *  W  S  *  I  L  A  H  W  H  Q  *  G  N  L  Q  L  I  L  Y  H  Q  V  T  H  *  T  C  *   : L  I  M  Q  E  W  W  E  F  P  L  C  F  P  K  I  T  *  S  C  N  L  P  R  I  I  *  :  V  I  F  F  *  Q  I  C  C  W  T  R  *  R  R  Q  H  V  K  Q  R  E  R  E  G  L  L  M  C  L  Q  *  L  I  V  C  S  H  I  A  R  E  F  A  L  A  K  L  M  I  P  K   : A  T  V  V  F  G  H  T  D  N  Q  S  W  P  T  Y  C  M  L  M  S  S  Q  D  A  *  R  C  F  S  E  N  K  *  S  H  V  F  F  L  C  S  N  N  F  C  F  G  G  S  C  V  V  M  T  C  L  H  S  S  R  P  N  T  Y  F  L  E  L  I  F  G  I  P  F  C  T  L  R  N  R  D  L  I  S  S  I  *  F  L  *  P  Q  P  *  L  W  L  R  G  S  M  P  F  N  *  T  L  K  I  *  V  L  F  V  I  L  N  R  K  E  E  W  K  *  Q  Q  I  H  F  I  L  E  Q  S  Q  P  I  C  F  V  I  W  A  F  L  M  :  V  L  *  A  S  L  G  S  L  F  L  K  T  F  N  R :   E  H  Q  P  L  A  M  L  H  C  I  H  N  *  R  G  *  V  V  N  I  F  V  T  T  I  W  G  Q  Q  Q  L  L  L  E  I  W  I  *  L  K  G  S  G  I  L  V  W  N  *  L  R  S  N  M  *  D  V  V  P  V  R  E  K  K  *  L  C  I  *  *  F  V  M  F  I  F  V  S  Y  R  E  I  R  C  C  T  *  L  R  V  F  T  E  E  K  A  F  S  S  S  E  E </second_frame>
            <third_frame>   A  T  G  E  K  *  I  N  Y  W  F  L  Y  Y  V  G  F  *  *  I  K  R  A  I  W  V  F  L  F  L  H  C  *  R  S  H  R  *  N  R  R  L  R  S  H  R  H  C  Y  R :   S  I  K  G  Y  W  C  *  N  *  P  C  S  S  S  A  W  S  S  C  Y  H  G  C  Q  E  Y  S  C  W  K  R  C  *  R  S  N  S  K  G  N  L  S  S  *  S  *  Y  N  G  V  R  S  *  L  I  G  I  S  K  E  I  C  S  *  F  Y  I  I  R  S  L  I  E  H  A  N  :  *  *  C  R  S  G  G  N  S  L  Y  A  F  Q  R  *  H  R  A  A  I  C  H  E  S  S  R :   S  F  S  F  D  K  F  V  V  G  Q  D  E  G  D  N  T  *  N  R  E  R  G  K  D  Y  *  C  V  F  S  S  L  L  Y  V  H  I  S  R  G  N  S  L  W  Q  N  *  *  S  Q  K  :  L  L  *  F  L  G  I  R  T  I  K  A  G  Q  H  T  A  C  L  *  A  H  K  T  L  K  G  A  F  Q  K  I  N  N  H  M  F  F  F  C  V  L  I  I  F  V  L  A  V  L  V  *  S  *  H  V  S  I  P  R  D  Q  T  H  I  S  W  S  *  Y  L  V  F  H  F  A  H  *  E  I  V  I  *  F  P  V  S  D  F  C  S  H  S  H  S  F  G  L  G  V  R  C  H  S  I  E  L  *  K  S  E  C  S  L  L  F  *  I  G  R  R  S  G  N  N  S  K  F  T  S  S  W  N  N  H  N  Q  Y  V  S  S  S  G  H  F  *  W :   S  C  K  Q  V  W  E  V  Y  F  *  K  R  S  T   : G  S  I  N  H  L  L  C  C  I  A  S  T  I  E  G  D  K  W  *  I  F  L  *  Q  Q  F  G  D  N  N  S  Y  C  *  R  Y  G  F  S  *  K  A  L  G  F  *  Y  G  I  S  *  G  V  T  C  K  M  L  Y  Q  *  E  R  K  N  N  F  V  F  N  S  L  *  C  L  F  L  Y  H  I  E  K  *  D  V  V  P  N  *  E  C  S  P  K  K  K  L  F  R  V  V  R   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="29134" stop="29008"/>
                    <exon start="27817" stop="27586"/>
                    <exon start="27454" stop="27375"/>
                    <exon start="26901" stop="26745"/>
                    <exon start="26438" stop="26342"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>690</number_coding_nucleotides>
                  <number_encoded_amino_acids>230</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TTGSCTMWVFNRSKGRSGFSYSSTAEEVTDEIDGSGLTAIVTGASRGIGAETSRVLALRGVHVIMAVRNIAAGKDVKEAIVKEISAAKVDIMELDLSSLASVRKFAADFISSGHSLNMLINNAGVVGIPFMLSKDNIELQFATNHLGHFLLTNLLLDKMKETTRKTEREGRIINVSSVAYCMFTYREGIRFGKINDPKSYCSFWAYGQSKLANILHAYELTRRLKVLFRK*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="26083" stop="25999"/>
                    <exon start="25546" stop="25500"/>
                    <exon start="25366" stop="25205"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>291</number_coding_nucleotides>
                  <number_encoded_amino_acids>97</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EGGVEITANSLHPGTITTNMFRHLGIFDGLVSKFGKFIFKNVQQGASTTCYVALHPQLKGISGEYFCDNNLGTTTAIARDMDLAKRLWDFSMELVKE*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="27594" e_stop="27586"/>
            <exon e_start="27443" e_stop="27375"/>
            <exon e_start="26901" e_stop="26745"/>
            <exon e_start="26438" e_stop="26360"/>
            <exon e_start="26282" e_stop="25999"/>
            <exon e_start="25546" e_stop="25500"/>
            <exon e_start="25366" e_stop="25158"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.936" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.982" acc_prob="0.717" e_score="1.000"/>
          <exon-only e_score="0.976"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="27594" e_stop="27586" e_length="9"/>
          </exon>
          <intron i_serial="1" don_prob="0.936" acc_prob="0.996">
            <gDNA_intron_boundary i_start="27585" i_stop="27444" i_length="142"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="27443" e_stop="27375" e_length="69"/>
          </exon>
          <intron i_serial="2" don_prob="0.000" acc_prob="1.000">
            <gDNA_intron_boundary i_start="27374" i_stop="26902" i_length="473"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="26901" e_stop="26745" e_length="157"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.999">
            <gDNA_intron_boundary i_start="26744" i_stop="26439" i_length="306"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="26438" e_stop="26360" e_length="79"/>
          </exon>
          <intron i_serial="4" don_prob="0.998" acc_prob="0.999">
            <gDNA_intron_boundary i_start="26359" i_stop="26283" i_length="77"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="26282" e_stop="25999" e_length="284"/>
          </exon>
          <intron i_serial="5" don_prob="0.999" acc_prob="0.990">
            <gDNA_intron_boundary i_start="25998" i_stop="25547" i_length="452"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="25546" e_stop="25500" e_length="47"/>
          </exon>
          <intron i_serial="6" don_prob="0.982" acc_prob="0.717">
            <gDNA_intron_boundary i_start="25499" i_stop="25367" i_length="133"/>
          </intron>
          <exon e_serial="7" e_score="0.976">
            <gDNA_exon_boundary e_start="25366" e_stop="25158" e_length="209"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="27594" stop="27586"/>
              <exon start="27443" stop="27375"/>
              <exon start="26901" stop="26745"/>
              <exon start="26438" stop="26360"/>
              <exon start="26282" stop="25999"/>
              <exon start="25546" stop="25500"/>
              <exon start="25366" stop="25158"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E553979" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CATGCTAAT : GAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAG : GTCATTTTCTTTTGACAAATTTGTTGTTGGACAAGATGAAGGAGACAACACGTAAAACAGAGAGAGAGGGAAGGATTATTAATGTGTCTTCAGTAGCTTATTGTATGTTCACATATCGCGAGGGAATTCGCTTTGGCAAAATTAATGATCCCAAAAG : CTACTGTAGTTTTTGGGCATACGGACAATCAAAGCTGGCCAACATACTGCATGCTTATGAGCTCACAAGACGCTTAAAG : TCATGACATGTCTCCATTCCTCGCGACCAAACACATATTTCTTGGAGTTGATATTTGGTATTCCATTTTGCACATTGAGAAATCGTGATTTAATTTCCAGTATCTGATTTCTGTAGCCACAGCCATAGCTTTGGCTTAGGGGTTCGATGCCATTCAATTGAACTCTAAAAATCTGAGTGCTCTTTGTTATTTTGAATAGGAAGGAGGAGTGGAAATAACAGCAAATTCACTTCATCCTGGAACAATCACAACCAATATGTTTCGTCATCTGGGCATTTTTGATG : GTCTTGTAAGCAAGTTTGGGAAGTTTATTTTTAAAAACGTTCAACAG : GGAGCATCAACCACTTGCTATGTTGCATTGCATCCACAATTGAAGGGGATAAGTGGTGAATATTTTTGTGACAACAATTTGGGGACAACAACAGCTATTGCTAGAGATATGGATTTAGCTAAAAGGCTCTGGGATTTTAGTATGGAATTAGTTAAGGAGTAACATGTAAGATGTTGTACCAGTAAGAGAGAAAAAATAACTTTGTATTT</gDNA_template>
            <first_frame> H  A  N  :  E  W  W  E  F  P  L  C  F  P  K  I  T  *  S  C  N  L  P  R  I  I  *  :  V  I  F  F  *  Q  I  C  C  W  T  R  *  R  R  Q  H  V  K  Q  R  E  R  E  G  L  L  M  C  L  Q  *  L  I  V  C  S  H  I  A  R  E  F  A  L  A  K  L  M  I  P  K   : A  T  V  V  F  G  H  T  D  N  Q  S  W  P  T  Y  C  M  L  M  S  S  Q  D  A  *  S :   H  D  M  S  P  F  L  A  T  K  H  I  F  L  G  V  D  I  W  Y  S  I  L  H  I  E  K  S  *  F  N  F  Q  Y  L  I  S  V  A  T  A  I  A  L  A  *  G  F  D  A  I  Q  L  N  S  K  N  L  S  A  L  C  Y  F  E  *  E  G  G  V  E  I  T  A  N  S  L  H  P  G  T  I  T  T  N  M  F  R  H  L  G  I  F  D   : G  L  V  S  K  F  G  K  F  I  F  K  N  V  Q  Q  :  G  A  S  T  T  C  Y  V  A  L  H  P  Q  L  K  G  I  S  G  E  Y  F  C  D  N  N  L  G  T  T  T  A  I  A  R  D  M  D  L  A  K  R  L  W  D  F  S  M  E  L  V  K  E  *  H  V  R  C  C  T  S  K  R  E  K  I  T  L  Y   </first_frame>
            <second_frame>  M  L  M :   S  G  G  N  S  L  Y  A  F  Q  R  *  H  R  A  A  I  C  H  E  S  S  R :   S  F  S  F  D  K  F  V  V  G  Q  D  E  G  D  N  T  *  N  R  E  R  G  K  D  Y  *  C  V  F  S  S  L  L  Y  V  H  I  S  R  G  N  S  L  W  Q  N  *  *  S  Q  K  :  L  L  *  F  L  G  I  R  T  I  K  A  G  Q  H  T  A  C  L  *  A  H  K  T  L  K   : V  M  T  C  L  H  S  S  R  P  N  T  Y  F  L  E  L  I  F  G  I  P  F  C  T  L  R  N  R  D  L  I  S  S  I  *  F  L  *  P  Q  P  *  L  W  L  R  G  S  M  P  F  N  *  T  L  K  I  *  V  L  F  V  I  L  N  R  K  E  E  W  K  *  Q  Q  I  H  F  I  L  E  Q  S  Q  P  I  C  F  V  I  W  A  F  L  M  :  V  L  *  A  S  L  G  S  L  F  L  K  T  F  N  R :   E  H  Q  P  L  A  M  L  H  C  I  H  N  *  R  G  *  V  V  N  I  F  V  T  T  I  W  G  Q  Q  Q  L  L  L  E  I  W  I  *  L  K  G  S  G  I  L  V  W  N  *  L  R  S  N  M  *  D  V  V  P  V  R  E  K  K  *  L  C  I  </second_frame>
            <third_frame>   C  *   : *  V  V  G  I  P  F  M  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  L   : G  H  F  L  L  T  N  L  L  L  D  K  M  K  E  T  T  R  K  T  E  R  E  G  R  I  I  N  V  S  S  V  A  Y  C  M  F  T  Y  R  E  G  I  R  F  G  K  I  N  D  P  K  S :   Y  C  S  F  W  A  Y  G  Q  S  K  L  A  N  I  L  H  A  Y  E  L  T  R  R  L  K  :  S  *  H  V  S  I  P  R  D  Q  T  H  I  S  W  S  *  Y  L  V  F  H  F  A  H  *  E  I  V  I  *  F  P  V  S  D  F  C  S  H  S  H  S  F  G  L  G  V  R  C  H  S  I  E  L  *  K  S  E  C  S  L  L  F  *  I  G  R  R  S  G  N  N  S  K  F  T  S  S  W  N  N  H  N  Q  Y  V  S  S  S  G  H  F  *  W :   S  C  K  Q  V  W  E  V  Y  F  *  K  R  S  T   : G  S  I  N  H  L  L  C  C  I  A  S  T  I  E  G  D  K  W  *  I  F  L  *  Q  Q  F  G  D  N  N  S  Y  C  *  R  Y  G  F  S  *  K  A  L  G  F  *  Y  G  I  S  *  G  V  T  C  K  M  L  Y  Q  *  E  R  K  N  N  F  V  F </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="27441" stop="27375"/>
                    <exon start="26901" stop="26745"/>
                    <exon start="26438" stop="26360"/>
                    <exon start="26282" stop="26277"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>306</number_coding_nucleotides>
                  <number_encoded_amino_acids>102</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VVGIPFMLSKDNIELQFATNHLGHFLLTNLLLDKMKETTRKTEREGRIINVSSVAYCMFTYREGIRFGKINDPKSYCSFWAYGQSKLANILHAYELTRRLKS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="2" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="26083" stop="25999"/>
                    <exon start="25546" stop="25500"/>
                    <exon start="25366" stop="25205"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>291</number_coding_nucleotides>
                  <number_encoded_amino_acids>97</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EGGVEITANSLHPGTITTNMFRHLGIFDGLVSKFGKFIFKNVQQGASTTCYVALHPQLKGISGEYFCDNNLGTTTAIARDMDLAKRLWDFSMELVKE*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="29083" e_stop="29008"/>
            <exon e_start="27817" e_stop="27586"/>
            <exon e_start="27454" e_stop="27373"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.990" e_score="0.974"/>
          <exon-intron don_prob="0.936" acc_prob="0.964" e_score="0.996"/>
          <exon-only e_score="0.963"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.974">
            <gDNA_exon_boundary e_start="29083" e_stop="29008" e_length="76"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.990">
            <gDNA_intron_boundary i_start="29007" i_stop="27818" i_length="1190"/>
          </intron>
          <exon e_serial="2" e_score="0.996">
            <gDNA_exon_boundary e_start="27817" e_stop="27586" e_length="232"/>
          </exon>
          <intron i_serial="2" don_prob="0.936" acc_prob="0.964">
            <gDNA_intron_boundary i_start="27585" i_stop="27455" i_length="131"/>
          </intron>
          <exon e_serial="3" e_score="0.963">
            <gDNA_exon_boundary e_start="27454" e_stop="27373" e_length="82"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29083" stop="29008"/>
              <exon start="27817" stop="27586"/>
              <exon start="27454" stop="27373"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E246122" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GGGTTTTCCTATTCCTCCACTGCTGAAGAAGTCACCGATGAAATCGACGGCTCCGGTCTCACCGCCATTGTTACAG : GAGCATCAAGGGGTATTGGTGCTGAAACTAGCCGTGTTCTAGCTCTGCGTGGAGTTCATGTTATCATGGCTGTCAGGAATATAGCTGCTGGAAAAGATGTTAAAGAAGCAATAGTAAAGGAAATCTCAGCAGCTAAAGTTGATATAATGGAGTTAGATCTTAGCTCATTGGCATCAGTAAGGAAATTTGCAGCTGATTTTATATCATCAGGTCACTCATTGAACATGCTAAT : TAATAATGCAGGAGTGGTGGGAATTCCCTTTATGCTTTCCAAAGATAACATAGAGCTGCAATTTGCCACGAATCATCTAGGT</gDNA_template>
            <first_frame> G  F  S  Y  S  S  T  A  E  E  V  T  D  E  I  D  G  S  G  L  T  A  I  V  T   : G  A  S  R  G  I  G  A  E  T  S  R  V  L  A  L  R  G  V  H  V  I  M  A  V  R  N  I  A  A  G  K  D  V  K  E  A  I  V  K  E  I  S  A  A  K  V  D  I  M  E  L  D  L  S  S  L  A  S  V  R  K  F  A  A  D  F  I  S  S  G  H  S  L  N  M  L  I :   N  N  A  G  V  V  G  I  P  F  M  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  L  G </first_frame>
            <second_frame>  G  F  P  I  P  P  L  L  K  K  S  P  M  K  S  T  A  P  V  S  P  P  L  L  Q  :  E  H  Q  G  V  L  V  L  K  L  A  V  F  *  L  C  V  E  F  M  L  S  W  L  S  G  I  *  L  L  E  K  M  L  K  K  Q  *  *  R  K  S  Q  Q  L  K  L  I  *  W  S  *  I  L  A  H  W  H  Q  *  G  N  L  Q  L  I  L  Y  H  Q  V  T  H  *  T  C  *   : L  I  M  Q  E  W  W  E  F  P  L  C  F  P  K  I  T  *  S  C  N  L  P  R  I  I  *   </second_frame>
            <third_frame>   V  F  L  F  L  H  C  *  R  S  H  R  *  N  R  R  L  R  S  H  R  H  C  Y  R :   S  I  K  G  Y  W  C  *  N  *  P  C  S  S  S  A  W  S  S  C  Y  H  G  C  Q  E  Y  S  C  W  K  R  C  *  R  S  N  S  K  G  N  L  S  S  *  S  *  Y  N  G  V  R  S  *  L  I  G  I  S  K  E  I  C  S  *  F  Y  I  I  R  S  L  I  E  H  A  N  :  *  *  C  R  S  G  G  N  S  L  Y  A  F  Q  R  *  H  R  A  A  I  C  H  E  S  S  R  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="29083" stop="29008"/>
                    <exon start="27817" stop="27586"/>
                    <exon start="27454" stop="27373"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>390</number_coding_nucleotides>
                  <number_encoded_amino_acids>130</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GFSYSSTAEEVTDEIDGSGLTAIVTGASRGIGAETSRVLALRGVHVIMAVRNIAAGKDVKEAIVKEISAAKVDIMELDLSSLASVRKFAADFISSGHSLNMLINNAGVVGIPFMLSKDNIELQFATNHLG</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="-" PGL_start="34929" PGL_stop="31172"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="34929" e_stop="34788"/>
            <exon e_start="34625" e_stop="34546"/>
            <exon e_start="34082" e_stop="33929"/>
            <exon e_start="33082" e_stop="33004"/>
            <exon e_start="32746" e_stop="32662"/>
            <exon e_start="31826" e_stop="31780"/>
            <exon e_start="31339" e_stop="31172"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.805" e_score="1.000"/>
          <exon-intron don_prob="0.935" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.972" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.645" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.744" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.857" e_score="1.000"/>
          <exon-only e_score="0.994"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="34929" e_stop="34788" e_length="142"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.805">
            <gDNA_intron_boundary i_start="34787" i_stop="34626" i_length="162"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="34625" e_stop="34546" e_length="80"/>
          </exon>
          <intron i_serial="2" don_prob="0.935" acc_prob="1.000">
            <gDNA_intron_boundary i_start="34545" i_stop="34083" i_length="463"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="34082" e_stop="33929" e_length="154"/>
          </exon>
          <intron i_serial="3" don_prob="0.972" acc_prob="0.999">
            <gDNA_intron_boundary i_start="33928" i_stop="33083" i_length="846"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="33082" e_stop="33004" e_length="79"/>
          </exon>
          <intron i_serial="4" don_prob="0.645" acc_prob="0.998">
            <gDNA_intron_boundary i_start="33003" i_stop="32747" i_length="257"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="32746" e_stop="32662" e_length="85"/>
          </exon>
          <intron i_serial="5" don_prob="0.997" acc_prob="0.744">
            <gDNA_intron_boundary i_start="32661" i_stop="31827" i_length="835"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="31826" e_stop="31780" e_length="47"/>
          </exon>
          <intron i_serial="6" don_prob="1.000" acc_prob="0.857">
            <gDNA_intron_boundary i_start="31779" i_stop="31340" i_length="440"/>
          </intron>
          <exon e_serial="7" e_score="0.994">
            <gDNA_exon_boundary e_start="31339" e_stop="31172" e_length="168"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34929" stop="34788"/>
              <exon start="34625" stop="34546"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299433" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34833" stop="34788"/>
              <exon start="34625" stop="34546"/>
              <exon start="34082" stop="33929"/>
              <exon start="33082" stop="33004"/>
              <exon start="32746" stop="32662"/>
              <exon start="31826" stop="31780"/>
              <exon start="31339" stop="31172"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E235576" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="5" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GAAAAGATGTTAGAGATGCAATAGTTACGGAAATCCCTGCTGCTAAAGTTGATACCATGGAGTTAGATCTTAGCTCATTGGCATCAGTGAAGAAATTTGCTTCAGACTTTAAATCATCAGGTCGCCCGTTGAACCTTTTAAT : TAATAATGCAGGAATCATGGCAACTCCCTTTATGCTCTCAAAAGACAACATAGAGCTGCAATTTGCCACAAATCATGTAG : GTCATTTTCTTTTGACAAATTTGTTGTTGGAGAAGATGAAGGAGACAGCACGTAAAACAAAGAGAGAGGGAAGAATTGTGAATGTTTCGTCAGAGGCTCATCGATTTGCATACAGAGAAGGAATTCGGTTTGACAAAATTAATGATCCCAAAAG : CTACAACAGCTATGGTGCATATGGCCAATCAAAGCTGGCCAACATACTGCATGCAAATGAGCTTACAAGACGCTTAAAG : GAAGATGGAGTAGAAATAAGTGCAAATTCACTTCATCCTGGAACGATCACTACCAATCTTTTTCGTCATATGGGTATTTTTGATG : GTCTGGTCGGCACTCTTGGAAAACTTCTGCTTAAAAATGTTCAACAG : GGAGCATCAACCACTTGTTATCTTGCATTGAATCCACAAGTGAAGGGGGTAAGTGGTGAATATTTTTCAGACAACAATTTGGCGAAGACGACAGCGTTGGCTAAAGATATGGATTTAGCTAAGAGGCTCTGGGATTTTAGTATGGATCTGATCAAGTAAAATGTTGTA</gDNA_template>
            <first_frame> E  K  M  L  E  M  Q  *  L  R  K  S  L  L  L  K  L  I  P  W  S  *  I  L  A  H  W  H  Q  *  R  N  L  L  Q  T  L  N  H  Q  V  A  R  *  T  F  *   : L  I  M  Q  E  S  W  Q  L  P  L  C  S  Q  K  T  T  *  S  C  N  L  P  Q  I  M  *  :  V  I  F  F  *  Q  I  C  C  W  R  R  *  R  R  Q  H  V  K  Q  R  E  R  E  E  L  *  M  F  R  Q  R  L  I  D  L  H  T  E  K  E  F  G  L  T  K  L  M  I  P  K   : A  T  T  A  M  V  H  M  A  N  Q  S  W  P  T  Y  C  M  Q  M  S  L  Q  D  A  *  R :   K  M  E  *  K  *  V  Q  I  H  F  I  L  E  R  S  L  P  I  F  F  V  I  W  V  F  L  M  :  V  W  S  A  L  L  E  N  F  C  L  K  M  F  N  R :   E  H  Q  P  L  V  I  L  H  *  I  H  K  *  R  G  *  V  V  N  I  F  Q  T  T  I  W  R  R  R  Q  R  W  L  K  I  W  I  *  L  R  G  S  G  I  L  V  W  I  *  S  S  K  M  L   </first_frame>
            <second_frame>  K  R  C  *  R  C  N  S  Y  G  N  P  C  C  *  S  *  Y  H  G  V  R  S  *  L  I  G  I  S  E  E  I  C  F  R  L  *  I  I  R  S  P  V  E  P  F  N  :  *  *  C  R  N  H  G  N  S  L  Y  A  L  K  R  Q  H  R  A  A  I  C  H  K  S  C  R :   S  F  S  F  D  K  F  V  V  G  E  D  E  G  D  S  T  *  N  K  E  R  G  K  N  C  E  C  F  V  R  G  S  S  I  C  I  Q  R  R  N  S  V  *  Q  N  *  *  S  Q  K  :  L  Q  Q  L  W  C  I  W  P  I  K  A  G  Q  H  T  A  C  K  *  A  Y  K  T  L  K   : G  R  W  S  R  N  K  C  K  F  T  S  S  W  N  D  H  Y  Q  S  F  S  S  Y  G  Y  F  *  W :   S  G  R  H  S  W  K  T  S  A  *  K  C  S  T   : G  S  I  N  H  L  L  S  C  I  E  S  T  S  E  G  G  K  W  *  I  F  F  R  Q  Q  F  G  E  D  D  S  V  G  *  R  Y  G  F  S  *  E  A  L  G  F  *  Y  G  S  D  Q  V  K  C  C  </second_frame>
            <third_frame>   K  D  V  R  D  A  I  V  T  E  I  P  A  A  K  V  D  T  M  E  L  D  L  S  S  L  A  S  V  K  K  F  A  S  D  F  K  S  S  G  R  P  L  N  L  L  I :   N  N  A  G  I  M  A  T  P  F  M  L  S  K  D  N  I  E  L  Q  F  A  T  N  H  V   : G  H  F  L  L  T  N  L  L  L  E  K  M  K  E  T  A  R  K  T  K  R  E  G  R  I  V  N  V  S  S  E  A  H  R  F  A  Y  R  E  G  I  R  F  D  K  I  N  D  P  K  S :   Y  N  S  Y  G  A  Y  G  Q  S  K  L  A  N  I  L  H  A  N  E  L  T  R  R  L  K  :  E  D  G  V  E  I  S  A  N  S  L  H  P  G  T  I  T  T  N  L  F  R  H  M  G  I  F  D   : G  L  V  G  T  L  G  K  L  L  L  K  N  V  Q  Q  :  G  A  S  T  T  C  Y  L  A  L  N  P  Q  V  K  G  V  S  G  E  Y  F  S  D  N  N  L  A  K  T  T  A  L  A  K  D  M  D  L  A  K  R  L  W  D  F  S  M  D  L  I  K  *  N  V  V </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="34927" stop="34788"/>
                    <exon start="34625" stop="34546"/>
                    <exon start="34082" stop="33929"/>
                    <exon start="33082" stop="33004"/>
                    <exon start="32746" stop="32662"/>
                    <exon start="31826" stop="31780"/>
                    <exon start="31339" stop="31181"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>741</number_coding_nucleotides>
                  <number_encoded_amino_acids>247</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KDVRDAIVTEIPAAKVDTMELDLSSLASVKKFASDFKSSGRPLNLLINNAGIMATPFMLSKDNIELQFATNHVGHFLLTNLLLEKMKETARKTKREGRIVNVSSEAHRFAYREGIRFDKINDPKSYNSYGAYGQSKLANILHANELTRRLKEDGVEISANSLHPGTITTNLFRHMGIFDGLVGTLGKLLLKNVQQGASTTCYLALNPQVKGVSGEYFSDNNLAKTTALAKDMDLAKRLWDFSMDLIK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="+" PGL_start="39802" PGL_stop="42111"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="39885" e_stop="39909"/>
            <exon e_start="40694" e_stop="40948"/>
            <exon e_start="41617" e_stop="41838"/>
            <exon e_start="42011" e_stop="42111"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.988" acc_prob="0.567" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.628" e_score="0.996"/>
          <exon-intron don_prob="0.000" acc_prob="0.679" e_score="0.991"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="39885" e_stop="39909" e_length="25"/>
          </exon>
          <intron i_serial="1" don_prob="0.988" acc_prob="0.567">
            <gDNA_intron_boundary i_start="39910" i_stop="40693" i_length="784"/>
          </intron>
          <exon e_serial="2" e_score="0.996">
            <gDNA_exon_boundary e_start="40694" e_stop="40948" e_length="255"/>
          </exon>
          <intron i_serial="2" don_prob="0.997" acc_prob="0.628">
            <gDNA_intron_boundary i_start="40949" i_stop="41616" i_length="668"/>
          </intron>
          <exon e_serial="3" e_score="0.991">
            <gDNA_exon_boundary e_start="41617" e_stop="41838" e_length="222"/>
          </exon>
          <intron i_serial="3" don_prob="0.000" acc_prob="0.679">
            <gDNA_intron_boundary i_start="41839" i_stop="42010" i_length="172"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="42011" e_stop="42111" e_length="101"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39885" stop="39909"/>
              <exon start="40694" stop="40948"/>
              <exon start="41617" stop="41771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324671" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40694" stop="40948"/>
              <exon start="41617" stop="41838"/>
              <exon start="42011" stop="42111"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E689177" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="6" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GACAGTCAGGGGGCCTTATTATCAG : AAGAATATACTACTGATGAAACAATCTCCCTGAAGGTGCATGTCTCGTTGGAATTCGGAGAGGTTTACTTACGATGGTTTGATTATGTTACTGATGCTTGTCTTCTAAAGGAATAAAGCTGCTGTCTTGTTCATAACATCGACACTTTTAAGGTTGAAACTTTATTTATACCGTAGTTCTGAGAAGGCCAATAAACAGTTTTATCAGATTTATCAGCTGATATCTGGAGGTCCTATGGCGATCGTCAAACCAGAG : ATGAAGTCATATATCTGGCTCGAAACTGCTGATGGTTCAATCCAAGAAGTGGAGGAAGAGGTTGCCATGTTTTGCCCTGTGATATGCAGGGAATTACTTCAAAATGGCAAGGGATCTTCGAAAAATTGTGCAATATTACTTCCTGAACGAGTCAATCCTGCTAACTTAGAGTTAATACTGGAGTTTTGTCGGTTCCATCAAGTTCCTGGCCGTTCTAATAAG : GAGCGCAAGAAACATGATGAGAAGTTTGTCCGGTTAGATACCAAGACGTTATGTGATTTGGCTTCTGCTGCTGACAGTCTTCAGCTAAGGCCTGTGGTTGA</gDNA_template>
            <first_frame> D  S  Q  G  A  L  L  S   : E  E  Y  T  T  D  E  T  I  S  L  K  V  H  V  S  L  E  F  G  E  V  Y  L  R  W  F  D  Y  V  T  D  A  C  L  L  K  E  *  S  C  C  L  V  H  N  I  D  T  F  K  V  E  T  L  F  I  P  *  F  *  E  G  Q  *  T  V  L  S  D  L  S  A  D  I  W  R  S  Y  G  D  R  Q  T  R   : D  E  V  I  Y  L  A  R  N  C  *  W  F  N  P  R  S  G  G  R  G  C  H  V  L  P  C  D  M  Q  G  I  T  S  K  W  Q  G  I  F  E  K  L  C  N  I  T  S  *  T  S  Q  S  C  *  L  R  V  N  T  G  V  L  S  V  P  S  S  S  W  P  F  *  *   : G  A  Q  E  T  *  *  E  V  C  P  V  R  Y  Q  D  V  M  *  F  G  F  C  C  *  Q  S  S  A  K  A  C  G  * </first_frame>
            <second_frame>  T  V  R  G  P  Y  Y  Q  :  K  N  I  L  L  M  K  Q  S  P  *  R  C  M  S  R  W  N  S  E  R  F  T  Y  D  G  L  I  M  L  L  M  L  V  F  *  R  N  K  A  A  V  L  F  I  T  S  T  L  L  R  L  K  L  Y  L  Y  R  S  S  E  K  A  N  K  Q  F  Y  Q  I  Y  Q  L  I  S  G  G  P  M  A  I  V  K  P  E  :  M  K  S  Y  I  W  L  E  T  A  D  G  S  I  Q  E  V  E  E  E  V  A  M  F  C  P  V  I  C  R  E  L  L  Q  N  G  K  G  S  S  K  N  C  A  I  L  L  P  E  R  V  N  P  A  N  L  E  L  I  L  E  F  C  R  F  H  Q  V  P  G  R  S  N  K  :  E  R  K  K  H  D  E  K  F  V  R  L  D  T  K  T  L  C  D  L  A  S  A  A  D  S  L  Q  L  R  P  V  V   </second_frame>
            <third_frame>   Q  S  G  G  L  I  I  R :   R  I  Y  Y  *  *  N  N  L  P  E  G  A  C  L  V  G  I  R  R  G  L  L  T  M  V  *  L  C  Y  *  C  L  S  S  K  G  I  K  L  L  S  C  S  *  H  R  H  F  *  G  *  N  F  I  Y  T  V  V  L  R  R  P  I  N  S  F  I  R  F  I  S  *  Y  L  E  V  L  W  R  S  S  N  Q  R :   *  S  H  I  S  G  S  K  L  L  M  V  Q  S  K  K  W  R  K  R  L  P  C  F  A  L  *  Y  A  G  N  Y  F  K  M  A  R  D  L  R  K  I  V  Q  Y  Y  F  L  N  E  S  I  L  L  T  *  S  *  Y  W  S  F  V  G  S  I  K  F  L  A  V  L  I  R :   S  A  R  N  M  M  R  S  L  S  G  *  I  P  R  R  Y  V  I  W  L  L  L  L  T  V  F  S  *  G  L  W  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="40802" stop="40948"/>
                    <exon start="41617" stop="41838"/>
                    <exon start="42011" stop="42109"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>468</number_coding_nucleotides>
                  <number_encoded_amino_acids>156</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RNKAAVLFITSTLLRLKLYLYRSSEKANKQFYQIYQLISGGPMAIVKPEMKSYIWLETADGSIQEVEEEVAMFCPVICRELLQNGKGSSKNCAILLPERVNPANLELILEFCRFHQVPGRSNKERKKHDEKFVRLDTKTLCDLASAADSLQLRPVV</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="39802" e_stop="40151"/>
