<?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 01:38:46"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C03HBa0121O11-6s352/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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E200845" ref_strand="+" ref_description="SGN-E200845 [cLEC-5-G3]">
      <seq>aaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaatagaaacagaatttatacacttctgtgtatatagcgagataggcgagcgagaatggagagtggcgagcgagatttttgggagggagacgcctgacaaactttagctaacgtttgctatggagcacaattaaatcaaactctagctactccatttagttagattactag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="3833" stop="2787"/>
      </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="3533" g_stop="3087" g_length="447"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="450" r_length="450" r_score="0.911"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E200845" ref_strand="+">
        <total_alignment_score>0.911</total_alignment_score>
        <cumulative_length_of_scored_exons>447</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E200845" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3533" e_stop="3087"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATGTATGTATATTGCATAATTATAAGTGTATAGCAAGAAGATATATG-TTTT-TCTCGCTTTATACAAAAACAGAAACACAATATATACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATGTCACTGCAATTGTATAATTCGCAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTAAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTATAAAACGAAGATATACATTTTTCCATGTGTATATATAATTTTCTCTCGCTTTATACAAAACAGAAACAGAA-TTATACACTTCTGTGTATAAAGCGAGAGAAACGAGCGAGAATTGAGAGTGGCGAGCGAGATTTTTGGGAGAGAGGCG-CTGGCAAATTTTAGCTAAGGTTTGCTATGGAGCACAATTAAATCAAACCCTAGTTATTCCATTTAATTTAAGTTATTAG</genome_strand>
        <mrna_strand>AAAATGTATGTATATTGCATAATTATAAGTGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAGAAACAGAATTTATACACTTCTGTGTATATAGCGAGATAGGCGAGCGAGAATGGAGAGTGGCGAGCGAGATTTTTGGGAGGGAGACGCCTGACAAACTTTAGCTAACGTTTGCTATGGAGCACAATTAAATCAAACTCTAGCTACTCCATTT-AGTTAGATTACTAG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E393076" ref_strand="+" ref_description="SGN-E393076 [TUS-37-J4]">
      <seq>taaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaataaaaacagaatttatttttttttgtgtatatagcgagatag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="3834" stop="2939"/>
      </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="3534" g_stop="3213" g_length="322"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="325" r_length="325" r_score="0.910"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E393076" ref_strand="+">
        <total_alignment_score>0.910</total_alignment_score>
        <cumulative_length_of_scored_exons>322</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E393076" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3534" e_stop="3213"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATAGCAAGAAGATATATG-TTTT-TCTCGCTTTATACAAAAACAGAAACACAATATATACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATGTCACTGCAATTGTATAATTCGCAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTAAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTATAAAACGAAGATATACATTTTTCCATGTGTATATATAATTTTCTCTCGCTTTATACAAAACAGAAACAGAA-TTATACACTTCTGTGTATAAAGCGAGAGAA</genome_strand>
        <mrna_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAAAAACAGAATTTATTTTTTTTTGTGTATATAGCGAGATAG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E393075" ref_strand="+" ref_description="SGN-E393075 [TUS-37-J2]">
      <seq>taaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaatagaaacagaggttttttttttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="3834" stop="2939"/>
      </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="3534" g_stop="3244" g_length="291"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="293" r_length="293" r_score="0.938"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E393075" ref_strand="+">
        <total_alignment_score>0.938</total_alignment_score>
        <cumulative_length_of_scored_exons>291</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E393075" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3534" e_stop="3244"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATAGCAAGAAGATATATG-TTTT-TCTCGCTTTATACAAAAACAGAAACACAATATATACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATGTCACTGCAATTGTATAATTCGCAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTAAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTATAAAACGAAGATATACATTTTTCCATGTGTATATATAATTTTCTCTCGCTTTATACAAAACAGAAACAGA</genome_strand>
        <mrna_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAGAAACAGA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E703567" ref_strand="+" ref_description="SGN-E703567 [FA21DD12]">
      <seq>ctgttttttctgctcgccggaaagtatggcggatgagtttgcatcgtcggtagatatggggcttcagttaactaaacggatttactacggtaaaaatccgccgaagccacttgtaatggagaaaaaatcatctgagattaataacttgccgacggcacctatggtgtacgccgtcgttagggacccatcgatggtggataatcctgatattccgagctatcaaccgtatgttcacggccgttgtgatccgccggcgttgattccgcttgacatgcaggggatcgcaatggaggttgattgttatatggatactgcttttgtaacggtcaacggaacttggcgtgtgcactgtattgcttctagtcgatattgcgattgtcgaatcgctgtaccaatgggagagcagggttcagttctaggtgtggagattgaaacaccatcaagatcgtattccaccttattgattgaatcaaatgataccaaagatgccggtttagtagccaatgctaaagatggcttcttactaaatcgccggatatacacattaaaggtccctcaggttgctggaggttctattctctccgttaaagtcagttggtcacagaaaatactgtatcaagatggtcaattttccctttagtatacctttctagtttccgtggtatgtcaatccaattgcaaaactaattgtgcaagaaagagaggattcggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="8357" stop="10584"/>
      </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="8657" g_stop="9062" g_length="406"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="406" r_length="406" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="9063" i_stop="9878" i_length="816">
            <donor d_prob="0.978" 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="9879" g_stop="10031" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="407" r_stop="559" r_length="153" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="10032" i_stop="10133" i_length="102">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.357" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="10134" g_stop="10284" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="560" r_stop="712" r_length="153" r_score="0.947"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E703567" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>710</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E703567" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="8657" e_stop="9062"/>
          <exon e_start="9879" e_stop="10031"/>
          <exon e_start="10134" e_stop="10284"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTTTTTTCTGCTCGCCGGAAAGTATGGCGGATGAGTTTGCATCGTCGGTAGATATGGGGCTTCAGTTAACTAAACGGATTTACTACGGTAAAAATCCGCCGAAGCCACTTGTAATGGAGAAAAAATCATCTGAGATTAATAACTTGCCGACGGCACCTATGGTGTACGCCGTCGTTAGGGACCCATCGATGGTGGATAATCCTGATATTCCGAGCTATCAACCGTATGTTCACGGCCGTTGTGATCCGCCGGCGTTGATTCCGCTTGACATGCAGGGGATCGCAATGGAGGTTGATTGTTATATGGATACTGCTTTTGTAACGGTCAACGGAACTTGGCGTGTGCACTGTATTGCTTCTAGTCGATATTGCGATTGTCGAATCGCTGTACCAATGGGAGAGCAGGTTTTGTTTCTCTATCTGAATAGCCGCTCACAGATTTACTTGTTTACTTTTTCTACTTCATGCAAATAATACTGATATTTTAGTTTAATCAGTTGTCTGGACGGCTATTTGGGTCACTAATCTTTATCTCTTAAACATAACATAGTGAACTATAAGCTTAGCTTCATGGAGAGACGAGCATTTAAAGAATATTAGTAGTAACTATGGTTTTTCCGTCTTTCTTTTCTTAAGCTAACATTTGTAGCAAAAGATTGTATATTTGCATTAATTCGTACTCAAAAGAAAGGAACAAAAAGCAGACAGACAACAATACCCCACATTTTCTCTTTTGATATGCACACATCAGTTGGAAGGTTTGTAGACTTTTAGTTGTCTGAGATATCTTGATGGCCTAAAGTAAACAAGTTAATTTCCTCATTGGTCAGAATCATGTCTGCGCTGAATAAGCTGGCCTATCAACAAGATTACTCTGTCATACTCCGAATTATAGGCATTGAAGTAACGGAGAGAAAGAGTCAAAGAAAAAAGAATGGCATATACTTATATGGATAATTGGAAGGTGGCAACTTATATATAGCTATGGAAATTTTACATTTCCATACCCTTACCTTTCCAATATACGAGATATTTGTGTCCTCCCAACTGATTTAATATTTATGTCATTCCAAATGTTTACATGACTTAGACATGTCATTAAAACAAACTAAACGAATATATGATATAAGCATTTGACTGTATAGTTTAAGTTTTGATTAGTGTAGCATACGATGTTTGTCATTCTGTTATTCTTAAAATACTATCATTTGTCTAACACAGGGTTCAGTTCTAGGTGTGGAGATTGAAACACCATCAAGATCGTATTCCACCTTATTGATTGAATCAAATGATACCAAAGATGCCGGTTTAGTAGCCAATGCTAAAGATGGCTTCTTACTAAATCGCCGGATATACACATTAAAGGTCCCTCAGGTGACTACCATCTCACACAACCAAATTGATTATCTATCTTTTCTTCATTCCTGTTGAGTTTCAAGAAAGGGGCTATATTTGTCTACTTTTGGATCTTTCAAGGTTGCTGGAGGTTCTATTCTCTCCGTTAAAGTCAGTTGGTCACAGAAAATACTGTATCAAGATGGTCAATTTT-CCTTTAGTATACCTTTCAGTTTCCCGTGGTATGTCAATCCAATTGCAAAACT-ATTGTGCAAGAAAGAGAGGATTCGGT</genome_strand>
        <mrna_strand>CTGTTTTTTCTGCTCGCCGGAAAGTATGGCGGATGAGTTTGCATCGTCGGTAGATATGGGGCTTCAGTTAACTAAACGGATTTACTACGGTAAAAATCCGCCGAAGCCACTTGTAATGGAGAAAAAATCATCTGAGATTAATAACTTGCCGACGGCACCTATGGTGTACGCCGTCGTTAGGGACCCATCGATGGTGGATAATCCTGATATTCCGAGCTATCAACCGTATGTTCACGGCCGTTGTGATCCGCCGGCGTTGATTCCGCTTGACATGCAGGGGATCGCAATGGAGGTTGATTGTTATATGGATACTGCTTTTGTAACGGTCAACGGAACTTGGCGTGTGCACTGTATTGCTTCTAGTCGATATTGCGATTGTCGAATCGCTGTACCAATGGGAGAGCAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTCAGTTCTAGGTGTGGAGATTGAAACACCATCAAGATCGTATTCCACCTTATTGATTGAATCAAATGATACCAAAGATGCCGGTTTAGTAGCCAATGCTAAAGATGGCTTCTTACTAAATCGCCGGATATACACATTAAAGGTCCCTCAG......................................................................................................GTTGCTGGAGGTTCTATTCTCTCCGTTAAAGTCAGTTGGTCACAGAAAATACTGTATCAAGATGGTCAATTTTCCCTTTAGTATACCTTTCTAGTTTCCGTGGTATGTCAATCCAATTGCAAAACTAATTGTGCAAGAAAGAGAGGATTCGGT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E254193" ref_strand="+" ref_description="SGN-E254193 [cLEG-34-F13]">
      <seq>cttgattcatttgagctatatccatgtgagctgccggacctgttgtcttgaagaccactgattgtctctggcagattcatcgggacctgccctggttctgttaaagttagtggcacgctagcagatttgagcagttttgtggtcaatgtcaaagtacaaaaagcaaaggatcttcctttggaaagagtttttgcaaagagacaaattgaaacaataactgggaatgcctggttttccggaagcaagcaactataggagatggttgcgaaattgagcttgcaaactggggtgccttcagagtacaccaacttgattttggttgaaaatttaaaggagaagcagacgtctaaattagagacagtagatgagaaggcctctgatcagttgaatgtcaagaagatcatataccttcgagcactcggtgttggttttgggaacttgaaggcaactgcagacaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="12511" stop="14542"/>
      </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="12560" g_stop="12574" 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="12575" i_stop="12824" i_length="250">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.986" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="12825" g_stop="12995" g_length="171"/>
          <reference_exon_boundary r_type="cDNA" r_start="16" r_stop="186" r_length="171" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12996" i_stop="13296" i_length="301">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="13297" g_stop="13371" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="187" r_stop="261" r_length="75" r_score="0.987"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="13372" i_stop="13577" i_length="206">
            <donor d_prob="0.830" d_score="0.98"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="13578" g_stop="13685" g_length="108"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="369" r_length="108" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="13686" i_stop="14152" i_length="467">
            <donor d_prob="0.968" d_score="1.00"/>
            <acceptor a_prob="0.609" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="14153" g_stop="14242" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="370" r_stop="459" r_length="90" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E254193" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>459</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E254193" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="12560" e_stop="12574"/>
          <exon e_start="12825" e_stop="12995"/>
          <exon e_start="13297" e_stop="13371"/>
          <exon e_start="13578" e_stop="13685"/>
          <exon e_start="14153" e_stop="14242"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGATTCATTTGAGGTATATACACCTTCAGATTCCTTATGTATTCTGAGTAGAGATAAGGATGTACAAAGCAGCATAAGTAGCTGAATATACCCGTTGTTGCCTTCCAAAATATCACGGCTTCATAAAACTTCCACTAAATGATACACTGCTTAATTATTTTTCTTTTCCCGTGTATAGTTATGATATAAAGTGTAATATGTGCCTTTATTTTTATTTTCCTCTGCTGCTTGTCTGACAATTGTAATCAATGTTCTTATTGCAGCTATATCCATGTTATCTGCCGGACCTGTTGTCTTCAAGACCACTGATTGTCTCTGGCAGATTCATCGGGACCTGCCCTGGTTCTGTTAAAGTTAGTGGCACGCTAGCAGATTTGAGCAGTTTTGTGGTCAATGTCAAAGTACAAAAAGCAAAGGATCTTCCTTTGGAAAGAGTAAGGTCTTTCATCTTGTATTCCTTACTGAAATGTTAATTTGATTTACTTATGCTGAGGAGAAAGTCAAAGAAAAAGTACAGTGTGTATGTGGTGCTCCATCTTTACCTGGATTCTGTTCTACGCGTTTTCTCTACAGGTTGATTCTATGAACTATCTAGCATTCTTATTCCCCGTATTAATCAAACAGATATCACGTTCGTATTTTTTTTGGTCTGTGCATGCTTACATGAACCTTGCTGGAAAAGTAGAAATCTGCACTCTTCTACCATTAGAACTTATGCTTGTTCCCTTTATGCAGGTTTTTGCAAAGAGACAAATTGAAACAATAACTGGGAATGCCTGGTTTTCCGGAAGCAAGCAACTAGAGGAGATGGTCTGTTCTAATGAATCTTAATTCTTATAGTGCTGCATAAAGAAGTTCCATACATAATCGCGTGATTGCAAATCTTTATAACATTAAGAGATTTATATTCGTTATACGCCAGTCCCTTGCACTAATGTTACTTCTACGACTGAAAATGATGATTATTTTTCCTTTTATGGTAATTGTGCTCACTTAAACTACGTATCTGCTTCTAGGTTGCGAAATTGAGCTTGCAAACTGGGGTGCCTTCAGAGTACACCAACTTGATTTTGGTTGAAAATTTAAAGGAGAAGCAGACGTCTAAATTAGAGACAGTAGATGAGGTATGTGGTTTGGTTGGTTTGTCAATGTACTAGGTTAACTGTCTTTAAAATTAGAGAAAATCATCTGATGAGGTTTTAACACTATCCATCTTTTGTTATTTTTTATTCGCGTGCATCACTTCCTTAAAGTAAAATTTGTGCATTTGTATGCAAAACATGCATACCAAATACAAATTTGGAGTCTAAGGATTAGAGTTTTTGTACAATGCTCGGAAGATCTACTTTGTACATTAAATGTATTGGTATAACGTAGATAAGTGCATTAAATTACGTCTGATTCATAAACTTTATATTGACCTGTATGAGGTAATTATATCTAGACATATACTTGTGTTAAATATAGACTATAGAATTCTTATGCTTGTGGAACTTCAAAAATACATTTGTTCAAACAACAGTAATGCACTCTTTTAAGCTTACAAGCGGAATTTGTTGATGAAAATAAAAGCTCTCGTATTGATTGATAGAAGGCCTCTGATCAGTTGAATGTCAAGAAGATCATATACCTTCGAGCACTCGGTGTTGGTTTTGGGAACTTGAAGGCAACTGCAGACAAT</genome_strand>