            <exon e_start="40729" e_stop="40948"/>
            <exon e_start="41617" e_stop="41712"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.789" e_score="0.997"/>
          <exon-intron don_prob="0.997" acc_prob="0.628" e_score="0.982"/>
          <exon-only e_score="0.927"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.997">
            <gDNA_exon_boundary e_start="39802" e_stop="40151" e_length="350"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.789">
            <gDNA_intron_boundary i_start="40152" i_stop="40728" i_length="577"/>
          </intron>
          <exon e_serial="2" e_score="0.982">
            <gDNA_exon_boundary e_start="40729" e_stop="40948" e_length="220"/>
          </exon>
          <intron i_serial="2" don_prob="0.997" acc_prob="0.628">
            <gDNA_intron_boundary i_start="40949" i_stop="41616" i_length="668"/>
          </intron>
          <exon e_serial="3" e_score="0.927">
            <gDNA_exon_boundary e_start="41617" e_stop="41712" e_length="96"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39802" stop="40151"/>
              <exon start="40729" stop="40948"/>
              <exon start="41617" stop="41712"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698152" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="6" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CTTCTCCTTCCTAAACCCAGCAGCAGCCACCATTCTTGTTGAGAGACAGAGCCCTAAACGCCCAAATCTGCTAAACCACCATTGACAGTCAGGGGGCCTTATTATCAGGTAAACAAACCTAAGCAATTACAGAAACTACTTGTCTTTCAATCGAGAAAGAAATAACAAAGACAAAAAAGAAGAAAAAAAAATCAAGAAAAAACGTCGAGCCAAAAAAAGAAAAGAAAAAAAAAATTCATTCTTCTCTTTTTCTTGCTAGTTTAAAACCCTACCTATTTCTCTGGGATTTTTGTTTTAATCCTCCAGCTTTTATCTCTGTTGCGGCATAGATGACTGCATTGTTTATTGAG : GTGCATGTCTCGTTGGAATTCGGAGAGGTTTACTTACGATGGTTTGATTATGTTACTGATGCTTGTCTTCTAAAGGAATAAAGCTGCTGTCTTGTTCATAACATCGACACTTTTAAGGTTGAAACTTTATTTATACCGTAGTTCTGAGAAGGCCAATAAACAGTTTTATCAGATTTATCAGCTGATATCTGGAGGTCCTATGGCGATCGTCAAACCAGAG : ATGAAGTCATATATCTGGCTCGAAACTGCTGATGGTTCAATCCAAGAAGTGGAGGAAGAGGTTGCCATGTTTTGCCCTGTGATATGCAGGGAATTA</gDNA_template>
            <first_frame> L  L  L  P  K  P  S  S  S  H  H  S  C  *  E  T  E  P  *  T  P  K  S  A  K  P  P  L  T  V  R  G  P  Y  Y  Q  V  N  K  P  K  Q  L  Q  K  L  L  V  F  Q  S  R  K  K  *  Q  R  Q  K  R  R  K  K  N  Q  E  K  T  S  S  Q  K  K  K  R  K  K  K  F  I  L  L  F  F  L  L  V  *  N  P  T  Y  F  S  G  I  F  V  L  I  L  Q  L  L  S  L  L  R  H  R  *  L  H  C  L  L  R :   C  M  S  R  W  N  S  E  R  F  T  Y  D  G  L  I  M  L  L  M  L  V  F  *  R  N  K  A  A  V  L  F  I  T  S  T  L  L  R  L  K  L  Y  L  Y  R  S  S  E  K  A  N  K  Q  F  Y  Q  I  Y  Q  L  I  S  G  G  P  M  A  I  V  K  P  E  :  M  K  S  Y  I  W  L  E  T  A  D  G  S  I  Q  E  V  E  E  E  V  A  M  F  C  P  V  I  C  R  E  L </first_frame>
            <second_frame>  F  S  F  L  N  P  A  A  A  T  I  L  V  E  R  Q  S  P  K  R  P  N  L  L  N  H  H  *  Q  S  G  G  L  I  I  R  *  T  N  L  S  N  Y  R  N  Y  L  S  F  N  R  E  R  N  N  K  D  K  K  E  E  K  K  I  K  K  K  R  R  A  K  K  R  K  E  K  K  N  S  F  F  S  F  S  C  *  F  K  T  L  P  I  S  L  G  F  L  F  *  S  S  S  F  Y  L  C  C  G  I  D  D  C  I  V  Y  *   : G  A  C  L  V  G  I  R  R  G  L  L  T  M  V  *  L  C  Y  *  C  L  S  S  K  G  I  K  L  L  S  C  S  *  H  R  H  F  *  G  *  N  F  I  Y  T  V  V  L  R  R  P  I  N  S  F  I  R  F  I  S  *  Y  L  E  V  L  W  R  S  S  N  Q  R :   *  S  H  I  S  G  S  K  L  L  M  V  Q  S  K  K  W  R  K  R  L  P  C  F  A  L  *  Y  A  G  N   </second_frame>
            <third_frame>   S  P  S  *  T  Q  Q  Q  P  P  F  L  L  R  D  R  A  L  N  A  Q  I  C  *  T  T  I  D  S  Q  G  A  L  L  S  G  K  Q  T  *  A  I  T  E  T  T  C  L  S  I  E  K  E  I  T  K  T  K  K  K  K  K  K  S  R  K  N  V  E  P  K  K  E  K  K  K  K  I  H  S  S  L  F  L  A  S  L  K  P  Y  L  F  L  W  D  F  C  F  N  P  P  A  F  I  S  V  A  A  *  M  T  A  L  F  I  E  :  V  H  V  S  L  E  F  G  E  V  Y  L  R  W  F  D  Y  V  T  D  A  C  L  L  K  E  *  S  C  C  L  V  H  N  I  D  T  F  K  V  E  T  L  F  I  P  *  F  *  E  G  Q  *  T  V  L  S  D  L  S  A  D  I  W  R  S  Y  G  D  R  Q  T  R   : D  E  V  I  Y  L  A  R  N  C  *  W  F  N  P  R  S  G  G  R  G  C  H  V  L  P  C  D  M  Q  G  I  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="40802" stop="40948"/>
                    <exon start="41617" stop="41712"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>243</number_coding_nucleotides>
                  <number_encoded_amino_acids>81</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RNKAAVLFITSTLLRLKLYLYRSSEKANKQFYQIYQLISGGPMAIVKPEMKSYIWLETADGSIQEVEEEVAMFCPVICREL</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="2" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="39924" stop="40130"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>204</number_coding_nucleotides>
                  <number_encoded_amino_acids>68</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AITETTCLSIEKEITKTKKKKKKSRKNVEPKKEKKKKIHSSLFLASLKPYLFLWDFCFNPPAFISVAA*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="+" PGL_start="42165" PGL_stop="47149"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="42165" e_stop="42202"/>
            <exon e_start="42285" e_stop="42395"/>
            <exon e_start="42532" e_stop="42613"/>
            <exon e_start="43341" e_stop="43444"/>
            <exon e_start="43574" e_stop="43749"/>
            <exon e_start="44836" e_stop="44972"/>
            <exon e_start="46862" e_stop="47149"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.987" acc_prob="0.990" e_score="0.895"/>
          <exon-intron don_prob="0.920" acc_prob="1.000" e_score="0.982"/>
          <exon-intron don_prob="0.977" acc_prob="0.999" e_score="0.988"/>
          <exon-intron don_prob="0.996" acc_prob="0.993" e_score="0.971"/>
          <exon-intron don_prob="0.999" acc_prob="1.000" e_score="0.989"/>
          <exon-intron don_prob="0.979" acc_prob="0.988" e_score="0.971"/>
          <exon-only e_score="0.899"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.895">
            <gDNA_exon_boundary e_start="42165" e_stop="42202" e_length="38"/>
          </exon>
          <intron i_serial="1" don_prob="0.987" acc_prob="0.990">
            <gDNA_intron_boundary i_start="42203" i_stop="42284" i_length="82"/>
          </intron>
          <exon e_serial="2" e_score="0.982">
            <gDNA_exon_boundary e_start="42285" e_stop="42395" e_length="111"/>
          </exon>
          <intron i_serial="2" don_prob="0.920" acc_prob="1.000">
            <gDNA_intron_boundary i_start="42396" i_stop="42531" i_length="136"/>
          </intron>
          <exon e_serial="3" e_score="0.988">
            <gDNA_exon_boundary e_start="42532" e_stop="42613" e_length="82"/>
          </exon>
          <intron i_serial="3" don_prob="0.977" acc_prob="0.999">
            <gDNA_intron_boundary i_start="42614" i_stop="43340" i_length="727"/>
          </intron>
          <exon e_serial="4" e_score="0.971">
            <gDNA_exon_boundary e_start="43341" e_stop="43444" e_length="104"/>
          </exon>
          <intron i_serial="4" don_prob="0.996" acc_prob="0.993">
            <gDNA_intron_boundary i_start="43445" i_stop="43573" i_length="129"/>
          </intron>
          <exon e_serial="5" e_score="0.989">
            <gDNA_exon_boundary e_start="43574" e_stop="43749" e_length="176"/>
          </exon>
          <intron i_serial="5" don_prob="0.999" acc_prob="1.000">
            <gDNA_intron_boundary i_start="43750" i_stop="44835" i_length="1086"/>
          </intron>
          <exon e_serial="6" e_score="0.971">
            <gDNA_exon_boundary e_start="44836" e_stop="44972" e_length="137"/>
          </exon>
          <intron i_serial="6" don_prob="0.979" acc_prob="0.988">
            <gDNA_intron_boundary i_start="44973" i_stop="46861" i_length="1889"/>
          </intron>
          <exon e_serial="7" e_score="0.899">
            <gDNA_exon_boundary e_start="46862" e_stop="47149" e_length="288"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42165" stop="42202"/>
              <exon start="42285" stop="42395"/>
              <exon start="42532" stop="42613"/>
              <exon start="43341" stop="43444"/>
              <exon start="43574" stop="43749"/>
              <exon start="44836" stop="44972"/>
              <exon start="46862" stop="46920"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E692782" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42539" stop="42613"/>
              <exon start="43341" stop="43444"/>
              <exon start="43574" stop="43749"/>
              <exon start="44836" stop="44972"/>
              <exon start="46862" stop="47149"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E696622" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="7" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TACGTGAAACTTTCCATTTGCCTGATGATCTAACAGAG : GAGGAGAAGTTGGAACCTTTGAGAAATATGACGGATGATCCACGTATCCGCCTTCTAAATCGACTCTATGCAAGAAAAAGGAAAGAATTATATGACAGAAAGAAACTAAAG : AATGTTGATGTAGAAGAAGAGCCCCGCGTAGATGAAAGATCAGTTGATGATCTTTTGTCATTCATAAATGGTGGAGATCAAG : ACTCAAAGGCTGCAAGAGTAACAAAAAATAAAAAGAAATCTCGAGGAAGAAAAGAACAAGCTAGAAATTCGTCTTCAAATAATGAACCTGGAAACAATAATAAG : GAATCTAATTGCCTTACATCTGGCTGCTTAAATGGTGACACCAGTGATGGGTCTTCTCCAAGTAGAAATTCTGAGCTGCAAAACTCACCATCTGCAATGTTTTCATCTAAGCTCGACTTGGATGATTTTGATATTGATGATGAGTTAGATCCAGCAAGGAAGGAAGAAATTGACAG : GGAGGTTGAGGATTTTGCTCGGAGACTAGACTCTGTCTGGCCAGAAAGGATACAACAGATTTTGTCTTTGGGTCAGGAGAATAGACGGCTTACACCAATTTCCATGAACGGAAATGGTTCCATGAAGAGATGTACAG : CAGGTGTGGACCGGGGATAGTGATGGAAATGGTGGACAAACGACAATGCGTTTTTTTTTGTATACAGCTTGAGCTTAAAATGCCAGGTTGTCTGTCTATTGCAACAAAGAACTTTGGTATCCATATCATGTAAAGTTTCCTGTCAAGCTGCCAATAGCAAGTTCGCGTCCCTGGATACACGCCAGGTTCTCAAAGTGTACTGAAATATCAGAATAGAAGGAAAGTTTCTGTTGTTTGTGACTATGGAATTTGCAAAACTTGTGCATTTCAAAAAAGCTGAGATTAACA</gDNA_template>
            <first_frame> Y  V  K  L  S  I  C  L  M  I  *  Q  R :   R  R  S  W  N  L  *  E  I  *  R  M  I  H  V  S  A  F  *  I  D  S  M  Q  E  K  G  K  N  Y  M  T  E  R  N  *  R :   M  L  M  *  K  K  S  P  A  *  M  K  D  Q  L  M  I  F  C  H  S  *  M  V  E  I  K  :  T  Q  R  L  Q  E  *  Q  K  I  K  R  N  L  E  E  E  K  N  K  L  E  I  R  L  Q  I  M  N  L  E  T  I  I  R :   N  L  I  A  L  H  L  A  A  *  M  V  T  P  V  M  G  L  L  Q  V  E  I  L  S  C  K  T  H  H  L  Q  C  F  H  L  S  S  T  W  M  I  L  I  L  M  M  S  *  I  Q  Q  G  R  K  K  L  T   : G  R  L  R  I  L  L  G  D  *  T  L  S  G  Q  K  G  Y  N  R  F  C  L  W  V  R  R  I  D  G  L  H  Q  F  P  *  T  E  M  V  P  *  R  D  V  Q  :  Q  V  W  T  G  D  S  D  G  N  G  G  Q  T  T  M  R  F  F  L  Y  T  A  *  A  *  N  A  R  L  S  V  Y  C  N  K  E  L  W  Y  P  Y  H  V  K  F  P  V  K  L  P  I  A  S  S  R  P  W  I  H  A  R  F  S  K  C  T  E  I  S  E  *  K  E  S  F  C  C  L  *  L  W  N  L  Q  N  L  C  I  S  K  K  L  R  L  T </first_frame>
            <second_frame>  T  *  N  F  P  F  A  *  *  S  N  R   : G  G  E  V  G  T  F  E  K  Y  D  G  *  S  T  Y  P  P  S  K  S  T  L  C  K  K  K  E  R  I  I  *  Q  K  E  T  K   : E  C  *  C  R  R  R  A  P  R  R  *  K  I  S  *  *  S  F  V  I  H  K  W  W  R  S  R :   L  K  G  C  K  S  N  K  K  *  K  E  I  S  R  K  K  R  T  S  *  K  F  V  F  K  *  *  T  W  K  Q  *  *   : G  I  *  L  P  Y  I  W  L  L  K  W  *  H  Q  *  W  V  F  S  K  *  K  F  *  A  A  K  L  T  I  C  N  V  F  I  *  A  R  L  G  *  F  *  Y  *  *  *  V  R  S  S  K  E  G  R  N  *  Q  :  G  G  *  G  F  C  S  E  T  R  L  C  L  A  R  K  D  T  T  D  F  V  F  G  S  G  E  *  T  A  Y  T  N  F  H  E  R  K  W  F  H  E  E  M  Y  S :   R  C  G  P  G  I  V  M  E  M  V  D  K  R  Q  C  V  F  F  C  I  Q  L  E  L  K  M  P  G  C  L  S  I  A  T  K  N  F  G  I  H  I  M  *  S  F  L  S  S  C  Q  *  Q  V  R  V  P  G  Y  T  P  G  S  Q  S  V  L  K  Y  Q  N  R  R  K  V  S  V  V  C  D  Y  G  I  C  K  T  C  A  F  Q  K  S  *  D  *   </second_frame>
            <third_frame>   R  E  T  F  H  L  P  D  D  L  T  E  :  E  E  K  L  E  P  L  R  N  M  T  D  D  P  R  I  R  L  L  N  R  L  Y  A  R  K  R  K  E  L  Y  D  R  K  K  L  K  :  N  V  D  V  E  E  E  P  R  V  D  E  R  S  V  D  D  L  L  S  F  I  N  G  G  D  Q   : D  S  K  A  A  R  V  T  K  N  K  K  K  S  R  G  R  K  E  Q  A  R  N  S  S  S  N  N  E  P  G  N  N  N  K  :  E  S  N  C  L  T  S  G  C  L  N  G  D  T  S  D  G  S  S  P  S  R  N  S  E  L  Q  N  S  P  S  A  M  F  S  S  K  L  D  L  D  D  F  D  I  D  D  E  L  D  P  A  R  K  E  E  I  D  R :   E  V  E  D  F  A  R  R  L  D  S  V  W  P  E  R  I  Q  Q  I  L  S  L  G  Q  E  N  R  R  L  T  P  I  S  M  N  G  N  G  S  M  K  R  C  T   : A  G  V  D  R  G  *  *  W  K  W  W  T  N  D  N  A  F  F  F  V  Y  S  L  S  L  K  C  Q  V  V  C  L  L  Q  Q  R  T  L  V  S  I  S  C  K  V  S  C  Q  A  A  N  S  K  F  A  S  L  D  T  R  Q  V  L  K  V  Y  *  N  I  R  I  E  G  K  F  L  L  F  V  T  M  E  F  A  K  L  V  H  F  K  K  A  E  I  N  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="42167" stop="42202"/>
                    <exon start="42285" stop="42395"/>
                    <exon start="42532" stop="42613"/>
                    <exon start="43341" stop="43444"/>
                    <exon start="43574" stop="43749"/>
                    <exon start="44836" stop="44972"/>
                    <exon start="46862" stop="46881"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>663</number_coding_nucleotides>
                  <number_encoded_amino_acids>221</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RETFHLPDDLTEEEKLEPLRNMTDDPRIRLLNRLYARKRKELYDRKKLKNVDVEEEPRVDERSVDDLLSFINGGDQDSKAARVTKNKKKSRGRKEQARNSSSNNEPGNNNKESNCLTSGCLNGDTSDGSSPSRNSELQNSPSAMFSSKLDLDDFDIDDELDPARKEEIDREVEDFARRLDSVWPERIQQILSLGQENRRLTPISMNGNGSMKRCTAGVDRG*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="8" PGL_strand="-" PGL_start="54930" PGL_stop="50357"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="54930" e_stop="54810"/>
            <exon e_start="54594" e_stop="54550"/>
            <exon e_start="54450" e_stop="54397"/>
            <exon e_start="53743" e_stop="53639"/>
            <exon e_start="53548" e_stop="53348"/>
            <exon e_start="53100" e_stop="53015"/>
            <exon e_start="52018" e_stop="51039"/>
            <exon e_start="50942" e_stop="50357"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.961" acc_prob="0.999" e_score="0.917"/>
          <exon-intron don_prob="0.989" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.988" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.857" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="0.922" acc_prob="0.811" e_score="0.998"/>
          <exon-only e_score="0.993"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.917">
            <gDNA_exon_boundary e_start="54930" e_stop="54810" e_length="121"/>
          </exon>
          <intron i_serial="1" don_prob="0.961" acc_prob="0.999">
            <gDNA_intron_boundary i_start="54809" i_stop="54595" i_length="215"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="54594" e_stop="54550" e_length="45"/>
          </exon>
          <intron i_serial="2" don_prob="0.989" acc_prob="0.991">
            <gDNA_intron_boundary i_start="54549" i_stop="54451" i_length="99"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="54450" e_stop="54397" e_length="54"/>
          </exon>
          <intron i_serial="3" don_prob="0.998" acc_prob="0.988">
            <gDNA_intron_boundary i_start="54396" i_stop="53744" i_length="653"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="53743" e_stop="53639" e_length="105"/>
          </exon>
          <intron i_serial="4" don_prob="0.989" acc_prob="0.857">
            <gDNA_intron_boundary i_start="53638" i_stop="53549" i_length="90"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="53548" e_stop="53348" e_length="201"/>
          </exon>
          <intron i_serial="5" don_prob="0.998" acc_prob="0.998">
            <gDNA_intron_boundary i_start="53347" i_stop="53101" i_length="247"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="53100" e_stop="53015" e_length="86"/>
          </exon>
          <intron i_serial="6" don_prob="0.995" acc_prob="0.992">
            <gDNA_intron_boundary i_start="53014" i_stop="52019" i_length="996"/>
          </intron>
          <exon e_serial="7" e_score="0.998">
            <gDNA_exon_boundary e_start="52018" e_stop="51039" e_length="980"/>
          </exon>
          <intron i_serial="7" don_prob="0.922" acc_prob="0.811">
            <gDNA_intron_boundary i_start="51038" i_stop="50943" i_length="96"/>
          </intron>
          <exon e_serial="8" e_score="0.993">
            <gDNA_exon_boundary e_start="50942" e_stop="50357" e_length="586"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54930" stop="54810"/>
              <exon start="54594" stop="54550"/>
              <exon start="54450" stop="54397"/>
              <exon start="53743" stop="53639"/>
              <exon start="53548" stop="53348"/>
              <exon start="53100" stop="53015"/>
              <exon start="52018" stop="51833"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735919" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="53437" stop="53348"/>
              <exon start="53100" stop="53015"/>
              <exon start="52018" stop="51605"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E245753" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="51970" stop="51128"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E699624" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="51784" stop="51323"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E205998" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="51728" stop="51039"/>
              <exon start="50942" stop="50732"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E378168" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="51728" stop="51275"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E247564" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="51272" stop="51039"/>
              <exon start="50942" stop="50357"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E715837" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="8" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GCCTATGCTAACACCAGCGAAATATCAGAAGTGTGAAAAATGTTCACGGGAATTTTATTCCCCTATAAATTATCGAAGGCATATGCGTTTACATCGTCGAGCCTTAAACAACTTTGATAAG : GAGTCTCGCAAATATAGGGATCTGCTGGGAGCGTTCTGGGATAAG : CTCTCACTTGATGATATTAAGGAAGTTGTATCATTGCATGATGTTTCGATAAAG : GATCTTTCTGGATCTTCACTTGTTCAGGACCTGGCAACATCTATGCGAAAACCGGCGGTCTGGACTCTTCCGCAAGATTATTACAAGGCTGGCTTAGCTTTGTTG : GACCTCATCCAAGGTATACCTTCCAAGCTTACCTCTGGGGAGTTATTTAGCGTCCTTGATGATGCTAGCGAAAGAACATTTTTATGTGCTGGTACAGCTGAGTCACTGCAAAAATATGTTTTTGATGGGGATGCTTCCAAAAAAGGTCCTGAGCTGAAAAACTTGGTAGCTTGCACTAGCTTCCTTTTTGAACAGAAACTG : GTAAAAGCATGGTTTGCAGACAAAGATGCTGAAGCTTTGAGATGCCAGAAGTTGCTTTTTGAAGAGGAAGAAGCTGCTCAAAAAAA : GCAAGCTGAGTTGTTGGAAAGGAAAAAACAGAAAAAGCTCAGACAGAAGGAACAGAGAGAAAGGGAGCAATCAAATTGGGAAAGAGGTGATTTGGAGGTTTCAATAGCAGAATCTTCCATCCTTTCAGCTGCAGTATCTGATTCCAACTCAAGTACTCCCGAAGTATCTGACGATACCTCCTCCTGCCTTGAACTTGTACAATTCTCTAACAATGAAGTTATGGACATTGAAGCACAACTTAATCTCTCTAGCCAGCATCTGGATCTGGTAGAAATTCAGGATGTTGAGCCCCAACCAGTATCTGCACAGAGTCGACGGCATTTCCCCCATACCCAGTGGCAAGTGCCAAAGTCACAAAGAATGGGGCGAAATGGTTCCCATAACAACCAGAATCATCAAGTACAAAAAATTGAACCTGTGCAGAAGCATGGAGTTTTTAAAGACCGAGGTGCCCCTGTTAATAGCAGTAAGATTTGGACAAAAAAAATTAGAGTGCTAAATGGTGAGCGCTTTAGACCGGAGCCACAGAAGGAGGCAATAAACCAAAATCAGAGTAACTGTGAAGTGATGATTGGTTCTATTTCTGTTCCAATGAAAAATTGCAGCACTCCCGGACTGGGTAACTGTCCTGCTGTAGAAAGAGACAACTTCGACAGCCATGCAGAACCAGCCATGACTAAAAAGTGTAATCTTGCAGTGAAACCAGCAAAGCAAGATGCTCTTCAGGGTGGGTCAAATGGGGCAGCTGGGAAGCTCTGGAGGCCTGTGAGCAGGCATGGAAGTGGACAACATCCTGAAGAGGCTGTGATGAGTGGAAAGTTGGATAGTCAGATTTCATCCGCTGAAAATTGTTTGCGATCGTGCTCTATGGACAACCCCACTGGCAAAAGTAAGAATTACACATGTCAGGTTTCAGATGTTAATGCTCATCAAGGTCTGGGATTTTGCAGTACTTCTGCAAAAGCTTTTCTCTCTCAGA : GATGGAAGGAGGCTATTGCCGGGGATCATGTTACATTAGTCCTTTCCAATGACACCGAAGTTTCTGGACATCCAGATGCGCAAAACAGCAGTTCAGAAGCAGCCCCATCATCAGATGATCAGGAGCATGGCGTTCTTGTCGAAGCTGATAACCAGCAGAGAAATACTGGAGTTTCTAATGTATCCTCCCATGGAAATTCTAAACTTAAGTTTAGGCAGAAGCCTGATAAGTCTATTAAGACAAGGTACATTCCAAAGCAAAAACCATAATTTAGGATACAAGTATTTCTTGATTATACCAGATTGTGCAGTTTTTAGTCAGTTCAGCAGAGGTTCCGTTTTACCTGTGGTCTTCTGTCACAGTTACAGTTGAAGTAAGGTTTTCTAGAGTAGCTTATATCCTCGGGAGTTGCTGCTGCATTTTGGCTAGGGTACCCTTCTTTTTGCAGCTTACAGATTCTGTAACAAGCTGGGTTTTAAAAAAATTTAGTCTCATTGCTCATTATTTTCTGCTATGGCAGCTCGCCAACTTCTCATTTTAGTTTGAACAATATATGATTATAGTAACAATTTTTGATAAAATGGTC</gDNA_template>
            <first_frame> A  Y  A  N  T  S  E  I  S  E  V  *  K  M  F  T  G  I  L  F  P  Y  K  L  S  K  A  Y  A  F  T  S  S  S  L  K  Q  L  *  *   : G  V  S  Q  I  *  G  S  A  G  S  V  L  G  *   : A  L  T  *  *  Y  *  G  S  C  I  I  A  *  C  F  D  K   : G  S  F  W  I  F  T  C  S  G  P  G  N  I  Y  A  K  T  G  G  L  D  S  S  A  R  L  L  Q  G  W  L  S  F  V   : G  P  H  P  R  Y  T  F  Q  A  Y  L  W  G  V  I  *  R  P  *  *  C  *  R  K  N  I  F  M  C  W  Y  S  *  V  T  A  K  I  C  F  *  W  G  C  F  Q  K  R  S  *  A  E  K  L  G  S  L  H  *  L  P  F  *  T  E  T   : G  K  S  M  V  C  R  Q  R  C  *  S  F  E  M  P  E  V  A  F  *  R  G  R  S  C  S  K  K  :  A  S  *  V  V  G  K  E  K  T  E  K  A  Q  T  E  G  T  E  R  K  G  A  I  K  L  G  K  R  *  F  G  G  F  N  S  R  I  F  H  P  F  S  C  S  I  *  F  Q  L  K  Y  S  R  S  I  *  R  Y  L  L  L  P  *  T  C  T  I  L  *  Q  *  S  Y  G  H  *  S  T  T  *  S  L  *  P  A  S  G  S  G  R  N  S  G  C  *  A  P  T  S  I  C  T  E  S  T  A  F  P  P  Y  P  V  A  S  A  K  V  T  K  N  G  A  K  W  F  P  *  Q  P  E  S  S  S  T  K  N  *  T  C  A  E  A  W  S  F  *  R  P  R  C  P  C  *  *  Q  *  D  L  D  K  K  N  *  S  A  K  W  *  A  L  *  T  G  A  T  E  G  G  N  K  P  K  S  E  *  L  *  S  D  D  W  F  Y  F  C  S  N  E  K  L  Q  H  S  R  T  G  *  L  S  C  C  R  K  R  Q  L  R  Q  P  C  R  T  S  H  D  *  K  V  *  S  C  S  E  T  S  K  A  R  C  S  S  G  W  V  K  W  G  S  W  E  A  L  E  A  C  E  Q  A  W  K  W  T  T  S  *  R  G  C  D  E  W  K  V  G  *  S  D  F  I  R  *  K  L  F  A  I  V  L  Y  G  Q  P  H  W  Q  K  *  E  L  H  M  S  G  F  R  C  *  C  S  S  R  S  G  I  L  Q  Y  F  C  K  S  F  S  L  S  E :   M  E  G  G  Y  C  R  G  S  C  Y  I  S  P  F  Q  *  H  R  S  F  W  T  S  R  C  A  K  Q  Q  F  R  S  S  P  I  I  R  *  S  G  A  W  R  S  C  R  S  *  *  P  A  E  K  Y  W  S  F  *  C  I  L  P  W  K  F  *  T  *  V  *  A  E  A  *  *  V  Y  *  D  K  V  H  S  K  A  K  T  I  I  *  D  T  S  I  S  *  L  Y  Q  I  V  Q  F  L  V  S  S  A  E  V  P  F  Y  L  W  S  S  V  T  V  T  V  E  V  R  F  S  R  V  A  Y  I  L  G  S  C  C  C  I  L  A  R  V  P  F  F  L  Q  L  T  D  S  V  T  S  W  V  L  K  K  F  S  L  I  A  H  Y  F  L  L  W  Q  L  A  N  F  S  F  *  F  E  Q  Y  M  I  I  V  T  I  F  D  K  M  V </first_frame>
            <second_frame>  P  M  L  T  P  A  K  Y  Q  K  C  E  K  C  S  R  E  F  Y  S  P  I  N  Y  R  R  H  M  R  L  H  R  R  A  L  N  N  F  D  K  :  E  S  R  K  Y  R  D  L  L  G  A  F  W  D  K  :  L  S  L  D  D  I  K  E  V  V  S  L  H  D  V  S  I  K  :  D  L  S  G  S  S  L  V  Q  D  L  A  T  S  M  R  K  P  A  V  W  T  L  P  Q  D  Y  Y  K  A  G  L  A  L  L  :  D  L  I  Q  G  I  P  S  K  L  T  S  G  E  L  F  S  V  L  D  D  A  S  E  R  T  F  L  C  A  G  T  A  E  S  L  Q  K  Y  V  F  D  G  D  A  S  K  K  G  P  E  L  K  N  L  V  A  C  T  S  F  L  F  E  Q  K  L  :  V  K  A  W  F  A  D  K  D  A  E  A  L  R  C  Q  K  L  L  F  E  E  E  E  A  A  Q  K  K :   Q  A  E  L  L  E  R  K  K  Q  K  K  L  R  Q  K  E  Q  R  E  R  E  Q  S  N  W  E  R  G  D  L  E  V  S  I  A  E  S  S  I  L  S  A  A  V  S  D  S  N  S  S  T  P  E  V  S  D  D  T  S  S  C  L  E  L  V  Q  F  S  N  N  E  V  M  D  I  E  A  Q  L  N  L  S  S  Q  H  L  D  L  V  E  I  Q  D  V  E  P  Q  P  V  S  A  Q  S  R  R  H  F  P  H  T  Q  W  Q  V  P  K  S  Q  R  M  G  R  N  G  S  H  N  N  Q  N  H  Q  V  Q  K  I  E  P  V  Q  K  H  G  V  F  K  D  R  G  A  P  V  N  S  S  K  I  W  T  K  K  I  R  V  L  N  G  E  R  F  R  P  E  P  Q  K  E  A  I  N  Q  N  Q  S  N  C  E  V  M  I  G  S  I  S  V  P  M  K  N  C  S  T  P  G  L  G  N  C  P  A  V  E  R  D  N  F  D  S  H  A  E  P  A  M  T  K  K  C  N  L  A  V  K  P  A  K  Q  D  A  L  Q  G  G  S  N  G  A  A  G  K  L  W  R  P  V  S  R  H  G  S  G  Q  H  P  E  E  A  V  M  S  G  K  L  D  S  Q  I  S  S  A  E  N  C  L  R  S  C  S  M  D  N  P  T  G  K  S  K  N  Y  T  C  Q  V  S  D  V  N  A  H  Q  G  L  G  F  C  S  T  S  A  K  A  F  L  S  Q   : R  W  K  E  A  I  A  G  D  H  V  T  L  V  L  S  N  D  T  E  V  S  G  H  P  D  A  Q  N  S  S  S  E  A  A  P  S  S  D  D  Q  E  H  G  V  L  V  E  A  D  N  Q  Q  R  N  T  G  V  S  N  V  S  S  H  G  N  S  K  L  K  F  R  Q  K  P  D  K  S  I  K  T  R  Y  I  P  K  Q  K  P  *  F  R  I  Q  V  F  L  D  Y  T  R  L  C  S  F  *  S  V  Q  Q  R  F  R  F  T  C  G  L  L  S  Q  L  Q  L  K  *  G  F  L  E  *  L  I  S  S  G  V  A  A  A  F  W  L  G  Y  P  S  F  C  S  L  Q  I  L  *  Q  A  G  F  *  K  N  L  V  S  L  L  I  I  F  C  Y  G  S  S  P  T  S  H  F  S  L  N  N  I  *  L  *  *  Q  F  L  I  K  W   </second_frame>
            <third_frame>   L  C  *  H  Q  R  N  I  R  S  V  K  N  V  H  G  N  F  I  P  L  *  I  I  E  G  I  C  V  Y  I  V  E  P  *  T  T  L  I  R :   S  L  A  N  I  G  I  C  W  E  R  S  G  I  S :   S  H  L  M  I  L  R  K  L  Y  H  C  M  M  F  R  *  R :   I  F  L  D  L  H  L  F  R  T  W  Q  H  L  C  E  N  R  R  S  G  L  F  R  K  I  I  T  R  L  A  *  L  C  W :   T  S  S  K  V  Y  L  P  S  L  P  L  G  S  Y  L  A  S  L  M  M  L  A  K  E  H  F  Y  V  L  V  Q  L  S  H  C  K  N  M  F  L  M  G  M  L  P  K  K  V  L  S  *  K  T  W  *  L  A  L  A  S  F  L  N  R  N  W :   *  K  H  G  L  Q  T  K  M  L  K  L  *  D  A  R  S  C  F  L  K  R  K  K  L  L  K  K   : S  K  L  S  C  W  K  G  K  N  R  K  S  S  D  R  R  N  R  E  K  G  S  N  Q  I  G  K  E  V  I  W  R  F  Q  *  Q  N  L  P  S  F  Q  L  Q  Y  L  I  P  T  Q  V  L  P  K  Y  L  T  I  P  P  P  A  L  N  L  Y  N  S  L  T  M  K  L  W  T  L  K  H  N  L  I  S  L  A  S  I  W  I  W  *  K  F  R  M  L  S  P  N  Q  Y  L  H  R  V  D  G  I  S  P  I  P  S  G  K  C  Q  S  H  K  E  W  G  E  M  V  P  I  T  T  R  I  I  K  Y  K  K  L  N  L  C  R  S  M  E  F  L  K  T  E  V  P  L  L  I  A  V  R  F  G  Q  K  K  L  E  C  *  M  V  S  A  L  D  R  S  H  R  R  R  Q  *  T  K  I  R  V  T  V  K  *  *  L  V  L  F  L  F  Q  *  K  I  A  A  L  P  D  W  V  T  V  L  L  *  K  E  T  T  S  T  A  M  Q  N  Q  P  *  L  K  S  V  I  L  Q  *  N  Q  Q  S  K  M  L  F  R  V  G  Q  M  G  Q  L  G  S  S  G  G  L  *  A  G  M  E  V  D  N  I  L  K  R  L  *  *  V  E  S  W  I  V  R  F  H  P  L  K  I  V  C  D  R  A  L  W  T  T  P  L  A  K  V  R  I  T  H  V  R  F  Q  M  L  M  L  I  K  V  W  D  F  A  V  L  L  Q  K  L  F  S  L  R  :  D  G  R  R  L  L  P  G  I  M  L  H  *  S  F  P  M  T  P  K  F  L  D  I  Q  M  R  K  T  A  V  Q  K  Q  P  H  H  Q  M  I  R  S  M  A  F  L  S  K  L  I  T  S  R  E  I  L  E  F  L  M  Y  P  P  M  E  I  L  N  L  S  L  G  R  S  L  I  S  L  L  R  Q  G  T  F  Q  S  K  N  H  N  L  G  Y  K  Y  F  L  I  I  P  D  C  A  V  F  S  Q  F  S  R  G  S  V  L  P  V  V  F  C  H  S  Y  S  *  S  K  V  F  *  S  S  L  Y  P  R  E  L  L  L  H  F  G  *  G  T  L  L  F  A  A  Y  R  F  C  N  K  L  G  F  K  K  I  *  S  H  C  S  L  F  S  A  M  A  A  R  Q  L  L  I  L  V  *  T  I  Y  D  Y  S  N  N  F  *  *  N  G  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="8" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="54929" stop="54810"/>
                    <exon start="54594" stop="54550"/>
                    <exon start="54450" stop="54397"/>
                    <exon start="53743" stop="53639"/>
                    <exon start="53548" stop="53348"/>
                    <exon start="53100" stop="53015"/>
                    <exon start="52018" stop="51039"/>
                    <exon start="50942" stop="50674"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1857</number_coding_nucleotides>
                  <number_encoded_amino_acids>619</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PMLTPAKYQKCEKCSREFYSPINYRRHMRLHRRALNNFDKESRKYRDLLGAFWDKLSLDDIKEVVSLHDVSIKDLSGSSLVQDLATSMRKPAVWTLPQDYYKAGLALLDLIQGIPSKLTSGELFSVLDDASERTFLCAGTAESLQKYVFDGDASKKGPELKNLVACTSFLFEQKLVKAWFADKDAEALRCQKLLFEEEEAAQKKQAELLERKKQKKLRQKEQREREQSNWERGDLEVSIAESSILSAAVSDSNSSTPEVSDDTSSCLELVQFSNNEVMDIEAQLNLSSQHLDLVEIQDVEPQPVSAQSRRHFPHTQWQVPKSQRMGRNGSHNNQNHQVQKIEPVQKHGVFKDRGAPVNSSKIWTKKIRVLNGERFRPEPQKEAINQNQSNCEVMIGSISVPMKNCSTPGLGNCPAVERDNFDSHAEPAMTKKCNLAVKPAKQDALQGGSNGAAGKLWRPVSRHGSGQHPEEAVMSGKLDSQISSAENCLRSCSMDNPTGKSKNYTCQVSDVNAHQGLGFCSTSAKAFLSQRWKEAIAGDHVTLVLSNDTEVSGHPDAQNSSSEAAPSSDDQEHGVLVEADNQQRNTGVSNVSSHGNSKLKFRQKPDKSIKTRYIPKQKP*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="8" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="50650" stop="50402"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>246</number_coding_nucleotides>
                  <number_encoded_amino_acids>82</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LYQIVQFLVSSAEVPFYLWSSVTVTVEVRFSRVAYILGSCCCILARVPFFLQLTDSVTSWVLKKFSLIAHYFLLWQLANFSF*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="9" PGL_strand="-" PGL_start="62557" PGL_stop="60146"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="62557" e_stop="62237"/>
            <exon e_start="61752" e_stop="61305"/>
            <exon e_start="61064" e_stop="61043"/>
            <exon e_start="60153" e_stop="60146"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.999" e_score="0.984"/>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.998"/>
          <exon-intron don_prob="0.331" acc_prob="0.849" e_score="0.591"/>
          <exon-only e_score="0.625"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.984">
            <gDNA_exon_boundary e_start="62557" e_stop="62237" e_length="321"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.999">
            <gDNA_intron_boundary i_start="62236" i_stop="61753" i_length="484"/>
          </intron>
          <exon e_serial="2" e_score="0.998">
            <gDNA_exon_boundary e_start="61752" e_stop="61305" e_length="448"/>
          </exon>
          <intron i_serial="2" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="61304" i_stop="61065" i_length="240"/>
          </intron>
          <exon e_serial="3" e_score="0.591">
            <gDNA_exon_boundary e_start="61064" e_stop="61043" e_length="22"/>
          </exon>
          <intron i_serial="3" don_prob="0.331" acc_prob="0.849">
            <gDNA_intron_boundary i_start="61042" i_stop="60154" i_length="889"/>
          </intron>
          <exon e_serial="4" e_score="0.625">
            <gDNA_exon_boundary e_start="60153" e_stop="60146" e_length="8"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62557" stop="62237"/>
              <exon start="61752" stop="61305"/>
              <exon start="61064" stop="61043"/>
              <exon start="60153" stop="60146"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E549358" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62455" stop="62237"/>
              <exon start="61752" stop="61308"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E349530" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62386" stop="62237"/>
              <exon start="61752" stop="61381"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324105" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="9" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CTTTTACGACTTCTGACTGCAAGACCAGCTTCGGGTATAGTGAGGGAGGTCAAGTGTGCTTTGGAAAGTGGTAACTTGGGTTCAGTTTTGGACTCTTCTGCTGGTGATTGGCCAATTGAACAAGTGGAACTGTTGGCTTATCTAGCATTGAGTTGCTGTGAGAAAGATCCTTTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCAGGGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTTCAG : GATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGCTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCTATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCACTCTTACAAACAAAAACAGCTTTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGTGGGTAGTTCCACTGAGTTAATACTTGGATTCGAGTTATTTGAACTTGTCAAGTGTTGCTGCAATATTGAGACGTACAGATTCTTATCACTATGGTCTATGTACACTGCATATTTTGCCTACTCATTACAAATATTGAACAAACATATATATATCTTCGTATCTTCTTTA : AAAAATATGATAAAAAGTATCT : GGGTGTAC</gDNA_template>
            <first_frame> L  L  R  L  L  T  A  R  P  A  S  G  I  V  R  E  V  K  C  A  L  E  S  G  N  L  G  S  V  L  D  S  S  A  G  D  W  P  I  E  Q  V  E  L  L  A  Y  L  A  L  S  C  C  E  K  D  P  L  N  R  P  N  M  L  S  E  V  W  P  T  I  E  P  M  R  D  I  C  K  P  N  S  D  L  N  T  S  S  Q  G  S  K  S  Q  K  R  I  P  P  H  F  V  C  P  I  F  Q  :  D  V  M  E  D  P  H  I  A  A  D  G  Y  T  Y  E  G  D  A  I  K  G  W  L  Y  S  G  H  D  T  S  P  M  T  N  L  K  L  D  T  C  D  L  I  P  N  Y  A  L  Y  R  A  I  Q  E  W  Q  Q  Q  S  *  N  S  F  R  V  Y  N  A  S  L  L  Q  T  K  T  A  L  K  L  K  Y  I  L  I  Y  R  K  L  A  M  S  R  G  *  F  H  *  V  N  T  W  I  R  V  I  *  T  C  Q  V  L  L  Q  Y  *  D  V  Q  I  L  I  T  M  V  Y  V  H  C  I  F  C  L  L  I  T  N  I  E  Q  T  Y  I  Y  L  R  I  F  F   : K  K  Y  D  K  K  Y  L :   G  V  </first_frame>
            <second_frame>  F  Y  D  F  *  L  Q  D  Q  L  R  V  *  *  G  R  S  S  V  L  W  K  V  V  T  W  V  Q  F  W  T  L  L  L  V  I  G  Q  L  N  K  W  N  C  W  L  I  *  H  *  V  A  V  R  K  I  L  *  I  G  L  I  C  S  Q  K  F  G  Q  Q  L  S  Q  *  E  I  Y  A  N  Q  T  Q  I  *  I  L  H  L  R  V  P  R  V  K  N  E  F  L  L  I  S  F  V  L  F  F  R :   M  S  W  K  I  H  T  *  Q  Q  M  V  I  H  M  K  V  M  Q  *  K  D  G  C  I  A  D  T  I  L  L  P  *  Q  T  S  S  S  T  P  V  I  *  F  P  I  M  L  S  I  A  L  F  R  N  G  S  N  S  P  E  T  H  L  E  Y  I  M  P  H  S  Y  K  Q  K  Q  L  *  S  *  S  I  Y  *  Y  I  E  S  *  P  C  L  V  G  S  S  T  E  L  I  L  G  F  E  L  F  E  L  V  K  C  C  C  N  I  E  T  Y  R  F  L  S  L  W  S  M  Y  T  A  Y  F  A  Y  S  L  Q  I  L  N  K  H  I  Y  I  F  V  S  S  L  :  K  N  M  I  K  S  I   : W  V  Y </second_frame>
            <third_frame>   F  T  T  S  D  C  K  T  S  F  G  Y  S  E  G  G  Q  V  C  F  G  K  W  *  L  G  F  S  F  G  L  F  C  W  *  L  A  N  *  T  S  G  T  V  G  L  S  S  I  E  L  L  *  E  R  S  F  K  S  A  *  Y  A  L  R  S  L  A  N  N  *  A  N  E  R  Y  M  Q  T  K  L  R  F  E  Y  F  I  S  G  F  Q  E  S  K  T  N  S  S  S  F  R  L  S  Y  F  S   : G  C  H  G  R  S  T  H  S  S  R  W  L  Y  I  *  R  *  C  N  K  R  M  A  V  *  R  T  R  Y  F  S  H  D  K  P  Q  A  R  H  L  *  F  D  S  Q  L  C  S  L  S  R  Y  S  G  M  A  A  T  V  L  K  L  I  *  S  I  *  C  L  T  L  T  N  K  N  S  F  E  V  E  V  Y  T  D  I  *  K  V  S  H  V  S  W  V  V  P  L  S  *  Y  L  D  S  S  Y  L  N  L  S  S  V  A  A  I  L  R  R  T  D  S  Y  H  Y  G  L  C  T  L  H  I  L  P  T  H  Y  K  Y  *  T  N  I  Y  I  S  S  Y  L  L  * :   K  I  *  *  K  V  S  :  G  C   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="9" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="62557" stop="62237"/>
                    <exon start="61752" stop="61570"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>501</number_coding_nucleotides>
                  <number_encoded_amino_acids>167</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LLRLLTARPASGIVREVKCALESGNLGSVLDSSAGDWPIEQVELLAYLALSCCEKDPLNRPNMLSEVWPTIEPMRDICKPNSDLNTSSQGSKSQKRIPPHFVCPIFQDVMEDPHIAADGYTYEGDAIKGWLYSGHDTSPMTNLKLDTCDLIPNYALYRAIQEWQQQS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="9" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="61484" stop="61305"/>
                    <exon start="61064" stop="61043"/>
                    <exon start="60153" stop="60146"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>210</number_coding_nucleotides>
                  <number_encoded_amino_acids>70</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PCLVGSSTELILGFELFELVKCCCNIETYRFLSLWSMYTAYFAYSLQILNKHIYIFVSSLKNMIKSIWVY</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="62387" e_stop="62237"/>
            <exon e_start="61752" e_stop="61322"/>
            <exon e_start="60236" e_stop="60223"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <exon-only e_score="0.929"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="62387" e_stop="62237" e_length="151"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.999">
            <gDNA_intron_boundary i_start="62236" i_stop="61753" i_length="484"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="61752" e_stop="61322" e_length="431"/>
          </exon>
          <intron i_serial="2" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="61321" i_stop="60237" i_length="1085"/>
          </intron>
          <exon e_serial="3" e_score="0.929">
            <gDNA_exon_boundary e_start="60236" e_stop="60223" e_length="14"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62387" stop="62237"/>
              <exon start="61752" stop="61322"/>
              <exon start="60236" stop="60223"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E687767" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62386" stop="62237"/>
              <exon start="61752" stop="61381"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324105" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="9" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTTAAATCGGCCTAATATGCTCTCAGAAGTTTGGCCAACAATTGAGCCAATGAGAGATATATGCAAACCAAACTCAGATTTGAATACTTCATCTCAGGGTTCCAAGAGTCAAAAACGAATTCCTCCTCATTTCGTTTGTCCTATTTTTCAG : GATGTCATGGAAGATCCACACATAGCAGCAGATGGTTATACATATGAAGGTGATGCAATAAAAGGATGGCTGTATAGCGGACACGATACTTCTCCCATGACAAACCTCAAGCTCGACACCTGTGATTTGATTCCCAATTATGCTCTCTATCGCGCTATTCAGGAATGGCAGCAACAGTCCTGAAACTCATTTAGAGTATATAATGCCTCACTCTTACAAACAAAAACAGCTTTGAAGTTGAAGTATATACTGATATATAGAAAGTTAGCCATGTCTCGTGGGTAGTTCCACTGAGTTAATACTTGGATTCGAGTTATTTGAACTTGTCAAGTGTTGCTGCAATATTGAGACGTACAGATTCTTATCACTATGGTCTATGTACACTGCATATTTTGCCTACTCATTACAAATATTGAACAAACATATATATA : AAAAAAAATAAAAA</gDNA_template>
            <first_frame> F  K  S  A  *  Y  A  L  R  S  L  A  N  N  *  A  N  E  R  Y  M  Q  T  K  L  R  F  E  Y  F  I  S  G  F  Q  E  S  K  T  N  S  S  S  F  R  L  S  Y  F  S   : G  C  H  G  R  S  T  H  S  S  R  W  L  Y  I  *  R  *  C  N  K  R  M  A  V  *  R  T  R  Y  F  S  H  D  K  P  Q  A  R  H  L  *  F  D  S  Q  L  C  S  L  S  R  Y  S  G  M  A  A  T  V  L  K  L  I  *  S  I  *  C  L  T  L  T  N  K  N  S  F  E  V  E  V  Y  T  D  I  *  K  V  S  H  V  S  W  V  V  P  L  S  *  Y  L  D  S  S  Y  L  N  L  S  S  V  A  A  I  L  R  R  T  D  S  Y  H  Y  G  L  C  T  L  H  I  L  P  T  H  Y  K  Y  *  T  N  I  Y  I  :  K  K  N  K   </first_frame>
            <second_frame>  L  N  R  P  N  M  L  S  E  V  W  P  T  I  E  P  M  R  D  I  C  K  P  N  S  D  L  N  T  S  S  Q  G  S  K  S  Q  K  R  I  P  P  H  F  V  C  P  I  F  Q  :  D  V  M  E  D  P  H  I  A  A  D  G  Y  T  Y  E  G  D  A  I  K  G  W  L  Y  S  G  H  D  T  S  P  M  T  N  L  K  L  D  T  C  D  L  I  P  N  Y  A  L  Y  R  A  I  Q  E  W  Q  Q  Q  S  *  N  S  F  R  V  Y  N  A  S  L  L  Q  T  K  T  A  L  K  L  K  Y  I  L  I  Y  R  K  L  A  M  S  R  G  *  F  H  *  V  N  T  W  I  R  V  I  *  T  C  Q  V  L  L  Q  Y  *  D  V  Q  I  L  I  T  M  V  Y  V  H  C  I  F  C  L  L  I  T  N  I  E  Q  T  Y  I  * :   K  K  I  K  </second_frame>
            <third_frame>   *  I  G  L  I  C  S  Q  K  F  G  Q  Q  L  S  Q  *  E  I  Y  A  N  Q  T  Q  I  *  I  L  H  L  R  V  P  R  V  K  N  E  F  L  L  I  S  F  V  L  F  F  R :   M  S  W  K  I  H  T  *  Q  Q  M  V  I  H  M  K  V  M  Q  *  K  D  G  C  I  A  D  T  I  L  L  P  *  Q  T  S  S  S  T  P  V  I  *  F  P  I  M  L  S  I  A  L  F  R  N  G  S  N  S  P  E  T  H  L  E  Y  I  M  P  H  S  Y  K  Q  K  Q  L  *  S  *  S  I  Y  *  Y  I  E  S  *  P  C  L  V  G  S  S  T  E  L  I  L  G  F  E  L  F  E  L  V  K  C  C  C  N  I  E  T  Y  R  F  L  S  L  W  S  M  Y  T  A  Y  F  A  Y  S  L  Q  I  L  N  K  H  I  Y   : K  K  K  *  K </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="9" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="62386" stop="62237"/>
                    <exon start="61752" stop="61570"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>330</number_coding_nucleotides>
                  <number_encoded_amino_acids>110</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LNRPNMLSEVWPTIEPMRDICKPNSDLNTSSQGSKSQKRIPPHFVCPIFQDVMEDPHIAADGYTYEGDAIKGWLYSGHDTSPMTNLKLDTCDLIPNYALYRAIQEWQQQS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="10" PGL_strand="-" PGL_start="69788" PGL_stop="65273"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="69788" e_stop="69479"/>
            <exon e_start="67845" e_stop="67724"/>
            <exon e_start="66904" e_stop="66783"/>
            <exon e_start="66228" e_stop="66117"/>
            <exon e_start="65366" e_stop="65273"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.220" acc_prob="0.996" e_score="0.977"/>
          <exon-intron don_prob="0.977" acc_prob="0.964" e_score="0.992"/>
          <exon-intron don_prob="0.904" acc_prob="0.979" e_score="1.000"/>
          <exon-intron don_prob="0.869" acc_prob="0.532" e_score="1.000"/>
          <exon-only e_score="0.979"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.977">
            <gDNA_exon_boundary e_start="69788" e_stop="69479" e_length="310"/>
          </exon>
          <intron i_serial="1" don_prob="0.220" acc_prob="0.996">
            <gDNA_intron_boundary i_start="69478" i_stop="67846" i_length="1633"/>
          </intron>
          <exon e_serial="2" e_score="0.992">
            <gDNA_exon_boundary e_start="67845" e_stop="67724" e_length="122"/>
          </exon>
          <intron i_serial="2" don_prob="0.977" acc_prob="0.964">
            <gDNA_intron_boundary i_start="67723" i_stop="66905" i_length="819"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="66904" e_stop="66783" e_length="122"/>
          </exon>
          <intron i_serial="3" don_prob="0.904" acc_prob="0.979">
            <gDNA_intron_boundary i_start="66782" i_stop="66229" i_length="554"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="66228" e_stop="66117" e_length="112"/>
          </exon>
          <intron i_serial="4" don_prob="0.869" acc_prob="0.532">
            <gDNA_intron_boundary i_start="66116" i_stop="65367" i_length="750"/>
          </intron>
          <exon e_serial="5" e_score="0.979">
            <gDNA_exon_boundary e_start="65366" e_stop="65273" e_length="94"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69788" stop="69479"/>
              <exon start="67845" stop="67724"/>
              <exon start="66904" stop="66783"/>
              <exon start="66228" stop="66117"/>
              <exon start="65366" stop="65273"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E549365" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69787" stop="69479"/>
              <exon start="67845" stop="67724"/>
              <exon start="66904" stop="66783"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E358803" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="10" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTTACGTTTCTTGGATCAGTTACAGTTTTTTCAAACCAACCCCATGAAAGTAATTTCTTGAGCTGAGTGAGCTTTTTGGGAAGGAAATTGCAAAAGGGGTTTTTGGAATTTTCTGGTGAAATTTTAGTGATGAGTGGTGAAGATATGATTAAAGCTGAAGGGATCTGTGACGTGGAGGATACTGTATTTGTAGCTGTAGGGAAGAATGTGAAAGAGGGAAAATCTGTACTTTCTTGGGCTTTGAAGAGCTTTGCTGGCAGGAGAATTTGTGTTCTTCATGTTCATCAACCTAATCATTTGTTTTCATCTA : AGGATGGGAAGCTATCAGGTGCAAAGCTGAAACAGCACATGGTGAAGGCATGCCAAGAACTTGATCGCCTAAGACTGCACAAACTTCTAAACCAGTATCTTCTCTTTATATCCCAAGCTGGG : ATACAAGGGGGTAAGGTGTGGCTTGAAATAAATAATGTGGAGAAAGGGATAATACATATTATTGAAGAACACAAAATTCGGTGGCTTGTCATGGGAGCTGCAGCAGAGACTCATTACTCAAA : ATTGCAGGCAACTGTCAGAGCTCAAGTCCAGCAAAGCTAAATTTGTGTGCCAACATGCACCAATGCACTGTCAAATTTGGTTTACTTGCAACGAGTGCCTGATACATACAAG : GTCTATGAAAAACTCTCTTTCAAGTAGCTCGGAGTCATTATCTTCTCCAGAAGATAATGGAGGAACCGAAATGCGTAATAATGTTGGCAACGGT</gDNA_template>
            <first_frame> F  T  F  L  G  S  V  T  V  F  S  N  Q  P  H  E  S  N  F  L  S  *  V  S  F  L  G  R  K  L  Q  K  G  F  L  E  F  S  G  E  I  L  V  M  S  G  E  D  M  I  K  A  E  G  I  C  D  V  E  D  T  V  F  V  A  V  G  K  N  V  K  E  G  K  S  V  L  S  W  A  L  K  S  F  A  G  R  R  I  C  V  L  H  V  H  Q  P  N  H  L  F  S  S   : K  D  G  K  L  S  G  A  K  L  K  Q  H  M  V  K  A  C  Q  E  L  D  R  L  R  L  H  K  L  L  N  Q  Y  L  L  F  I  S  Q  A  G  :  I  Q  G  G  K  V  W  L  E  I  N  N  V  E  K  G  I  I  H  I  I  E  E  H  K  I  R  W  L  V  M  G  A  A  A  E  T  H  Y  S  K :   L  Q  A  T  V  R  A  Q  V  Q  Q  S  *  I  C  V  P  T  C  T  N  A  L  S  N  L  V  Y  L  Q  R  V  P  D  T  Y  K  :  V  Y  E  K  L  S  F  K  *  L  G  V  I  I  F  S  R  R  *  W  R  N  R  N  A  *  *  C  W  Q  R  </first_frame>
            <second_frame>  L  R  F  L  D  Q  L  Q  F  F  Q  T  N  P  M  K  V  I  S  *  A  E  *  A  F  W  E  G  N  C  K  R  G  F  W  N  F  L  V  K  F  *  *  *  V  V  K  I  *  L  K  L  K  G  S  V  T  W  R  I  L  Y  L  *  L  *  G  R  M  *  K  R  E  N  L  Y  F  L  G  L  *  R  A  L  L  A  G  E  F  V  F  F  M  F  I  N  L  I  I  C  F  H  L  :  R  M  G  S  Y  Q  V  Q  S  *  N  S  T  W  *  R  H  A  K  N  L  I  A  *  D  C  T  N  F  *  T  S  I  F  S  L  Y  P  K  L  G :   Y  K  G  V  R  C  G  L  K  *  I  M  W  R  K  G  *  Y  I  L  L  K  N  T  K  F  G  G  L  S  W  E  L  Q  Q  R  L  I  T  Q   : N  C  R  Q  L  S  E  L  K  S  S  K  A  K  F  V  C  Q  H  A  P  M  H  C  Q  I  W  F  T  C  N  E  C  L  I  H  T  R :   S  M  K  N  S  L  S  S  S  S  E  S  L  S  S  P  E  D  N  G  G  T  E  M  R  N  N  V  G  N  G </second_frame>
            <third_frame>   Y  V  S  W  I  S  Y  S  F  F  K  P  T  P  *  K  *  F  L  E  L  S  E  L  F  G  K  E  I  A  K  G  V  F  G  I  F  W  *  N  F  S  D  E  W  *  R  Y  D  *  S  *  R  D  L  *  R  G  G  Y  C  I  C  S  C  R  E  E  C  E  R  G  K  I  C  T  F  L  G  F  E  E  L  C  W  Q  E  N  L  C  S  S  C  S  S  T  *  S  F  V  F  I  * :   G  W  E  A  I  R  C  K  A  E  T  A  H  G  E  G  M  P  R  T  *  S  P  K  T  A  Q  T  S  K  P  V  S  S  L  Y  I  P  S  W   : D  T  R  G  *  G  V  A  *  N  K  *  C  G  E  R  D  N  T  Y  Y  *  R  T  Q  N  S  V  A  C  H  G  S  C  S  R  D  S  L  L  K  :  I  A  G  N  C  Q  S  S  S  P  A  K  L  N  L  C  A  N  M  H  Q  C  T  V  K  F  G  L  L  A  T  S  A  *  Y  I  Q   : G  L  *  K  T  L  F  Q  V  A  R  S  H  Y  L  L  Q  K  I  M  E  E  P  K  C  V  I  M  L  A  T   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="10" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="69722" stop="69479"/>
                    <exon start="67845" stop="67724"/>
                    <exon start="66904" stop="66783"/>
                    <exon start="66228" stop="66189"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>525</number_coding_nucleotides>
                  <number_encoded_amino_acids>175</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VSFLGRKLQKGFLEFSGEILVMSGEDMIKAEGICDVEDTVFVAVGKNVKEGKSVLSWALKSFAGRRICVLHVHQPNHLFSSKDGKLSGAKLKQHMVKACQELDRLRLHKLLNQYLLFISQAGIQGGKVWLEINNVEKGIIHIIEEHKIRWLVMGAAAETHYSKLQATVRAQVQQS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="69787" e_stop="69479"/>
            <exon e_start="67845" e_stop="67724"/>
            <exon e_start="66904" e_stop="66783"/>
            <exon e_start="66228" e_stop="66117"/>
            <exon e_start="65555" e_stop="65321"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.220" acc_prob="0.996" e_score="0.977"/>
          <exon-intron don_prob="0.977" acc_prob="0.964" e_score="0.992"/>
          <exon-intron don_prob="0.904" acc_prob="0.979" e_score="1.000"/>
          <exon-intron don_prob="0.869" acc_prob="0.994" e_score="1.000"/>
          <exon-only e_score="0.979"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.977">
            <gDNA_exon_boundary e_start="69787" e_stop="69479" e_length="309"/>
          </exon>
          <intron i_serial="1" don_prob="0.220" acc_prob="0.996">
            <gDNA_intron_boundary i_start="69478" i_stop="67846" i_length="1633"/>
          </intron>
          <exon e_serial="2" e_score="0.992">
            <gDNA_exon_boundary e_start="67845" e_stop="67724" e_length="122"/>
          </exon>
          <intron i_serial="2" don_prob="0.977" acc_prob="0.964">
            <gDNA_intron_boundary i_start="67723" i_stop="66905" i_length="819"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="66904" e_stop="66783" e_length="122"/>
          </exon>
          <intron i_serial="3" don_prob="0.904" acc_prob="0.979">
            <gDNA_intron_boundary i_start="66782" i_stop="66229" i_length="554"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="66228" e_stop="66117" e_length="112"/>
          </exon>
          <intron i_serial="4" don_prob="0.869" acc_prob="0.994">
            <gDNA_intron_boundary i_start="66116" i_stop="65556" i_length="561"/>
          </intron>
          <exon e_serial="5" e_score="0.979">
            <gDNA_exon_boundary e_start="65555" e_stop="65321" e_length="235"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69787" stop="69479"/>
              <exon start="67845" stop="67724"/>
              <exon start="66904" stop="66783"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E358803" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="66864" stop="66783"/>
              <exon start="66228" stop="66117"/>
              <exon start="65555" stop="65321"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E358744" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="10" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTACGTTTCTTGGATCAGTTACAGTTTTTTCAAACCAACCCCATGAAAGTAATTTCTTGAGCTGAGTGAGCTTTTTGGGAAGGAAATTGCAAAAGGGGTTTTTGGAATTTTCTGGTGAAATTTTAGTGATGAGTGGTGAAGATATGATTAAAGCTGAAGGGATCTGTGACGTGGAGGATACTGTATTTGTAGCTGTAGGGAAGAATGTGAAAGAGGGAAAATCTGTACTTTCTTGGGCTTTGAAGAGCTTTGCTGGCAGGAGAATTTGTGTTCTTCATGTTCATCAACCTAATCATTTGTTTTCATCTA : AGGATGGGAAGCTATCAGGTGCAAAGCTGAAACAGCACATGGTGAAGGCATGCCAAGAACTTGATCGCCTAAGACTGCACAAACTTCTAAACCAGTATCTTCTCTTTATATCCCAAGCTGGG : ATACAAGGGGGTAAGGTGTGGCTTGAAATAAATAATGTGGAGAAAGGGATAATACATATTATTGAAGAACACAAAATTCGGTGGCTTGTCATGGGAGCTGCAGCAGAGACTCATTACTCAAA : ATTGCAGGCAACTGTCAGAGCTCAAGTCCAGCAAAGCTAAATTTGTGTGCCAACATGCACCAATGCACTGTCAAATTTGGTTTACTTGCAACGAGTGCCTGATACATACAAG : GCTGCCTACATCACGCATAAGGGGGTTCAGCCCTTCCCTTAACCCCGTGAGAACGCGGGATGTTTAGAGCACCGTGCTGCCAATTTTTTCTTATTCTGCTAGCTTGCGATTGAGGTGTGGTTGTTGCTTTTGGTGAACAGTTTACCAAGGCTGACTAACTTCCTATTTTGTTTCCCTTTGTCTTGCAAGGTCTATGAAAAACTCTCTTTCAAGTAGCTCGGAGTCATTATCTTCT</gDNA_template>
            <first_frame> L  R  F  L  D  Q  L  Q  F  F  Q  T  N  P  M  K  V  I  S  *  A  E  *  A  F  W  E  G  N  C  K  R  G  F  W  N  F  L  V  K  F  *  *  *  V  V  K  I  *  L  K  L  K  G  S  V  T  W  R  I  L  Y  L  *  L  *  G  R  M  *  K  R  E  N  L  Y  F  L  G  L  *  R  A  L  L  A  G  E  F  V  F  F  M  F  I  N  L  I  I  C  F  H  L  :  R  M  G  S  Y  Q  V  Q  S  *  N  S  T  W  *  R  H  A  K  N  L  I  A  *  D  C  T  N  F  *  T  S  I  F  S  L  Y  P  K  L  G :   Y  K  G  V  R  C  G  L  K  *  I  M  W  R  K  G  *  Y  I  L  L  K  N  T  K  F  G  G  L  S  W  E  L  Q  Q  R  L  I  T  Q   : N  C  R  Q  L  S  E  L  K  S  S  K  A  K  F  V  C  Q  H  A  P  M  H  C  Q  I  W  F  T  C  N  E  C  L  I  H  T  R :   L  P  T  S  R  I  R  G  F  S  P  S  L  N  P  V  R  T  R  D  V  *  S  T  V  L  P  I  F  S  Y  S  A  S  L  R  L  R  C  G  C  C  F  W  *  T  V  Y  Q  G  *  L  T  S  Y  F  V  S  L  C  L  A  R  S  M  K  N  S  L  S  S  S  S  E  S  L  S  S </first_frame>
            <second_frame>  Y  V  S  W  I  S  Y  S  F  F  K  P  T  P  *  K  *  F  L  E  L  S  E  L  F  G  K  E  I  A  K  G  V  F  G  I  F  W  *  N  F  S  D  E  W  *  R  Y  D  *  S  *  R  D  L  *  R  G  G  Y  C  I  C  S  C  R  E  E  C  E  R  G  K  I  C  T  F  L  G  F  E  E  L  C  W  Q  E  N  L  C  S  S  C  S  S  T  *  S  F  V  F  I  * :   G  W  E  A  I  R  C  K  A  E  T  A  H  G  E  G  M  P  R  T  *  S  P  K  T  A  Q  T  S  K  P  V  S  S  L  Y  I  P  S  W   : D  T  R  G  *  G  V  A  *  N  K  *  C  G  E  R  D  N  T  Y  Y  *  R  T  Q  N  S  V  A  C  H  G  S  C  S  R  D  S  L  L  K  :  I  A  G  N  C  Q  S  S  S  P  A  K  L  N  L  C  A  N  M  H  Q  C  T  V  K  F  G  L  L  A  T  S  A  *  Y  I  Q   : G  C  L  H  H  A  *  G  G  S  A  L  P  L  T  P  *  E  R  G  M  F  R  A  P  C  C  Q  F  F  L  I  L  L  A  C  D  *  G  V  V  V  A  F  G  E  Q  F  T  K  A  D  *  L  P  I  L  F  P  F  V  L  Q  G  L  *  K  T  L  F  Q  V  A  R  S  H  Y  L   </second_frame>
            <third_frame>   T  F  L  G  S  V  T  V  F  S  N  Q  P  H  E  S  N  F  L  S  *  V  S  F  L  G  R  K  L  Q  K  G  F  L  E  F  S  G  E  I  L  V  M  S  G  E  D  M  I  K  A  E  G  I  C  D  V  E  D  T  V  F  V  A  V  G  K  N  V  K  E  G  K  S  V  L  S  W  A  L  K  S  F  A  G  R  R  I  C  V  L  H  V  H  Q  P  N  H  L  F  S  S   : K  D  G  K  L  S  G  A  K  L  K  Q  H  M  V  K  A  C  Q  E  L  D  R  L  R  L  H  K  L  L  N  Q  Y  L  L  F  I  S  Q  A  G  :  I  Q  G  G  K  V  W  L  E  I  N  N  V  E  K  G  I  I  H  I  I  E  E  H  K  I  R  W  L  V  M  G  A  A  A  E  T  H  Y  S  K :   L  Q  A  T  V  R  A  Q  V  Q  Q  S  *  I  C  V  P  T  C  T  N  A  L  S  N  L  V  Y  L  Q  R  V  P  D  T  Y  K  :  A  A  Y  I  T  H  K  G  V  Q  P  F  P  *  P  R  E  N  A  G  C  L  E  H  R  A  A  N  F  F  L  F  C  *  L  A  I  E  V  W  L  L  L  L  V  N  S  L  P  R  L  T  N  F  L  F  C  F  P  L  S  C  K  V  Y  E  K  L  S  F  K  *  L  G  V  I  I  F  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="10" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="69722" stop="69479"/>
                    <exon start="67845" stop="67724"/>
                    <exon start="66904" stop="66783"/>
                    <exon start="66228" stop="66189"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>525</number_coding_nucleotides>
                  <number_encoded_amino_acids>175</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VSFLGRKLQKGFLEFSGEILVMSGEDMIKAEGICDVEDTVFVAVGKNVKEGKSVLSWALKSFAGRRICVLHVHQPNHLFSSKDGKLSGAKLKQHMVKACQELDRLRLHKLLNQYLLFISQAGIQGGKVWLEINNVEKGIIHIIEEHKIRWLVMGAAAETHYSKLQATVRAQVQQS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="11" PGL_strand="-" PGL_start="80211" PGL_stop="78561"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="80211" e_stop="80193"/>
            <exon e_start="80096" e_stop="79891"/>
            <exon e_start="79784" e_stop="79600"/>
            <exon e_start="79508" e_stop="79469"/>
            <exon e_start="79121" e_stop="79044"/>
            <exon e_start="78931" e_stop="78872"/>
            <exon e_start="78601" e_stop="78597"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.321" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.896" acc_prob="0.039" e_score="1.000"/>
          <exon-intron don_prob="0.952" acc_prob="0.923" e_score="1.000"/>
          <exon-intron don_prob="0.923" acc_prob="0.974" e_score="1.000"/>
          <exon-intron don_prob="0.987" acc_prob="0.731" e_score="1.000"/>
          <exon-intron don_prob="0.985" acc_prob="0.998" e_score="1.000"/>
          <exon-only e_score="0.400"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="80211" e_stop="80193" e_length="19"/>
          </exon>
          <intron i_serial="1" don_prob="0.321" acc_prob="1.000">
            <gDNA_intron_boundary i_start="80192" i_stop="80097" i_length="96"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="80096" e_stop="79891" e_length="206"/>
          </exon>
          <intron i_serial="2" don_prob="0.896" acc_prob="0.039">