        <mrna_strand>CTTGATTCATTTGAG..........................................................................................................................................................................................................................................................CTATATCCATGTGAGCTGCCGGACCTGTTGTCTTGAAGACCACTGATTGTCTCTGGCAGATTCATCGGGACCTGCCCTGGTTCTGTTAAAGTTAGTGGCACGCTAGCAGATTTGAGCAGTTTTGTGGTCAATGTCAAAGTACAAAAAGCAAAGGATCTTCCTTTGGAAAGA.............................................................................................................................................................................................................................................................................................................GTTTTTGCAAAGAGACAAATTGAAACAATAACTGGGAATGCCTGGTTTTCCGGAAGCAAGCAACTATAGGAGATG..............................................................................................................................................................................................................GTTGCGAAATTGAGCTTGCAAACTGGGGTGCCTTCAGAGTACACCAACTTGATTTTGGTTGAAAATTTAAAGGAGAAGCAGACGTCTAAATTAGAGACAGTAGATGAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGGCCTCTGATCAGTTGAATGTCAAGAAGATCATATACCTTCGAGCACTCGGTGTTGGTTTTGGGAACTTGAAGGCAACTGCAGACAAT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E273039" ref_strand="+" ref_description="SGN-E273039 [cLEM-25-D8]">
      <seq>atacatatatacatataattcttttaaaaatcacaaggtgcacgtgcacccccaccatatggtgtgggtccgcatctgaatacaactatacatataaatagcgtgacagtctaaccatatttaatttctgctacatctgtggtaatatattagccacagtctccacatacttcacaacaaaaactaatacactcaaaacaagcgagcgctgtacacatttgtgctaatgtcacagcacattgatcactaacccgatagcagaactgtatgaaacacatgcaacagcaaaagtcacataatttgccacataagcttgaagcagcggccaataccatttctgatgtttcatgcaactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="14922" stop="13967"/>
      </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="14622" g_stop="14267" g_length="356"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="356" r_length="356" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E273039" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>356</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E273039" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="14622" e_stop="14267"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATACATATATACATATAATTTTTTTAAAAGTTACAAGGTGCACGTGCACCCCCACCATATGGTGTGGGTCCGCATCTGAATACAACTATACATATAAATAGCGTGACAGTCTAACCATATTTAATTTCTGCTACATCTGTGGTAATATATTAGCCACAGTCTCCACATACTTCACAACAAAAACTAATACACTCAAAACAAGCGAGCGCTGTACAGATTTGTGCTAATGTCACAGCACATTGATCACTAACCCGAGAGCAGAACTGTATGAAACACATGCAACAGCAAAAGTCACATAATTTGCCACATAAGTTTGAAGCAGCGGCAAATACCATTTCTGATGTTTCATGCAACTT</genome_strand>
        <mrna_strand>ATACATATATACATATAATTCTTTTAAAAATCACAAGGTGCACGTGCACCCCCACCATATGGTGTGGGTCCGCATCTGAATACAACTATACATATAAATAGCGTGACAGTCTAACCATATTTAATTTCTGCTACATCTGTGGTAATATATTAGCCACAGTCTCCACATACTTCACAACAAAAACTAATACACTCAAAACAAGCGAGCGCTGTACACATTTGTGCTAATGTCACAGCACATTGATCACTAACCCGATAGCAGAACTGTATGAAACACATGCAACAGCAAAAGTCACATAATTTGCCACATAAGCTTGAAGCAGCGGCCAATACCATTTCTGATGTTTCATGCAACTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327004" ref_strand="+" ref_description="SGN-E327004 [cTOC-18-A16]">
      <seq>aaagcgtatgactcccccaaaattttggggataggccgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaattttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttcttttgaccaatttgctaatgctgttcttgaaagtgcatgtgagcgtgctattgttggtgatctatattgtgatatcccattaggtctctatattatacgtggggaaaatgttgtgttaattggtgaactggacgtggataaggangagcttcctccccatatgacacgtgtttcagaagctgagataagaagggcacagaaagcagaaagggactctacagatcttaaaggttcaatgangaagaggatggaatttcttgatatgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15704" stop="20708"/>
      </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="16004" g_stop="16373" g_length="370"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="370" r_length="370" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19251" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="371" r_stop="439" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79">
            <donor d_prob="0.813" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19331" g_stop="19446" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="440" r_stop="555" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="19447" i_stop="19539" i_length="93">
            <donor d_prob="0.970" 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="19540" g_stop="19602" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="556" r_stop="618" r_length="63" r_score="0.984"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="19603" i_stop="20334" i_length="732">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.987" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20335" g_stop="20408" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="619" r_stop="692" r_length="74" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E327004" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>692</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E327004" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16004" e_stop="16373"/>
          <exon e_start="19183" e_stop="19251"/>
          <exon e_start="19331" e_stop="19446"/>
          <exon e_start="19540" e_stop="19602"/>
          <exon e_start="20335" e_stop="20408"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGCGTATGACTCCCCCAAAATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTGGTAGGTTTTCTCCTGTCATTACTTTCTATTTCATGGCCGTGGTTGACCACCTGACAAAAATTCCATCTGTTATTTGTAGCTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTGGTATGTCTTGATTTCTCTCTCAATACAAAAGTTCTGTGCTATCCCCATAATTGTATATCCTTGGGCTAATACAATGTTGTAATTATTTGTCAGGACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGGGTAAGATCCTGTTATTATTAGTCTCACTCTTTCAGATGCTTAATGAACTTGTTGCAAGTGCATGACTTGTGAAGTTTGGGGTGTAGGGCAACTTTTATTGGAAAGACTATAAATTGGTGAATGTATAGTCGGAAGGAAAAAAAGCTGTAGGTATTTTGCAAAGTTTTGGACATTTAGGGATGAAAAGTTAATTTTTGATAAATGGTGGTGGGGAGTGGAAAAGATATAGCTGAAGGTATGAAGTTGCAAAAAGGTTAAGCTTTACACGCCCCTTTAACAATGAGATTAACCCTTTGTCAAAAATATAAGGATAAGCTTGTACACGAAATACAGTGTGTAGCTAGCTTTTTTTCCTTTTAACACGGACAGAGAAATTATAAAGCTGAAGAAACAAACAGTAATCTTCGTTAATAAAATGTGTCTTGTGTATGACTTGGTATCTTTATGTGTGCATGTTTTCATATTCTTTCTAAAGAGATAACATTTCCATCTTTCTTGTTTAATAATCTAATCTTCAAGTACAAAATCATGATTTACTTGATGTTAACCGTTGGTTGATGGTTCACTGATTTATTTAGTCATAGATACGAGATGTTAGTATTTAGTGTAAGACTAGTACACATTATGGAGTTGAGGAGCCGGACCACTTTATATATGATGTGTATATATTTTTTATTGAGACTTTTAATTTGTTTCTAATTCATATAACGTATGCATCCATCCATCCATCAGGCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGA</genome_strand>
        <mrna_strand>AAAGCGTATGACTCCCCCAAAATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTG...............................................................................CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTG.............................................................................................GACGTGGATAAGGANGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGANGAAGAGGATGGAATTTCTTGATATGGA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E311984" ref_strand="+" ref_description="SGN-E311984 [cTOA-16-C7]">
      <seq>gcgtatgactcccccaaaattttggggataggccgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaattttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttctttttgaccaatttgctaatgctgttcttgaaagtgcattgtgagcgtgctattgatggtgatctatattgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15707" stop="19687"/>
      </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="16007" g_stop="16373" g_length="367"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="367" r_length="367" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19251" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="368" r_stop="437" r_length="70" r_score="0.971"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79">
            <donor d_prob="0.813" d_score="0.96"/>
            <acceptor a_prob="0.994" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19331" g_stop="19387" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="438" r_stop="495" r_length="58" r_score="0.947"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E311984" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>493</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E311984" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16007" e_stop="16373"/>
          <exon e_start="19183" e_stop="19251"/>
          <exon e_start="19331" e_stop="19387"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCGTATGACTCCCCCAAAATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTC-TTTTGACCAATTTGGTAGGTTTTCTCCTGTCATTACTTTCTATTTCATGGCCGTGGTTGACCACCTGACAAAAATTCCATCTGTTATTTGTAGCTAATGCTGTTCTTGAAAGTGCA-TGTGAGCGTGCTATTGTTGGTGATCTATATTGTG</genome_strand>
        <mrna_strand>GCGTATGACTCCCCCAAAATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTTGACCAATTTG...............................................................................CTAATGCTGTTCTTGAAAGTGCATTGTGAGCGTGCTATTGATGGTGATCTATATTGTG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E745340" ref_strand="+" ref_description="SGN-E745340 [GI|47105738]">
      <seq>gcccccaaaattttggggataggccgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaatttttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttcttttgaccaatttgctaatgctgttcttgaaagtgcatgtgagcgtgctattgttggtgatctatattgtgatatcccattaggtctctatattatacgtggggaaaatgttgtgttaattggtgaactggacgtggataaggaggagcttcctccccatatgacacgtgtttcagaagctgagataagaagggcacagaaagcagaaagggactctacagatcttaaaggttcaatgaggaagaggatggaatttcttgatatggattaaaggtttactgttgtttacgataattccatgtcttctgcaaatattatcgcagttgctgcgtggcgttcgttttctcctgggatattctgtgttcatttgtaacatgtgtttcttttatgacgtttgagtaaaggttactggtgttaagacatggtgaatggggaaacaagtgtttgagttgttccatttcccgtcttttatgctagtctggaggaattgtagttttaagttagactctgtatatgctgtgaaatgggagtttccggtatttgctttttttccaatgtccttttcttattcaacattaatcaagcgcgttgctcagtttatttttaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15717" stop="75799"/>
      </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="16016" g_stop="16373" g_length="358"/>
          <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="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19251" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="360" r_stop="428" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79">
            <donor d_prob="0.813" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19331" g_stop="19446" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="429" r_stop="544" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="19447" i_stop="19539" i_length="93">
            <donor d_prob="0.970" 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="19540" g_stop="19602" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="545" r_stop="607" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="19603" i_stop="20334" i_length="732">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20335" g_stop="20748" g_length="414"/>
          <reference_exon_boundary r_type="cDNA" r_start="608" r_stop="1021" r_length="414" r_score="0.998"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20749" i_stop="20969" i_length="221">
            <donor d_prob="0.641" d_score="0.98"/>
            <acceptor a_prob="0.962" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20970" g_stop="20989" g_length="20"/>
          <reference_exon_boundary r_type="cDNA" r_start="1022" r_stop="1041" r_length="20" r_score="0.550"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E745340" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>1040</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E745340" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16016" e_stop="16373"/>
          <exon e_start="19183" e_stop="19251"/>
          <exon e_start="19331" e_stop="19446"/>
          <exon e_start="19540" e_stop="19602"/>
          <exon e_start="20335" e_stop="20748"/>