            <gDNA_intron_boundary i_start="79890" i_stop="79785" i_length="106"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="79784" e_stop="79600" e_length="185"/>
          </exon>
          <intron i_serial="3" don_prob="0.952" acc_prob="0.923">
            <gDNA_intron_boundary i_start="79599" i_stop="79509" i_length="91"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="79508" e_stop="79469" e_length="40"/>
          </exon>
          <intron i_serial="4" don_prob="0.923" acc_prob="0.974">
            <gDNA_intron_boundary i_start="79468" i_stop="79122" i_length="347"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="79121" e_stop="79044" e_length="78"/>
          </exon>
          <intron i_serial="5" don_prob="0.987" acc_prob="0.731">
            <gDNA_intron_boundary i_start="79043" i_stop="78932" i_length="112"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="78931" e_stop="78872" e_length="60"/>
          </exon>
          <intron i_serial="6" don_prob="0.985" acc_prob="0.998">
            <gDNA_intron_boundary i_start="78871" i_stop="78602" i_length="270"/>
          </intron>
          <exon e_serial="7" e_score="0.400">
            <gDNA_exon_boundary e_start="78601" e_stop="78597" e_length="5"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="80211" stop="80193"/>
              <exon start="80096" stop="79891"/>
              <exon start="79784" stop="79600"/>
              <exon start="79508" stop="79469"/>
              <exon start="79121" stop="79044"/>
              <exon start="78931" stop="78872"/>
              <exon start="78601" stop="78597"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E313391" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="11" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AACTTTGTGGATTTGGCAG : GCTATGAGGATTCCAGAAGAAGTAGCAAAGATGGAATTTCACTTACTGAAAGTACTAGAATAAACAAATCTTTGTATGCCATTATGAATGTGGTGTACGCTCTGAACACAAATGAAAAGCGTGTGCCTTATCGAGAAGGCAAACTCACTCGGATGCTACAGGAATCTCTTGGAGGCTCCAATCATGTTTTGTTGCTTACCTGCTTG : AATCCAATTCCTTGCCAAGATACTCTTTATGTAGTAAGTTTGGCTTCACGATCTTGTCAAAGCACTGGTCAGATTTTGACAAGCTCTGCAATGAAAAGTAAAAAGCACACTAATCAACAAGTACGACTAATGGGTACCCCATTGTCTGGGAAAAAGAACAACTCTGCTAGTAATTTAACAGAAAG : GAAATTATTCAGTGAGAGAAAAGCTGTCATCTCTAAGCAG : GATGAAGTCACCTCAGCTACAAAGTTTAAGCCTCTATCAAAAAATGCTTCAACCATCACATCTTCCTTCCATAAAAAG : ACTTCTCAAGACAAGTCCGATTCGGATAGTTCTGGAGCCTTGATATTATCAGCACAAAAT : GATGC</gDNA_template>
            <first_frame> N  F  V  D  L  A   : G  Y  E  D  S  R  R  S  S  K  D  G  I  S  L  T  E  S  T  R  I  N  K  S  L  Y  A  I  M  N  V  V  Y  A  L  N  T  N  E  K  R  V  P  Y  R  E  G  K  L  T  R  M  L  Q  E  S  L  G  G  S  N  H  V  L  L  L  T  C  L  :  N  P  I  P  C  Q  D  T  L  Y  V  V  S  L  A  S  R  S  C  Q  S  T  G  Q  I  L  T  S  S  A  M  K  S  K  K  H  T  N  Q  Q  V  R  L  M  G  T  P  L  S  G  K  K  N  N  S  A  S  N  L  T  E  R :   K  L  F  S  E  R  K  A  V  I  S  K  Q  :  D  E  V  T  S  A  T  K  F  K  P  L  S  K  N  A  S  T  I  T  S  S  F  H  K  K  :  T  S  Q  D  K  S  D  S  D  S  S  G  A  L  I  L  S  A  Q  N  :  D   </first_frame>
            <second_frame>  T  L  W  I  W  Q  :  A  M  R  I  P  E  E  V  A  K  M  E  F  H  L  L  K  V  L  E  *  T  N  L  C  M  P  L  *  M  W  C  T  L  *  T  Q  M  K  S  V  C  L  I  E  K  A  N  S  L  G  C  Y  R  N  L  L  E  A  P  I  M  F  C  C  L  P  A  * :   I  Q  F  L  A  K  I  L  F  M  *  *  V  W  L  H  D  L  V  K  A  L  V  R  F  *  Q  A  L  Q  *  K  V  K  S  T  L  I  N  K  Y  D  *  W  V  P  H  C  L  G  K  R  T  T  L  L  V  I  *  Q  K   : G  N  Y  S  V  R  E  K  L  S  S  L  S  R :   M  K  S  P  Q  L  Q  S  L  S  L  Y  Q  K  M  L  Q  P  S  H  L  P  S  I  K  R :   L  L  K  T  S  P  I  R  I  V  L  E  P  *  Y  Y  Q  H  K  M :   M  </second_frame>
            <third_frame>   L  C  G  F  G  R :   L  *  G  F  Q  K  K  *  Q  R  W  N  F  T  Y  *  K  Y  *  N  K  Q  I  F  V  C  H  Y  E  C  G  V  R  S  E  H  K  *  K  A  C  A  L  S  R  R  Q  T  H  S  D  A  T  G  I  S  W  R  L  Q  S  C  F  V  A  Y  L  L   : E  S  N  S  L  P  R  Y  S  L  C  S  K  F  G  F  T  I  L  S  K  H  W  S  D  F  D  K  L  C  N  E  K  *  K  A  H  *  S  T  S  T  T  N  G  Y  P  I  V  W  E  K  E  Q  L  C  *  *  F  N  R  K  :  E  I  I  Q  *  E  K  S  C  H  L  *  A   : G  *  S  H  L  S  Y  K  V  *  A  S  I  K  K  C  F  N  H  H  I  F  L  P  *  K   : D  F  S  R  Q  V  R  F  G  *  F  W  S  L  D  I  I  S  T  K   : *  C </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="11" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="80211" stop="80193"/>
                    <exon start="80096" stop="79891"/>
                    <exon start="79784" stop="79600"/>
                    <exon start="79508" stop="79469"/>
                    <exon start="79121" stop="79044"/>
                    <exon start="78931" stop="78872"/>
                    <exon start="78601" stop="78599"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>591</number_coding_nucleotides>
                  <number_encoded_amino_acids>197</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NFVDLAGYEDSRRSSKDGISLTESTRINKSLYAIMNVVYALNTNEKRVPYREGKLTRMLQESLGGSNHVLLLTCLNPIPCQDTLYVVSLASRSCQSTGQILTSSAMKSKKHTNQQVRLMGTPLSGKKNNSASNLTERKLFSERKAVISKQDEVTSATKFKPLSKNASTITSSFHKKTSQDKSDSDSSGALILSAQND</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="79654" e_stop="79600"/>
            <exon e_start="79508" e_stop="79469"/>
            <exon e_start="79121" e_stop="79044"/>
            <exon e_start="78931" e_stop="78872"/>
            <exon e_start="78773" e_stop="78723"/>
            <exon e_start="78601" e_stop="78561"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.952" acc_prob="0.923" e_score="1.000"/>
          <exon-intron don_prob="0.923" acc_prob="0.974" e_score="1.000"/>
          <exon-intron don_prob="0.987" acc_prob="0.731" e_score="0.987"/>
          <exon-intron don_prob="0.985" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.998" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="79654" e_stop="79600" e_length="55"/>
          </exon>
          <intron i_serial="1" don_prob="0.952" acc_prob="0.923">
            <gDNA_intron_boundary i_start="79599" i_stop="79509" i_length="91"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="79508" e_stop="79469" e_length="40"/>
          </exon>
          <intron i_serial="2" don_prob="0.923" acc_prob="0.974">
            <gDNA_intron_boundary i_start="79468" i_stop="79122" i_length="347"/>
          </intron>
          <exon e_serial="3" e_score="0.987">
            <gDNA_exon_boundary e_start="79121" e_stop="79044" e_length="78"/>
          </exon>
          <intron i_serial="3" don_prob="0.987" acc_prob="0.731">
            <gDNA_intron_boundary i_start="79043" i_stop="78932" i_length="112"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="78931" e_stop="78872" e_length="60"/>
          </exon>
          <intron i_serial="4" don_prob="0.985" acc_prob="0.000">
            <gDNA_intron_boundary i_start="78871" i_stop="78774" i_length="98"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="78773" e_stop="78723" e_length="51"/>
          </exon>
          <intron i_serial="5" don_prob="0.999" acc_prob="0.998">
            <gDNA_intron_boundary i_start="78722" i_stop="78602" i_length="121"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="78601" e_stop="78561" e_length="41"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="79654" stop="79600"/>
              <exon start="79508" stop="79469"/>
              <exon start="79121" stop="79044"/>
              <exon start="78931" stop="78872"/>
              <exon start="78773" stop="78723"/>
              <exon start="78601" stop="78561"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E338880" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="11" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TGGGTACCCCATTGTCTGGGAAAAAGAACAACTCTGCTAGTAATTTAACAGAAAG : GAAATTATTCAGTGAGAGAAAAGCTGTCATCTCTAAGCAG : GATGAAGTCACCTCAGCTACAAAGTTTAAGCCTCTATCAAAAAATGCTTCAACCATCACATCTTCCTTCCATAAAAAG : ACTTCTCAAGACAAGTCCGATTCGGATAGTTCTGGAGCCTTGATATTATCAGCACAAAAT : GAAATCCCAACTGCTTTCAAGGAAACAATCTGCGATAAAAATGTAGAAAAG : GATGCCTCTCCACCAAATAAAGCAACAGATTTAGAAGTTAC</gDNA_template>
            <first_frame> W  V  P  H  C  L  G  K  R  T  T  L  L  V  I  *  Q  K   : G  N  Y  S  V  R  E  K  L  S  S  L  S  R :   M  K  S  P  Q  L  Q  S  L  S  L  Y  Q  K  M  L  Q  P  S  H  L  P  S  I  K  R :   L  L  K  T  S  P  I  R  I  V  L  E  P  *  Y  Y  Q  H  K  M :   K  S  Q  L  L  S  R  K  Q  S  A  I  K  M  *  K  R :   M  P  L  H  Q  I  K  Q  Q  I  *  K  L  </first_frame>
            <second_frame>  G  Y  P  I  V  W  E  K  E  Q  L  C  *  *  F  N  R  K  :  E  I  I  Q  *  E  K  S  C  H  L  *  A   : G  *  S  H  L  S  Y  K  V  *  A  S  I  K  K  C  F  N  H  H  I  F  L  P  *  K   : D  F  S  R  Q  V  R  F  G  *  F  W  S  L  D  I  I  S  T  K   : *  N  P  N  C  F  Q  G  N  N  L  R  *  K  C  R  K   : G  C  L  S  T  K  *  S  N  R  F  R  S  Y </second_frame>
            <third_frame>   G  T  P  L  S  G  K  K  N  N  S  A  S  N  L  T  E  R :   K  L  F  S  E  R  K  A  V  I  S  K  Q  :  D  E  V  T  S  A  T  K  F  K  P  L  S  K  N  A  S  T  I  T  S  S  F  H  K  K  :  T  S  Q  D  K  S  D  S  D  S  S  G  A  L  I  L  S  A  Q  N  :  E  I  P  T  A  F  K  E  T  I  C  D  K  N  V  E  K  :  D  A  S  P  P  N  K  A  T  D  L  E  V   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="11" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="79652" stop="79600"/>
                    <exon start="79508" stop="79469"/>
                    <exon start="79121" stop="79044"/>
                    <exon start="78931" stop="78872"/>
                    <exon start="78773" stop="78723"/>
                    <exon start="78601" stop="78563"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>321</number_coding_nucleotides>
                  <number_encoded_amino_acids>107</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GTPLSGKKNNSASNLTERKLFSERKAVISKQDEVTSATKFKPLSKNASTITSSFHKKTSQDKSDSDSSGALILSAQNEIPTAFKETICDKNVEKDASPPNKATDLEV</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="12" PGL_strand="+" PGL_start="83898" PGL_stop="87689"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="83898" e_stop="84107"/>
            <exon e_start="87162" e_stop="87689"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.661" acc_prob="0.737" e_score="1.000"/>
          <exon-only e_score="0.996"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="83898" e_stop="84107" e_length="210"/>
          </exon>
          <intron i_serial="1" don_prob="0.661" acc_prob="0.737">
            <gDNA_intron_boundary i_start="84108" i_stop="87161" i_length="3054"/>
          </intron>
          <exon e_serial="2" e_score="0.996">
            <gDNA_exon_boundary e_start="87162" e_stop="87689" e_length="528"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83898" stop="84107"/>
              <exon start="87162" stop="87689"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541212" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83898" stop="84107"/>
              <exon start="87162" stop="87687"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541210" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83899" stop="84107"/>
              <exon start="87162" stop="87409"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295364" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="87162" stop="87557"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285438" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="12" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GAGGAATTGGGGCTGGTGAGAAAAAAATGGAGGGGAAAACGGAGAAGGAAAACAAGAGTGTAAAGAAGACGGCGTGTGATGTGGAGGCTCTGAAGAAGTGTTTGGAAGAAAATAAAGGCGACTATTTGAAATGTCAGTCTCATGTTGAAGCATTTAGGTCATCTTGCTCTATCAACAATTCTAATTCTTCTTCACCAAAGCTCAACTCCG : ATACACACGCAGGAAGGCAATAACTTGACCAAGCCTGTTCAAGAAAAGATCTTCATATATTAGAGGACTGATTTGGAGGACTGAAATCCGCGTCTTTTGCTGCTAGCAGTAATAAAACCAGAAAGAAGATTCAAGTATAAGACACCGCATTGTTTGTAAAATTCCTCCACAAAGGATATAGTTTTCTTATCTTTGCTATTTCTTCAGCTTTAATATCTCTTCAGATACTCTCCCAGAAATTTTGTGACAAGTAGCAAGAGAGAACTAATGAGGAAAACAAAATGTTGGTGGATGGGCAGTTGAATATTACATTGGCTGCTTTTAGTTTGTACATGCACGTATTTCCAGTAACAATATGAAGAACTGGGTAATTTAAAGTTCAGTGTCAAATTTAGTGACAAAGCTGGCTGGTCATGTCTTTTTTTTTCTTTCAAAATCATCTTATATAAAACTGATTCCAAATAAATGAAGAAACTGGAGCTAAGGGCAATATGTGTAAATTTGAGACCTCAATCTTGAAGCTTTTGT</gDNA_template>
            <first_frame> E  E  L  G  L  V  R  K  K  W  R  G  K  R  R  R  K  T  R  V  *  R  R  R  R  V  M  W  R  L  *  R  S  V  W  K  K  I  K  A  T  I  *  N  V  S  L  M  L  K  H  L  G  H  L  A  L  S  T  I  L  I  L  L  H  Q  S  S  T  P  :  I  H  T  Q  E  G  N  N  L  T  K  P  V  Q  E  K  I  F  I  Y  *  R  T  D  L  E  D  *  N  P  R  L  L  L  L  A  V  I  K  P  E  R  R  F  K  Y  K  T  P  H  C  L  *  N  S  S  T  K  D  I  V  F  L  S  L  L  F  L  Q  L  *  Y  L  F  R  Y  S  P  R  N  F  V  T  S  S  K  R  E  L  M  R  K  T  K  C  W  W  M  G  S  *  I  L  H  W  L  L  L  V  C  T  C  T  Y  F  Q  *  Q  Y  E  E  L  G  N  L  K  F  S  V  K  F  S  D  K  A  G  W  S  C  L  F  F  S  F  K  I  I  L  Y  K  T  D  S  K  *  M  K  K  L  E  L  R  A  I  C  V  N  L  R  P  Q  S  *  S  F  C </first_frame>
            <second_frame>  R  N  W  G  W  *  E  K  N  G  G  E  N  G  E  G  K  Q  E  C  K  E  D  G  V  *  C  G  G  S  E  E  V  F  G  R  K  *  R  R  L  F  E  M  S  V  S  C  *  S  I  *  V  I  L  L  Y  Q  Q  F  *  F  F  F  T  K  A  Q  L  R :   Y  T  R  R  K  A  I  T  *  P  S  L  F  K  K  R  S  S  Y  I  R  G  L  I  W  R  T  E  I  R  V  F  C  C  *  Q  *  *  N  Q  K  E  D  S  S  I  R  H  R  I  V  C  K  I  P  P  Q  R  I  *  F  S  Y  L  C  Y  F  F  S  F  N  I  S  S  D  T  L  P  E  I  L  *  Q  V  A  R  E  N  *  *  G  K  Q  N  V  G  G  W  A  V  E  Y  Y  I  G  C  F  *  F  V  H  A  R  I  S  S  N  N  M  K  N  W  V  I  *  S  S  V  S  N  L  V  T  K  L  A  G  H  V  F  F  F  L  S  K  S  S  Y  I  K  L  I  P  N  K  *  R  N  W  S  *  G  Q  Y  V  *  I  *  D  L  N  L  E  A  F   </second_frame>
            <third_frame>   G  I  G  A  G  E  K  K  M  E  G  K  T  E  K  E  N  K  S  V  K  K  T  A  C  D  V  E  A  L  K  K  C  L  E  E  N  K  G  D  Y  L  K  C  Q  S  H  V  E  A  F  R  S  S  C  S  I  N  N  S  N  S  S  S  P  K  L  N  S   : D  T  H  A  G  R  Q  *  L  D  Q  A  C  S  R  K  D  L  H  I  L  E  D  *  F  G  G  L  K  S  A  S  F  A  A  S  S  N  K  T  R  K  K  I  Q  V  *  D  T  A  L  F  V  K  F  L  H  K  G  Y  S  F  L  I  F  A  I  S  S  A  L  I  S  L  Q  I  L  S  Q  K  F  C  D  K  *  Q  E  R  T  N  E  E  N  K  M  L  V  D  G  Q  L  N  I  T  L  A  A  F  S  L  Y  M  H  V  F  P  V  T  I  *  R  T  G  *  F  K  V  Q  C  Q  I  *  *  Q  S  W  L  V  M  S  F  F  F  F  Q  N  H  L  I  *  N  *  F  Q  I  N  E  E  T  G  A  K  G  N  M  C  K  F  E  T  S  I  L  K  L  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="12" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="83900" stop="84107"/>
                    <exon start="87162" stop="87184"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>228</number_coding_nucleotides>
                  <number_encoded_amino_acids>76</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GIGAGEKKMEGKTEKENKSVKKTACDVEALKKCLEENKGDYLKCQSHVEAFRSSCSINNSNSSSPKLNSDTHAGRQ*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="13" PGL_strand="-" PGL_start="95853" PGL_stop="92447"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="95827" e_stop="95674"/>
            <exon e_start="94320" e_stop="94201"/>
            <exon e_start="93971" e_stop="93914"/>
            <exon e_start="93828" e_stop="93739"/>
            <exon e_start="93313" e_stop="93256"/>
            <exon e_start="93132" e_stop="92960"/>
            <exon e_start="92870" e_stop="92447"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.995" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.603" acc_prob="0.974" e_score="1.000"/>
          <exon-intron don_prob="0.976" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.929" e_score="1.000"/>
          <exon-intron don_prob="0.981" acc_prob="0.949" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.982" e_score="1.000"/>
          <exon-only e_score="0.967"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="95827" e_stop="95674" e_length="154"/>
          </exon>
          <intron i_serial="1" don_prob="0.995" acc_prob="0.997">
            <gDNA_intron_boundary i_start="95673" i_stop="94321" i_length="1353"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="94320" e_stop="94201" e_length="120"/>
          </exon>
          <intron i_serial="2" don_prob="0.603" acc_prob="0.974">
            <gDNA_intron_boundary i_start="94200" i_stop="93972" i_length="229"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="93971" e_stop="93914" e_length="58"/>
          </exon>
          <intron i_serial="3" don_prob="0.976" acc_prob="0.999">
            <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="93828" e_stop="93739" e_length="90"/>
          </exon>
          <intron i_serial="4" don_prob="1.000" acc_prob="0.929">
            <gDNA_intron_boundary i_start="93738" i_stop="93314" i_length="425"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="93313" e_stop="93256" e_length="58"/>
          </exon>
          <intron i_serial="5" don_prob="0.981" acc_prob="0.949">
            <gDNA_intron_boundary i_start="93255" i_stop="93133" i_length="123"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="93132" e_stop="92960" e_length="173"/>
          </exon>
          <intron i_serial="6" don_prob="0.996" acc_prob="0.982">
            <gDNA_intron_boundary i_start="92959" i_stop="92871" i_length="89"/>
          </intron>
          <exon e_serial="7" e_score="0.967">
            <gDNA_exon_boundary e_start="92870" e_stop="92447" e_length="424"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95827" stop="95674"/>
              <exon start="94320" stop="94201"/>
              <exon start="93971" stop="93914"/>
              <exon start="93828" stop="93757"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292662" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94309" stop="94201"/>
              <exon start="93971" stop="93914"/>
              <exon start="93828" stop="93739"/>
              <exon start="93313" stop="93256"/>
              <exon start="93132" stop="92960"/>
              <exon start="92870" stop="92637"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E377451" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94309" stop="94201"/>
              <exon start="93971" stop="93914"/>
              <exon start="93828" stop="93739"/>
              <exon start="93313" stop="93256"/>
              <exon start="93132" stop="92960"/>
              <exon start="92870" stop="92723"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E231853" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94309" stop="94201"/>
              <exon start="93971" stop="93914"/>
              <exon start="93828" stop="93739"/>
              <exon start="93313" stop="93256"/>
              <exon start="93132" stop="92960"/>
              <exon start="92870" stop="92735"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E231848" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94309" stop="94201"/>
              <exon start="93971" stop="93914"/>
              <exon start="93828" stop="93739"/>
              <exon start="93313" stop="93256"/>
              <exon start="93132" stop="92960"/>
              <exon start="92870" stop="92768"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E233185" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94309" stop="94201"/>
              <exon start="93971" stop="93914"/>
              <exon start="93828" stop="93739"/>
              <exon start="93313" stop="93256"/>
              <exon start="93132" stop="92960"/>
              <exon start="92870" stop="92778"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E233102" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93284" stop="93256"/>
              <exon start="93132" stop="92960"/>
              <exon start="92870" stop="92447"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E351738" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="13" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TGAGTCGAAACTTCACAGATCCCTTTGGAAATTCGAACAACTGTGTCAGTAAAACTCTGCATTTCCCCAAAAAGGTTACAACAATGGCGAACTTTCTTTGGGTTTTCATCTTCGTGGCTTTGGGGATCTGTTCCGAGCTTCTTTTCGCTGAAAA : AGGCCGAAAAGAATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAG : GGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG : GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAG : GATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAG : GAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAG : AATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTGATGGTGAAATGTGGTATGCCATCAAATTCTTTTATCTGAGAAGTATAACTGTGCAAAAGGATCCATTACAATCAGATGGTGACACCTATTGTACCGATGAAGATGAGAACTGTACGCGATGGGCTGCTACTGGAGAGTGTGAAAGGAATCCTGTTTTTATGGTTGGTTCTCCTGATTATTATGGTACATGTAGGAAAAGTTGTAATGCTTGTTGATTCTTTATGTAACGATTATATGTACCTTTACTGGCATTGTTTGTGACAAAATCTTCTGATTATTATTTTTTTC</gDNA_template>
            <first_frame> *  V  E  T  S  Q  I  P  L  E  I  R  T  T  V  S  V  K  L  C  I  S  P  K  R  L  Q  Q  W  R  T  F  F  G  F  S  S  S  W  L  W  G  S  V  P  S  F  F  S  L  K   : K  A  E  K  N  *  G  L  R  R  *  M  G  M  P  L  Y  S  R  A  I  L  Y  A  L  I  D  L  I  P  H  A  S  F  N  S  R  G  D  Q   : G  F  S  C  I  E  T  L  C  Q  Q  K  R  L  I  T  *  S  L  R :   C  M  E  *  E  M  A  P  Q  L  I  M  L  L  W  M  Q  *  I  F  Q  L  W  V  F  L  *  M  Q  R :   I  L  L  P  Q  G  S  K  K  G  S  Q  L  G  P  F  C  Q  K  :  E  T  A  S  H  C  M  F  C  I  L  D  V  R  V  Q  R  G  I  I  V  I  L  R  *  T  P  H  S  S  P  A  N  H  *  W  R  L  S  F  C  I  Y  Q  M  *  H  R  V  V  R  S  S  S  L  S  Q  R :   I  R  Y  C  L  T  V  R  R  V  A  T  P  *  D  Q  L  K  E  M  Q  L  C  S  S  M  S  T  S  M  H  P  L  T  G  V  A  P  M  Q  D  A  L  L  L  M  V  K  C  G  M  P  S  N  S  F  I  *  E  V  *  L  C  K  R  I  H  Y  N  Q  M  V  T  P  I  V  P  M  K  M  R  T  V  R  D  G  L  L  L  E  S  V  K  G  I  L  F  L  W  L  V  L  L  I  I  M  V  H  V  G  K  V  V  M  L  V  D  S  L  C  N  D  Y  M  Y  L  Y  W  H  C  L  *  Q  N  L  L  I  I  I  F  F </first_frame>
            <second_frame>  E  S  K  L  H  R  S  L  W  K  F  E  Q  L  C  Q  *  N  S  A  F  P  Q  K  G  Y  N  N  G  E  L  S  L  G  F  H  L  R  G  F  G  D  L  F  R  A  S  F  R  *  K  :  R  P  K  R  I  E  G  *  G  G  E  W  G  C  H  Y  T  V  G  P  S  C  T  L  *  *  I  *  S  L  T  R  R  S  T  L  V  A  T  K  :  G  F  L  V  *  R  L  Y  V  S  R  R  D  *  S  L  N  L  F   : G  A  W  N  E  K  W  L  H  N  *  *  C  F  C  G  C  S  E  F  S  N  Y  G  Y  S  C  R  C  K   : G  S  Y  F  L  K  D  R  R  K  D  L  S  L  D  L  S  A  K  R :   K  Q  Q  A  I  A  C  S  A  F  W  T  *  E  F  K  G  E  L  *  L  F  *  D  E  L  H  T  Q  V  Q  R  T  I  N  G  D  C  H  F  V  S  I  K  C  D  T  G  W  S  D  P  L  P  *  V  R   : E  *  D  I  V  *  L  Y  E  E  *  R  L  P  E  T  N  *  R  K  C  N  C  V  L  Q  C  P  P  R  C  I  P  *  Q  E  *  L  P  C  K  M  P  C  Y  *  W  *  N  V  V  C  H  Q  I  L  L  S  E  K  Y  N  C  A  K  G  S  I  T  I  R  W  *  H  L  L  Y  R  *  R  *  E  L  Y  A  M  G  C  Y  W  R  V  *  K  E  S  C  F  Y  G  W  F  S  *  L  L  W  Y  M  *  E  K  L  *  C  L  L  I  L  Y  V  T  I  I  C  T  F  T  G  I  V  C  D  K  I  F  *  L  L  F  F   </second_frame>
            <third_frame>   S  R  N  F  T  D  P  F  G  N  S  N  N  C  V  S  K  T  L  H  F  P  K  K  V  T  T  M  A  N  F  L  W  V  F  I  F  V  A  L  G  I  C  S  E  L  L  F  A  E  K :   G  R  K  E  L  R  A  E  E  V  N  G  D  A  I  I  Q  S  G  H  P  V  R  S  N  R  F  D  P  S  R  V  V  Q  L  S  W  R  P  R :   V  F  L  Y  R  D  F  M  S  A  E  E  T  D  H  L  I  S  S  :  V  H  G  M  R  N  G  S  T  I  D  N  A  S  V  D  A  V  N  F  P  T  M  G  I  P  V  D  A  K  :  D  P  T  S  S  R  I  E  E  R  I  S  A  W  T  F  L  P  K   : G  N  S  K  P  L  H  V  L  H  S  G  R  E  S  S  K  G  N  Y  S  Y  F  E  M  N  S  T  L  K  S  S  E  P  L  M  A  T  V  I  L  Y  L  S  N  V  T  Q  G  G  Q  I  L  F  P  E  S  E  :  N  K  I  L  S  D  C  T  K  S  S  D  S  L  R  P  T  K  G  N  A  I  V  F  F  N  V  H  L  D  A  S  P  D  R  S  S  S  H  A  R  C  P  V  I  D  G  E  M  W  Y  A  I  K  F  F  Y  L  R  S  I  T  V  Q  K  D  P  L  Q  S  D  G  D  T  Y  C  T  D  E  D  E  N  C  T  R  W  A  A  T  G  E  C  E  R  N  P  V  F  M  V  G  S  P  D  Y  Y  G  T  C  R  K  S  C  N  A  C  *  F  F  M  *  R  L  Y  V  P  L  L  A  L  F  V  T  K  S  S  D  Y  Y  F  F  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="13" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="95825" stop="95674"/>
                    <exon start="94320" stop="94201"/>
                    <exon start="93971" stop="93914"/>
                    <exon start="93828" stop="93739"/>
                    <exon start="93313" stop="93256"/>
                    <exon start="93132" stop="92960"/>
                    <exon start="92870" stop="92520"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>999</number_coding_nucleotides>
                  <number_encoded_amino_acids>333</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SRNFTDPFGNSNNCVSKTLHFPKKVTTMANFLWVFIFVALGICSELLFAEKGRKELRAEEVNGDAIIQSGHPVRSNRFDPSRVVQLSWRPRVFLYRDFMSAEETDHLISSVHGMRNGSTIDNASVDAVNFPTMGIPVDAKDPTSSRIEERISAWTFLPKGNSKPLHVLHSGRESSKGNYSYFEMNSTLKSSEPLMATVILYLSNVTQGGQILFPESENKILSDCTKSSDSLRPTKGNAIVFFNVHLDASPDRSSSHARCPVIDGEMWYAIKFFYLRSITVQKDPLQSDGDTYCTDEDENCTRWAATGECERNPVFMVGSPDYYGTCRKSCNAC*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="95827" e_stop="95674"/>
            <exon e_start="94320" e_stop="94201"/>
            <exon e_start="93971" e_stop="93914"/>
            <exon e_start="93828" e_stop="93317"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.995" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.603" acc_prob="0.974" e_score="0.992"/>
          <exon-intron don_prob="0.976" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.994"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="95827" e_stop="95674" e_length="154"/>
          </exon>
          <intron i_serial="1" don_prob="0.995" acc_prob="0.997">
            <gDNA_intron_boundary i_start="95673" i_stop="94321" i_length="1353"/>
          </intron>
          <exon e_serial="2" e_score="0.992">
            <gDNA_exon_boundary e_start="94320" e_stop="94201" e_length="120"/>
          </exon>
          <intron i_serial="2" don_prob="0.603" acc_prob="0.974">
            <gDNA_intron_boundary i_start="94200" i_stop="93972" i_length="229"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="93971" e_stop="93914" e_length="58"/>
          </exon>
          <intron i_serial="3" don_prob="0.976" acc_prob="0.999">
            <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85"/>
          </intron>
          <exon e_serial="4" e_score="0.994">
            <gDNA_exon_boundary e_start="93828" e_stop="93317" e_length="512"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95827" stop="95674"/>
              <exon start="94320" stop="94201"/>
              <exon start="93971" stop="93914"/>
              <exon start="93828" stop="93757"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292662" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93966" stop="93914"/>