          <exon e_start="20970" e_stop="20989"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCCCCAAAATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTT-TTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTGGTAGGTTTTCTCCTGTCATTACTTTCTATTTCATGGCCGTGGTTGACCACCTGACAAAAATTCCATCTGTTATTTGTAGCTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTGGTATGTCTTGATTTCTCTCTCAATACAAAAGTTCTGTGCTATCCCCATAATTGTATATCCTTGGGCTAATACAATGTTGTAATTATTTGTCAGGACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGGGTAAGATCCTGTTATTATTAGTCTCACTCTTTCAGATGCTTAATGAACTTGTTGCAAGTGCATGACTTGTGAAGTTTGGGGTGTAGGGCAACTTTTATTGGAAAGACTATAAATTGGTGAATGTATAGTCGGAAGGAAAAAAAGCTGTAGGTATTTTGCAAAGTTTTGGACATTTAGGGATGAAAAGTTAATTTTTGATAAATGGTGGTGGGGAGTGGAAAAGATATAGCTGAAGGTATGAAGTTGCAAAAAGGTTAAGCTTTACACGCCCCTTTAACAATGAGATTAACCCTTTGTCAAAAATATAAGGATAAGCTTGTACACGAAATACAGTGTGTAGCTAGCTTTTTTTCCTTTTAACACGGACAGAGAAATTATAAAGCTGAAGAAACAAACAGTAATCTTCGTTAATAAAATGTGTCTTGTGTATGACTTGGTATCTTTATGTGTGCATGTTTTCATATTCTTTCTAAAGAGATAACATTTCCATCTTTCTTGTTTAATAATCTAATCTTCAAGTACAAAATCATGATTTACTTGATGTTAACCGTTGGTTGATGGTTCACTGATTTATTTAGTCATAGATACGAGATGTTAGTATTTAGTGTAAGACTAGTACACATTATGGAGTTGAGGAGCCGGACCACTTTATATATGATGTGTATATATTTTTTATTGAGACTTTTAATTTGTTTCTAATTCATATAACGTATGCATCCATCCATCCATCAGGCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGTAAAGGTTACTGGTGTTAAGACATGGTGAATGGGGAAACAAGTGTTTGAGTTGTTCCATTTCCCGTCTTTTATGCTAGTCTGGAGGAATTGTAGTTTTAAGTTAGACTCTGTATATGCTGTGAAATGGGAGTTTCCGGTATTTGCTTTTTTTCCAATGTCCTTTTCTTATTCAACATTAATCAAGCGCGTTGCTCAGTTTATTTTTAGGTATGTTTATGGTTTTTACTGATTGAAAATAATTGGAATGGAAAAAAAAGGTGCATGTTTGGCCCCGTCTTAATTCAACAAAATAGAGTTGTCAAGATGAAAAAGTAGTGTTTGACAACATCAGAAGAAAGTGGAGCTGTAGTAGTACACTAGGGGATGTGTGCAAGAAATACTACTTCTTCTGAGTATATATAATATAAATCTGGCATACTTATTGCCAGCAAGTGCAAACTGAAGAAAA</genome_strand>
        <mrna_strand>GCCCCCAAAATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTG...............................................................................CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTG.............................................................................................GACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGTAAAGGTTACTGGTGTTAAGACATGGTGAATGGGGAAACAAGTGTTTGAGTTGTTCCATTTCCCGTCTTTTATGCTAGTCTGGAGGAATTGTAGTTTTAAGTTAGACTCTGTATATGCTGTGAAATGGGAGTTTCCGGTATTTGCTTTTTTTCCAATGTCCTTTTCTTATTCAACATTAATCAAGCGCGTTGCTCAGTTTATTTTTAA.............................................................................................................................................................................................................................AAAAAAAAAAAAAAAAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E338212" ref_strand="+" ref_description="SGN-E338212 [cTOE-13-N20]">
      <seq>aattttggggataggccgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaattttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15724" stop="19540"/>
      </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="16024" g_stop="16373" 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="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19240" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="351" r_stop="408" r_length="58" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E338212" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>408</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E338212" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16024" e_stop="16373"/>
          <exon e_start="19183" e_stop="19240"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTT</genome_strand>
        <mrna_strand>AATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E203365" ref_strand="+" ref_description="SGN-E203365 [cLEB-3-P7]">
      <seq>gcacgagccgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaatttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttcttttgaccaatttgctaatgctgttcttgaaagtgcatgtgagcgtgctattgttggtgatctatattgtgatatcccattaggtctctatattatacgtggggaaaatgttgtgttaattggtgaactggacgtggataacgaggagcttccttcccatatgacacgtgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15738" stop="19881"/>
      </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="16032" g_stop="16373" g_length="342"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="341" r_length="341" r_score="0.982"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19251" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="342" r_stop="410" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79">
            <donor d_prob="0.813" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19331" g_stop="19446" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="411" r_stop="526" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="19447" i_stop="19539" i_length="93">
            <donor d_prob="0.970" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.95"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="19540" g_stop="19581" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="527" r_stop="568" r_length="42" r_score="0.952"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E203365" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>569</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E203365" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16032" e_stop="16373"/>
          <exon e_start="19183" e_stop="19251"/>
          <exon e_start="19331" e_stop="19446"/>
          <exon e_start="19540" e_stop="19581"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTGGTAGGTTTTCTCCTGTCATTACTTTCTATTTCATGGCCGTGGTTGACCACCTGACAAAAATTCCATCTGTTATTTGTAGCTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTGGTATGTCTTGATTTCTCTCTCAATACAAAAGTTCTGTGCTATCCCCATAATTGTATATCCTTGGGCTAATACAATGTTGTAATTATTTGTCAGGACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTT</genome_strand>
        <mrna_strand>GCACGAGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAA-TTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTG...............................................................................CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTG.............................................................................................GACGTGGATAACGAGGAGCTTCCTTCCCATATGACACGTGTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328930" ref_strand="+" ref_description="SGN-E328930 [cTOC-24-B8]">
      <seq>ataggccgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaattttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttcttttgaccaatttgctaatgctgttcttgaaagtgcatgtgagcgtgctattgttggtgatctatattgtgatatcccattaggtctctatattatacgtggggaaaatgttgtgttaattggtgaactggacgtggataaggaggagcttcctccccatatgacacgtgtttcagaagctgagataagaagggcacagaaagcagaaagggactctacagatcttaaaggttcaatgaggaagaagatggaatttcttgatatggattaaaggtttactgttgtttacgataattccatgtcttctgcaaatattatcgcangtgctgcgtggcgttcgttttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15734" stop="20786"/>
      </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="16034" g_stop="16373" g_length="340"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="340" r_length="340" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19251" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="341" r_stop="409" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79">
            <donor d_prob="0.813" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19331" g_stop="19446" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="410" r_stop="525" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="19447" i_stop="19539" i_length="93">
            <donor d_prob="0.970" 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="19540" g_stop="19602" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="526" r_stop="588" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="19603" i_stop="20334" i_length="732">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20335" g_stop="20486" g_length="152"/>
          <reference_exon_boundary r_type="cDNA" r_start="589" r_stop="740" r_length="152" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E328930" ref_strand="+">
        <total_alignment_score>0.995</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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E328930" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16034" e_stop="16373"/>
          <exon e_start="19183" e_stop="19251"/>
          <exon e_start="19331" e_stop="19446"/>
          <exon e_start="19540" e_stop="19602"/>
          <exon e_start="20335" e_stop="20486"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTGGTAGGTTTTCTCCTGTCATTACTTTCTATTTCATGGCCGTGGTTGACCACCTGACAAAAATTCCATCTGTTATTTGTAGCTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTGGTATGTCTTGATTTCTCTCTCAATACAAAAGTTCTGTGCTATCCCCATAATTGTATATCCTTGGGCTAATACAATGTTGTAATTATTTGTCAGGACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGGGTAAGATCCTGTTATTATTAGTCTCACTCTTTCAGATGCTTAATGAACTTGTTGCAAGTGCATGACTTGTGAAGTTTGGGGTGTAGGGCAACTTTTATTGGAAAGACTATAAATTGGTGAATGTATAGTCGGAAGGAAAAAAAGCTGTAGGTATTTTGCAAAGTTTTGGACATTTAGGGATGAAAAGTTAATTTTTGATAAATGGTGGTGGGGAGTGGAAAAGATATAGCTGAAGGTATGAAGTTGCAAAAAGGTTAAGCTTTACACGCCCCTTTAACAATGAGATTAACCCTTTGTCAAAAATATAAGGATAAGCTTGTACACGAAATACAGTGTGTAGCTAGCTTTTTTTCCTTTTAACACGGACAGAGAAATTATAAAGCTGAAGAAACAAACAGTAATCTTCGTTAATAAAATGTGTCTTGTGTATGACTTGGTATCTTTATGTGTGCATGTTTTCATATTCTTTCTAAAGAGATAACATTTCCATCTTTCTTGTTTAATAATCTAATCTTCAAGTACAAAATCATGATTTACTTGATGTTAACCGTTGGTTGATGGTTCACTGATTTATTTAGTCATAGATACGAGATGTTAGTATTTAGTGTAAGACTAGTACACATTATGGAGTTGAGGAGCCGGACCACTTTATATATGATGTGTATATATTTTTTATTGAGACTTTTAATTTGTTTCTAATTCATATAACGTATGCATCCATCCATCCATCAGGCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTC</genome_strand>
        <mrna_strand>ATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTG...............................................................................CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTG.............................................................................................GACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAAGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCANGTGCTGCGTGGCGTTCGTTTTC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E262413" ref_strand="+" ref_description="SGN-E262413 [cLEG-56-G18]">
      <seq>cgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaattttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttcttttgaccaatttgctaatgctgttcttgaaagtgcatgtgagcgtgctattgttggtgatctatattgtgatatcccattaggtctctatattatacgtggggaaaatgttgtgttaattggtgaactggacgtggataaggaggagcttcctccccatatgacacgtgtttcagaagctgagataagaagggcacagaaagcagaaagggactctacagatcttaaaggttcaatgaggaagaggatggaatttcttgatatggattaaaggtttactgttgtttacgataattccatgtcttctgcaaatattatcgcagttgctgcgtggcgttcgttttctcctgggatattctgtgttcatttgtaacatgtgtttcttttatgacgtttgagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15740" stop="20841"/>
      </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="16040" g_stop="16373" g_length="334"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="334" r_length="334" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19251" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="335" r_stop="403" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79">
            <donor d_prob="0.813" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19331" g_stop="19446" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="404" r_stop="519" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="19447" i_stop="19539" i_length="93">
            <donor d_prob="0.970" 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="19540" g_stop="19602" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="520" r_stop="582" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="19603" i_stop="20334" i_length="732">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20335" g_stop="20541" g_length="207"/>
          <reference_exon_boundary r_type="cDNA" r_start="583" r_stop="789" r_length="207" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E262413" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>789</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E262413" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16040" e_stop="16373"/>
          <exon e_start="19183" e_stop="19251"/>
          <exon e_start="19331" e_stop="19446"/>
          <exon e_start="19540" e_stop="19602"/>
          <exon e_start="20335" e_stop="20541"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTGGTAGGTTTTCTCCTGTCATTACTTTCTATTTCATGGCCGTGGTTGACCACCTGACAAAAATTCCATCTGTTATTTGTAGCTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTGGTATGTCTTGATTTCTCTCTCAATACAAAAGTTCTGTGCTATCCCCATAATTGTATATCCTTGGGCTAATACAATGTTGTAATTATTTGTCAGGACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGGGTAAGATCCTGTTATTATTAGTCTCACTCTTTCAGATGCTTAATGAACTTGTTGCAAGTGCATGACTTGTGAAGTTTGGGGTGTAGGGCAACTTTTATTGGAAAGACTATAAATTGGTGAATGTATAGTCGGAAGGAAAAAAAGCTGTAGGTATTTTGCAAAGTTTTGGACATTTAGGGATGAAAAGTTAATTTTTGATAAATGGTGGTGGGGAGTGGAAAAGATATAGCTGAAGGTATGAAGTTGCAAAAAGGTTAAGCTTTACACGCCCCTTTAACAATGAGATTAACCCTTTGTCAAAAATATAAGGATAAGCTTGTACACGAAATACAGTGTGTAGCTAGCTTTTTTTCCTTTTAACACGGACAGAGAAATTATAAAGCTGAAGAAACAAACAGTAATCTTCGTTAATAAAATGTGTCTTGTGTATGACTTGGTATCTTTATGTGTGCATGTTTTCATATTCTTTCTAAAGAGATAACATTTCCATCTTTCTTGTTTAATAATCTAATCTTCAAGTACAAAATCATGATTTACTTGATGTTAACCGTTGGTTGATGGTTCACTGATTTATTTAGTCATAGATACGAGATGTTAGTATTTAGTGTAAGACTAGTACACATTATGGAGTTGAGGAGCCGGACCACTTTATATATGATGTGTATATATTTTTTATTGAGACTTTTAATTTGTTTCTAATTCATATAACGTATGCATCCATCCATCCATCAGGCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGT</genome_strand>
        <mrna_strand>CGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTG...............................................................................CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTG.............................................................................................GACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E260832" ref_strand="+" ref_description="SGN-E260832 [cLEG-55-P6]">
      <seq>cgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaattttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttcttttgaccaatttgctaatgctgttcttgaaagtgcatgtgagcgtgctattgttggtgatctatattgtgatatcccattaggtctctatattatacgtggggaaaatgttgtgttaattggtgaactggacgtggataaggaggagcttcctccccatatgacacgtgtttcagaagctgagataagaagggcacagaaagcagaaagggactctacagatcttaaaggttcaatgaggaagaggatggaatttcttgatatggattaaaggtttactgttgtttacgataattccatgtcttctgcaaatattatcgcagttgctgcgtggcgttcgtttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15740" stop="20785"/>
      </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="16040" g_stop="16373" g_length="334"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="334" r_length="334" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19251" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="335" r_stop="403" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79">
            <donor d_prob="0.813" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19331" g_stop="19446" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="404" r_stop="519" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="19447" i_stop="19539" i_length="93">
            <donor d_prob="0.970" 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="19540" g_stop="19602" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="520" r_stop="582" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="19603" i_stop="20334" i_length="732">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20335" g_stop="20485" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="583" r_stop="733" r_length="151" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E260832" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>733</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E260832" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16040" e_stop="16373"/>
          <exon e_start="19183" e_stop="19251"/>
          <exon e_start="19331" e_stop="19446"/>
          <exon e_start="19540" e_stop="19602"/>
          <exon e_start="20335" e_stop="20485"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTGGTAGGTTTTCTCCTGTCATTACTTTCTATTTCATGGCCGTGGTTGACCACCTGACAAAAATTCCATCTGTTATTTGTAGCTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTGGTATGTCTTGATTTCTCTCTCAATACAAAAGTTCTGTGCTATCCCCATAATTGTATATCCTTGGGCTAATACAATGTTGTAATTATTTGTCAGGACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGGGTAAGATCCTGTTATTATTAGTCTCACTCTTTCAGATGCTTAATGAACTTGTTGCAAGTGCATGACTTGTGAAGTTTGGGGTGTAGGGCAACTTTTATTGGAAAGACTATAAATTGGTGAATGTATAGTCGGAAGGAAAAAAAGCTGTAGGTATTTTGCAAAGTTTTGGACATTTAGGGATGAAAAGTTAATTTTTGATAAATGGTGGTGGGGAGTGGAAAAGATATAGCTGAAGGTATGAAGTTGCAAAAAGGTTAAGCTTTACACGCCCCTTTAACAATGAGATTAACCCTTTGTCAAAAATATAAGGATAAGCTTGTACACGAAATACAGTGTGTAGCTAGCTTTTTTTCCTTTTAACACGGACAGAGAAATTATAAAGCTGAAGAAACAAACAGTAATCTTCGTTAATAAAATGTGTCTTGTGTATGACTTGGTATCTTTATGTGTGCATGTTTTCATATTCTTTCTAAAGAGATAACATTTCCATCTTTCTTGTTTAATAATCTAATCTTCAAGTACAAAATCATGATTTACTTGATGTTAACCGTTGGTTGATGGTTCACTGATTTATTTAGTCATAGATACGAGATGTTAGTATTTAGTGTAAGACTAGTACACATTATGGAGTTGAGGAGCCGGACCACTTTATATATGATGTGTATATATTTTTTATTGAGACTTTTAATTTGTTTCTAATTCATATAACGTATGCATCCATCCATCCATCAGGCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTT</genome_strand>
        <mrna_strand>CGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTG...............................................................................CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTG.............................................................................................GACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E257794" ref_strand="+" ref_description="SGN-E257794 [cLEG-39-E17]">
      <seq>cgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaattttttttttcaaacttcgctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttcttttgaccaatttgctaatgctgttcttgaaagtgcatgtgagcgtgctattgttggggatctatattgtgatatcccattaggtctctatattatacgtggggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15740" stop="19723"/>
      </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="16040" g_stop="16373" g_length="334"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="334" r_length="334" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19251" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="335" r_stop="403" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79">
            <donor d_prob="0.813" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19331" g_stop="19423" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="404" r_stop="496" r_length="93" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E257794" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>496</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E257794" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16040" e_stop="16373"/>
          <exon e_start="19183" e_stop="19251"/>
          <exon e_start="19331" e_stop="19423"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTGGTAGGTTTTCTCCTGTCATTACTTTCTATTTCATGGCCGTGGTTGACCACCTGACAAAAATTCCATCTGTTATTTGTAGCTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAA</genome_strand>
        <mrna_strand>CGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCGCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTG...............................................................................CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGGGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E375749" ref_strand="+" ref_description="SGN-E375749 [TUS-35-M17]">
      <seq>cgaatttagggttcctcccgatctgagcaaccaaaagtcaacaaattttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaangttcggtgatttttgggataccgnnaagcgtaaactgaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15740" stop="16603"/>
      </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="16040" g_stop="16303" g_length="264"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="264" r_length="264" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E375749" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>264</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E375749" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16040" e_stop="16303"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCG-AAAGCGTTAAACTGAA</genome_strand>
        <mrna_strand>CGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAANGTTCGGTGATTTTTGGGATACCGNNAAGCG-TAAACTGAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E267327" ref_strand="+" ref_description="SGN-E267327 [cLEI-17-M9]">
      <seq>gttcctcccgatctgagcaaccaagagtcaacaaattttttttttcaaacttctctcagatttaggggctttggagttttttctatttcttgatttagcgctagaattaggattttagtttatgtgttctcagtgaagcggcgaagcttttgttagggcactgtaaagcgggtaatcggatctgccaatgcaaattgaattgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaagttatctcgacaagaaacttcttgtgctgttgcgagatgggcgaaagcttttaggaatacttcgttcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15750" stop="19540"/>
      </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="16050" g_stop="16373" g_length="324"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="324" r_length="324" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.742" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19240" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="325" r_stop="382" r_length="58" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E267327" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>382</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E267327" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16050" e_stop="16373"/>
          <exon e_start="19183" e_stop="19240"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTT</genome_strand>
        <mrna_strand>GTTCCTCCCGATCTGAGCAACCAAGAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTCTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E257712" ref_strand="+" ref_description="SGN-E257712 [cLEG-39-D15]">
      <seq>ttgaaatctcaagaagtttcggtgatttttgggataccgaaagcgttaaactgaaagcaaatcaatgtcttgggcaagtccagaagatatctatacctccacttctcttgcaaagatgtttctagatgcatcttcgagtgcttctgctatatgggctaaagctctcatgaatacttcgtatttttgaccaatttgctaatgctgttcttgaaagtgcatgtgagcgtgctattgttggtgatctatattgtgatatcccattaggtctctatattatacgtggggaaaatgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15949" stop="19728"/>
      </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="16249" g_stop="16373" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="126" r_length="126" r_score="0.944"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809">
            <donor d_prob="0.997" d_score="0.86"/>
            <acceptor a_prob="0.742" a_score="0.74"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19183" g_stop="19251" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="127" r_stop="195" r_length="69" r_score="0.783"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79">
            <donor d_prob="0.813" d_score="0.84"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="19331" g_stop="19428" g_length="98"/>
          <reference_exon_boundary r_type="cDNA" r_start="196" r_stop="293" r_length="98" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E257712" ref_strand="+">
        <total_alignment_score>0.925</total_alignment_score>
        <cumulative_length_of_scored_exons>292</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E257712" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16249" e_stop="16373"/>
          <exon e_start="19183" e_stop="19251"/>
          <exon e_start="19331" e_stop="19428"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGC-AAGTTATCTCGACAGTGAGTTTTTCTTCATTTCTTTATACATTATATGTTAAAGAAAGCTTTATATGTTAAGTGCTATTAAAGTTCTCTAGTAGTTTTGGTGTTCAAAATCTAGTCTTGCTATACTTCCGAGGTTCTTTTGGGCTGAATGGTATTGGATTGTTTCTTCTTATTTATTTTAATTGAACACATATGGTTGTCTGTTTGTATCTAGTAATCTTGCGTTGATTCCTGAATTCTGATCATAGTACATTAGTTTAACATTGAGATGTAAATGTTTTTTCATGTATGGGGAGAGAGAATACCTAGAAGATGTTGGTTGCATTATGAGAAAAAGTTGAAAGTGCACATCTTTTTTGGGTTCAAAAGATAAATTTCAGCTTCAATTTGTTGTCTCTTTTTGACTTGATATGAAGTTTGGAGAAGTAAAAAGATTTTTTTTTGAATGTTGTAATCTTTAACTAAAGATACGTGGAATGTACCATAATGTCCTATCGTGTAGTATTAAACATGGCACGTGGAAAAATAGAATAAGGAGTCGCCAAAAAAGAAAAGAGAAATTCTTTTTGAAAATTAAGACAAATAAATTGAACCAATGAAGTATATCTTATTTATAACACTGGTAGATTTTCTCAAAAGTTGTTAATACAAAAGGAGGAAAAATCAACTATTTTAAGCCTTTACAAGTCTAAATCTTAACCTTGTTATCCTTCTGGGTGGCCTAGTAGTTTGGGCTTGGAACTTCCATGTTGGAGGTCTCAAGTTCGAAACCCTTTATAAGCGAAAGCAAGAGGTTTACCTGCTGGGTTGAGCTTGACACACCTAGTGCGGGCTACCTCTCCTATGTGGTTTGCGAGCTATTGCATAGGAGCTGGGGTTTGACCCTTTGCGCTACGCTGCTGTAGGTTTCTCTTGTCATAAAAAAAATAAATCTGAACCTTTTTTTGCTAAGCCAACTGCAACCATGTTGCGTTCCCTGTAGACGTGCTTTATGGGAGATGTCCGATGTATACTCCATAATGACTAAAGTGCTGATTTTTCACTGAATTCATATATTGCGCGGGAAGAGGAGTGCTTCCTTCTTTTAAGGCGGAATAGATCTTTTCTACTGCTGCAGGGGTCAAAGAGCCACAATAATTGTTTGTGTTTCCTTCTAGTGACAACTCAAAATGAAAGCCTTAATGATAAAAGAAAGTTGCTGCCAAGCCCAAGTCACTTGTATATTTGAGTGCCTGAGTACCACTTTTTTTTTCCTGAGAATTAAAGGCGCATTCAAGCACTCAATTATACAAAGGCTTGCGCTTGAAACCCTACCTTATTCAGCAAAATCAACTTTCTTAGTAAGTCTTGTTGTTATCTTGACATTTGTGCAAATTGTAGAAAATACATGGTTCACAATTTGTTTTTTTGCACCCTAGGGTGTGATTAGGTCAATGAAGTATGTGCAGACTTTGGAGGCCAAAGTTCAATATCCAATAGAAACAATAAATATTAGGTGATTTTTACCCTTCTAGTTAAGTCTCTGCGAGCAACTGAGCATAGTTATCCAATGGTTTACTGGTGGGAGGTAGTAGAAAGTACCTAGTTGAGTAGCTGAGGTGAGAGCAAGCTGGCGTGGAATCTACCGGTATAAAAAAATGAGTTTCACCCTTTCTTCGGATGCTCCTGTGTTCTTGTCTTGGCTGCTTGAATGATAGAAACCACGATTATTATGGGTATATATGGTCACTATTTCCTTCTAGAGGAAGCTATGATACTACTTATTCAACCAAAGAGGCATGTTCCTGTAAACTGAAGAATTAGTATTTCCGTCTCTTGAGCAATTAGTTAATGCGTTACAATGGTGCTTGATTAATTTTTTTATATATATATATGTATAGGAATTGTAGCGAGTGTTATAAAGGTTGGCACCCACAATAGCATACTGACTGCTGATCAGTTGGTCAACTGACAGGCTGCCACACCCAACACTGGTTTGAATACCCTGAAATACAATTTGTGTTCTTCTTCTTTTTTCTTCCCTTTTTGCCTTTTCCTTTACTTCTCTTCTTTCTTTCTTTATTTGTTTGCTTTTTAGTTTTTATTTTCGTATTTAAACTCTTCATCCTTTGCCACCCATCTATTAGTTTATTTATCTTAATTATTTCTTCTTCTTTTTTTCTTCAAAATGTCCAAATATTAAGTGGATGTGATTTTATTCTTTTTCCCCTTTTATCCTTTCAAAGTACATTTTGTCTATTTTTATTCTTCGTTTCTCTTTACCAATTTTTTTTATTATTCGTTTCTTAATCTTTTAAACGAAAGCAATAGAGTCAAGGGTCGTTTTGTGCTAGTTTATTAGCTTCTTTTTGTTGGTTATCATGATTTATCATTTAAGTATCTTATGATTAAGGAGGGGTGCGATGGCGTATTCAAAATTTTTTAGTTTTCTTGTACCTCATTTTGCAGCAGAATTTGGTTGAATCATATAAAATTCATTTTGATTAGATAATCATATACTTATTTGTGTACCAAAATATTTGTGAATCAACCCATATTAGCTCAAAATGGACTGAATTGGATGAGTGTATGCCCAAAGTTAATGTCCATCACTAAGTTTACATTAAATGCAGTGGCATCCTCAACCTTAAATCCTAGATTTGCCTCTGATAGGAGCTAATGCTATAATACGTGGGGTGCCTGGTACTAAAAGAAATAATTGGGGCACTACTTTTTCTTATATATAAGTCCATGTGCTATTAGATTGATAGCAATAACTTAACCTGTTTATTGATTTACTGGATCTATTTCTTGCTTTTCTGACTCGACTTATTGTCCCTCTCAGAGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTGGTAGGTTTTCTCCTGTCATTACTTTCTATTTCATGGCCGTGGTTGACCACCTGACAAAAATTCCATCTGTTATTTGTAGCTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTT</genome_strand>