              <exon start="93828" stop="93317"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E250405" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="13" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TGAGTCGAAACTTCACAGATCCCTTTGGAAATTCGAACAACTGTGTCAGTAAAACTCTGCATTTCCCCAAAAAGGTTACAACAATGGCGAACTTTCTTTGGGTTTTCATCTTCGTGGCTTTGGGGATCTGTTCCGAGCTTCTTTTCGCTGAAAA : AGGCCGAAAAGAATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAG : GGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG : GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAGGTAAGTTCTTGTTATCTACACGGTTCTTTATATGAGCTAATGCTTTTTCAAAGCATAGATGTGACTAAGCATTTGTATTATTTAGATAGTGTTTAGTCTTGTAAATTGAAGATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGAAAATGGAATATTAGTAATTATGCATTAGGGTTCTATAAACTCTGCTTACCATGCGAATGGACTCCAGATATTAGTAATGATGCATTAGGGTGCTATAAACTCTGCTTATGCTTCCCATGAGAATGGTCTCCATGCTCACTGAATTTGCTGGTTGAGAAAGCAGTTTATGTTAATAAAACACAGTACTCAGTACTTGTAACATGTTTCTTTGTATTGTTCTTTAAATTCTAGGATCCTACTAATGTTACCTTTATCAAAAAATTC</gDNA_template>
            <first_frame> *  V  E  T  S  Q  I  P  L  E  I  R  T  T  V  S  V  K  L  C  I  S  P  K  R  L  Q  Q  W  R  T  F  F  G  F  S  S  S  W  L  W  G  S  V  P  S  F  F  S  L  K   : K  A  E  K  N  *  G  L  R  R  *  M  G  M  P  L  Y  S  R  A  I  L  Y  A  L  I  D  L  I  P  H  A  S  F  N  S  R  G  D  Q   : G  F  S  C  I  E  T  L  C  Q  Q  K  R  L  I  T  *  S  L  R :   C  M  E  *  E  M  A  P  Q  L  I  M  L  L  W  M  Q  *  I  F  Q  L  W  V  F  L  *  M  Q  R  *  V  L  V  I  Y  T  V  L  Y  M  S  *  C  F  F  K  A  *  M  *  L  S  I  C  I  I  *  I  V  F  S  L  V  N  *  R  Y  *  *  L  C  I  R  V  L  *  T  L  L  T  M  K  M  E  Y  *  *  L  C  I  R  V  L  *  T  L  L  T  M  R  M  D  S  R  Y  *  *  *  C  I  R  V  L  *  T  L  L  M  L  P  M  R  M  V  S  M  L  T  E  F  A  G  *  E  S  S  L  C  *  *  N  T  V  L  S  T  C  N  M  F  L  C  I  V  L  *  I  L  G  S  Y  *  C  Y  L  Y  Q  K  I  </first_frame>
            <second_frame>  E  S  K  L  H  R  S  L  W  K  F  E  Q  L  C  Q  *  N  S  A  F  P  Q  K  G  Y  N  N  G  E  L  S  L  G  F  H  L  R  G  F  G  D  L  F  R  A  S  F  R  *  K  :  R  P  K  R  I  E  G  *  G  G  E  W  G  C  H  Y  T  V  G  P  S  C  T  L  *  *  I  *  S  L  T  R  R  S  T  L  V  A  T  K  :  G  F  L  V  *  R  L  Y  V  S  R  R  D  *  S  L  N  L  F   : G  A  W  N  E  K  W  L  H  N  *  *  C  F  C  G  C  S  E  F  S  N  Y  G  Y  S  C  R  C  K  G  K  F  L  L  S  T  R  F  F  I  *  A  N  A  F  S  K  H  R  C  D  *  A  F  V  L  F  R  *  C  L  V  L  *  I  E  D  I  S  N  Y  A  L  G  F  Y  K  L  C  L  P  *  K  W  N  I  S  N  Y  A  L  G  F  Y  K  L  C  L  P  C  E  W  T  P  D  I  S  N  D  A  L  G  C  Y  K  L  C  L  C  F  P  *  E  W  S  P  C  S  L  N  L  L  V  E  K  A  V  Y  V  N  K  T  Q  Y  S  V  L  V  T  C  F  F  V  L  F  F  K  F  *  D  P  T  N  V  T  F  I  K  K  F </second_frame>
            <third_frame>   S  R  N  F  T  D  P  F  G  N  S  N  N  C  V  S  K  T  L  H  F  P  K  K  V  T  T  M  A  N  F  L  W  V  F  I  F  V  A  L  G  I  C  S  E  L  L  F  A  E  K :   G  R  K  E  L  R  A  E  E  V  N  G  D  A  I  I  Q  S  G  H  P  V  R  S  N  R  F  D  P  S  R  V  V  Q  L  S  W  R  P  R :   V  F  L  Y  R  D  F  M  S  A  E  E  T  D  H  L  I  S  S  :  V  H  G  M  R  N  G  S  T  I  D  N  A  S  V  D  A  V  N  F  P  T  M  G  I  P  V  D  A  K  V  S  S  C  Y  L  H  G  S  L  Y  E  L  M  L  F  Q  S  I  D  V  T  K  H  L  Y  Y  L  D  S  V  *  S  C  K  L  K  I  L  V  I  M  H  *  G  S  I  N  S  A  Y  H  E  N  G  I  L  V  I  M  H  *  G  S  I  N  S  A  Y  H  A  N  G  L  Q  I  L  V  M  M  H  *  G  A  I  N  S  A  Y  A  S  H  E  N  G  L  H  A  H  *  I  C  W  L  R  K  Q  F  M  L  I  K  H  S  T  Q  Y  L  *  H  V  S  L  Y  C  S  L  N  S  R  I  L  L  M  L  P  L  S  K  N   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="13" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="95825" stop="95674"/>
                    <exon start="94320" stop="94201"/>
                    <exon start="93971" stop="93914"/>
                    <exon start="93828" stop="93643"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>513</number_coding_nucleotides>
                  <number_encoded_amino_acids>171</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SRNFTDPFGNSNNCVSKTLHFPKKVTTMANFLWVFIFVALGICSELLFAEKGRKELRAEEVNGDAIIQSGHPVRSNRFDPSRVVQLSWRPRVFLYRDFMSAEETDHLISSVHGMRNGSTIDNASVDAVNFPTMGIPVDAKVSSCYLHGSLYELMLFQSIDVTKHLYYLDSV*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="95853" e_stop="95674"/>
            <exon e_start="94320" e_stop="94196"/>
            <exon e_start="93971" e_stop="93914"/>
            <exon e_start="93828" e_stop="93739"/>
            <exon e_start="93313" e_stop="93256"/>
            <exon e_start="93132" e_stop="92960"/>
            <exon e_start="92870" e_stop="92447"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.995" acc_prob="0.997" e_score="0.994"/>
          <exon-intron don_prob="0.982" acc_prob="0.974" e_score="0.960"/>
          <exon-intron don_prob="0.976" acc_prob="0.999" e_score="0.931"/>
          <exon-intron don_prob="1.000" acc_prob="0.929" e_score="0.956"/>
          <exon-intron don_prob="0.981" acc_prob="0.949" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.982" e_score="1.000"/>
          <exon-only e_score="0.967"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.994">
            <gDNA_exon_boundary e_start="95853" e_stop="95674" e_length="180"/>
          </exon>
          <intron i_serial="1" don_prob="0.995" acc_prob="0.997">
            <gDNA_intron_boundary i_start="95673" i_stop="94321" i_length="1353"/>
          </intron>
          <exon e_serial="2" e_score="0.960">
            <gDNA_exon_boundary e_start="94320" e_stop="94196" e_length="125"/>
          </exon>
          <intron i_serial="2" don_prob="0.982" acc_prob="0.974">
            <gDNA_intron_boundary i_start="94195" i_stop="93972" i_length="224"/>
          </intron>
          <exon e_serial="3" e_score="0.931">
            <gDNA_exon_boundary e_start="93971" e_stop="93914" e_length="58"/>
          </exon>
          <intron i_serial="3" don_prob="0.976" acc_prob="0.999">
            <gDNA_intron_boundary i_start="93913" i_stop="93829" i_length="85"/>
          </intron>
          <exon e_serial="4" e_score="0.956">
            <gDNA_exon_boundary e_start="93828" e_stop="93739" e_length="90"/>
          </exon>
          <intron i_serial="4" don_prob="1.000" acc_prob="0.929">
            <gDNA_intron_boundary i_start="93738" i_stop="93314" i_length="425"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="93313" e_stop="93256" e_length="58"/>
          </exon>
          <intron i_serial="5" don_prob="0.981" acc_prob="0.949">
            <gDNA_intron_boundary i_start="93255" i_stop="93133" i_length="123"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="93132" e_stop="92960" e_length="173"/>
          </exon>
          <intron i_serial="6" don_prob="0.996" acc_prob="0.982">
            <gDNA_intron_boundary i_start="92959" i_stop="92871" i_length="89"/>
          </intron>
          <exon e_serial="7" e_score="0.967">
            <gDNA_exon_boundary e_start="92870" e_stop="92447" e_length="424"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95853" stop="95674"/>
              <exon start="94320" stop="94196"/>
              <exon start="93971" stop="93914"/>
              <exon start="93828" stop="93739"/>
              <exon start="93313" stop="93264"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E367702" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93284" stop="93256"/>
              <exon start="93132" stop="92960"/>
              <exon start="92870" stop="92447"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E351738" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="13" AGS_serial="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GCATGAAGTTCCAGATGGCGTAGGAGTGAGTCGAAACTTCACAGATCCCTTTGGAAATTCGAACAACTGTGTCAGTAAAACTCTGCATTTCCCCAAAAAGGTTACAACAATGGCGAACTTTCTTTGGGTTTTCATCTTCGTGGCTTTGGGGATCTGTTCCGAGCTTCTTTTCGCTGAAAA : AGGCCGAAAAGAATTGAGGGCTGAGGAGGTGAATGGGGATGCCATTATACAGTCGGGCCATCCTGTACGCTCTAATAGATTTGATCCCTCACGCGTCGTTCAACTCTCGTGGCGACCAAGGTCAG : GGTTTTCTTGTATAGAGACTTTATGTCAGCAGAAGAGACTGATCACTTAATCTCTTCG : GTGCATGGAATGAGAAATGGCTCCACAATTGATAATGCTTCTGTGGATGCAGTGAATTTTCCAACTATGGGTATTCCTGTAGATGCAAAG : GATCCTACTTCCTCAAGGATCGAAGAAAGGATCTCAGCTTGGACCTTTCTGCCAAAAG : GAAACAGCAAGCCATTGCATGTTCTGCATTCTGGACGTGAGAGTTCAAAGGGGAATTATAGTTATTTTGAGATGAACTCCACACTCAAGTCCAGCGAACCATTAATGGCGACTGTCATTTTGTATCTATCAAATGTGACACAGGGTGGTCAGATCCTCTTCCCTGAGTCAGAG : AATAAGATATTGTCTGACTGTACGAAGAGTAGCGACTCCCTGAGACCAACTAAAGGAAATGCAATTGTGTTCTTCAATGTCCACCTCGATGCATCCCCTGACAGGAGTAGCTCCCATGCAAGATGCCCTGTTATTGATGGTGAAATGTGGTATGCCATCAAATTCTTTTATCTGAGAAGTATAACTGTGCAAAAGGATCCATTACAATCAGATGGTGACACCTATTGTACCGATGAAGATGAGAACTGTACGCGATGGGCTGCTACTGGAGAGTGTGAAAGGAATCCTGTTTTTATGGTTGGTTCTCCTGATTATTATGGTACATGTAGGAAAAGTTGTAATGCTTGTTGATTCTTTATGTAACGATTATATGTACCTTTACTGGCATTGTTTGTGACAAAATCTTCTGATTATTATTTTTTTC</gDNA_template>
            <first_frame> A  *  S  S  R  W  R  R  S  E  S  K  L  H  R  S  L  W  K  F  E  Q  L  C  Q  *  N  S  A  F  P  Q  K  G  Y  N  N  G  E  L  S  L  G  F  H  L  R  G  F  G  D  L  F  R  A  S  F  R  *  K  :  R  P  K  R  I  E  G  *  G  G  E  W  G  C  H  Y  T  V  G  P  S  C  T  L  *  *  I  *  S  L  T  R  R  S  T  L  V  A  T  K  V  R :   V  F  L  Y  R  D  F  M  S  A  E  E  T  D  H  L  I  S  S  :  V  H  G  M  R  N  G  S  T  I  D  N  A  S  V  D  A  V  N  F  P  T  M  G  I  P  V  D  A  K  :  D  P  T  S  S  R  I  E  E  R  I  S  A  W  T  F  L  P  K   : G  N  S  K  P  L  H  V  L  H  S  G  R  E  S  S  K  G  N  Y  S  Y  F  E  M  N  S  T  L  K  S  S  E  P  L  M  A  T  V  I  L  Y  L  S  N  V  T  Q  G  G  Q  I  L  F  P  E  S  E  :  N  K  I  L  S  D  C  T  K  S  S  D  S  L  R  P  T  K  G  N  A  I  V  F  F  N  V  H  L  D  A  S  P  D  R  S  S  S  H  A  R  C  P  V  I  D  G  E  M  W  Y  A  I  K  F  F  Y  L  R  S  I  T  V  Q  K  D  P  L  Q  S  D  G  D  T  Y  C  T  D  E  D  E  N  C  T  R  W  A  A  T  G  E  C  E  R  N  P  V  F  M  V  G  S  P  D  Y  Y  G  T  C  R  K  S  C  N  A  C  *  F  F  M  *  R  L  Y  V  P  L  L  A  L  F  V  T  K  S  S  D  Y  Y  F  F  </first_frame>
            <second_frame>  H  E  V  P  D  G  V  G  V  S  R  N  F  T  D  P  F  G  N  S  N  N  C  V  S  K  T  L  H  F  P  K  K  V  T  T  M  A  N  F  L  W  V  F  I  F  V  A  L  G  I  C  S  E  L  L  F  A  E  K :   G  R  K  E  L  R  A  E  E  V  N  G  D  A  I  I  Q  S  G  H  P  V  R  S  N  R  F  D  P  S  R  V  V  Q  L  S  W  R  P  R  S   : G  F  S  C  I  E  T  L  C  Q  Q  K  R  L  I  T  *  S  L  R :   C  M  E  *  E  M  A  P  Q  L  I  M  L  L  W  M  Q  *  I  F  Q  L  W  V  F  L  *  M  Q  R :   I  L  L  P  Q  G  S  K  K  G  S  Q  L  G  P  F  C  Q  K  :  E  T  A  S  H  C  M  F  C  I  L  D  V  R  V  Q  R  G  I  I  V  I  L  R  *  T  P  H  S  S  P  A  N  H  *  W  R  L  S  F  C  I  Y  Q  M  *  H  R  V  V  R  S  S  S  L  S  Q  R :   I  R  Y  C  L  T  V  R  R  V  A  T  P  *  D  Q  L  K  E  M  Q  L  C  S  S  M  S  T  S  M  H  P  L  T  G  V  A  P  M  Q  D  A  L  L  L  M  V  K  C  G  M  P  S  N  S  F  I  *  E  V  *  L  C  K  R  I  H  Y  N  Q  M  V  T  P  I  V  P  M  K  M  R  T  V  R  D  G  L  L  L  E  S  V  K  G  I  L  F  L  W  L  V  L  L  I  I  M  V  H  V  G  K  V  V  M  L  V  D  S  L  C  N  D  Y  M  Y  L  Y  W  H  C  L  *  Q  N  L  L  I  I  I  F  F </second_frame>
            <third_frame>   M  K  F  Q  M  A  *  E  *  V  E  T  S  Q  I  P  L  E  I  R  T  T  V  S  V  K  L  C  I  S  P  K  R  L  Q  Q  W  R  T  F  F  G  F  S  S  S  W  L  W  G  S  V  P  S  F  F  S  L  K   : K  A  E  K  N  *  G  L  R  R  *  M  G  M  P  L  Y  S  R  A  I  L  Y  A  L  I  D  L  I  P  H  A  S  F  N  S  R  G  D  Q  G  Q  :  G  F  L  V  *  R  L  Y  V  S  R  R  D  *  S  L  N  L  F   : G  A  W  N  E  K  W  L  H  N  *  *  C  F  C  G  C  S  E  F  S  N  Y  G  Y  S  C  R  C  K   : G  S  Y  F  L  K  D  R  R  K  D  L  S  L  D  L  S  A  K  R :   K  Q  Q  A  I  A  C  S  A  F  W  T  *  E  F  K  G  E  L  *  L  F  *  D  E  L  H  T  Q  V  Q  R  T  I  N  G  D  C  H  F  V  S  I  K  C  D  T  G  W  S  D  P  L  P  *  V  R   : E  *  D  I  V  *  L  Y  E  E  *  R  L  P  E  T  N  *  R  K  C  N  C  V  L  Q  C  P  P  R  C  I  P  *  Q  E  *  L  P  C  K  M  P  C  Y  *  W  *  N  V  V  C  H  Q  I  L  L  S  E  K  Y  N  C  A  K  G  S  I  T  I  R  W  *  H  L  L  Y  R  *  R  *  E  L  Y  A  M  G  C  Y  W  R  V  *  K  E  S  C  F  Y  G  W  F  S  *  L  L  W  Y  M  *  E  K  L  *  C  L  L  I  L  Y  V  T  I  I  C  T  F  T  G  I  V  C  D  K  I  F  *  L  L  F  F   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="13" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="94236" stop="94196"/>
                    <exon start="93971" stop="93914"/>
                    <exon start="93828" stop="93739"/>
                    <exon start="93313" stop="93256"/>
                    <exon start="93132" stop="92960"/>
                    <exon start="92870" stop="92520"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>768</number_coding_nucleotides>
                  <number_encoded_amino_acids>256</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SLTRRSTLVATKVRVFLYRDFMSAEETDHLISSVHGMRNGSTIDNASVDAVNFPTMGIPVDAKDPTSSRIEERISAWTFLPKGNSKPLHVLHSGRESSKGNYSYFEMNSTLKSSEPLMATVILYLSNVTQGGQILFPESENKILSDCTKSSDSLRPTKGNAIVFFNVHLDASPDRSSSHARCPVIDGEMWYAIKFFYLRSITVQKDPLQSDGDTYCTDEDENCTRWAATGECERNPVFMVGSPDYYGTCRKSCNAC*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="14" PGL_strand="-" PGL_start="99205" PGL_stop="97172"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="99205" e_stop="98754"/>
            <exon e_start="97759" e_stop="97172"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.993" e_score="1.000"/>
          <exon-only e_score="0.991"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="99205" e_stop="98754" e_length="452"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.993">
            <gDNA_intron_boundary i_start="98753" i_stop="97760" i_length="994"/>
          </intron>
          <exon e_serial="2" e_score="0.991">
            <gDNA_exon_boundary e_start="97759" e_stop="97172" e_length="588"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="99205" stop="98754"/>
              <exon start="97759" stop="97472"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E356258" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="99205" stop="98966"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E357849" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97759" stop="97172"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E374126" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="14" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ACAGGTACCTGCTATTTCCACCAACACAGCTACCAGGTAACTCTGCCCACCAAGGCTTGAATAAATGGAAATCACCTAGTGTTTTTTGCCTTTGCGGGGATCTGAACCATTTATTGTACTTTATAGTTCAATACTATTATGTTTCTGTTTTAAGTAAAAGCATCTATTCCGACAGATTTGGCATAACGACCACCATAATGGTTTGCATAGTACAATACAGTCAATCATGATACCATTTTACGCTGCAGTGTTCTACTATTAGGTACATGATTGCAGCCTCTGATTCATATAGTACCATATTTGTCCATTAAAACAGATGTGGACGATTTCCACCTGTTGTGAAGACTGCAGTTCCAGTGGATGGGAGATTTGAGCACATAGTTCTCTCTTGTAATGCTACTTCTGATCATGCAATTATCTGGATAGAGAGAGAAGCACGAAGGGCCCTGGAA : TTGATGCAAGAGAGAGATCATGTGAAGGAAATTCCAGCAAAGCAAAAGATGGAGCGACAACAGACATTAACTAGAGAGCACAACGAGGAGCATAAAGCTGCTCTACAGAGAGCTGTCACCTTGGCTGTTCCACATGCTTTTTCACCTTCTCATTACGGAACTTTTGATGAACTAGAGGAAGAACAGTCTGATACATCAGTTCGGGATTCATCCCCAGGGTCATCAAGTAGAAGCAAGACCAAAGATAACTGGGATGAACTGATTGAGCGTCTATATGAGAAGGATGAATCAGGTCATAAGATATTAATAAGATCAAGATCCCAGTGATACACAATGTTATAAACTCATCATTCTTTGATTAAACCATAGTTCTTATAATCTCATTTGATTGACACTATGGTCCTTTTTTTTTTTATTTGGGTGTGTCAGCCAGCAATGGCTTGTATCAATGTATCTATAGAACTTACAGAACATATGGAAAATGGATGTATTTATTAGTCCTTTTTTTCTGTAAGTTTATTATGTGTGAAGATTCTTTTCATGGAGAATTGCTAAGTAGTTGAGCATAAGGTGACCGTTATGTTGAAA</gDNA_template>
            <first_frame> T  G  T  C  Y  F  H  Q  H  S  Y  Q  V  T  L  P  T  K  A  *  I  N  G  N  H  L  V  F  F  A  F  A  G  I  *  T  I  Y  C  T  L  *  F  N  T  I  M  F  L  F  *  V  K  A  S  I  P  T  D  L  A  *  R  P  P  *  W  F  A  *  Y  N  T  V  N  H  D  T  I  L  R  C  S  V  L  L  L  G  T  *  L  Q  P  L  I  H  I  V  P  Y  L  S  I  K  T  D  V  D  D  F  H  L  L  *  R  L  Q  F  Q  W  M  G  D  L  S  T  *  F  S  L  V  M  L  L  L  I  M  Q  L  S  G  *  R  E  K  H  E  G  P  W  N :   *  C  K  R  E  I  M  *  R  K  F  Q  Q  S  K  R  W  S  D  N  R  H  *  L  E  S  T  T  R  S  I  K  L  L  Y  R  E  L  S  P  W  L  F  H  M  L  F  H  L  L  I  T  E  L  L  M  N  *  R  K  N  S  L  I  H  Q  F  G  I  H  P  Q  G  H  Q  V  E  A  R  P  K  I  T  G  M  N  *  L  S  V  Y  M  R  R  M  N  Q  V  I  R  Y  *  *  D  Q  D  P  S  D  T  Q  C  Y  K  L  I  I  L  *  L  N  H  S  S  Y  N  L  I  *  L  T  L  W  S  F  F  F  L  F  G  C  V  S  Q  Q  W  L  V  S  M  Y  L  *  N  L  Q  N  I  W  K  M  D  V  F  I  S  P  F  F  L  *  V  Y  Y  V  *  R  F  F  S  W  R  I  A  K  *  L  S  I  R  *  P  L  C  *   </first_frame>
            <second_frame>  Q  V  P  A  I  S  T  N  T  A  T  R  *  L  C  P  P  R  L  E  *  M  E  I  T  *  C  F  L  P  L  R  G  S  E  P  F  I  V  L  Y  S  S  I  L  L  C  F  C  F  K  *  K  H  L  F  R  Q  I  W  H  N  D  H  H  N  G  L  H  S  T  I  Q  S  I  M  I  P  F  Y  A  A  V  F  Y  Y  *  V  H  D  C  S  L  *  F  I  *  Y  H  I  C  P  L  K  Q  M  W  T  I  S  T  C  C  E  D  C  S  S  S  G  W  E  I  *  A  H  S  S  L  L  *  C  Y  F  *  S  C  N  Y  L  D  R  E  R  S  T  K  G  P  G   : I  D  A  R  E  R  S  C  E  G  N  S  S  K  A  K  D  G  A  T  T  D  I  N  *  R  A  Q  R  G  A  *  S  C  S  T  E  S  C  H  L  G  C  S  T  C  F  F  T  F  S  L  R  N  F  *  *  T  R  G  R  T  V  *  Y  I  S  S  G  F  I  P  R  V  I  K  *  K  Q  D  Q  R  *  L  G  *  T  D  *  A  S  I  *  E  G  *  I  R  S  *  D  I  N  K  I  K  I  P  V  I  H  N  V  I  N  S  S  F  F  D  *  T  I  V  L  I  I  S  F  D  *  H  Y  G  P  F  F  F  Y  L  G  V  S  A  S  N  G  L  Y  Q  C  I  Y  R  T  Y  R  T  Y  G  K  W  M  Y  L  L  V  L  F  F  C  K  F  I  M  C  E  D  S  F  H  G  E  L  L  S  S  *  A  *  G  D  R  Y  V  E  </second_frame>
            <third_frame>   R  Y  L  L  F  P  P  T  Q  L  P  G  N  S  A  H  Q  G  L  N  K  W  K  S  P  S  V  F  C  L  C  G  D  L  N  H  L  L  Y  F  I  V  Q  Y  Y  Y  V  S  V  L  S  K  S  I  Y  S  D  R  F  G  I  T  T  T  I  M  V  C  I  V  Q  Y  S  Q  S  *  Y  H  F  T  L  Q  C  S  T  I  R  Y  M  I  A  A  S  D  S  Y  S  T  I  F  V  H  *  N  R  C  G  R  F  P  P  V  V  K  T  A  V  P  V  D  G  R  F  E  H  I  V  L  S  C  N  A  T  S  D  H  A  I  I  W  I  E  R  E  A  R  R  A  L  E  :  L  M  Q  E  R  D  H  V  K  E  I  P  A  K  Q  K  M  E  R  Q  Q  T  L  T  R  E  H  N  E  E  H  K  A  A  L  Q  R  A  V  T  L  A  V  P  H  A  F  S  P  S  H  Y  G  T  F  D  E  L  E  E  E  Q  S  D  T  S  V  R  D  S  S  P  G  S  S  S  R  S  K  T  K  D  N  W  D  E  L  I  E  R  L  Y  E  K  D  E  S  G  H  K  I  L  I  R  S  R  S  Q  *  Y  T  M  L  *  T  H  H  S  L  I  K  P  *  F  L  *  S  H  L  I  D  T  M  V  L  F  F  F  I  W  V  C  Q  P  A  M  A  C  I  N  V  S  I  E  L  T  E  H  M  E  N  G  C  I  Y  *  S  F  F  S  V  S  L  L  C  V  K  I  L  F  M  E  N  C  *  V  V  E  H  K  V  T  V  M  L  K </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="14" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="98894" stop="98754"/>
                    <exon start="97759" stop="97433"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>465</number_coding_nucleotides>
                  <number_encoded_amino_acids>155</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NRCGRFPPVVKTAVPVDGRFEHIVLSCNATSDHAIIWIEREARRALELMQERDHVKEIPAKQKMERQQTLTREHNEEHKAALQRAVTLAVPHAFSPSHYGTFDELEEEQSDTSVRDSSPGSSSRSKTKDNWDELIERLYEKDESGHKILIRSRSQ*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="14" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="99203" stop="98976"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>225</number_coding_nucleotides>
                  <number_encoded_amino_acids>75</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RYLLFPPTQLPGNSAHQGLNKWKSPSVFCLCGDLNHLLYFIVQYYYVSVLSKSIYSDRFGITTTIMVCIVQYSQS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="15" PGL_strand="-" PGL_start="102478" PGL_stop="101155"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="102373" e_stop="102164"/>
            <exon e_start="101652" e_stop="101155"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.939" acc_prob="0.932" e_score="1.000"/>
          <exon-only e_score="0.992"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="102373" e_stop="102164" e_length="210"/>
          </exon>
          <intron i_serial="1" don_prob="0.939" acc_prob="0.932">
            <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511"/>
          </intron>
          <exon e_serial="2" e_score="0.992">
            <gDNA_exon_boundary e_start="101652" e_stop="101155" e_length="498"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102373" stop="102164"/>
              <exon start="101652" stop="101241"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E302544" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102372" stop="102164"/>
              <exon start="101652" stop="101353"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E302555" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102365" stop="102164"/>
              <exon start="101652" stop="101365"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E315072" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102359" stop="102164"/>
              <exon start="101652" stop="101256"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E305075" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102314" stop="102164"/>
              <exon start="101652" stop="101155"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E374127" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102314" stop="102164"/>
              <exon start="101652" stop="101240"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E305627" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102268" stop="102164"/>
              <exon start="101652" stop="101372"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E303393" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="15" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ATTGGTACACATCTGTCTCCTGATTTCATTTGATCATTTCGATTTCTGCCTCAGTTGTGGGTTATATACTATTGCTAACAAGTGAGAATCCACAGCATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAG : ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTCTTGCTATTAGAGGTCTTAATTTGGCGAAGGAGAGTGATTATGCAGTCCTGTTGGACAATAAGCTGGGAAAACGGAAATTTGATGGTGGGTATGTT</gDNA_template>
            <first_frame> I  G  T  H  L  S  P  D  F  I  *  S  F  R  F  L  P  Q  L  W  V  I  Y  Y  C  *  Q  V  R  I  H  S  I  D  F  R  I  L  I  N  T  *  I  C  Y  L  G  C  R  Y  F  Y  A  N  S  A  F  L  R  F  R  S  P  K  M  N  D  P  F  *  :  T  L  T  S  C  *  L  V  S  R  T  F  L  I  N  S  L  T  I  R  P  *  A  I  M  S  V  L  C  G  L  P  P  L  L  E  C  V  Y  G  V  A  C  A  R  W  A  W  K  R  C  L  H  S  A  G  H  D  S  E  N  W  S  V  A  T  A  E  E  F  E  P  V  P  R  L  C  R  Y  I  L  G  V  Y  E  D  D  L  R  Q  P  Q  W  E  P  P  E  G  Y  G  I  N  P  D  C  L  I  V  K  K  N  Y  P  D  T  G  G  R  A  P  P  Y  L  L  Y  L  D  H  D  H  A  D  I  V  L  A  I  R  G  L  N  L  A  K  E  S  D  Y  A  V  L  L  D  N  K  L  G  K  R  K  F  D  G  G  Y  V </first_frame>
            <second_frame>  L  V  H  I  C  L  L  I  S  F  D  H  F  D  F  C  L  S  C  G  L  Y  T  I  A  N  K  *  E  S  T  A  L  T  S  E  F  S  S  T  L  E  S  A  T  W  G  V  D  I  F  M  Q  I  L  L  F  *  G  S  G  A  L  R  *  M  T  H  F  R :   L  *  L  A  A  S  *  S  Q  G  H  S  *  S  T  V  *  Q  L  G  H  R  Q  *  C  P  F  S  V  V  Y  P  L  S  L  N  V  Y  T  V  *  L  V  P  D  G  H  G  S  G  A  S  I  V  Q  D  M  T  V  K  I  G  V  L  P  R  L  K  N  L  N  L  S  L  G  Y  A  D  T  Y  W  V  Y  T  K  M  I  L  D  N  L  S  G  N  H  L  K  D  M  E  L  I  Q  T  V  *  L  *  R  K  T  I  Q  I  P  V  V  E  H  H  H  I  S  Y  I  W  I  M  I  M  L  T  *  F  L  L  L  E  V  L  I  W  R  R  R  V  I  M  Q  S  C  W  T  I  S  W  E  N  G  N  L  M  V  G  M   </second_frame>
            <third_frame>   W  Y  T  S  V  S  *  F  H  L  I  I  S  I  S  A  S  V  V  G  Y  I  L  L  L  T  S  E  N  P  Q  H  *  L  Q  N  S  H  Q  H  L  N  L  L  L  G  V  S  I  F  L  C  K  F  C  F  S  E  V  Q  E  P  *  D  E  *  P  I  L   : D  F  D  *  L  L  V  S  L  K  D  I  L  N  Q  Q  S  N  N  *  A  I  G  N  N  V  R  S  L  W  F  T  P  S  P  *  M  C  I  R  C  S  L  C  P  M  G  M  E  A  V  P  P  *  C  R  T  *  Q  *  K  L  E  C  C  H  G  *  R  I  *  T  C  P  *  A  M  P  I  H  I  G  C  I  R  R  *  S  *  T  T  S  V  G  T  T  *  R  I  W  N  *  S  R  L  F  N  C  E  E  K  L  S  R  Y  R  W  S  S  T  T  I  S  L  I  F  G  S  *  S  C  *  H  S  S  C  Y  *  R  S  *  F  G  E  G  E  *  L  C  S  P  V  G  Q  *  A  G  K  T  E  I  *  W  W  V  C  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="15" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="101586" stop="101155"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>432</number_coding_nucleotides>
                  <number_encoded_amino_acids>144</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AIMSVLCGLPPLLECVYGVACARWAWKRCLHSAGHDSENWSVATAEEFEPVPRLCRYILGVYEDDLRQPQWEPPEGYGINPDCLIVKKNYPDTGGRAPPYLLYLDHDHADIVLAIRGLNLAKESDYAVLLDNKLGKRKFDGGYV</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="102478" e_stop="102370"/>
            <exon e_start="102278" e_stop="102164"/>
            <exon e_start="101652" e_stop="101224"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.990" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.939" acc_prob="0.932" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="102478" e_stop="102370" e_length="109"/>
          </exon>
          <intron i_serial="1" don_prob="0.990" acc_prob="0.000">
            <gDNA_intron_boundary i_start="102369" i_stop="102279" i_length="91"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="102278" e_stop="102164" e_length="115"/>
          </exon>
          <intron i_serial="2" don_prob="0.939" acc_prob="0.932">
            <gDNA_intron_boundary i_start="102163" i_stop="101653" i_length="511"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="101652" e_stop="101224" e_length="429"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102478" stop="102370"/>
              <exon start="102278" stop="102164"/>
              <exon start="101652" stop="101250"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E311860" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102448" stop="102370"/>
              <exon start="102278" stop="102164"/>
              <exon start="101652" stop="101224"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E314302" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="102268" stop="102164"/>
              <exon start="101652" stop="101372"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E303393" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="15" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AAAAGGACAACAAAGAAGTACCCTTTCGTGAAGGAGCAAGAGCATGGCCCTCTAAATACTCAATATTTTAGCCAAGCCAAGTTGACTTCCAACAACTCAGCAATAATTG : CATTGACTTCAGAATTCTCATCAACACTTGAATCTGCTACTTGGGGTGTCGATATTTTTATGCAAATTCTGCTTTTCTGAGGTTCAGGAGCCCTAAGATGAATGACCCATTTTAG : ACTTTGACTAGCTGCTAGTTAGTCTCAAGGACATTCTTAATCAACAGTCTAACAATTAGGCCATAGGCAATAATGTCCGTTCTCTGTGGTTTACCCCCTCTCCTTGAATGTGTATACGGTGTAGCTTGTGCCCGATGGGCATGGAAGCGGTGCCTCCATAGTGCAGGACATGACAGTGAAAATTGGAGTGTTGCCACGGCTGAAGAATTTGAACCTGTCCCTAGGCTATGCCGATACATATTGGGTGTATACGAAGATGATCTTAGACAACCTCAGTGGGAACCACCTGAAGGATATGGAATTAATCCAGACTGTTTAATTGTGAAGAAAAACTATCCAGATACCGGTGGTCGAGCACCACCATATCTCTTATATTTGGATCATGATCATGCTGACATAGTTCTTGCTATTAGAGGTCTTAATTTGGCG</gDNA_template>
            <first_frame> K  R  T  T  K  K  Y  P  F  V  K  E  Q  E  H  G  P  L  N  T  Q  Y  F  S  Q  A  K  L  T  S  N  N  S  A  I  I   : A  L  T  S  E  F  S  S  T  L  E  S  A  T  W  G  V  D  I  F  M  Q  I  L  L  F  *  G  S  G  A  L  R  *  M  T  H  F  R :   L  *  L  A  A  S  *  S  Q  G  H  S  *  S  T  V  *  Q  L  G  H  R  Q  *  C  P  F  S  V  V  Y  P  L  S  L  N  V  Y  T  V  *  L  V  P  D  G  H  G  S  G  A  S  I  V  Q  D  M  T  V  K  I  G  V  L  P  R  L  K  N  L  N  L  S  L  G  Y  A  D  T  Y  W  V  Y  T  K  M  I  L  D  N  L  S  G  N  H  L  K  D  M  E  L  I  Q  T  V  *  L  *  R  K  T  I  Q  I  P  V  V  E  H  H  H  I  S  Y  I  W  I  M  I  M  L  T  *  F  L  L  L  E  V  L  I  W   </first_frame>
            <second_frame>  K  G  Q  Q  R  S  T  L  S  *  R  S  K  S  M  A  L  *  I  L  N  I  L  A  K  P  S  *  L  P  T  T  Q  Q  *  L  :  H  *  L  Q  N  S  H  Q  H  L  N  L  L  L  G  V  S  I  F  L  C  K  F  C  F  S  E  V  Q  E  P  *  D  E  *  P  I  L   : D  F  D  *  L  L  V  S  L  K  D  I  L  N  Q  Q  S  N  N  *  A  I  G  N  N  V  R  S  L  W  F  T  P  S  P  *  M  C  I  R  C  S  L  C  P  M  G  M  E  A  V  P  P  *  C  R  T  *  Q  *  K  L  E  C  C  H  G  *  R  I  *  T  C  P  *  A  M  P  I  H  I  G  C  I  R  R  *  S  *  T  T  S  V  G  T  T  *  R  I  W  N  *  S  R  L  F  N  C  E  E  K  L  S  R  Y  R  W  S  S  T  T  I  S  L  I  F  G  S  *  S  C  *  H  S  S  C  Y  *  R  S  *  F  G  </second_frame>
            <third_frame>   K  D  N  K  E  V  P  F  R  E  G  A  R  A  W  P  S  K  Y  S  I  F  *  P  S  Q  V  D  F  Q  Q  L  S  N  N  C :   I  D  F  R  I  L  I  N  T  *  I  C  Y  L  G  C  R  Y  F  Y  A  N  S  A  F  L  R  F  R  S  P  K  M  N  D  P  F  *  :  T  L  T  S  C  *  L  V  S  R  T  F  L  I  N  S  L  T  I  R  P  *  A  I  M  S  V  L  C  G  L  P  P  L  L  E  C  V  Y  G  V  A  C  A  R  W  A  W  K  R  C  L  H  S  A  G  H  D  S  E  N  W  S  V  A  T  A  E  E  F  E  P  V  P  R  L  C  R  Y  I  L  G  V  Y  E  D  D  L  R  Q  P  Q  W  E  P  P  E  G  Y  G  I  N  P  D  C  L  I  V  K  K  N  Y  P  D  T  G  G  R  A  P  P  Y  L  L  Y  L  D  H  D  H  A  D  I  V  L  A  I  R  G  L  N  L  A </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="15" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="101586" stop="101224"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>363</number_coding_nucleotides>
                  <number_encoded_amino_acids>121</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AIMSVLCGLPPLLECVYGVACARWAWKRCLHSAGHDSENWSVATAEEFEPVPRLCRYILGVYEDDLRQPQWEPPEGYGINPDCLIVKKNYPDTGGRAPPYLLYLDHDHADIVLAIRGLNLA</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="16" PGL_strand="+" PGL_start="107956" PGL_stop="109702"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="107956" e_stop="108006"/>
            <exon e_start="108149" e_stop="108247"/>
            <exon e_start="109144" e_stop="109343"/>
            <exon e_start="109458" e_stop="109702"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.973" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="107956" e_stop="108006" e_length="51"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="1.000">
            <gDNA_intron_boundary i_start="108007" i_stop="108148" i_length="142"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="108149" e_stop="108247" e_length="99"/>
          </exon>
          <intron i_serial="2" don_prob="0.973" acc_prob="0.996">
            <gDNA_intron_boundary i_start="108248" i_stop="109143" i_length="896"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="109144" e_stop="109343" e_length="200"/>
          </exon>
          <intron i_serial="3" don_prob="0.997" acc_prob="0.999">
            <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="109458" e_stop="109702" e_length="245"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107956" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109678"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732873" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107961" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109694"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E723104" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107974" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734539" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107974" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109638"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E305740" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107975" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347922" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107975" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109635"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E353338" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107975" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109632"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E321510" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107976" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109694"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E711210" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107976" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E352470" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107976" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320747" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107976" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E352293" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107978" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109682"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310840" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107978" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109637"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E357068" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107979" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109588"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E338355" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107981" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109318"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296819" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107982" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109694"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348214" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107982" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109684"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348602" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107982" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109632"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282148" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107982" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109607"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E337518" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107983" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109632"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292446" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107983" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109623"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293223" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107985" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109674"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E715156" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107986" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109702"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391023" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107986" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109694"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391022" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107986" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109690"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396317" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107986" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109682"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E357799" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107986" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109638"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E390748" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107986" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109632"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E378289" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107986" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109320"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291677" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107987" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109694"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283464" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107988" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217256" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107990" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109663"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219052" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107990" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109631"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310796" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107990" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109629"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E337057" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107992" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109663"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219401" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="107996" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109583"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277653" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="108003" stop="108006"/>
              <exon start="108149" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109584"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284850" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="108181" stop="108247"/>
              <exon start="109144" stop="109321"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296783" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="108191" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109654"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E352272" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="108209" stop="108247"/>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109632"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E266342" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109694"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E356253" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109677"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E356295" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109674"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230650" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E357094" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217540" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E354400" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E354641" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109144" stop="109343"/>
              <exon start="109458" stop="109647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E356148" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109150" stop="109343"/>
              <exon start="109458" stop="109694"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396438" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109150" stop="109343"/>
              <exon start="109458" stop="109674"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234035" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109157" stop="109343"/>
              <exon start="109458" stop="109698"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E224128" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109175" stop="109343"/>
              <exon start="109458" stop="109663"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219486" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109188" stop="109343"/>
              <exon start="109458" stop="109694"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E224238" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109197" stop="109343"/>
              <exon start="109458" stop="109674"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230582" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109198" stop="109343"/>
              <exon start="109458" stop="109663"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219642" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="16" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CAGCTTCATCACCCGCCTCAAGACTCTCAGCAGATCGAGCAAAAATCAAAG : GGGATGGCGCCGCCGAACACAGGATTAGCAGTGGGATTGAACAAAGGACACATTGTAACCAAGAAGGAGTTAGCTCCACGCCCTTCTGACAGAAAAGGG : AAAACCAGCAAAAGAATCCACTTCGTCAGGAGCCTCATCAGAGAAGTTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG : GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAAATTGTTGATCCTTGTGATGACACGGTGG</gDNA_template>
            <first_frame> Q  L  H  H  P  P  Q  D  S  Q  Q  I  E  Q  K  S  K  :  G  M  A  P  P  N  T  G  L  A  V  G  L  N  K  G  H  I  V  T  K  K  E  L  A  P  R  P  S  D  R  K  G  :  K  T  S  K  R  I  H  F  V  R  S  L  I  R  E  V  A  G  F  A  P  Y  E  K  R  I  T  E  L  L  K  V  G  K  D  K  R  A  L  K  V  A  K  R  K  L  G  T  H  K  R  A  K  K  K  R  E  E  M  S  S  V  L  R  K  M  R :   A  T  G  G  G  E  K  K  K  *  S  L  Y  P  Y  F  D  N  *  G  T  E  F  I  S  *  Y  M  I  F  L  S  *  L  *  N  S  L  N  F  D  T  I  M  A  L  N  F  H  *  D  C  D  I  L  L  K  Q  V  Y  I  L  V  M  F  C  I  L  H  F  C  *  I  V  D  P  C  D  D  T  V  </first_frame>
            <second_frame>  S  F  I  T  R  L  K  T  L  S  R  S  S  K  N  Q  R :   G  W  R  R  R  T  Q  D  *  Q  W  D  *  T  K  D  T  L  *  P  R  R  S  *  L  H  A  L  L  T  E  K  G :   K  P  A  K  E  S  T  S  S  G  A  S  S  E  K  L  L  D  L  L  H  M  R  R  G  L  L  S  F  L  K  L  V  R  T  S  V  H  *  R  *  P  R  G  S  W  V  P  T  R  G  Q  R  R  R  E  R  R  C  P  A  F  S  V  R  *   : G  Q  P  V  V  V  K  R  R  S  E  V  S  I  L  I  L  T  I  E  E  L  S  L  L  V  N  T  *  S  F  *  V  S  Y  K  I  L  *  T  L  T  Q  L  W  L  *  I  F  I  E  I  V  T  F  C  S  N  K  S  T  F  *  L  C  S  V  F  Y  I  F  V  K  L  L  I  L  V  M  T  R  W </second_frame>
            <third_frame>   A  S  S  P  A  S  R  L  S  A  D  R  A  K  I  K   : G  D  G  A  A  E  H  R  I  S  S  G  I  E  Q  R  T  H  C  N  Q  E  G  V  S  S  T  P  F  *  Q  K  R   : E  N  Q  Q  K  N  P  L  R  Q  E  P  H  Q  R  S  C  W  I  C  S  I  *  E  E  D  Y  *  A  S  *  S  W  *  G  Q  A  C  I  E  G  S  Q  E  E  V  G  Y  P  Q  E  G  K  E  E  E  R  G  D  V  Q  R  S  P  *  D  E  :  G  N  R  W  W  *  K  E  E  V  K  S  L  S  L  F  *  Q  L  R  N  *  V  Y  *  L  I  H  D  L  F  E  L  A  I  K  F  S  K  L  *  H  N  Y  G  F  E  F  S  L  R  L  *  H  F  A  Q  T  S  L  H  F  S  Y  V  L  Y  F  T  F  L  L  N  C  *  S  L  *  *  H  G   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="16" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="107956" stop="108006"/>
                    <exon start="108149" stop="108247"/>
                    <exon start="109144" stop="109343"/>
                    <exon start="109458" stop="109488"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>378</number_coding_nucleotides>
                  <number_encoded_amino_acids>126</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QLHHPPQDSQQIEQKSKGMAPPNTGLAVGLNKGHIVTKKELAPRPSDRKGKTSKRIHFVRSLIREVAGFAPYEKRITELLKVGKDKRALKVAKRKLGTHKRAKKKREEMSSVLRKMRATGGGEKKK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="108380" e_stop="108420"/>
            <exon e_start="109190" e_stop="109343"/>
            <exon e_start="109458" e_stop="109674"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.683"/>
          <exon-intron don_prob="0.997" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.991"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.683">
            <gDNA_exon_boundary e_start="108380" e_stop="108420" e_length="41"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="108421" i_stop="109189" i_length="769"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="109190" e_stop="109343" e_length="154"/>
          </exon>
          <intron i_serial="2" don_prob="0.997" acc_prob="0.999">
            <gDNA_intron_boundary i_start="109344" i_stop="109457" i_length="114"/>
          </intron>
          <exon e_serial="3" e_score="0.991">
            <gDNA_exon_boundary e_start="109458" e_stop="109674" e_length="217"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="108380" stop="108420"/>
              <exon start="109190" stop="109343"/>
              <exon start="109458" stop="109669"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E269104" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109197" stop="109343"/>
              <exon start="109458" stop="109674"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230582" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="109198" stop="109343"/>
              <exon start="109458" stop="109663"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219642" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="16" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TATATGTCTAGATTTTATTTTAGTTTGTTACATTATTTTAT : TTGCTGGATTTGCTCCATATGAGAAGAGGATTACTGAGCTTCTTAAAGTTGGTAAGGACAAGCGTGCATTGAAGGTAGCCAAGAGGAAGTTGGGTACCCACAAGAGGGCAAAGAAGAAGAGAGAGGAGATGTCCAGCGTTCTCCGTAAGATGAG : GGCAACCGGTGGTGGTGAAAAGAAGAAGTGAAGTCTCTATCCTTATTTTGACAATTGAGGAACTGAGTTTATTAGTTAATACATGATCTTTTTGAGTTAGCTATAAAATTCTCTAAACTTTGACACAATTATGGCTTTGAATTTTCATTGAGATTGTGACATTTTGCTCAAACAAGTCTACATTTTAGTTATGTTCTGTATTTTACATTTTTGTTAA</gDNA_template>
            <first_frame> Y  M  S  R  F  Y  F  S  L  L  H  Y  F  I :   C  W  I  C  S  I  *  E  E  D  Y  *  A  S  *  S  W  *  G  Q  A  C  I  E  G  S  Q  E  E  V  G  Y  P  Q  E  G  K  E  E  E  R  G  D  V  Q  R  S  P  *  D  E  :  G  N  R  W  W  *  K  E  E  V  K  S  L  S  L  F  *  Q  L  R  N  *  V  Y  *  L  I  H  D  L  F  E  L  A  I  K  F  S  K  L  *  H  N  Y  G  F  E  F  S  L  R  L  *  H  F  A  Q  T  S  L  H  F  S  Y  V  L  Y  F  T  F  L  L  </first_frame>
            <second_frame>  I  C  L  D  F  I  L  V  C  Y  I  I  L   : F  A  G  F  A  P  Y  E  K  R  I  T  E  L  L  K  V  G  K  D  K  R  A  L  K  V  A  K  R  K  L  G  T  H  K  R  A  K  K  K  R  E  E  M  S  S  V  L  R  K  M  R :   A  T  G  G  G  E  K  K  K  *  S  L  Y  P  Y  F  D  N  *  G  T  E  F  I  S  *  Y  M  I  F  L  S  *  L  *  N  S  L  N  F  D  T  I  M  A  L  N  F  H  *  D  C  D  I  L  L  K  Q  V  Y  I  L  V  M  F  C  I  L  H  F  C  * </second_frame>
            <third_frame>   Y  V  *  I  L  F  *  F  V  T  L  F  Y  :  L  L  D  L  L  H  M  R  R  G  L  L  S  F  L  K  L  V  R  T  S  V  H  *  R  *  P  R  G  S  W  V  P  T  R  G  Q  R  R  R  E  R  R  C  P  A  F  S  V  R  *   : G  Q  P  V  V  V  K  R  R  S  E  V  S  I  L  I  L  T  I  E  E  L  S  L  L  V  N  T  *  S  F  *  V  S  Y  K  I  L  *  T  L  T  Q  L  W  L  *  I  F  I  E  I  V  T  F  C  S  N  K  S  T  F  *  L  C  S  V  F  Y  I  F  V   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="16" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="108381" stop="108420"/>
                    <exon start="109190" stop="109343"/>
                    <exon start="109458" stop="109488"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>222</number_coding_nucleotides>
                  <number_encoded_amino_acids>74</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ICLDFILVCYIILFAGFAPYEKRITELLKVGKDKRALKVAKRKLGTHKRAKKKREEMSSVLRKMRATGGGEKKK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="17" PGL_strand="-" PGL_start="110684" PGL_stop="110488"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="110684" e_stop="110488"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.975"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.975">
            <gDNA_exon_boundary e_start="110684" e_stop="110488" e_length="197"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="110684" stop="110488"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E308399" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="17" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CGATACCTTCCATCAGCACATTGATTATTTCAGCTTCTTAATTGTACTACATACATGTTAATGTTGGTACTGAACTTCTTAACTGTATTTGCATGAGTCCTATAACAAAAGAATGACTCCTCCTCCTCTGGACAAGACACACAGATAAGAGACAAACTACGAAAGCTAATGATTTCAAATCTTCATTTTAAAAGATG</gDNA_template>
            <first_frame> R  Y  L  P  S  A  H  *  L  F  Q  L  L  N  C  T  T  Y  M  L  M  L  V  L  N  F  L  T  V  F  A  *  V  L  *  Q  K  N  D  S  S  S  S  G  Q  D  T  Q  I  R  D  K  L  R  K  L  M  I  S  N  L  H  F  K  R   </first_frame>
            <second_frame>  D  T  F  H  Q  H  I  D  Y  F  S  F  L  I  V  L  H  T  C  *  C  W  Y  *  T  S  *  L  Y  L  H  E  S  Y  N  K  R  M  T  P  P  P  L  D  K  T  H  R  *  E  T  N  Y  E  S  *  *  F  Q  I  F  I  L  K  D  </second_frame>
            <third_frame>   I  P  S  I  S  T  L  I  I  S  A  S  *  L  Y  Y  I  H  V  N  V  G  T  E  L  L  N  C  I  C  M  S  P  I  T  K  E  *  L  L  L  L  W  T  R  H  T  D  K  R  Q  T  T  K  A  N  D  F  K  S  S  F  *  K  M </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C03HBa0031M05.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="18" PGL_strand="-" PGL_start="113297" PGL_stop="110759"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="113297" e_stop="113222"/>
            <exon e_start="113124" e_stop="113010"/>
            <exon e_start="112931" e_stop="112400"/>
            <exon e_start="111323" e_stop="110759"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.672" acc_prob="0.941" e_score="1.000"/>
          <exon-intron don_prob="0.923" acc_prob="0.314" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.954" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="113297" e_stop="113222" e_length="76"/>
          </exon>
          <intron i_serial="1" don_prob="0.672" acc_prob="0.941">
            <gDNA_intron_boundary i_start="113221" i_stop="113125" i_length="97"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="113124" e_stop="113010" e_length="115"/>
          </exon>
          <intron i_serial="2" don_prob="0.923" acc_prob="0.314">
            <gDNA_intron_boundary i_start="113009" i_stop="112932" i_length="78"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="112931" e_stop="112400" e_length="532"/>
          </exon>
          <intron i_serial="3" don_prob="0.997" acc_prob="0.954">
            <gDNA_intron_boundary i_start="112399" i_stop="111324" i_length="1076"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="111323" e_stop="110759" e_length="565"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="113297" stop="113222"/>
              <exon start="113124" stop="113010"/>
              <exon start="112931" stop="112400"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E737920" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="113287" stop="113222"/>
              <exon start="113124" stop="113010"/>
              <exon start="112931" stop="112400"/>
              <exon start="111323" stop="111236"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E736927" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="113284" stop="113222"/>
              <exon start="113124" stop="113010"/>
              <exon start="112931" stop="112400"/>
              <exon start="111323" stop="111169"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E736880" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="113284" stop="113222"/>
              <exon start="113124" stop="113010"/>
              <exon start="112931" stop="112400"/>
              <exon start="111323" stop="111214"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E737670" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="113284" stop="113222"/>
              <exon start="113124" stop="113010"/>
              <exon start="112931" stop="112400"/>
              <exon start="111323" stop="111220"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E737781" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="113032" stop="113010"/>
              <exon start="112931" stop="112400"/>
              <exon start="111323" stop="111094"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731450" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="112758" stop="112400"/>
              <exon start="111323" stop="111117"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300192" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="112742" stop="112400"/>
              <exon start="111323" stop="111032"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698882" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="112693" stop="112400"/>
              <exon start="111323" stop="110910"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348581" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="112693" stop="112400"/>
              <exon start="111323" stop="110911"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348701" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="112693" stop="112400"/>
              <exon start="111323" stop="110913"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E338960" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="112690" stop="112400"/>
              <exon start="111323" stop="110759"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E705951" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="18" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCCTTTATCACGTCAAGATCTTGTCAGCTGGAAGATGGCGATAGAGAAAAGACAGCTACCAATTGTTGACCAAAAG : TCTGTTCAGAGAGTCTCTGGGTTCATAGATGTTGACAAGATTCATCCAGATGCATGGCCTGCGGTGGTAGCTGACTTATCATCAGGTGAACAGGGAATAATGGCCCTTGCATTCG : GGTACACAAGACTCTTCCAACCAGATAAACCTGTGACCAAAGCCCAAGCTGCTATTGCCCTAGCAACCGGTGAAGCTTCTGATATCGTTGGTGAGGAACTTGCACGCATTGAGGCTGAGTCGATGGCTGACAAAGCTGTTTCAGCCCATAATGCTCTGGTAGCTGAAGTTGAGAAAGATGTAAATGCAAGTTTTGAGAAGGAACTCTTATTGGAAAGGGAAAAGATTGAAGCCGTGGAGAAGTTAGCTGAGGAAGCAAGAAGAGAGTTGGAGAGTTTGAGAGCTCAGCGGGAGGAAGAGAATTTAGCATTAATGAAGGAACGTGCTGTTGTTGATTCAGAAATGGAAATTCTTTCCAGATTAAGACGTGATGTAGAGGAGCAATTACAGACCCTTGTGAGCGACAAATTAGAGATCACCTATGACAAAGAGAGGATTGAAAAGCTTAGGAAAGATGCAGAATTTGAAACCCAAGAGATAGCACGTTTGCAGTATGAGCTGGAGGTTGAGAGAAAAGCATTATCCTTGGCTAG : GACTTGGGCAGAAGATGAGGCTAAGAAGGCTAGAGAGCAAGCAAAAGCCTTGGAAGAGGCTAGAGACCGCTGGCAGAAGCAAGGCATCAAAGTGGTAGTTGACAGTGACCTGCAAGAAGAAGCCAATGCTGGAGTTACATGGCAGAATGCTGGAAATGAGTCCGCTGAATCAACTGTTAATAGTGCTGAAACATTAGTGGACAAGCTCAAGGAAATGGCTGATACAGTGAGAGGGAAATCAAGAGAGACAATTCATATGATTATTGAAAAAATAATGTTGCTGATCACTATGCTCAAGGAGTGGGCATTAAAGGCAGGCAAGCAAACAGAGGAGTTAAAGGATGCTGCCATGTCAAAGATGGGCAACTCAGTACAAGGAATGCAGCAGAGCTCAGCTGAAGTTGGCTCGGCTCTCAAGGACGGTGTTAAGCGCTTTGCAGATGACTGCAGGGGTGGAGTTGAGAAAATCTCACAGAAATTCAAGACATGAACATGGTGTTGTATGAAAGACTGTTGTATCCTTTTTTGCCTTTTTGGTCAATAAATTCACTGATTGGAGCAGTCA</gDNA_template>