        <mrna_strand>TTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAAGATGTTTCTAGA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCATCTTCGAGTGCTTCTGCTATATGGGCTAAAGCTCTCATGAATACTTCGTATTTTTGACCAATTTG...............................................................................CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E337497" ref_strand="+" ref_description="SGN-E337497 [cTOE-11-B20]">
      <seq>ttggtgatctatattgtgatatcccattaggtctctatattatacgtggggaaaatgttgtgttaattggtgaactggacgtggataaggaggagcttcctccccatatgacacgtgtttcagaagctgagataagaagggcacagaaagcagaaagggactctacagatcttaaaggttcaatgaggaagaggatggaatttcttgatatggattaaaggtttactgttgtttacgataattccatgtcttctgcaaatattatcgcagttgctgcgtggcgttcgttttctcctgggatattctgtgttcatttgtaacatgtgtttcttttatgacgtttgagtaaaggttactggtgttaagacatggtgaatggggaaacaagtgtttgagttgttccatttcccgtcttttatgctagtctggaggaattgtagttttaagttagactctgtatatgctgtgaaatgggagtttccggtatttgcttttnnnaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="19070" stop="20989"/>
      </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="19370" g_stop="19446" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="77" r_length="77" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="19447" i_stop="19539" i_length="93">
            <donor d_prob="0.970" 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="19540" g_stop="19602" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="78" r_stop="140" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="19603" i_stop="20334" i_length="732">
            <donor d_prob="0.999" 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="20335" g_stop="20695" g_length="361"/>
          <reference_exon_boundary r_type="cDNA" r_start="141" r_stop="501" r_length="361" r_score="0.986"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="20696" i_stop="20872" i_length="177">
            <donor d_prob="0.900" d_score="0.90"/>
            <acceptor a_prob="0.052" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="20873" g_stop="20877" g_length="5"/>
          <reference_exon_boundary r_type="cDNA" r_start="502" r_stop="506" r_length="5" r_score="0.800"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E337497" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>506</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E337497" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="19370" e_stop="19446"/>
          <exon e_start="19540" e_stop="19602"/>
          <exon e_start="20335" e_stop="20695"/>
          <exon e_start="20873" e_stop="20877"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTGGTATGTCTTGATTTCTCTCTCAATACAAAAGTTCTGTGCTATCCCCATAATTGTATATCCTTGGGCTAATACAATGTTGTAATTATTTGTCAGGACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGGGTAAGATCCTGTTATTATTAGTCTCACTCTTTCAGATGCTTAATGAACTTGTTGCAAGTGCATGACTTGTGAAGTTTGGGGTGTAGGGCAACTTTTATTGGAAAGACTATAAATTGGTGAATGTATAGTCGGAAGGAAAAAAAGCTGTAGGTATTTTGCAAAGTTTTGGACATTTAGGGATGAAAAGTTAATTTTTGATAAATGGTGGTGGGGAGTGGAAAAGATATAGCTGAAGGTATGAAGTTGCAAAAAGGTTAAGCTTTACACGCCCCTTTAACAATGAGATTAACCCTTTGTCAAAAATATAAGGATAAGCTTGTACACGAAATACAGTGTGTAGCTAGCTTTTTTTCCTTTTAACACGGACAGAGAAATTATAAAGCTGAAGAAACAAACAGTAATCTTCGTTAATAAAATGTGTCTTGTGTATGACTTGGTATCTTTATGTGTGCATGTTTTCATATTCTTTCTAAAGAGATAACATTTCCATCTTTCTTGTTTAATAATCTAATCTTCAAGTACAAAATCATGATTTACTTGATGTTAACCGTTGGTTGATGGTTCACTGATTTATTTAGTCATAGATACGAGATGTTAGTATTTAGTGTAAGACTAGTACACATTATGGAGTTGAGGAGCCGGACCACTTTATATATGATGTGTATATATTTTTTATTGAGACTTTTAATTTGTTTCTAATTCATATAACGTATGCATCCATCCATCCATCAGGCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGTAAAGGTTACTGGTGTTAAGACATGGTGAATGGGGAAACAAGTGTTTGAGTTGTTCCATTTCCCGTCTTTTATGCTAGTCTGGAGGAATTGTAGTTTTAAGTTAGACTCTGTATATGCTGTGAAATGGGAGTTTCCGGTATTTGCTTTTTTTCCAATGTCCTTTTCTTATTCAACATTAATCAAGCGCGTTGCTCAGTTTATTTTTAGGTATGTTTATGGTTTTTACTGATTGAAAATAATTGGAATGGAAAAAAAAGGTGCATGTTTGGCCCCGTCTTAATTCAACAAAATAGAGTTGTCAAGATGAAAAAGTAGTGTTTGACAACATCAGAAGAA</genome_strand>
        <mrna_strand>TTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTG.............................................................................................GACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGTAAAGGTTACTGGTGTTAAGACATGGTGAATGGGGAAACAAGTGTTTGAGTTGTTCCATTTCCCGTCTTTTATGCTAGTCTGGAGGAATTGTAGTTTTAAGTTAGACTCTGTATATGCTGTGAAATGGGAGTTTCCGGTATTTGCTTTTNNNAAA.................................................................................................................................................................................AAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E203366" ref_strand="+" ref_description="SGN-E203366 [cLEB-3-P7](-)">
      <seq>tcctccccatatgacacgtgtttcagaagctgagataagaagggcacagaaagcagaaagggactctacagatcttaaaggttcaatgaggaagaggatggaatttcttgatatggattaaaggtttactgttgtttacgataattccatgtcttctgcaaatattatcgcagttgctgcgtggcgttcgttttctcctgggatattctgtgttcatttgtaacatgtgtttcttttatgacgtttgagtaaaggttactggtgttaagacatggtgaatggggaaacaagtgtttgagttgttccatttcccgtcttttatgctagtctggaggaattgtagttttaagttagactctgtatatgctgtgaaatgggagtttccggtatttgctttttttccaatgtccttttcttattcaacattaatcaagcgcgttgctcagtttatttttaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="19260" stop="75799"/>
      </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="19560" g_stop="19602" g_length="43"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="43" r_length="43" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="19603" i_stop="20334" i_length="732">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="20335" g_stop="20748" g_length="414"/>
          <reference_exon_boundary r_type="cDNA" r_start="44" r_stop="457" r_length="414" r_score="0.998"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="20749" i_stop="20969" i_length="221">
            <donor d_prob="0.641" d_score="0.98"/>
            <acceptor a_prob="0.962" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="20970" g_stop="21007" g_length="38"/>
          <reference_exon_boundary r_type="cDNA" r_start="458" r_stop="495" r_length="38" r_score="0.447"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E203366" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>495</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E203366" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="19560" e_stop="19602"/>
          <exon e_start="20335" e_stop="20748"/>
          <exon e_start="20970" e_stop="21007"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGGGTAAGATCCTGTTATTATTAGTCTCACTCTTTCAGATGCTTAATGAACTTGTTGCAAGTGCATGACTTGTGAAGTTTGGGGTGTAGGGCAACTTTTATTGGAAAGACTATAAATTGGTGAATGTATAGTCGGAAGGAAAAAAAGCTGTAGGTATTTTGCAAAGTTTTGGACATTTAGGGATGAAAAGTTAATTTTTGATAAATGGTGGTGGGGAGTGGAAAAGATATAGCTGAAGGTATGAAGTTGCAAAAAGGTTAAGCTTTACACGCCCCTTTAACAATGAGATTAACCCTTTGTCAAAAATATAAGGATAAGCTTGTACACGAAATACAGTGTGTAGCTAGCTTTTTTTCCTTTTAACACGGACAGAGAAATTATAAAGCTGAAGAAACAAACAGTAATCTTCGTTAATAAAATGTGTCTTGTGTATGACTTGGTATCTTTATGTGTGCATGTTTTCATATTCTTTCTAAAGAGATAACATTTCCATCTTTCTTGTTTAATAATCTAATCTTCAAGTACAAAATCATGATTTACTTGATGTTAACCGTTGGTTGATGGTTCACTGATTTATTTAGTCATAGATACGAGATGTTAGTATTTAGTGTAAGACTAGTACACATTATGGAGTTGAGGAGCCGGACCACTTTATATATGATGTGTATATATTTTTTATTGAGACTTTTAATTTGTTTCTAATTCATATAACGTATGCATCCATCCATCCATCAGGCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGTAAAGGTTACTGGTGTTAAGACATGGTGAATGGGGAAACAAGTGTTTGAGTTGTTCCATTTCCCGTCTTTTATGCTAGTCTGGAGGAATTGTAGTTTTAAGTTAGACTCTGTATATGCTGTGAAATGGGAGTTTCCGGTATTTGCTTTTTTTCCAATGTCCTTTTCTTATTCAACATTAATCAAGCGCGTTGCTCAGTTTATTTTTAGGTATGTTTATGGTTTTTACTGATTGAAAATAATTGGAATGGAAAAAAAAGGTGCATGTTTGGCCCCGTCTTAATTCAACAAAATAGAGTTGTCAAGATGAAAAAGTAGTGTTTGACAACATCAGAAGAAAGTGGAGCTGTAGTAGTACACTAGGGGATGTGTGCAAGAAATACTACTTCTTCTGAGTATATATAATATAAATCTGGCATACTTATTGCCAGCAAGTGCAAACTGAAGAAAAAGCACTGCACCGACAACG</genome_strand>
        <mrna_strand>TCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGTAAAGGTTACTGGTGTTAAGACATGGTGAATGGGGAAACAAGTGTTTGAGTTGTTCCATTTCCCGTCTTTTATGCTAGTCTGGAGGAATTGTAGTTTTAAGTTAGACTCTGTATATGCTGTGAAATGGGAGTTTCCGGTATTTGCTTTTTTTCCAATGTCCTTTTCTTATTCAACATTAATCAAGCGCGTTGCTCAGTTTATTTTTAA.............................................................................................................................................................................................................................AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E698941" ref_strand="+" ref_description="SGN-E698941 [FA08AC09]">
      <seq>agtaaacgagtatttactagtgaaacgtagtccccagtgggtccaatctcctctctccatcactccggtattgctgctacttgagcaacagcagatctgctactctttcactcgctgagctgatctctgaattcggcaaatgctgtggttcaagtcaattggagcttcaggattactatttctactctggttatggctgttccagacgactgaagcttcagtgcatgattacaatgtggagaaattcgtgagcaacggcaatgcatttgtggttcacggaggtagcgaaggaatttactcctctgttcctaacctcactgaatctccttcctattcttctaacaccgactccttcattcggtttgaaaagattatatttcggaggccaaaggaattctcaaatttcagctcagacccagttcatgcaattgtttttgaggtggatgatcgagagttaattgggggctctgcttatggtggccaaagagctatttgttgcacaccggatccttgcaaaacttggagcttgtacacaacggcaaataattcaccgcccatctgctaataatcccggatggcctaaagttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="21205" stop="23380"/>
      </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="21505" g_stop="21864" g_length="360"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="360" r_length="360" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21865" i_stop="22851" i_length="987">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.940" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22852" g_stop="23080" g_length="229"/>
          <reference_exon_boundary r_type="cDNA" r_start="361" r_stop="590" r_length="230" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E698941" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>589</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E698941" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21505" e_stop="21864"/>
          <exon e_start="22852" e_stop="23080"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTAAACGAGTATTTACTAGTGAAACGTAGTCGCCAGTGGGTCCAATCTCCTCTCTCCATCACTCCGGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCACTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCGGTAATTTTACTCTCTCTCCAGTCAATTTTTTGGTACGATTTAAGATGAAATATTTCGAGATCTGCTCTGAGAATTGTTAATTATTGATGACGGTACTTGTTCAGGTTGAATATTTGTTCAATTATAATTTTGTGAGTAGTTTTTGAAAATTTATCTTCAGTTATCTTGTTTAACCATGAAATTTTATCATATATTGGAAATCAGAAGGTCAAATATTTTCAAGTTCACGAAAAAAAGGGGCTCAGTGCAGTTTTTGGGACGTACACTCACTATTCTTCAATTTTTTCCAAGTAAAAATGCATGTTCTCGCACAACTAAAAGTTCCAAATATCTAAAATTTCACAAAATTCAAATTTTCAAGTTTTGGCTTCAAAATCTGCCAAAGGGAGCCTAGTTAGTAGGATTCTCTAAGTTGAATGTGATCCATCAGCGAATGCCTTAATGTACTGCTACGATTGAAGCTAAATTTTCTTTTTTAGTTCGGCTGCTAAAAACATAACTAACTCAACCATCAAGTTACCTAGTTAGTAAAGTTCTCCAAGTCTTATGTGATCTATTACCAAAAGCCAAAAAGTTTTAGCACTACTATTAAAGCTGTCTTCCTTCAATTTCTGCTGCTAGCAACCATAGTTCAACCATTAAGGTCAAATATTTTTGTTAATGAGAAGCTTATGTATGAAATCATAGTTGGGTGAAAGAAGATAAAACTGAATTTTGCTTTCTCACAGTATTAAGTAGTTTTTACTTAGTTTGGGCTGAATAGAGTCAGATGGATTAAGAGGATTCATACAGATGATCCAACTGCGTTGTATTTCGATTAACTTTCGTGTTTTTTAATTTAAAAGTCATGCTCCATGGAATTTAATGGGCTCATTCTTATGCATTTTCTAATTCATTTCAGACTCTGGAAATCAGTGTTGTCATTCATGTGTTTTCCCAGTTTTATGCGTAAGAGTCTATAAATTTCTGACGTCACATTTTCAACAGGTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGAT-CTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTT</genome_strand>
        <mrna_strand>AGTAAACGAGTATTTACTAGTGAAACGTAGTCCCCAGTGGGTCCAATCTCCTCTCTCCATCACTCCGGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCACTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAACGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAATTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACACCGGATCCTTGCAAAACTTGGAGCTTGTACACAACGGCAAATAATTCACCGCCCATCTGCTAATAATCCCGGATGGCCTAAAGTTTTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E335030" ref_strand="+" ref_description="SGN-E335030 [cTOE-9-E16]">