            <first_frame> S  F  I  T  S  R  S  C  Q  L  E  D  G  D  R  E  K  T  A  T  N  C  *  P  K   : V  C  S  E  S  L  W  V  H  R  C  *  Q  D  S  S  R  C  M  A  C  G  G  S  *  L  I  I  R  *  T  G  N  N  G  P  C  I  R :   V  H  K  T  L  P  T  R  *  T  C  D  Q  S  P  S  C  Y  C  P  S  N  R  *  S  F  *  Y  R  W  *  G  T  C  T  H  *  G  *  V  D  G  *  Q  S  C  F  S  P  *  C  S  G  S  *  S  *  E  R  C  K  C  K  F  *  E  G  T  L  I  G  K  G  K  D  *  S  R  G  E  V  S  *  G  S  K  K  R  V  G  E  F  E  S  S  A  G  G  R  E  F  S  I  N  E  G  T  C  C  C  *  F  R  N  G  N  S  F  Q  I  K  T  *  C  R  G  A  I  T  D  P  C  E  R  Q  I  R  D  H  L  *  Q  R  E  D  *  K  A  *  E  R  C  R  I  *  N  P  R  D  S  T  F  A  V  *  A  G  G  *  E  K  S  I  I  L  G  *  :  D  L  G  R  R  *  G  *  E  G  *  R  A  S  K  S  L  G  R  G  *  R  P  L  A  E  A  R  H  Q  S  G  S  *  Q  *  P  A  R  R  S  Q  C  W  S  Y  M  A  E  C  W  K  *  V  R  *  I  N  C  *  *  C  *  N  I  S  G  Q  A  Q  G  N  G  *  Y  S  E  R  E  I  K  R  D  N  S  Y  D  Y  *  K  N  N  V  A  D  H  Y  A  Q  G  V  G  I  K  G  R  Q  A  N  R  G  V  K  G  C  C  H  V  K  D  G  Q  L  S  T  R  N  A  A  E  L  S  *  S  W  L  G  S  Q  G  R  C  *  A  L  C  R  *  L  Q  G  W  S  *  E  N  L  T  E  I  Q  D  M  N  M  V  L  Y  E  R  L  L  Y  P  F  L  P  F  W  S  I  N  S  L  I  G  A  V  </first_frame>
            <second_frame>  P  L  S  R  Q  D  L  V  S  W  K  M  A  I  E  K  R  Q  L  P  I  V  D  Q  K  :  S  V  Q  R  V  S  G  F  I  D  V  D  K  I  H  P  D  A  W  P  A  V  V  A  D  L  S  S  G  E  Q  G  I  M  A  L  A  F   : G  Y  T  R  L  F  Q  P  D  K  P  V  T  K  A  Q  A  A  I  A  L  A  T  G  E  A  S  D  I  V  G  E  E  L  A  R  I  E  A  E  S  M  A  D  K  A  V  S  A  H  N  A  L  V  A  E  V  E  K  D  V  N  A  S  F  E  K  E  L  L  L  E  R  E  K  I  E  A  V  E  K  L  A  E  E  A  R  R  E  L  E  S  L  R  A  Q  R  E  E  E  N  L  A  L  M  K  E  R  A  V  V  D  S  E  M  E  I  L  S  R  L  R  R  D  V  E  E  Q  L  Q  T  L  V  S  D  K  L  E  I  T  Y  D  K  E  R  I  E  K  L  R  K  D  A  E  F  E  T  Q  E  I  A  R  L  Q  Y  E  L  E  V  E  R  K  A  L  S  L  A  R :   T  W  A  E  D  E  A  K  K  A  R  E  Q  A  K  A  L  E  E  A  R  D  R  W  Q  K  Q  G  I  K  V  V  V  D  S  D  L  Q  E  E  A  N  A  G  V  T  W  Q  N  A  G  N  E  S  A  E  S  T  V  N  S  A  E  T  L  V  D  K  L  K  E  M  A  D  T  V  R  G  K  S  R  E  T  I  H  M  I  I  E  K  I  M  L  L  I  T  M  L  K  E  W  A  L  K  A  G  K  Q  T  E  E  L  K  D  A  A  M  S  K  M  G  N  S  V  Q  G  M  Q  Q  S  S  A  E  V  G  S  A  L  K  D  G  V  K  R  F  A  D  D  C  R  G  G  V  E  K  I  S  Q  K  F  K  T  *  T  W  C  C  M  K  D  C  C  I  L  F  C  L  F  G  Q  *  I  H  *  L  E  Q  S </second_frame>
            <third_frame>   L  Y  H  V  K  I  L  S  A  G  R  W  R  *  R  K  D  S  Y  Q  L  L  T  K  S :   L  F  R  E  S  L  G  S  *  M  L  T  R  F  I  Q  M  H  G  L  R  W  *  L  T  Y  H  Q  V  N  R  E  *  W  P  L  H  S  :  G  T  Q  D  S  S  N  Q  I  N  L  *  P  K  P  K  L  L  L  P  *  Q  P  V  K  L  L  I  S  L  V  R  N  L  H  A  L  R  L  S  R  W  L  T  K  L  F  Q  P  I  M  L  W  *  L  K  L  R  K  M  *  M  Q  V  L  R  R  N  S  Y  W  K  G  K  R  L  K  P  W  R  S  *  L  R  K  Q  E  E  S  W  R  V  *  E  L  S  G  R  K  R  I  *  H  *  *  R  N  V  L  L  L  I  Q  K  W  K  F  F  P  D  *  D  V  M  *  R  S  N  Y  R  P  L  *  A  T  N  *  R  S  P  M  T  K  R  G  L  K  S  L  G  K  M  Q  N  L  K  P  K  R  *  H  V  C  S  M  S  W  R  L  R  E  K  H  Y  P  W  L   : G  L  G  Q  K  M  R  L  R  R  L  E  S  K  Q  K  P  W  K  R  L  E  T  A  G  R  S  K  A  S  K  W  *  L  T  V  T  C  K  K  K  P  M  L  E  L  H  G  R  M  L  E  M  S  P  L  N  Q  L  L  I  V  L  K  H  *  W  T  S  S  R  K  W  L  I  Q  *  E  G  N  Q  E  R  Q  F  I  *  L  L  K  K  *  C  C  *  S  L  C  S  R  S  G  H  *  R  Q  A  S  K  Q  R  S  *  R  M  L  P  C  Q  R  W  A  T  Q  Y  K  E  C  S  R  A  Q  L  K  L  A  R  L  S  R  T  V  L  S  A  L  Q  M  T  A  G  V  E  L  R  K  S  H  R  N  S  R  H  E  H  G  V  V  *  K  T  V  V  S  F  F  A  F  L  V  N  K  F  T  D  W  S  S   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="18" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="113296" stop="113222"/>
                    <exon start="113124" stop="113010"/>
                    <exon start="112931" stop="112400"/>
                    <exon start="111323" stop="110834"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1209</number_coding_nucleotides>
                  <number_encoded_amino_acids>403</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PLSRQDLVSWKMAIEKRQLPIVDQKSVQRVSGFIDVDKIHPDAWPAVVADLSSGEQGIMALAFGYTRLFQPDKPVTKAQAAIALATGEASDIVGEELARIEAESMADKAVSAHNALVAEVEKDVNASFEKELLLEREKIEAVEKLAEEARRELESLRAQREEENLALMKERAVVDSEMEILSRLRRDVEEQLQTLVSDKLEITYDKERIEKLRKDAEFETQEIARLQYELEVERKALSLARTWAEDEAKKAREQAKALEEARDRWQKQGIKVVVDSDLQEEANAGVTWQNAGNESAESTVNSAETLVDKLKEMADTVRGKSRETIHMIIEKIMLLITMLKEWALKAGKQTEELKDAAMSKMGNSVQGMQQSSAEVGSALKDGVKRFADDCRGGVEKISQKFKT*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="19" PGL_strand="-" PGL_start="116570" PGL_stop="115984"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="116570" e_stop="115984"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="116570" e_stop="115984" e_length="587"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="116570" stop="115984"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E314615" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="19" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CAGGAAGAAATGTCAATTGATTCTGACAATCATAATGACACAGTTCAAGAGGAGAAAGCTTTAGGTGATAATGAATTCAAAGATAATAGCGGTGAAGAGTTAGAGGCAGGTAGAATTAGTGAGGACACTGATGATGGCAATCCAACCAGTGTTGGTGTCTTTGTTGATGATAGTCATGAGACCCATATTCAGCATGATTTGGATGACGGGAAAGCTAGTGATGATGCAGTAGTTGCTAGTGAAGTCATATCTGAATCCCCCGAAACAACCTTTGTCATGTCAAGCTACGAAAGTGAGGAAGATAGTCTTATTGCTGGAAAACCAGAACCAACAACTGAACCAGAACAGAAGAACTATAATGATGACGAAGTTGCTGCTGCATCAGTTATAAGTCCAAATTCAACATATGAATTTGATAACGAGGTGCGAGTATCTAGTTTGGAAGGACGAGGACACTCCGAAATTTCATTGGAATCCCCTCCTATTGAGCCTTCCAACCTCAACACTGCTGTTAATCCGCAATCAGAAGCACTTTTAGAACCCATGATTACACAAGAAGTGTATGTAGAGACTCAAAGCTCATTTTC</gDNA_template>
            <first_frame> Q  E  E  M  S  I  D  S  D  N  H  N  D  T  V  Q  E  E  K  A  L  G  D  N  E  F  K  D  N  S  G  E  E  L  E  A  G  R  I  S  E  D  T  D  D  G  N  P  T  S  V  G  V  F  V  D  D  S  H  E  T  H  I  Q  H  D  L  D  D  G  K  A  S  D  D  A  V  V  A  S  E  V  I  S  E  S  P  E  T  T  F  V  M  S  S  Y  E  S  E  E  D  S  L  I  A  G  K  P  E  P  T  T  E  P  E  Q  K  N  Y  N  D  D  E  V  A  A  A  S  V  I  S  P  N  S  T  Y  E  F  D  N  E  V  R  V  S  S  L  E  G  R  G  H  S  E  I  S  L  E  S  P  P  I  E  P  S  N  L  N  T  A  V  N  P  Q  S  E  A  L  L  E  P  M  I  T  Q  E  V  Y  V  E  T  Q  S  S  F   </first_frame>
            <second_frame>  R  K  K  C  Q  L  I  L  T  I  I  M  T  Q  F  K  R  R  K  L  *  V  I  M  N  S  K  I  I  A  V  K  S  *  R  Q  V  E  L  V  R  T  L  M  M  A  I  Q  P  V  L  V  S  L  L  M  I  V  M  R  P  I  F  S  M  I  W  M  T  G  K  L  V  M  M  Q  *  L  L  V  K  S  Y  L  N  P  P  K  Q  P  L  S  C  Q  A  T  K  V  R  K  I  V  L  L  L  E  N  Q  N  Q  Q  L  N  Q  N  R  R  T  I  M  M  T  K  L  L  L  H  Q  L  *  V  Q  I  Q  H  M  N  L  I  T  R  C  E  Y  L  V  W  K  D  E  D  T  P  K  F  H  W  N  P  L  L  L  S  L  P  T  S  T  L  L  L  I  R  N  Q  K  H  F  *  N  P  *  L  H  K  K  C  M  *  R  L  K  A  H  F  </second_frame>
            <third_frame>   G  R  N  V  N  *  F  *  Q  S  *  *  H  S  S  R  G  E  S  F  R  *  *  *  I  Q  R  *  *  R  *  R  V  R  G  R  *  N  *  *  G  H  *  *  W  Q  S  N  Q  C  W  C  L  C  *  *  *  S  *  D  P  Y  S  A  *  F  G  *  R  E  S  *  *  *  C  S  S  C  *  *  S  H  I  *  I  P  R  N  N  L  C  H  V  K  L  R  K  *  G  R  *  S  Y  C  W  K  T  R  T  N  N  *  T  R  T  E  E  L  *  *  *  R  S  C  C  C  I  S  Y  K  S  K  F  N  I  *  I  *  *  R  G  A  S  I  *  F  G  R  T  R  T  L  R  N  F  I  G  I  P  S  Y  *  A  F  Q  P  Q  H  C  C  *  S  A  I  R  S  T  F  R  T  H  D  Y  T  R  S  V  C  R  D  S  K  L  I  F </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="19" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="116570" stop="115986"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>585</number_coding_nucleotides>
                  <number_encoded_amino_acids>195</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QEEMSIDSDNHNDTVQEEKALGDNEFKDNSGEELEAGRISEDTDDGNPTSVGVFVDDSHETHIQHDLDDGKASDDAVVASEVISESPETTFVMSSYESEEDSLIAGKPEPTTEPEQKNYNDDEVAAASVISPNSTYEFDNEVRVSSLEGRGHSEISLESPPIEPSNLNTAVNPQSEALLEPMITQEVYVETQSSF</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="20" PGL_strand="-" PGL_start="140392" PGL_stop="121134"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="140392" e_stop="140140"/>
            <exon e_start="139919" e_stop="139751"/>
            <exon e_start="139045" e_stop="138949"/>
            <exon e_start="138702" e_stop="138576"/>
            <exon e_start="138489" e_stop="138374"/>
            <exon e_start="133016" e_stop="132922"/>
            <exon e_start="132829" e_stop="132678"/>
            <exon e_start="131086" e_stop="131032"/>
            <exon e_start="130958" e_stop="130851"/>
            <exon e_start="130431" e_stop="130179"/>
            <exon e_start="129242" e_stop="129058"/>
            <exon e_start="127019" e_stop="126927"/>
            <exon e_start="125263" e_stop="125165"/>
            <exon e_start="122787" e_stop="122656"/>
            <exon e_start="122558" e_stop="122514"/>
            <exon e_start="122061" e_stop="121894"/>
            <exon e_start="121797" e_stop="121723"/>
            <exon e_start="121621" e_stop="121221"/>
            <exon e_start="121145" e_stop="121134"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.998" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.925" acc_prob="0.745" e_score="1.000"/>
          <exon-intron don_prob="0.940" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.867" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.991" acc_prob="0.993" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.987" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.804" acc_prob="0.988" e_score="1.000"/>
          <exon-intron don_prob="0.987" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.993" e_score="1.000"/>
          <exon-intron don_prob="0.900" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.983" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.982" acc_prob="0.895" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.902" e_score="1.000"/>
          <exon-intron don_prob="0.963" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.499" acc_prob="0.989" e_score="0.993"/>
          <exon-only e_score="0.250"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="140392" e_stop="140140" e_length="253"/>
          </exon>
          <intron i_serial="1" don_prob="0.998" acc_prob="0.998">
            <gDNA_intron_boundary i_start="140139" i_stop="139920" i_length="220"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="139919" e_stop="139751" e_length="169"/>
          </exon>
          <intron i_serial="2" don_prob="0.925" acc_prob="0.745">
            <gDNA_intron_boundary i_start="139750" i_stop="139046" i_length="705"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="139045" e_stop="138949" e_length="97"/>
          </exon>
          <intron i_serial="3" don_prob="0.940" acc_prob="0.997">
            <gDNA_intron_boundary i_start="138948" i_stop="138703" i_length="246"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="138702" e_stop="138576" e_length="127"/>
          </exon>
          <intron i_serial="4" don_prob="0.867" acc_prob="0.999">
            <gDNA_intron_boundary i_start="138575" i_stop="138490" i_length="86"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="138489" e_stop="138374" e_length="116"/>
          </exon>
          <intron i_serial="5" don_prob="0.991" acc_prob="0.993">
            <gDNA_intron_boundary i_start="138373" i_stop="133017" i_length="5357"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="133016" e_stop="132922" e_length="95"/>
          </exon>
          <intron i_serial="6" don_prob="0.995" acc_prob="0.987">
            <gDNA_intron_boundary i_start="132921" i_stop="132830" i_length="92"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="132829" e_stop="132678" e_length="152"/>
          </exon>
          <intron i_serial="7" don_prob="0.999" acc_prob="0.998">
            <gDNA_intron_boundary i_start="132677" i_stop="131087" i_length="1591"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="131086" e_stop="131032" e_length="55"/>
          </exon>
          <intron i_serial="8" don_prob="0.804" acc_prob="0.988">
            <gDNA_intron_boundary i_start="131031" i_stop="130959" i_length="73"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="130958" e_stop="130851" e_length="108"/>
          </exon>
          <intron i_serial="9" don_prob="0.987" acc_prob="0.998">
            <gDNA_intron_boundary i_start="130850" i_stop="130432" i_length="419"/>
          </intron>
          <exon e_serial="10" e_score="1.000">
            <gDNA_exon_boundary e_start="130431" e_stop="130179" e_length="253"/>
          </exon>
          <intron i_serial="10" don_prob="0.995" acc_prob="0.993">
            <gDNA_intron_boundary i_start="130178" i_stop="129243" i_length="936"/>
          </intron>
          <exon e_serial="11" e_score="1.000">
            <gDNA_exon_boundary e_start="129242" e_stop="129058" e_length="185"/>
          </exon>
          <intron i_serial="11" don_prob="0.900" acc_prob="0.999">
            <gDNA_intron_boundary i_start="129057" i_stop="127020" i_length="2038"/>
          </intron>
          <exon e_serial="12" e_score="1.000">
            <gDNA_exon_boundary e_start="127019" e_stop="126927" e_length="93"/>
          </exon>
          <intron i_serial="12" don_prob="0.983" acc_prob="0.994">
            <gDNA_intron_boundary i_start="126926" i_stop="125264" i_length="1663"/>
          </intron>
          <exon e_serial="13" e_score="1.000">
            <gDNA_exon_boundary e_start="125263" e_stop="125165" e_length="99"/>
          </exon>
          <intron i_serial="13" don_prob="0.989" acc_prob="0.998">
            <gDNA_intron_boundary i_start="125164" i_stop="122788" i_length="2377"/>
          </intron>
          <exon e_serial="14" e_score="1.000">
            <gDNA_exon_boundary e_start="122787" e_stop="122656" e_length="132"/>
          </exon>
          <intron i_serial="14" don_prob="0.982" acc_prob="0.895">
            <gDNA_intron_boundary i_start="122655" i_stop="122559" i_length="97"/>
          </intron>
          <exon e_serial="15" e_score="1.000">
            <gDNA_exon_boundary e_start="122558" e_stop="122514" e_length="45"/>
          </exon>
          <intron i_serial="15" don_prob="0.993" acc_prob="1.000">
            <gDNA_intron_boundary i_start="122513" i_stop="122062" i_length="452"/>
          </intron>
          <exon e_serial="16" e_score="1.000">
            <gDNA_exon_boundary e_start="122061" e_stop="121894" e_length="168"/>
          </exon>
          <intron i_serial="16" don_prob="0.995" acc_prob="0.902">
            <gDNA_intron_boundary i_start="121893" i_stop="121798" i_length="96"/>
          </intron>
          <exon e_serial="17" e_score="1.000">
            <gDNA_exon_boundary e_start="121797" e_stop="121723" e_length="75"/>
          </exon>
          <intron i_serial="17" don_prob="0.963" acc_prob="1.000">
            <gDNA_intron_boundary i_start="121722" i_stop="121622" i_length="101"/>
          </intron>
          <exon e_serial="18" e_score="0.993">
            <gDNA_exon_boundary e_start="121621" e_stop="121221" e_length="401"/>
          </exon>
          <intron i_serial="18" don_prob="0.499" acc_prob="0.989">
            <gDNA_intron_boundary i_start="121220" i_stop="121146" i_length="75"/>
          </intron>
          <exon e_serial="19" e_score="0.250">
            <gDNA_exon_boundary e_start="121145" e_stop="121134" e_length="12"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="140392" stop="140140"/>
              <exon start="139919" stop="139751"/>
              <exon start="139045" stop="138949"/>
              <exon start="138702" stop="138576"/>
              <exon start="138489" stop="138374"/>
              <exon start="133016" stop="132922"/>
              <exon start="132829" stop="132678"/>
              <exon start="131086" stop="131032"/>
              <exon start="130958" stop="130851"/>
              <exon start="130431" stop="130179"/>
              <exon start="129242" stop="129058"/>
              <exon start="127019" stop="126927"/>
              <exon start="125263" stop="125165"/>
              <exon start="122787" stop="122656"/>
              <exon start="122558" stop="122514"/>
              <exon start="122061" stop="121894"/>
              <exon start="121797" stop="121723"/>
              <exon start="121621" stop="121305"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E745666" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="140371" stop="140140"/>
              <exon start="139919" stop="139751"/>
              <exon start="139045" stop="139002"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E311508" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="140365" stop="140140"/>
              <exon start="139919" stop="139751"/>
              <exon start="139045" stop="138949"/>
              <exon start="138702" stop="138576"/>
              <exon start="138489" stop="138412"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E739748" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="140362" stop="140140"/>
              <exon start="139919" stop="139751"/>
              <exon start="139045" stop="139003"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E303086" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="130931" stop="130851"/>
              <exon start="130431" stop="130179"/>
              <exon start="129242" stop="129058"/>
              <exon start="127019" stop="126927"/>
              <exon start="125263" stop="125183"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326987" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="130325" stop="130179"/>
              <exon start="129242" stop="129058"/>
              <exon start="127019" stop="126927"/>
              <exon start="125263" stop="125165"/>
              <exon start="122787" stop="122656"/>
              <exon start="122558" stop="122514"/>
              <exon start="122061" stop="121894"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E740285" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="130324" stop="130179"/>
              <exon start="129242" stop="129058"/>
              <exon start="127019" stop="126927"/>
              <exon start="125263" stop="125165"/>
              <exon start="122787" stop="122656"/>
              <exon start="122558" stop="122514"/>
              <exon start="122061" stop="121929"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E740047" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="130324" stop="130179"/>
              <exon start="129242" stop="129058"/>
              <exon start="127019" stop="126927"/>
              <exon start="125263" stop="125165"/>
              <exon start="122787" stop="122656"/>
              <exon start="122558" stop="122514"/>
              <exon start="122061" stop="121960"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E736820" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="122548" stop="122514"/>
              <exon start="122061" stop="121894"/>
              <exon start="121797" stop="121723"/>
              <exon start="121621" stop="121221"/>
              <exon start="121145" stop="121134"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734236" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="20" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GAGGGAGAGAAAACAAAAACCCCTACTACACCCCCCCGTCTTCACCAAGTCCGGCGACTCACTGTGGGATTAAGCAAAGAGAAGCGGAGAGCGACGGTGGCGGCATGGGAACGTCGGTTCAGGTGACGCCACTCTGTGGAGTATACAATGAGAACCCACTGTCTTACCTCGTCTCCATCGACGGCTTCAATTTCCTTGTCGATTGCGGTTGGAATGACCACTTTGATACTTCTCTTCTTCAACCCCTATCCAG : GGTGGCTTCAACGGTGGATGCTGTATTGATTTCACACTCTGATACATTTCATCTTGGTGCTTTGCCCTATGCCATGAAACAACTCGGTCTTTCTGCTCCTATTTATGCCACAGAACCAGTGTACAGGCTAGGGTTACTAACTATGTATGATCAGTATCTCTCACGGAAG : CAAGTTTCAGAGTTTGATTTATTCACCTTGGATGACATTGATTCAGCATTCCAAAATGTGACCAGATTAACCTACTCTCAAAATCATTACATGTCTG : GAAAAGGAGAAGGAATTGTGATTGCTCCCCTGGTAGCTGGTCATCTGTTAGGAGGTACCACCTGGAGGATAACAAAAGACGGGGAGGATGTCATATACGCTGTTGACTTCAATCACCGCAAAGAAAG : GCATTTGAACGGAACTGTTTTAGAATCTTTTGTCCGTCCAGCTGTTCTAATAACAGATGCTTTTAATGCTTTAAACAATCAACCTCCTAGGCGCCAAAGGGACCAAGAGTTTCTGG : ATGCCATAGAGAGAACTCTTAATGTCGGGGGAAATGTTTTACTACCTGTTGATACTGCTGGTCGAGTTTTGGAGCTCATCCTGACATTGGAACAG : CACTGGACACAAAAACAGTTGTCCACTCCCATCTACTTTCTATCATATGTATCCTCAAGTACTATTGACTATGTAAAGAGTTTCCTTGAGTGGATGAGCGATTCAATTGCAAAATCTTTTGAGCACACTCGTGATAATGCTTTTCTTTTAAG : GAAAATTAAGCTTGTGATCAATAAGAGTGCTCTTGAAGAAGCTCCTGGGCCGAAG : GTTGTTATGGCTTCCATGGCTAGTTTAGAAGCTGGATTTTCGCATGACCTCTTTGTTGAATGGGCAGCTGATCCAAAGAATCTTGTTATGTTCACCGAGAGAGGGCAG : TTTGGCACATTGGCACGTATACTTCAGTCAGATCCACCTCCTAAAGCTGTTAAAGTTACCATGTCACGTAGAATTCCCTTGGTTGGTGAGGAGTTGGCTGCTTATGAGGAGGAGCAGAACAGGATAAAAAGGGAAGAAGCTCTCAAAGCTACTCTTGTTAAAGAGGAGGAATCAAAAGCGTCTGTTGGGGCAGAAGTCGTCACAGATGACCCCATGGCCGTTGACACCAATGTCACACATCCTTCCTCCAATG : CTTCTGGTCTGCACAGTGGTGCTTTCAAGGACGTGCTGATTGATGGATTTGTAACAACATCGTCTAGCATAGCCCCAATGTTCCCTTTCTATGATAACACCTCTGAGTGGGATGACTTTGGTGAAGTCATCAATCCAGATGATTATGTGGTCAAAGATGACAACATGGAGCAGTCATTTATGCAT : GTTGATGGAGATTTAAATGGAAAACTTGATGAAGGATCAGCTAACCTAATCCTTGATACAACACCCTCTAAAGTTGAATCTTCTGAGTTAACA : GTCCAAGTCAAGTGTTCCTTGTTATACATGGACTTCGAAGGTCGTTCTGATGGTCGTTCAATCAAATCAATTCTTGCTCATGTTGCGCCCTTAAAGCTT : GTATTGGTGCATGGATCAGCTGAAGCCACTGAACATTTGAAGCAACATTGTCTGAAACATGTTTGTCCACAGGTCTATGCTCCACAGTTGGAAGAAACAATTGATGTAACTTCAGATTTGTGTGCTTATAAG : GTCCAACTTTCTGAGAAGTTAATGAGCCAAGTGCTTTTTAAGAAG : CTTGGAGACTATGAAATAGCATGGGTTGATGCTGAAGTGGGGAAGACGGAAAACGACATGTTCTCTTTACTTCCTCTTTCCGGACCTTCTCCACCCCATAAAACAGTTCTTGTTGGAGATTTAAAAATGTCTGATTTCAAGCAGTTTCTTGCAAGCAAGGGCGTTCAG : GTAGAATTTGGTGGTGGGGCTTTACGTTGTGGGGAGTATGTCACCATTCGCAAAGTTGGAGATGCTAGTCAAAAG : GTTGGAGGTGCAGCTATTCAGCAGATTGTGCTTGAAGGTCCATTATCGGAAGAGTACTATAAAATTCGAGAGTACCTATATTCACATTTTTACTCCCTCTAAATATGAAGAGCAGAGTAACTTTTTGTACTTGTAACAAATGCAGCTTTCCTTTTTGTCTCTTTTTTCTCTTCTCTTGAATCTTGACTGGCTGTTTTTCTAGTAATTTGTAACTTATTGTCTCATTGGTTTCGAAAAGGTCACAATTGTTAGAATTTCCTGCAGGCTATGTAGGCTGTTGTATTTATGCTAGTGGAAGTTGATGAAAATTTAGAATTACTCTTTTGCAATTAAAGTACCCCGAGTTGAGGTTAGAATTGAAAAACACAACTAAATTTAGAAATTTTGACCATACAAAACTT : GTTTTTTAATTA</gDNA_template>
            <first_frame> E  G  E  K  T  K  T  P  T  T  P  P  R  L  H  Q  V  R  R  L  T  V  G  L  S  K  E  K  R  R  A  T  V  A  A  W  E  R  R  F  R  *  R  H  S  V  E  Y  T  M  R  T  H  C  L  T  S  S  P  S  T  A  S  I  S  L  S  I  A  V  G  M  T  T  L  I  L  L  F  F  N  P  Y  P   : G  W  L  Q  R  W  M  L  Y  *  F  H  T  L  I  H  F  I  L  V  L  C  P  M  P  *  N  N  S  V  F  L  L  L  F  M  P  Q  N  Q  C  T  G  *  G  Y  *  L  C  M  I  S  I  S  H  G  S :   K  F  Q  S  L  I  Y  S  P  W  M  T  L  I  Q  H  S  K  M  *  P  D  *  P  T  L  K  I  I  T  C  L  :  E  K  E  K  E  L  *  L  L  P  W  *  L  V  I  C  *  E  V  P  P  G  G  *  Q  K  T  G  R  M  S  Y  T  L  L  T  S  I  T  A  K  K   : G  I  *  T  E  L  F  *  N  L  L  S  V  Q  L  F  *  *  Q  M  L  L  M  L  *  T  I  N  L  L  G  A  K  G  T  K  S  F  W  :  M  P  *  R  E  L  L  M  S  G  E  M  F  Y  Y  L  L  I  L  L  V  E  F  W  S  S  S  *  H  W  N  S :   T  G  H  K  N  S  C  P  L  P  S  T  F  Y  H  M  Y  P  Q  V  L  L  T  M  *  R  V  S  L  S  G  *  A  I  Q  L  Q  N  L  L  S  T  L  V  I  M  L  F  F  *   : G  K  L  S  L  *  S  I  R  V  L  L  K  K  L  L  G  R  R :   L  L  W  L  P  W  L  V  *  K  L  D  F  R  M  T  S  L  L  N  G  Q  L  I  Q  R  I  L  L  C  S  P  R  E  G  S :   L  A  H  W  H  V  Y  F  S  Q  I  H  L  L  K  L  L  K  L  P  C  H  V  E  F  P  W  L  V  R  S  W  L  L  M  R  R  S  R  T  G  *  K  G  K  K  L  S  K  L  L  L  L  K  R  R  N  Q  K  R  L  L  G  Q  K  S  S  Q  M  T  P  W  P  L  T  P  M  S  H  I  L  P  P  M  :  L  L  V  C  T  V  V  L  S  R  T  C  *  L  M  D  L  *  Q  H  R  L  A  *  P  Q  C  S  L  S  M  I  T  P  L  S  G  M  T  L  V  K  S  S  I  Q  M  I  M  W  S  K  M  T  T  W  S  S  H  L  C  M :   L  M  E  I  *  M  E  N  L  M  K  D  Q  L  T  *  S  L  I  Q  H  P  L  K  L  N  L  L  S  *  Q :   S  K  S  S  V  P  C  Y  T  W  T  S  K  V  V  L  M  V  V  Q  S  N  Q  F  L  L  M  L  R  P  *  S  L :   Y  W  C  M  D  Q  L  K  P  L  N  I  *  S  N  I  V  *  N  M  F  V  H  R  S  M  L  H  S  W  K  K  Q  L  M  *  L  Q  I  C  V  L  I  R :   S  N  F  L  R  S  *  *  A  K  C  F  L  R  S :   L  E  T  M  K  *  H  G  L  M  L  K  W  G  R  R  K  T  T  C  S  L  Y  F  L  F  P  D  L  L  H  P  I  K  Q  F  L  L  E  I  *  K  C  L  I  S  S  S  F  L  Q  A  R  A  F  R :   *  N  L  V  V  G  L  Y  V  V  G  S  M  S  P  F  A  K  L  E  M  L  V  K  R :   L  E  V  Q  L  F  S  R  L  C  L  K  V  H  Y  R  K  S  T  I  K  F  E  S  T  Y  I  H  I  F  T  P  S  K  Y  E  E  Q  S  N  F  L  Y  L  *  Q  M  Q  L  S  F  L  S  L  F  S  L  L  L  N  L  D  W  L  F  F  *  *  F  V  T  Y  C  L  I  G  F  E  K  V  T  I  V  R  I  S  C  R  L  C  R  L  L  Y  L  C  *  W  K  L  M  K  I  *  N  Y  S  F  A  I  K  V  P  R  V  E  V  R  I  E  K  H  N  *  I  *  K  F  *  P  Y  K  T   : C  F  L  I  </first_frame>
            <second_frame>  R  E  R  K  Q  K  P  L  L  H  P  P  V  F  T  K  S  G  D  S  L  W  D  *  A  K  R  S  G  E  R  R  W  R  H  G  N  V  G  S  G  D  A  T  L  W  S  I  Q  *  E  P  T  V  L  P  R  L  H  R  R  L  Q  F  P  C  R  L  R  L  E  *  P  L  *  Y  F  S  S  S  T  P  I  Q  :  G  G  F  N  G  G  C  C  I  D  F  T  L  *  Y  I  S  S  W  C  F  A  L  C  H  E  T  T  R  S  F  C  S  Y  L  C  H  R  T  S  V  Q  A  R  V  T  N  Y  V  *  S  V  S  L  T  E   : A  S  F  R  V  *  F  I  H  L  G  *  H  *  F  S  I  P  K  C  D  Q  I  N  L  L  S  K  S  L  H  V  W :   K  R  R  R  N  C  D  C  S  P  G  S  W  S  S  V  R  R  Y  H  L  E  D  N  K  R  R  G  G  C  H  I  R  C  *  L  Q  S  P  Q  R  K  :  A  F  E  R  N  C  F  R  I  F  C  P  S  S  C  S  N  N  R  C  F  *  C  F  K  Q  S  T  S  *  A  P  K  G  P  R  V  S  G :   C  H  R  E  N  S  *  C  R  G  K  C  F  T  T  C  *  Y  C  W  S  S  F  G  A  H  P  D  I  G  T   : A  L  D  T  K  T  V  V  H  S  H  L  L  S  I  I  C  I  L  K  Y  Y  *  L  C  K  E  F  P  *  V  D  E  R  F  N  C  K  I  F  *  A  H  S  *  *  C  F  S  F  K  :  E  N  *  A  C  D  Q  *  E  C  S  *  R  S  S  W  A  E   : G  C  Y  G  F  H  G  *  F  R  S  W  I  F  A  *  P  L  C  *  M  G  S  *  S  K  E  S  C  Y  V  H  R  E  R  A   : V  W  H  I  G  T  Y  T  S  V  R  S  T  S  *  S  C  *  S  Y  H  V  T  *  N  S  L  G  W  *  G  V  G  C  L  *  G  G  A  E  Q  D  K  K  G  R  S  S  Q  S  Y  S  C  *  R  G  G  I  K  S  V  C  W  G  R  S  R  H  R  *  P  H  G  R  *  H  Q  C  H  T  S  F  L  Q  C :   F  W  S  A  Q  W  C  F  Q  G  R  A  D  *  W  I  C  N  N  I  V  *  H  S  P  N  V  P  F  L  *  *  H  L  *  V  G  *  L  W  *  S  H  Q  S  R  *  L  C  G  Q  R  *  Q  H  G  A  V  I  Y  A   : C  *  W  R  F  K  W  K  T  *  *  R  I  S  *  P  N  P  *  Y  N  T  L  *  S  *  I  F  *  V  N   : S  P  S  Q  V  F  L  V  I  H  G  L  R  R  S  F  *  W  S  F  N  Q  I  N  S  C  S  C  C  A  L  K  A   : C  I  G  A  W  I  S  *  S  H  *  T  F  E  A  T  L  S  E  T  C  L  S  T  G  L  C  S  T  V  G  R  N  N  *  C  N  F  R  F  V  C  L  *   : G  P  T  F  *  E  V  N  E  P  S  A  F  *  E   : A  W  R  L  *  N  S  M  G  *  C  *  S  G  E  D  G  K  R  H  V  L  F  T  S  S  F  R  T  F  S  T  P  *  N  S  S  C  W  R  F  K  N  V  *  F  Q  A  V  S  C  K  Q  G  R  S   : G  R  I  W  W  W  G  F  T  L  W  G  V  C  H  H  S  Q  S  W  R  C  *  S  K   : G  W  R  C  S  Y  S  A  D  C  A  *  R  S  I  I  G  R  V  L  *  N  S  R  V  P  I  F  T  F  L  L  P  L  N  M  K  S  R  V  T  F  C  T  C  N  K  C  S  F  P  F  C  L  F  F  L  F  S  *  I  L  T  G  C  F  S  S  N  L  *  L  I  V  S  L  V  S  K  R  S  Q  L  L  E  F  P  A  G  Y  V  G  C  C  I  Y  A  S  G  S  *  *  K  F  R  I  T  L  L  Q  L  K  Y  P  E  L  R  L  E  L  K  N  T  T  K  F  R  N  F  D  H  T  K  L  :  V  F  *  L </second_frame>