      <seq>tccggtattgctgctacttgagcaaccgcagatctgctactctttcacctcgctgagctgatctctgaattcggcaaatgctgtggttcaagtcaattggagcttcaggattactatttctacctctggttatggctgttccagacgactgaagcttcagtgcatgattacaatgtggagaaattcgtgagcaagggcaatgcatttgtggttcacggaggtagcgaaggaatttactcctctgttcctaacctcactgaatctccttcctattcttctaacaccgactccttcattcggtttgaaaagattatatttcggaggccaaaggaattctcaaacttcagctcagacccagttcatgcaattgtttttgaggtggatgatcgagagttaattgggggctctgcttatggtggccaaagagctatttgttgcacagtggatcttgcaaaacttggagtttgtacacaagggcaaataattcaccgcccatctgctagtaatcccggatggtctaaagtttttagtgcctcattcagcattgatgaagttgatgtagcactgcatgtcgagatcaatccccattacaaaaactgggatgtataaacgtgtattttatccactgtgagccaaatcttaaggaactaactgttgaagggaaaaccatatggaagaatcctactggttacctacctggtagaatggctcccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="21268" stop="23565"/>
      </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="21568" g_stop="21864" g_length="297"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="299" r_length="299" r_score="0.983"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21865" i_stop="22851" i_length="987">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.940" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22852" g_stop="23265" g_length="414"/>
          <reference_exon_boundary r_type="cDNA" r_start="300" r_stop="715" r_length="416" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E335030" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>711</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E335030" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21568" e_stop="21864"/>
          <exon e_start="22852" e_stop="23265"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCGGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCA-CTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTA-CTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCGGTAATTTTACTCTCTCTCCAGTCAATTTTTTGGTACGATTTAAGATGAAATATTTCGAGATCTGCTCTGAGAATTGTTAATTATTGATGACGGTACTTGTTCAGGTTGAATATTTGTTCAATTATAATTTTGTGAGTAGTTTTTGAAAATTTATCTTCAGTTATCTTGTTTAACCATGAAATTTTATCATATATTGGAAATCAGAAGGTCAAATATTTTCAAGTTCACGAAAAAAAGGGGCTCAGTGCAGTTTTTGGGACGTACACTCACTATTCTTCAATTTTTTCCAAGTAAAAATGCATGTTCTCGCACAACTAAAAGTTCCAAATATCTAAAATTTCACAAAATTCAAATTTTCAAGTTTTGGCTTCAAAATCTGCCAAAGGGAGCCTAGTTAGTAGGATTCTCTAAGTTGAATGTGATCCATCAGCGAATGCCTTAATGTACTGCTACGATTGAAGCTAAATTTTCTTTTTTAGTTCGGCTGCTAAAAACATAACTAACTCAACCATCAAGTTACCTAGTTAGTAAAGTTCTCCAAGTCTTATGTGATCTATTACCAAAAGCCAAAAAGTTTTAGCACTACTATTAAAGCTGTCTTCCTTCAATTTCTGCTGCTAGCAACCATAGTTCAACCATTAAGGTCAAATATTTTTGTTAATGAGAAGCTTATGTATGAAATCATAGTTGGGTGAAAGAAGATAAAACTGAATTTTGCTTTCTCACAGTATTAAGTAGTTTTTACTTAGTTTGGGCTGAATAGAGTCAGATGGATTAAGAGGATTCATACAGATGATCCAACTGCGTTGTATTTCGATTAACTTTCGTGTTTTTTAATTTAAAAGTCATGCTCCATGGAATTTAATGGGCTCATTCTTATGCATTTTCTAATTCATTTCAGACTCTGGAAATCAGTGTTGTCATTCATGTGTTTTCCCAGTTTTATGCGTAAGAGTCTATAAATTTCTGACGTCACATTTTCAACAGGTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCA-GTCGAGATCAATCCCCATTACAAAAACTGGGATGTAT-AACGTGTATTTTATTCACTGTGAGCCAAATCTTAAGGAAATAACTGTTGAAGGGAAAACCATATGGAAGAATCCTACTGGTTACCTACCTGGTAGAATGGCTCCCCT</genome_strand>
        <mrna_strand>TCCGGTATTGCTGCTACTTGAGCAACCGCAGATCTGCTACTCTTTCACCTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACCTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGTCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCATGTCGAGATCAATCCCCATTACAAAAACTGGGATGTATAAACGTGTATTTTATCCACTGTGAGCCAAATCTTAAGGAACTAACTGTTGAAGGGAAAACCATATGGAAGAATCCTACTGGTTACCTACCTGGTAGAATGGCTCCCCT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E746771" ref_strand="+" ref_description="SGN-E746771 [GI|47104511]">
      <seq>cggtattgctgctacttgagcaacagcagatctgctactctttcactcgctgagctgatctctgaattcggcaaatgctgtggttcaagtcaattggagcttcaggattactatttctactctggttatggctgttccagacgactgaagcttcagtgcatgattacaatgtggagaaattcgtgagcaagggcaatgcatttgtggttcacggaggtagcgaaggaatttactcctctgttcctaacctcactgaatctccttcctattcttctaacaccgactccttcattcggtttgaaaagattatatttcggaggccaaaggaattctcaaacttcagctcagacccagttcatgcaattgtttttgaggtggatgatcgagagttaattgggggctctgcttatggtggccaaagagctatttgttgcacagtggatcttgcaaaacttggagtttgtacacaagggcaaataattcaccgcccatctgctagtaatcccggatggcctaaagtttttagtgcctcattcagcattgatgaagttgatgtagcactgcagtcgagatcaatccccattacaaaaactgggatgtataacgtgtattttattcactgtgagccaaatcttaaggaaataactgttgaagggaaaaccatatggaagaatcctactggttacctacctggtagaatggctccccttatgaacttctatgggtacatgtctcttgcattcgtgttactagggatcttttggttttcgcagtatgcaagattctggagagaagttattcctttacaaaattgtattacactcgttataacattgggcatgcttgaaatggccttttggtactttgactatgctgaattcaatgaaactggagtcaggcccactggtaccactgtatgggctgtgacatttggtacagtaaagcgcacagttgcacgtttggtcattctgatagtctctatgggctatggtgttgttagacctactctgggtggtctcacatcaaaggtccttttgcttggaggaacattctttttggcttctgaagtgcttgaactggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttctggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaactccatgagatatgcctactctgatgatggtgaagagttcgataaggacgctacatttacgctcataaagccgtcccctctgctgccaaaggatgtaagaagccaacctgaagtgaggccaacattgggtaacagcgaactatctaatggtgaagttgtagaagacaagaccgagtaaagcaagacacacaacttttttacagtacgttaaagaaaggtacccgtcagactgagtaaattgtttttagaatcatgttatctatgttgtctgtataaaaaaagtacgaatgttaatcaggagaagtcttttaggtaaaacaaacttgtaattgttgttttttttagaagtaatgttcattaatctaatgtgatctctcttgcaataattcttatagttaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="21270" stop="26003"/>
      </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="21570" g_stop="21864" g_length="295"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="295" r_length="295" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21865" i_stop="22851" i_length="987">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.940" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22852" g_stop="23770" g_length="919"/>
          <reference_exon_boundary r_type="cDNA" r_start="296" r_stop="1214" r_length="919" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24152" g_stop="24247" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="1215" r_stop="1310" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.252" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="1311" r_stop="1447" r_length="137" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="25312" g_stop="25705" g_length="394"/>
          <reference_exon_boundary r_type="cDNA" r_start="1448" r_stop="1841" r_length="394" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E746771" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>1841</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E746771" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21570" e_stop="21864"/>
          <exon e_start="22852" e_stop="23770"/>
          <exon e_start="24152" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25312" e_stop="25705"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCACTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCGGTAATTTTACTCTCTCTCCAGTCAATTTTTTGGTACGATTTAAGATGAAATATTTCGAGATCTGCTCTGAGAATTGTTAATTATTGATGACGGTACTTGTTCAGGTTGAATATTTGTTCAATTATAATTTTGTGAGTAGTTTTTGAAAATTTATCTTCAGTTATCTTGTTTAACCATGAAATTTTATCATATATTGGAAATCAGAAGGTCAAATATTTTCAAGTTCACGAAAAAAAGGGGCTCAGTGCAGTTTTTGGGACGTACACTCACTATTCTTCAATTTTTTCCAAGTAAAAATGCATGTTCTCGCACAACTAAAAGTTCCAAATATCTAAAATTTCACAAAATTCAAATTTTCAAGTTTTGGCTTCAAAATCTGCCAAAGGGAGCCTAGTTAGTAGGATTCTCTAAGTTGAATGTGATCCATCAGCGAATGCCTTAATGTACTGCTACGATTGAAGCTAAATTTTCTTTTTTAGTTCGGCTGCTAAAAACATAACTAACTCAACCATCAAGTTACCTAGTTAGTAAAGTTCTCCAAGTCTTATGTGATCTATTACCAAAAGCCAAAAAGTTTTAGCACTACTATTAAAGCTGTCTTCCTTCAATTTCTGCTGCTAGCAACCATAGTTCAACCATTAAGGTCAAATATTTTTGTTAATGAGAAGCTTATGTATGAAATCATAGTTGGGTGAAAGAAGATAAAACTGAATTTTGCTTTCTCACAGTATTAAGTAGTTTTTACTTAGTTTGGGCTGAATAGAGTCAGATGGATTAAGAGGATTCATACAGATGATCCAACTGCGTTGTATTTCGATTAACTTTCGTGTTTTTTAATTTAAAAGTCATGCTCCATGGAATTTAATGGGCTCATTCTTATGCATTTTCTAATTCATTTCAGACTCTGGAAATCAGTGTTGTCATTCATGTGTTTTCCCAGTTTTATGCGTAAGAGTCTATAAATTTCTGACGTCACATTTTCAACAGGTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCAGTCGAGATCAATCCCCATTACAAAAACTGGGATGTATAACGTGTATTTTATTCACTGTGAGCCAAATCTTAAGGAAATAACTGTTGAAGGGAAAACCATATGGAAGAATCCTACTGGTTACCTACCTGGTAGAATGGCTCCCCTTATGAACTTCTATGGGTACATGTCTCTTGCATTCGTGTTACTAGGGATCTTTTGGTTTTCGCAGTATGCAAGATTCTGGAGAGAAGTTATTCCTTTACAAAATTGTATTACACTCGTTATAACATTGGGCATGCTTGAAATGGCCTTTTGGTACTTTGACTATGCTGAATTCAATGAAACTGGAGTCAGGCCCACTGGTACCACTGTATGGGCTGTGACATTTGGTACAGTAAAGCGCACAGTTGCACGTTTGGTCATTCTGATAGTCTCTATGGGCTATGGTGTTGTTAGACCTACTCTGGGTGGTCTCACATCAAAGGTCCTTTTGCTTGGAGGAACATTCTTTTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTAATGTGATCTCTCTTGCAATAATTCTTATAGTTAAAAGG</genome_strand>
        <mrna_strand>CGGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCACTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCAGTCGAGATCAATCCCCATTACAAAAACTGGGATGTATAACGTGTATTTTATTCACTGTGAGCCAAATCTTAAGGAAATAACTGTTGAAGGGAAAACCATATGGAAGAATCCTACTGGTTACCTACCTGGTAGAATGGCTCCCCTTATGAACTTCTATGGGTACATGTCTCTTGCATTCGTGTTACTAGGGATCTTTTGGTTTTCGCAGTATGCAAGATTCTGGAGAGAAGTTATTCCTTTACAAAATTGTATTACACTCGTTATAACATTGGGCATGCTTGAAATGGCCTTTTGGTACTTTGACTATGCTGAATTCAATGAAACTGGAGTCAGGCCCACTGGTACCACTGTATGGGCTGTGACATTTGGTACAGTAAAGCGCACAGTTGCACGTTTGGTCATTCTGATAGTCTCTATGGGCTATGGTGTTGTTAGACCTACTCTGGGTGGTCTCACATCAAAGGTCCTTTTGCTTGGAGGAACATTCTTTTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG..............................................................................................................................................................................................................................................................................................................ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTAATGTGATCTCTCTTGCAATAATTCTTATAGTTAAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E270373" ref_strand="+" ref_description="SGN-E270373 [cLEM-1-F1]">
      <seq>ggtattgctgctacttgagcaacagcagatctgctactctttcactcgctgagctgatctctgaattcggcaaatgctgtggttcaagtcaattggagcttcaggattactatttctactctggttatggctgttccagacgactgaagcttcagtgcatgattacaatgtggagaaattcgtgagcaagggcaatgcatttgtggttcacggaggtagcgaaggaatttactcctctgttcctaacctcactgaatctccttcctattcttctaacaccgactccttcattcggtttgaaaagattatatttcggaggccaaaggaattctcaaacttcagctcagacccagttcatgcaattgtttttgaggtggatgatcgagagttaattgggggctctgcttatggtggccaaagagctatttgttgcacagtggatcttgcaaaacttggagtttgtacacaagggcaaataattcaccgcccatctgctagtaatcccggatggcctaaagtttttagtgcctcattcagcattgatgaagttgatgtagcactgcagtcgagatcaatccccattacaaaaactgggatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="21271" stop="23455"/>
      </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="21571" g_stop="21864" 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="21865" i_stop="22851" i_length="987">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.940" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22852" g_stop="23155" g_length="304"/>
          <reference_exon_boundary r_type="cDNA" r_start="295" r_stop="598" r_length="304" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E270373" ref_strand="+">
        <total_alignment_score>1.000</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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E270373" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21571" e_stop="21864"/>
          <exon e_start="22852" e_stop="23155"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCACTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCGGTAATTTTACTCTCTCTCCAGTCAATTTTTTGGTACGATTTAAGATGAAATATTTCGAGATCTGCTCTGAGAATTGTTAATTATTGATGACGGTACTTGTTCAGGTTGAATATTTGTTCAATTATAATTTTGTGAGTAGTTTTTGAAAATTTATCTTCAGTTATCTTGTTTAACCATGAAATTTTATCATATATTGGAAATCAGAAGGTCAAATATTTTCAAGTTCACGAAAAAAAGGGGCTCAGTGCAGTTTTTGGGACGTACACTCACTATTCTTCAATTTTTTCCAAGTAAAAATGCATGTTCTCGCACAACTAAAAGTTCCAAATATCTAAAATTTCACAAAATTCAAATTTTCAAGTTTTGGCTTCAAAATCTGCCAAAGGGAGCCTAGTTAGTAGGATTCTCTAAGTTGAATGTGATCCATCAGCGAATGCCTTAATGTACTGCTACGATTGAAGCTAAATTTTCTTTTTTAGTTCGGCTGCTAAAAACATAACTAACTCAACCATCAAGTTACCTAGTTAGTAAAGTTCTCCAAGTCTTATGTGATCTATTACCAAAAGCCAAAAAGTTTTAGCACTACTATTAAAGCTGTCTTCCTTCAATTTCTGCTGCTAGCAACCATAGTTCAACCATTAAGGTCAAATATTTTTGTTAATGAGAAGCTTATGTATGAAATCATAGTTGGGTGAAAGAAGATAAAACTGAATTTTGCTTTCTCACAGTATTAAGTAGTTTTTACTTAGTTTGGGCTGAATAGAGTCAGATGGATTAAGAGGATTCATACAGATGATCCAACTGCGTTGTATTTCGATTAACTTTCGTGTTTTTTAATTTAAAAGTCATGCTCCATGGAATTTAATGGGCTCATTCTTATGCATTTTCTAATTCATTTCAGACTCTGGAAATCAGTGTTGTCATTCATGTGTTTTCCCAGTTTTATGCGTAAGAGTCTATAAATTTCTGACGTCACATTTTCAACAGGTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCAGTCGAGATCAATCCCCATTACAAAAACTGGGATG</genome_strand>
        <mrna_strand>GGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCACTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCAGTCGAGATCAATCCCCATTACAAAAACTGGGATG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E270221" ref_strand="+" ref_description="SGN-E270221 [cLEM-1-F3]">
      <seq>ggtattgctgctacttgagcaacagcagatctgctactctttcactcgctgagctgatctctgaattcggcaaatgctgtggttcaagtcaattggagcttcaggatcactatttctactctggttatggctgttccagacgactgaagcttcagtgcatgattacaatgtggagaaattcgtgagcaatggcaatgcatttgtggttcacggaggtagcgaatgaatctactcctctgttcctaacctcactgaatctgcttcctattcttctaacaccgactccttcattcggtttgaaaagattatattacggaggccaaaggaattatcaaacttaagctcagacccagttcatgcaattgcatttgaggtggatgatcgacagttaattgcgggctctgcttatggtggccaaagagctatttgttgcacagtggatcttgcaaaacttgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="21271" stop="23314"/>
      </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="21571" g_stop="21864" g_length="294"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="294" r_length="294" r_score="0.983"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21865" i_stop="22851" i_length="987">
            <donor d_prob="0.998" d_score="0.98"/>
            <acceptor a_prob="0.940" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22852" g_stop="23014" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="295" r_stop="457" r_length="163" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E270221" ref_strand="+">
        <total_alignment_score>0.974</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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E270221" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21571" e_stop="21864"/>
          <exon e_start="22852" e_stop="23014"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCACTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCGGTAATTTTACTCTCTCTCCAGTCAATTTTTTGGTACGATTTAAGATGAAATATTTCGAGATCTGCTCTGAGAATTGTTAATTATTGATGACGGTACTTGTTCAGGTTGAATATTTGTTCAATTATAATTTTGTGAGTAGTTTTTGAAAATTTATCTTCAGTTATCTTGTTTAACCATGAAATTTTATCATATATTGGAAATCAGAAGGTCAAATATTTTCAAGTTCACGAAAAAAAGGGGCTCAGTGCAGTTTTTGGGACGTACACTCACTATTCTTCAATTTTTTCCAAGTAAAAATGCATGTTCTCGCACAACTAAAAGTTCCAAATATCTAAAATTTCACAAAATTCAAATTTTCAAGTTTTGGCTTCAAAATCTGCCAAAGGGAGCCTAGTTAGTAGGATTCTCTAAGTTGAATGTGATCCATCAGCGAATGCCTTAATGTACTGCTACGATTGAAGCTAAATTTTCTTTTTTAGTTCGGCTGCTAAAAACATAACTAACTCAACCATCAAGTTACCTAGTTAGTAAAGTTCTCCAAGTCTTATGTGATCTATTACCAAAAGCCAAAAAGTTTTAGCACTACTATTAAAGCTGTCTTCCTTCAATTTCTGCTGCTAGCAACCATAGTTCAACCATTAAGGTCAAATATTTTTGTTAATGAGAAGCTTATGTATGAAATCATAGTTGGGTGAAAGAAGATAAAACTGAATTTTGCTTTCTCACAGTATTAAGTAGTTTTTACTTAGTTTGGGCTGAATAGAGTCAGATGGATTAAGAGGATTCATACAGATGATCCAACTGCGTTGTATTTCGATTAACTTTCGTGTTTTTTAATTTAAAAGTCATGCTCCATGGAATTTAATGGGCTCATTCTTATGCATTTTCTAATTCATTTCAGACTCTGGAAATCAGTGTTGTCATTCATGTGTTTTCCCAGTTTTATGCGTAAGAGTCTATAAATTTCTGACGTCACATTTTCAACAGGTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGA</genome_strand>
        <mrna_strand>GGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCACTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATCACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAATGGCAATGCATTTGTGGTTCACGGAGGTAGCGAATGAATCTACTCCTCTGTTCCTAACCTCACTGAATCTGCTTCCTATTCTTCTAACACCGACTCCTTCATTCG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTGAAAAGATTATATTACGGAGGCCAAAGGAATTATCAAACTTAAGCTCAGACCCAGTTCATGCAATTGCATTTGAGGTGGATGATCGACAGTTAATTGCGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E313429" ref_strand="+" ref_description="SGN-E313429 [cTOA-13-I8]">
      <seq>tgaattcggcaaatgctgtggttcaagtcaattggagcttcaggattactatttctactctggttatggctgttccagacgactgaagcttcagtgcatgattacaatgtggagaaattcgtgagcaagggcaatgcatttgtggttcacggaggtagcgaaggaatttactcctctgttcctaacctcactgaatctccttcctattcttctaacaccgactccttcattcggtttgaaaagattatatttcggaggccaaaggaattctcaaacttcagctcagacccagttcatgcaattgtttttgaggtggatgatcgagagttaattgggggctctgcttatggtggccaaagagctatttgttgcacagtggatcttgcaaaacttggagtttgtacacaagggcaaataattcaccgcccatctgctagtaatcccggatggcctaaagtttttagtgcctcattcagcattgatgaagttgatgtagcactgcagtcgagatcaatccccattacaaaaactgggatgtataacgtgtattttattcact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="21332" stop="23477"/>
      </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="21632" g_stop="21864" g_length="233"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="233" r_length="233" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21865" i_stop="22851" i_length="987">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.940" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22852" g_stop="23177" g_length="326"/>
          <reference_exon_boundary r_type="cDNA" r_start="234" r_stop="559" r_length="326" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E313429" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>559</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E313429" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21632" e_stop="21864"/>
          <exon e_start="22852" e_stop="23177"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCGGTAATTTTACTCTCTCTCCAGTCAATTTTTTGGTACGATTTAAGATGAAATATTTCGAGATCTGCTCTGAGAATTGTTAATTATTGATGACGGTACTTGTTCAGGTTGAATATTTGTTCAATTATAATTTTGTGAGTAGTTTTTGAAAATTTATCTTCAGTTATCTTGTTTAACCATGAAATTTTATCATATATTGGAAATCAGAAGGTCAAATATTTTCAAGTTCACGAAAAAAAGGGGCTCAGTGCAGTTTTTGGGACGTACACTCACTATTCTTCAATTTTTTCCAAGTAAAAATGCATGTTCTCGCACAACTAAAAGTTCCAAATATCTAAAATTTCACAAAATTCAAATTTTCAAGTTTTGGCTTCAAAATCTGCCAAAGGGAGCCTAGTTAGTAGGATTCTCTAAGTTGAATGTGATCCATCAGCGAATGCCTTAATGTACTGCTACGATTGAAGCTAAATTTTCTTTTTTAGTTCGGCTGCTAAAAACATAACTAACTCAACCATCAAGTTACCTAGTTAGTAAAGTTCTCCAAGTCTTATGTGATCTATTACCAAAAGCCAAAAAGTTTTAGCACTACTATTAAAGCTGTCTTCCTTCAATTTCTGCTGCTAGCAACCATAGTTCAACCATTAAGGTCAAATATTTTTGTTAATGAGAAGCTTATGTATGAAATCATAGTTGGGTGAAAGAAGATAAAACTGAATTTTGCTTTCTCACAGTATTAAGTAGTTTTTACTTAGTTTGGGCTGAATAGAGTCAGATGGATTAAGAGGATTCATACAGATGATCCAACTGCGTTGTATTTCGATTAACTTTCGTGTTTTTTAATTTAAAAGTCATGCTCCATGGAATTTAATGGGCTCATTCTTATGCATTTTCTAATTCATTTCAGACTCTGGAAATCAGTGTTGTCATTCATGTGTTTTCCCAGTTTTATGCGTAAGAGTCTATAAATTTCTGACGTCACATTTTCAACAGGTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCAGTCGAGATCAATCCCCATTACAAAAACTGGGATGTATAACGTGTATTTTATTCACT</genome_strand>
        <mrna_strand>TGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCAGTCGAGATCAATCCCCATTACAAAAACTGGGATGTATAACGTGTATTTTATTCACT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290798" ref_strand="+" ref_description="SGN-E290798 [cLET-10-M11]">
      <seq>ggatgatcgagagttaattgggggctctgcttatggtggccaaagagctatttgttgcacagtggatcttgcaaaacttggagtttgtacacaagggcaaataattcaccgcccatctgctagtaatcccggatggcctaaagtttttagtgcctcattcagcattgatgaagttgatgtagcactgcagtcgagatcaatccccattacaaaaactgggatgtataacgtgtattttattcactgtgagccaaatcttaaggaaataactgttgaagggaaaaccatatggaagaatcctactggttacctacctggtagaatggctccccttatgaacttctatgggtacatgtctcttgcattcgtgttactagggatcttttggttttcgcagtatgcaagattctggagagaagttattcctttacaaaattgtattacactcgttataacattgggcatgcttgaaatggccttttggtactttgactatgctgaattcaatgaaactggagtcaggcccactggtaccactgtatgggctgtgacatttggtacagtaaagcgcacagttgcacgtttggtcattctgatagtctctatgggcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="22633" stop="23844"/>
      </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="22933" g_stop="23544" g_length="612"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="612" r_length="612" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E290798" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>612</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E290798" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22933" e_stop="23544"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCAGTCGAGATCAATCCCCATTACAAAAACTGGGATGTATAACGTGTATTTTATTCACTGTGAGCCAAATCTTAAGGAAATAACTGTTGAAGGGAAAACCATATGGAAGAATCCTACTGGTTACCTACCTGGTAGAATGGCTCCCCTTATGAACTTCTATGGGTACATGTCTCTTGCATTCGTGTTACTAGGGATCTTTTGGTTTTCGCAGTATGCAAGATTCTGGAGAGAAGTTATTCCTTTACAAAATTGTATTACACTCGTTATAACATTGGGCATGCTTGAAATGGCCTTTTGGTACTTTGACTATGCTGAATTCAATGAAACTGGAGTCAGGCCCACTGGTACCACTGTATGGGCTGTGACATTTGGTACAGTAAAGCGCACAGTTGCACGTTTGGTCATTCTGATAGTCTCTATGGGCTA</genome_strand>
        <mrna_strand>GGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCAGTCGAGATCAATCCCCATTACAAAAACTGGGATGTATAACGTGTATTTTATTCACTGTGAGCCAAATCTTAAGGAAATAACTGTTGAAGGGAAAACCATATGGAAGAATCCTACTGGTTACCTACCTGGTAGAATGGCTCCCCTTATGAACTTCTATGGGTACATGTCTCTTGCATTCGTGTTACTAGGGATCTTTTGGTTTTCGCAGTATGCAAGATTCTGGAGAGAAGTTATTCCTTTACAAAATTGTATTACACTCGTTATAACATTGGGCATGCTTGAAATGGCCTTTTGGTACTTTGACTATGCTGAATTCAATGAAACTGGAGTCAGGCCCACTGGTACCACTGTATGGGCTGTGACATTTGGTACAGTAAAGCGCACAGTTGCACGTTTGGTCATTCTGATAGTCTCTATGGGCTA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E392119" ref_strand="+" ref_description="SGN-E392119 [TUS-24-H8]">
      <seq>ttttggcttctgaaatgctttttctggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcatgctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttctggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaactccatgagatatgcctactctgatgatggtgaagagttcgataaggacgctacatttactctcataaagccgtcccctctgctgccaaaggatgtaagaagccaacctgaagtgaggccaacattgggtaacagcgaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23333" stop="25741"/>
      </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="23610" g_stop="23770" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="161" r_length="161" r_score="0.969"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="0.98"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24247" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="257" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.252" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="394" r_length="137" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="25312" g_stop="25441" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="395" r_stop="524" r_length="130" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E392119" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>524</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E392119" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23610" e_stop="23770"/>
          <exon e_start="24152" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25312" e_stop="25441"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAA</genome_strand>
        <mrna_strand>TTTTGGCTTCTGAAATGCTTTTTCTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAT.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG..............................................................................................................................................................................................................................................................................................................ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACTCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E396098" ref_strand="+" ref_description="SGN-E396098 [TUS-19-G7]">
      <seq>ttttggcttctgaagtgcttgaactggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattaaacatatatcacaagttctcaaatgcattgcctgtctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23310" stop="24514"/>
      </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="23610" g_stop="23770" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="161" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24214" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="224" r_length="63" r_score="0.905"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E396098" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>224</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E396098" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23610" e_stop="23770"/>
          <exon e_start="24152" e_stop="24214"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACT</genome_strand>
        <mrna_strand>TTTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAAACATATATCACAAGTTCTCAAATGCATTGCCTGTCTCT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E377135" ref_strand="+" ref_description="SGN-E377135 [TUS-21-E17]">
      <seq>tttggcttctgaagtgcttgaactggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttctggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaactccatgagatatgcctactctgatgatggtgaagagttcgataaggacgctacatttacgctcataaagccgtcccctctgctgccaaaggatgtaagaagccaacctgaagtgaggccaacattgggtaacagcgaactatctaatggtgaagttgtagaagacaagaccgagtaaagcaagacacacaacttttttacagtacgttaaagaaaggtacccgtcagactgagtaaattgtttttagaatcatgttatctatgttgtctgtataaaaaaagtacgaatgttaatcangagaagtcttttaggtaaaacaaacttgtaattgttgttttttttagaagttaatgtcattaatctaatgtgatcttttctggcaataatttttattgtttaaaaaaaaaaaaaaaaaaaaaccttgaggggggggcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23311" stop="26003"/>
      </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="23611" g_stop="23770" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24247" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="256" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.252" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="257" r_stop="393" r_length="137" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="25312" g_stop="25705" g_length="394"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="788" r_length="395" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="789" polyA_stop="805"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E377135" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>787</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E377135" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23611" e_stop="23770"/>