            <third_frame>   G  R  E  N  K  N  P  Y  Y  T  P  P  S  S  P  S  P  A  T  H  C  G  I  K  Q  R  E  A  E  S  D  G  G  G  M  G  T  S  V  Q  V  T  P  L  C  G  V  Y  N  E  N  P  L  S  Y  L  V  S  I  D  G  F  N  F  L  V  D  C  G  W  N  D  H  F  D  T  S  L  L  Q  P  L  S  R :   V  A  S  T  V  D  A  V  L  I  S  H  S  D  T  F  H  L  G  A  L  P  Y  A  M  K  Q  L  G  L  S  A  P  I  Y  A  T  E  P  V  Y  R  L  G  L  L  T  M  Y  D  Q  Y  L  S  R  K  :  Q  V  S  E  F  D  L  F  T  L  D  D  I  D  S  A  F  Q  N  V  T  R  L  T  Y  S  Q  N  H  Y  M  S   : G  K  G  E  G  I  V  I  A  P  L  V  A  G  H  L  L  G  G  T  T  W  R  I  T  K  D  G  E  D  V  I  Y  A  V  D  F  N  H  R  K  E  R :   H  L  N  G  T  V  L  E  S  F  V  R  P  A  V  L  I  T  D  A  F  N  A  L  N  N  Q  P  P  R  R  Q  R  D  Q  E  F  L   : D  A  I  E  R  T  L  N  V  G  G  N  V  L  L  P  V  D  T  A  G  R  V  L  E  L  I  L  T  L  E  Q  :  H  W  T  Q  K  Q  L  S  T  P  I  Y  F  L  S  Y  V  S  S  S  T  I  D  Y  V  K  S  F  L  E  W  M  S  D  S  I  A  K  S  F  E  H  T  R  D  N  A  F  L  L  R :   K  I  K  L  V  I  N  K  S  A  L  E  E  A  P  G  P  K  :  V  V  M  A  S  M  A  S  L  E  A  G  F  S  H  D  L  F  V  E  W  A  A  D  P  K  N  L  V  M  F  T  E  R  G  Q  :  F  G  T  L  A  R  I  L  Q  S  D  P  P  P  K  A  V  K  V  T  M  S  R  R  I  P  L  V  G  E  E  L  A  A  Y  E  E  E  Q  N  R  I  K  R  E  E  A  L  K  A  T  L  V  K  E  E  E  S  K  A  S  V  G  A  E  V  V  T  D  D  P  M  A  V  D  T  N  V  T  H  P  S  S  N   : A  S  G  L  H  S  G  A  F  K  D  V  L  I  D  G  F  V  T  T  S  S  S  I  A  P  M  F  P  F  Y  D  N  T  S  E  W  D  D  F  G  E  V  I  N  P  D  D  Y  V  V  K  D  D  N  M  E  Q  S  F  M  H  :  V  D  G  D  L  N  G  K  L  D  E  G  S  A  N  L  I  L  D  T  T  P  S  K  V  E  S  S  E  L  T  :  V  Q  V  K  C  S  L  L  Y  M  D  F  E  G  R  S  D  G  R  S  I  K  S  I  L  A  H  V  A  P  L  K  L  :  V  L  V  H  G  S  A  E  A  T  E  H  L  K  Q  H  C  L  K  H  V  C  P  Q  V  Y  A  P  Q  L  E  E  T  I  D  V  T  S  D  L  C  A  Y  K  :  V  Q  L  S  E  K  L  M  S  Q  V  L  F  K  K  :  L  G  D  Y  E  I  A  W  V  D  A  E  V  G  K  T  E  N  D  M  F  S  L  L  P  L  S  G  P  S  P  P  H  K  T  V  L  V  G  D  L  K  M  S  D  F  K  Q  F  L  A  S  K  G  V  Q  :  V  E  F  G  G  G  A  L  R  C  G  E  Y  V  T  I  R  K  V  G  D  A  S  Q  K  :  V  G  G  A  A  I  Q  Q  I  V  L  E  G  P  L  S  E  E  Y  Y  K  I  R  E  Y  L  Y  S  H  F  Y  S  L  *  I  *  R  A  E  *  L  F  V  L  V  T  N  A  A  F  L  F  V  S  F  F  S  S  L  E  S  *  L  A  V  F  L  V  I  C  N  L  L  S  H  W  F  R  K  G  H  N  C  *  N  F  L  Q  A  M  *  A  V  V  F  M  L  V  E  V  D  E  N  L  E  L  L  F  C  N  *  S  T  P  S  *  G  *  N  *  K  T  Q  L  N  L  E  I  L  T  I  Q  N  L :   F  F  N   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="20" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="140390" stop="140140"/>
                    <exon start="139919" stop="139751"/>
                    <exon start="139045" stop="138949"/>
                    <exon start="138702" stop="138576"/>
                    <exon start="138489" stop="138374"/>
                    <exon start="133016" stop="132922"/>
                    <exon start="132829" stop="132678"/>
                    <exon start="131086" stop="131032"/>
                    <exon start="130958" stop="130851"/>
                    <exon start="130431" stop="130179"/>
                    <exon start="129242" stop="129058"/>
                    <exon start="127019" stop="126927"/>
                    <exon start="125263" stop="125165"/>
                    <exon start="122787" stop="122656"/>
                    <exon start="122558" stop="122514"/>
                    <exon start="122061" stop="121894"/>
                    <exon start="121797" stop="121723"/>
                    <exon start="121621" stop="121520"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>2319</number_coding_nucleotides>
                  <number_encoded_amino_acids>773</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GRENKNPYYTPPSSPSPATHCGIKQREAESDGGGMGTSVQVTPLCGVYNENPLSYLVSIDGFNFLVDCGWNDHFDTSLLQPLSRVASTVDAVLISHSDTFHLGALPYAMKQLGLSAPIYATEPVYRLGLLTMYDQYLSRKQVSEFDLFTLDDIDSAFQNVTRLTYSQNHYMSGKGEGIVIAPLVAGHLLGGTTWRITKDGEDVIYAVDFNHRKERHLNGTVLESFVRPAVLITDAFNALNNQPPRRQRDQEFLDAIERTLNVGGNVLLPVDTAGRVLELILTLEQHWTQKQLSTPIYFLSYVSSSTIDYVKSFLEWMSDSIAKSFEHTRDNAFLLRKIKLVINKSALEEAPGPKVVMASMASLEAGFSHDLFVEWAADPKNLVMFTERGQFGTLARILQSDPPPKAVKVTMSRRIPLVGEELAAYEEEQNRIKREEALKATLVKEEESKASVGAEVVTDDPMAVDTNVTHPSSNASGLHSGAFKDVLIDGFVTTSSSIAPMFPFYDNTSEWDDFGEVINPDDYVVKDDNMEQSFMHVDGDLNGKLDEGSANLILDTTPSKVESSELTVQVKCSLLYMDFEGRSDGRSIKSILAHVAPLKLVLVHGSAEATEHLKQHCLKHVCPQVYAPQLEETIDVTSDLCAYKVQLSEKLMSQVLFKKLGDYEIAWVDAEVGKTENDMFSLLPLSGPSPPHKTVLVGDLKMSDFKQFLASKGVQVEFGGGALRCGEYVTIRKVGDASQKVGGAAIQQIVLEGPLSEEYYKIREYLYSHFYSL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="21" PGL_strand="-" PGL_start="148647" PGL_stop="142237"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="148647" e_stop="148478"/>
            <exon e_start="148015" e_stop="146978"/>
            <exon e_start="145215" e_stop="144997"/>
            <exon e_start="142630" e_stop="142237"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.976" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.897" e_score="0.987"/>
          <exon-intron don_prob="0.978" acc_prob="0.987" e_score="1.000"/>
          <exon-only e_score="0.957"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="148647" e_stop="148478" e_length="170"/>
          </exon>
          <intron i_serial="1" don_prob="0.976" acc_prob="0.992">
            <gDNA_intron_boundary i_start="148477" i_stop="148016" i_length="462"/>
          </intron>
          <exon e_serial="2" e_score="0.987">
            <gDNA_exon_boundary e_start="148015" e_stop="146978" e_length="1038"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.897">
            <gDNA_intron_boundary i_start="146977" i_stop="145216" i_length="1762"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="145215" e_stop="144997" e_length="219"/>
          </exon>
          <intron i_serial="3" don_prob="0.978" acc_prob="0.987">
            <gDNA_intron_boundary i_start="144996" i_stop="142631" i_length="2366"/>
          </intron>
          <exon e_serial="4" e_score="0.957">
            <gDNA_exon_boundary e_start="142630" e_stop="142237" e_length="394"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="148647" stop="148478"/>
              <exon start="148015" stop="146978"/>
              <exon start="145215" stop="144997"/>
              <exon start="142630" stop="142237"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E746340" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="148646" stop="148478"/>
              <exon start="148015" stop="147667"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E357198" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="148623" stop="148478"/>
              <exon start="148015" stop="147424"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327521" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="148623" stop="148478"/>
              <exon start="148015" stop="147563"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328658" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="148621" stop="148478"/>
              <exon start="148015" stop="147429"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E332064" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="148609" stop="148478"/>
              <exon start="148015" stop="147603"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319808" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="148590" stop="148478"/>
              <exon start="148015" stop="147697"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285738" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147884" stop="147448"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E252743" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147722" stop="146978"/>
              <exon start="145215" stop="145136"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261414" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147722" stop="147102"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261354" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147722" stop="147122"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E255671" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147722" stop="147200"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257095" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147548" stop="147326"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E263572" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147454" stop="146978"/>
              <exon start="145215" stop="145192"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E255501" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147395" stop="146978"/>
              <exon start="145215" stop="145008"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E259214" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147395" stop="146978"/>
              <exon start="145215" stop="145059"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261376" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="147228" stop="146978"/>
              <exon start="145215" stop="144997"/>
              <exon start="142630" stop="142488"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E273366" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="21" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CGATATTCACTTTCATTTCACTAAAGCAACTCACACTGATACACTGAATCTCCAGAGAACAGAATTGCCTTCTCTTCTCCGGTTGAAACGTTCGATAAGCAAACCCTCATCAGGCCGGATCGTTGAGGCGTTGGAGAAAGACGAGTTCTGGCAAGTTCATCAAGTCCAAG : GTTTATTTGAATTGCGGTGACGATTGGTCAAGGTAAAGGAGCAACTTCTATATAGTGGAAGGGAAGGAAGTAGAGGAAACAGTAGGTGAACGAGGTGTTTGGAGACCTTAAGCATCTTTTGAAAAGCAAAATCTGGGAGTTTATGAAAATAAGGAGAAGTGTTTGATTTTTAACATTATTATACTTCTGAAAGGAAGTGTTTATAGGCAGCACTAGGAGAAGTGTACAACTTTGTTAAGAATGGAGTCTTTATGGAAGTTAGTGTATTTGCTTGAACCAGCACCCATCGCTCTTATTCTGACTGCCATAGCTGTGTCATTTGCATCTGCCTTCCGGGCTTTAAATTATGGCAAAGAAATGGAGAGAAATCGTGATTGGTCTGAAGCATCAATTACCTTAGACAGGTCTCAGGCTCTTATGATCCCGGTAGTGAGCTCTTGCAGCTTGCTTATGATGTTCTATTTGTTCTCTTCAGTCTCACAGATCCTCACTGTGTTCACTGCAGTTGCCTCAGCATCTTCTCTTTACTTTTGCCTTTTCCCTTATATTGCCCAAATCAAGTCTCGATTTGGCTTAGCTGATCCCTTCGTATCTCGCTGTTGTTCGAAGCCATTTACTAGGATCCAAGGCCTTTTGACGTTGCTGTGCATTGGCACGGTTATAGCGTGGCTTCTCTCTGGGCATTGGATACTGAATAATTTGCTGGGCATCTCTCTTTGTATTGCGTTTGTGAGCCATGTTCGCCTTCCTAACATTAAGGTTTGTGCAATGCTCCTTGGCTGCTTGTTTGTATATGATATATTCTGGGTTTTCTATTCCGAGAGATTCTTTGGTGCAAATGTCATGGTGTCTGTAGCAACCCAGCAATCATCGAATCCTGTACACATAGTGGCGAATAGATTGAGCCTTCCTGGATTGCAGTTGATAACCAAAAAACTCGAGTTGCCTGTCAAGATTGTGTTCCCTAGAAACTTACTGGGTGGTGTAGTGCCTGGATATGCTGCTGTTGATTTCATGATGCTGGGTCTTGGCGACATG : GCTATTCCTTCTATGCTTTTAGCATTGGTTCTCTGTTTTGACCATAGAAAGAGCAAGGACTCTGGAAGCATCATGGATATACCACCTCCAAAGGAGGATATATCATCTCCAAAGGGGTTTTACATCTGGTATGCGCTAGCAGGATATTCCGTTGGACTGGTTACTGCCTTAGCAGCTGGTATTTTGACTCACTCGCCACAACCAGCACTTCTATACTTG : GTACCATCAACTTTGGGGCCGATAATTGTCATTTCATGGATGAGAAAGGAGCTAGCTGAGCTGTGGGAAGGATCACCGTCAAACATAAATGAGAAAACTCGTTTTACTGAAGTCTGAGCTCTTGCATTCTTCCCATAAAGCTACATCTAGGGAGGGCACATCCAAACCTGTAAATTTACTTAGTATAATTCAGCCCCATCTGTTGGATATTTACAATTTTTGTTGGAGCTATATGTCTTGCGTATATTTACGAGGCTGTCAATCTTGAGACAGCGACTAGCCTCAGACTTATGTTGCAATTACAAACGCTAATATTTCTATTACTGGAGTTACATTGTCTTTATTCCTCCCCTTACCCCGGTGATTTCAAGGTAAAACTGGTAATACTATCTTA</gDNA_template>
            <first_frame> R  Y  S  L  S  F  H  *  S  N  S  H  *  Y  T  E  S  P  E  N  R  I  A  F  S  S  P  V  E  T  F  D  K  Q  T  L  I  R  P  D  R  *  G  V  G  E  R  R  V  L  A  S  S  S  S  P  R :   F  I  *  I  A  V  T  I  G  Q  G  K  G  A  T  S  I  *  W  K  G  R  K  *  R  K  Q  *  V  N  E  V  F  G  D  L  K  H  L  L  K  S  K  I  W  E  F  M  K  I  R  R  S  V  *  F  L  T  L  L  Y  F  *  K  E  V  F  I  G  S  T  R  R  S  V  Q  L  C  *  E  W  S  L  Y  G  S  *  C  I  C  L  N  Q  H  P  S  L  L  F  *  L  P  *  L  C  H  L  H  L  P  S  G  L  *  I  M  A  K  K  W  R  E  I  V  I  G  L  K  H  Q  L  P  *  T  G  L  R  L  L  *  S  R  *  *  A  L  A  A  C  L  *  C  S  I  C  S  L  Q  S  H  R  S  S  L  C  S  L  Q  L  P  Q  H  L  L  F  T  F  A  F  S  L  I  L  P  K  S  S  L  D  L  A  *  L  I  P  S  Y  L  A  V  V  R  S  H  L  L  G  S  K  A  F  *  R  C  C  A  L  A  R  L  *  R  G  F  S  L  G  I  G  Y  *  I  I  C  W  A  S  L  F  V  L  R  L  *  A  M  F  A  F  L  T  L  R  F  V  Q  C  S  L  A  A  C  L  Y  M  I  Y  S  G  F  S  I  P  R  D  S  L  V  Q  M  S  W  C  L  *  Q  P  S  N  H  R  I  L  Y  T  *  W  R  I  D  *  A  F  L  D  C  S  *  *  P  K  N  S  S  C  L  S  R  L  C  S  L  E  T  Y  W  V  V  *  C  L  D  M  L  L  L  I  S  *  C  W  V  L  A  T  W :   L  F  L  L  C  F  *  H  W  F  S  V  L  T  I  E  R  A  R  T  L  E  A  S  W  I  Y  H  L  Q  R  R  I  Y  H  L  Q  R  G  F  T  S  G  M  R  *  Q  D  I  P  L  D  W  L  L  P  *  Q  L  V  F  *  L  T  R  H  N  Q  H  F  Y  T  W :   Y  H  Q  L  W  G  R  *  L  S  F  H  G  *  E  R  S  *  L  S  C  G  K  D  H  R  Q  T  *  M  R  K  L  V  L  L  K  S  E  L  L  H  S  S  H  K  A  T  S  R  E  G  T  S  K  P  V  N  L  L  S  I  I  Q  P  H  L  L  D  I  Y  N  F  C  W  S  Y  M  S  C  V  Y  L  R  G  C  Q  S  *  D  S  D  *  P  Q  T  Y  V  A  I  T  N  A  N  I  S  I  T  G  V  T  L  S  L  F  L  P  L  P  R  *  F  Q  G  K  T  G  N  T  I  L </first_frame>
            <second_frame>  D  I  H  F  H  F  T  K  A  T  H  T  D  T  L  N  L  Q  R  T  E  L  P  S  L  L  R  L  K  R  S  I  S  K  P  S  S  G  R  I  V  E  A  L  E  K  D  E  F  W  Q  V  H  Q  V  Q   : G  L  F  E  L  R  *  R  L  V  K  V  K  E  Q  L  L  Y  S  G  R  E  G  S  R  G  N  S  R  *  T  R  C  L  E  T  L  S  I  F  *  K  A  K  S  G  S  L  *  K  *  G  E  V  F  D  F  *  H  Y  Y  T  S  E  R  K  C  L  *  A  A  L  G  E  V  Y  N  F  V  K  N  G  V  F  M  E  V  S  V  F  A  *  T  S  T  H  R  S  Y  S  D  C  H  S  C  V  I  C  I  C  L  P  G  F  K  L  W  Q  R  N  G  E  K  S  *  L  V  *  S  I  N  Y  L  R  Q  V  S  G  S  Y  D  P  G  S  E  L  L  Q  L  A  Y  D  V  L  F  V  L  F  S  L  T  D  P  H  C  V  H  C  S  C  L  S  I  F  S  L  L  L  P  F  P  L  Y  C  P  N  Q  V  S  I  W  L  S  *  S  L  R  I  S  L  L  F  E  A  I  Y  *  D  P  R  P  F  D  V  A  V  H  W  H  G  Y  S  V  A  S  L  W  A  L  D  T  E  *  F  A  G  H  L  S  L  Y  C  V  C  E  P  C  S  P  S  *  H  *  G  L  C  N  A  P  W  L  L  V  C  I  *  Y  I  L  G  F  L  F  R  E  I  L  W  C  K  C  H  G  V  C  S  N  P  A  I  I  E  S  C  T  H  S  G  E  *  I  E  P  S  W  I  A  V  D  N  Q  K  T  R  V  A  C  Q  D  C  V  P  *  K  L  T  G  W  C  S  A  W  I  C  C  C  *  F  H  D  A  G  S  W  R  H   : G  Y  S  F  Y  A  F  S  I  G  S  L  F  *  P  *  K  E  Q  G  L  W  K  H  H  G  Y  T  T  S  K  G  G  Y  I  I  S  K  G  V  L  H  L  V  C  A  S  R  I  F  R  W  T  G  Y  C  L  S  S  W  Y  F  D  S  L  A  T  T  S  T  S  I  L   : G  T  I  N  F  G  A  D  N  C  H  F  M  D  E  K  G  A  S  *  A  V  G  R  I  T  V  K  H  K  *  E  N  S  F  Y  *  S  L  S  S  C  I  L  P  I  K  L  H  L  G  R  A  H  P  N  L  *  I  Y  L  V  *  F  S  P  I  C  W  I  F  T  I  F  V  G  A  I  C  L  A  Y  I  Y  E  A  V  N  L  E  T  A  T  S  L  R  L  M  L  Q  L  Q  T  L  I  F  L  L  L  E  L  H  C  L  Y  S  S  P  Y  P  G  D  F  K  V  K  L  V  I  L  S   </second_frame>
            <third_frame>   I  F  T  F  I  S  L  K  Q  L  T  L  I  H  *  I  S  R  E  Q  N  C  L  L  F  S  G  *  N  V  R  *  A  N  P  H  Q  A  G  S  L  R  R  W  R  K  T  S  S  G  K  F  I  K  S  K  :  V  Y  L  N  C  G  D  D  W  S  R  *  R  S  N  F  Y  I  V  E  G  K  E  V  E  E  T  V  G  E  R  G  V  W  R  P  *  A  S  F  E  K  Q  N  L  G  V  Y  E  N  K  E  K  C  L  I  F  N  I  I  I  L  L  K  G  S  V  Y  R  Q  H  *  E  K  C  T  T  L  L  R  M  E  S  L  W  K  L  V  Y  L  L  E  P  A  P  I  A  L  I  L  T  A  I  A  V  S  F  A  S  A  F  R  A  L  N  Y  G  K  E  M  E  R  N  R  D  W  S  E  A  S  I  T  L  D  R  S  Q  A  L  M  I  P  V  V  S  S  C  S  L  L  M  M  F  Y  L  F  S  S  V  S  Q  I  L  T  V  F  T  A  V  A  S  A  S  S  L  Y  F  C  L  F  P  Y  I  A  Q  I  K  S  R  F  G  L  A  D  P  F  V  S  R  C  C  S  K  P  F  T  R  I  Q  G  L  L  T  L  L  C  I  G  T  V  I  A  W  L  L  S  G  H  W  I  L  N  N  L  L  G  I  S  L  C  I  A  F  V  S  H  V  R  L  P  N  I  K  V  C  A  M  L  L  G  C  L  F  V  Y  D  I  F  W  V  F  Y  S  E  R  F  F  G  A  N  V  M  V  S  V  A  T  Q  Q  S  S  N  P  V  H  I  V  A  N  R  L  S  L  P  G  L  Q  L  I  T  K  K  L  E  L  P  V  K  I  V  F  P  R  N  L  L  G  G  V  V  P  G  Y  A  A  V  D  F  M  M  L  G  L  G  D  M  :  A  I  P  S  M  L  L  A  L  V  L  C  F  D  H  R  K  S  K  D  S  G  S  I  M  D  I  P  P  P  K  E  D  I  S  S  P  K  G  F  Y  I  W  Y  A  L  A  G  Y  S  V  G  L  V  T  A  L  A  A  G  I  L  T  H  S  P  Q  P  A  L  L  Y  L  :  V  P  S  T  L  G  P  I  I  V  I  S  W  M  R  K  E  L  A  E  L  W  E  G  S  P  S  N  I  N  E  K  T  R  F  T  E  V  *  A  L  A  F  F  P  *  S  Y  I  *  G  G  H  I  Q  T  C  K  F  T  *  Y  N  S  A  P  S  V  G  Y  L  Q  F  L  L  E  L  Y  V  L  R  I  F  T  R  L  S  I  L  R  Q  R  L  A  S  D  L  C  C  N  Y  K  R  *  Y  F  Y  Y  W  S  Y  I  V  F  I  P  P  L  T  P  V  I  S  R  *  N  W  *  Y  Y  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="21" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="147799" stop="146978"/>
                    <exon start="145215" stop="144997"/>
                    <exon start="142630" stop="142514"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1155</number_coding_nucleotides>
                  <number_encoded_amino_acids>385</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EKCTTLLRMESLWKLVYLLEPAPIALILTAIAVSFASAFRALNYGKEMERNRDWSEASITLDRSQALMIPVVSSCSLLMMFYLFSSVSQILTVFTAVASASSLYFCLFPYIAQIKSRFGLADPFVSRCCSKPFTRIQGLLTLLCIGTVIAWLLSGHWILNNLLGISLCIAFVSHVRLPNIKVCAMLLGCLFVYDIFWVFYSERFFGANVMVSVATQQSSNPVHIVANRLSLPGLQLITKKLELPVKIVFPRNLLGGVVPGYAAVDFMMLGLGDMAIPSMLLALVLCFDHRKSKDSGSIMDIPPPKEDISSPKGFYIWYALAGYSVGLVTALAAGILTHSPQPALLYLVPSTLGPIIVISWMRKELAELWEGSPSNINEKTRFTEV*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="-"/>
                <serials PGL_serial="21" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="142442" stop="142239"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>204</number_coding_nucleotides>
                  <number_encoded_amino_acids>68</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FSPICWIFTIFVGAICLAYIYEAVNLETATSLRLMLQLQTLIFLLLELHCLYSSPYPGDFKVKLVILS</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="22" PGL_strand="+" PGL_start="159179" PGL_stop="160677"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="159179" e_stop="159295"/>
            <exon e_start="159894" e_stop="160352"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.619" acc_prob="0.995" e_score="0.940"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.940">
            <gDNA_exon_boundary e_start="159179" e_stop="159295" e_length="117"/>
          </exon>
          <intron i_serial="1" don_prob="0.619" acc_prob="0.995">
            <gDNA_intron_boundary i_start="159296" i_stop="159893" i_length="598"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="159894" e_stop="160352" e_length="459"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="159179" stop="159295"/>
              <exon start="159894" stop="160249"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E260281" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="159186" stop="159295"/>
              <exon start="159894" stop="160352"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316712" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="22" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATCTATCTCTAAACTACATGTGTTAGAGGAGAGACGGGGAGAAGAGTCTGCCGCCCGACGTTGATTCCTCTAAACATCATCAGCCCGGGCACTGTTTTTCTGATCACAACTCAAAGG : GTTGATTTTGGAGCATGATCAAGTATTAATTCGAGGGTTGATATGGAAGGTGTGAACGGTAAAAAAGTGGGGCATTTATGTGAAAATATTAGCAGCTTTGTTCGCCAATGTATATTTTCTATACTTAGTGTGGGTCCTGTTCCTAGTCACATTGCTTTTATCATGGATGGAAACCGTAGATATTCTAAGAAACAGAACTTGCTTGATGGGAATGGACATAGAGCGGGATTTTCAGCTCTTATCAATATGCTAAAATATTGTTACGAGCTTGGTGTAAAATATATAACAGTTTATGCATTCAGCATTGATAACTTCAAGCGAAGGCCTGAAGAAGTTGTATCACTAATGAAACTGATGCAGGAAAAAATTGATGAATTAACAAAAGAGGAGAGCATTGTAAACCGCCTTGGTATTAGAATTTACTTTCAAGGAAACCTTAAACTTTTGAGTGACCATGTC</gDNA_template>
            <first_frame> I  Y  L  *  T  T  C  V  R  G  E  T  G  R  R  V  C  R  P  T  L  I  P  L  N  I  I  S  P  G  T  V  F  L  I  T  T  Q  R  :  V  D  F  G  A  *  S  S  I  N  S  R  V  D  M  E  G  V  N  G  K  K  V  G  H  L  C  E  N  I  S  S  F  V  R  Q  C  I  F  S  I  L  S  V  G  P  V  P  S  H  I  A  F  I  M  D  G  N  R  R  Y  S  K  K  Q  N  L  L  D  G  N  G  H  R  A  G  F  S  A  L  I  N  M  L  K  Y  C  Y  E  L  G  V  K  Y  I  T  V  Y  A  F  S  I  D  N  F  K  R  R  P  E  E  V  V  S  L  M  K  L  M  Q  E  K  I  D  E  L  T  K  E  E  S  I  V  N  R  L  G  I  R  I  Y  F  Q  G  N  L  K  L  L  S  D  H  V </first_frame>
            <second_frame>  S  I  S  K  L  H  V  L  E  E  R  R  G  E  E  S  A  A  R  R  *  F  L  *  T  S  S  A  R  A  L  F  F  *  S  Q  L  K  G :   L  I  L  E  H  D  Q  V  L  I  R  G  L  I  W  K  V  *  T  V  K  K  W  G  I  Y  V  K  I  L  A  A  L  F  A  N  V  Y  F  L  Y  L  V  W  V  L  F  L  V  T  L  L  L  S  W  M  E  T  V  D  I  L  R  N  R  T  C  L  M  G  M  D  I  E  R  D  F  Q  L  L  S  I  C  *  N  I  V  T  S  L  V  *  N  I  *  Q  F  M  H  S  A  L  I  T  S  S  E  G  L  K  K  L  Y  H  *  *  N  *  C  R  K  K  L  M  N  *  Q  K  R  R  A  L  *  T  A  L  V  L  E  F  T  F  K  E  T  L  N  F  *  V  T  M   </second_frame>
            <third_frame>   L  S  L  N  Y  M  C  *  R  R  D  G  E  K  S  L  P  P  D  V  D  S  S  K  H  H  Q  P  G  H  C  F  S  D  H  N  S  K   : G  *  F  W  S  M  I  K  Y  *  F  E  G  *  Y  G  R  C  E  R  *  K  S  G  A  F  M  *  K  Y  *  Q  L  C  S  P  M  Y  I  F  Y  T  *  C  G  S  C  S  *  S  H  C  F  Y  H  G  W  K  P  *  I  F  *  E  T  E  L  A  *  W  E  W  T  *  S  G  I  F  S  S  Y  Q  Y  A  K  I  L  L  R  A  W  C  K  I  Y  N  S  L  C  I  Q  H  *  *  L  Q  A  K  A  *  R  S  C  I  T  N  E  T  D  A  G  K  N  *  *  I  N  K  R  G  E  H  C  K  P  P  W  Y  *  N  L  L  S  R  K  P  *  T  F  E  *  P  C  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="22" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="159912" stop="160352"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>441</number_coding_nucleotides>
                  <number_encoded_amino_acids>147</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SSINSRVDMEGVNGKKVGHLCENISSFVRQCIFSILSVGPVPSHIAFIMDGNRRYSKKQNLLDGNGHRAGFSALINMLKYCYELGVKYITVYAFSIDNFKRRPEEVVSLMKLMQEKIDELTKEESIVNRLGIRIYFQGNLKLLSDHV</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="159884" e_stop="160677"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.985"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.985">
            <gDNA_exon_boundary e_start="159884" e_stop="160677" e_length="794"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="159884" stop="160677"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E692957" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="22" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GTTTGATTAGGTTGATTTTGGAGCATGATCAAGTATTAATTCGAGGGTTGATATGGAAGGTGTGAACGGTAAAAAAGTGGGGCATTTATGTGAAAATATTAGCAGCTTTGTTCGCCAATGTATATTTTCTATACTTAGTGTGGGTCCTGTTCCTAGTCACATTGCTTTTATCATGGATGGAAACCGTAGATATTCTAAGAAACAGAACTTGCTTGATGGGAATGGACATAGAGCGGGATTTTCAGCTCTTATCAATATGCTAAAATATTGTTACGAGCTTGGTGTAAAATATATAACAGTTTATGCATTCAGCATTGATAACTTCAAGCGAAGGCCTGAAGAAGTTGTATCACTAATGAAACTGATGCAGGAAAAAATTGATGAATTAACAAAAGAGGAGAGCATTGTAAACCGCCTTGGTATTAGAATTTACTTTCAAGGAAACCTTAAACTTTTGAGTGACCATGTCAGGTTAGCCGCCGAGAGGGCTATGGTAAAGACATCAGGTAATTCAAAAGCTATATTGTCTATTTGTGTTGCCTACACATCAACAGATGAGATTGTCCATGCTGTTCAAGAATCTTGTGAAGAAAAATGGGACGAGATTAGAAAACTAGATGTAAATAATGATGGAAGCAATTTAATTAGACTCGAAGAAAATGTGAAGGACAAGAATGAGCACCGGATTGGTGTGACAAATGTTGACAGACATATGTACATGTCAGTTTGTCCTGATCCAGACATTATTATACGGACTTCTGGAGCAACTCGTTTAAGCAATTTTCTTTTGTGGC</gDNA_template>
            <first_frame> V  *  L  G  *  F  W  S  M  I  K  Y  *  F  E  G  *  Y  G  R  C  E  R  *  K  S  G  A  F  M  *  K  Y  *  Q  L  C  S  P  M  Y  I  F  Y  T  *  C  G  S  C  S  *  S  H  C  F  Y  H  G  W  K  P  *  I  F  *  E  T  E  L  A  *  W  E  W  T  *  S  G  I  F  S  S  Y  Q  Y  A  K  I  L  L  R  A  W  C  K  I  Y  N  S  L  C  I  Q  H  *  *  L  Q  A  K  A  *  R  S  C  I  T  N  E  T  D  A  G  K  N  *  *  I  N  K  R  G  E  H  C  K  P  P  W  Y  *  N  L  L  S  R  K  P  *  T  F  E  *  P  C  Q  V  S  R  R  E  G  Y  G  K  D  I  R  *  F  K  S  Y  I  V  Y  L  C  C  L  H  I  N  R  *  D  C  P  C  C  S  R  I  L  *  R  K  M  G  R  D  *  K  T  R  C  K  *  *  W  K  Q  F  N  *  T  R  R  K  C  E  G  Q  E  *  A  P  D  W  C  D  K  C  *  Q  T  Y  V  H  V  S  L  S  *  S  R  H  Y  Y  T  D  F  W  S  N  S  F  K  Q  F  S  F  V   </first_frame>
            <second_frame>  F  D  *  V  D  F  G  A  *  S  S  I  N  S  R  V  D  M  E  G  V  N  G  K  K  V  G  H  L  C  E  N  I  S  S  F  V  R  Q  C  I  F  S  I  L  S  V  G  P  V  P  S  H  I  A  F  I  M  D  G  N  R  R  Y  S  K  K  Q  N  L  L  D  G  N  G  H  R  A  G  F  S  A  L  I  N  M  L  K  Y  C  Y  E  L  G  V  K  Y  I  T  V  Y  A  F  S  I  D  N  F  K  R  R  P  E  E  V  V  S  L  M  K  L  M  Q  E  K  I  D  E  L  T  K  E  E  S  I  V  N  R  L  G  I  R  I  Y  F  Q  G  N  L  K  L  L  S  D  H  V  R  L  A  A  E  R  A  M  V  K  T  S  G  N  S  K  A  I  L  S  I  C  V  A  Y  T  S  T  D  E  I  V  H  A  V  Q  E  S  C  E  E  K  W  D  E  I  R  K  L  D  V  N  N  D  G  S  N  L  I  R  L  E  E  N  V  K  D  K  N  E  H  R  I  G  V  T  N  V  D  R  H  M  Y  M  S  V  C  P  D  P  D  I  I  I  R  T  S  G  A  T  R  L  S  N  F  L  L  W  </second_frame>
            <third_frame>   L  I  R  L  I  L  E  H  D  Q  V  L  I  R  G  L  I  W  K  V  *  T  V  K  K  W  G  I  Y  V  K  I  L  A  A  L  F  A  N  V  Y  F  L  Y  L  V  W  V  L  F  L  V  T  L  L  L  S  W  M  E  T  V  D  I  L  R  N  R  T  C  L  M  G  M  D  I  E  R  D  F  Q  L  L  S  I  C  *  N  I  V  T  S  L  V  *  N  I  *  Q  F  M  H  S  A  L  I  T  S  S  E  G  L  K  K  L  Y  H  *  *  N  *  C  R  K  K  L  M  N  *  Q  K  R  R  A  L  *  T  A  L  V  L  E  F  T  F  K  E  T  L  N  F  *  V  T  M  S  G  *  P  P  R  G  L  W  *  R  H  Q  V  I  Q  K  L  Y  C  L  F  V  L  P  T  H  Q  Q  M  R  L  S  M  L  F  K  N  L  V  K  K  N  G  T  R  L  E  N  *  M  *  I  M  M  E  A  I  *  L  D  S  K  K  M  *  R  T  R  M  S  T  G  L  V  *  Q  M  L  T  D  I  C  T  C  Q  F  V  L  I  Q  T  L  L  Y  G  L  L  E  Q  L  V  *  A  I  F  F  C  G </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0031M05.1" strand="+"/>
                <serials PGL_serial="22" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="159912" stop="160676"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>765</number_coding_nucleotides>
                  <number_encoded_amino_acids>255</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SSINSRVDMEGVNGKKVGHLCENISSFVRQCIFSILSVGPVPSHIAFIMDGNRRYSKKQNLLDGNGHRAGFSALINMLKYCYELGVKYITVYAFSIDNFKRRPEEVVSLMKLMQEKIDELTKEESIVNRLGIRIYFQGNLKLLSDHVRLAAERAMVKTSGNSKAILSICVAYTSTDEIVHAVQESCEEKWDEIRKLDVNNDGSNLIRLEENVKDKNEHRIGVTNVDRHMYMSVCPDPDIIIRTSGATRLSNFLLW</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 299 chains have been computed
$ 
$ memory statistics:
$ 1074928 bytes spliced alignments in total
$ 202 spliced alignments have been stored
$ 5321 bytes was the average size of a spliced alignment
$ 37880 bytes predicted gene locations in total
$ 22 predicted gene locations have been stored
$ 1721 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 327 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 01:37:56
-->