          <exon e_start="24152" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25312" e_stop="25705"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAG-TAATGTTCATTAATCTAATGTGATC-TCTCTTGCAATAATTCTTATAGTTAAAAGG</genome_strand>
        <mrna_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG..............................................................................................................................................................................................................................................................................................................ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCANGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTTAATG-TCATTAATCTAATGTGATCTTTTCTGGCAATAATTTTTATTGTTTAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E238342" ref_strand="+" ref_description="SGN-E238342 [cLED-17-E2]">
      <seq>tttggcttctgaagtgcttgaactggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttctggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaactccatgagatatgcctactctgatgatggtgaagagttcgataaggacgctacatttacgctcataaagccgtcccctctgctgccaaaggatgtaagaagccaacctgaagtgaggccaacattgggtaacagcgaactatctaatggtgaagttgtagaagacaagaccgagtaaagcaagacacacaacttttttacagtacgttaaagaaaggtacccgtcagactgagtaaattgtttttagaatcatgttatctatgttgtctgtataaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23311" stop="25881"/>
      </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="23611" g_stop="23770" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24247" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="256" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.252" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="257" r_stop="393" r_length="137" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="25312" g_stop="25581" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="663" r_length="270" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E238342" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>663</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E238342" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23611" e_stop="23770"/>
          <exon e_start="24152" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25312" e_stop="25581"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAA</genome_strand>
        <mrna_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG..............................................................................................................................................................................................................................................................................................................ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E231087" ref_strand="+" ref_description="SGN-E231087 [cLED-5-F24]">
      <seq>tttggcttctgaagtgcttgaactggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttctggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaactccatgagatatgcctactctgatgatggtgaagagttcgataaggacgctacatttacgctcataaagccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23311" stop="25675"/>
      </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="23611" g_stop="23770" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24247" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="256" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.252" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="257" r_stop="393" r_length="137" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="25312" g_stop="25375" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="457" r_length="64" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E231087" 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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E231087" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23611" e_stop="23770"/>
          <exon e_start="24152" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25312" e_stop="25375"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCG</genome_strand>
        <mrna_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG..............................................................................................................................................................................................................................................................................................................ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E238471" ref_strand="+" ref_description="SGN-E238471 [cLED-17-E1]">
      <seq>tttggcttctgaagtgcttgaactggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggctaaatgcctggattattcctgccttctggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatttcaaaactccatgagatatgcctactctgatgatggtgaagagttcgataaggacgctacatttacgctcataaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23311" stop="25672"/>
      </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="23611" g_stop="23770" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24247" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="256" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.252" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="257" r_stop="393" r_length="137" r_score="0.985"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="25312" g_stop="25372" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="454" r_length="61" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E238471" ref_strand="+">
        <total_alignment_score>0.996</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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E238471" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23611" e_stop="23770"/>
          <exon e_start="24152" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25312" e_stop="25372"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAG</genome_strand>
        <mrna_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCTAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATTTCAAAACTCCATGAG..............................................................................................................................................................................................................................................................................................................ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E236493" ref_strand="+" ref_description="SGN-E236493 [cLED-13-L18]">
      <seq>tttggcttctgaagtgcttgaactggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttctggcaagngctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaactccatgagatatgcctactctgatgatggtgaagagttcgataaggacgctacatttacgctcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23311" stop="25668"/>
      </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="23611" g_stop="23770" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24247" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="256" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.252" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="257" r_stop="393" r_length="137" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="25312" g_stop="25368" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="450" r_length="57" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E236493" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>450</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E236493" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23611" e_stop="23770"/>
          <exon e_start="24152" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25312" e_stop="25368"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCAT</genome_strand>
        <mrna_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGNGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG..............................................................................................................................................................................................................................................................................................................ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCAT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E240874" ref_strand="+" ref_description="SGN-E240874 [cLED-24-P16]">
      <seq>tttggcttctgaagtgcttgaactggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttctggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23311" stop="25301"/>
      </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="23611" g_stop="23770" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24247" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="256" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.252" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24873" g_stop="25001" g_length="129"/>
          <reference_exon_boundary r_type="cDNA" r_start="257" r_stop="385" r_length="129" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E240874" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>385</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E240874" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23611" e_stop="23770"/>
          <exon e_start="24152" e_stop="24247"/>
          <exon e_start="24873" e_stop="25001"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAAC</genome_strand>
        <mrna_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAAC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E239888" ref_strand="+" ref_description="SGN-E239888 [cLED-29-N8]">
      <seq>tttggcttctgaagtgcttgaactggtagaaaatgttggtgctgtcagtgatttctcaggaaaagcaaggttgttttttgtacttcctgtgacattcttggatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23311" stop="24545"/>
      </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="23611" g_stop="23770" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24245" g_length="94"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="254" r_length="94" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E239888" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>254</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E239888" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23611" e_stop="23770"/>
          <exon e_start="24152" e_stop="24245"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATG</genome_strand>
        <mrna_strand>TTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E377134" ref_strand="+" ref_description="SGN-E377134 [TUS-21-E17](-)">
      <seq>gcaaggttgttttttgtacttcctgtgacattctggaatgctttctttatcgtttggatattcacctccttgtcggcaactgtgaataagcttcaggctagaaggttgttggccaaattagacatctatcgcaagttcacaaatgcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttctggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaactccatgagatatgcctactctgatgatggtgaagagttcgataaggacgctacatttacgctcataaagccgtcccctctgctgccaaaggatgtaagaagccaacctgaagtgaggccaacattgggtaacagcgaactatctaatggtgaagttgtagaagacaagaccgagtaaagcaagacacacaacttttttacagtacgttaaagaaaggtacccgtcagactgagtaaattgtttttagaatcatgttatctatgttgtctgtataaaaaaagtacgaatgttaatcaggagaagtcttttaggtaaaacaaacttgtaattgttgttttttttagaagtaatgttcattaatctaatgtgatctctcttgcaataattcttatagttaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23375" stop="26003"/>
      </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="23675" g_stop="23770" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="96" r_length="96" r_score="0.979"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381">
            <donor d_prob="0.906" d_score="1.00"/>
            <acceptor a_prob="0.826" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24152" g_stop="24247" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="97" r_stop="192" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.252" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="193" r_stop="329" r_length="137" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="25312" g_stop="25705" g_length="394"/>
          <reference_exon_boundary r_type="cDNA" r_start="330" r_stop="723" r_length="394" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E377134" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>723</cumulative_length_of_scored_exons>
        <coverage percentage="0.992" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E377134" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23675" e_stop="23770"/>
          <exon e_start="24152" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25312" e_stop="25705"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAGGTAGATTGTTGGCTTCTTTTAGTCACTGTGATTTCATTTGTTTGCGGATTGCTAGTTAGAGAATGTTCTAGTTTCTTTACTTCTTATTTGCCTCAGGTCTTACTTTCATGAGCAGAGATCTTATTACACTTGTGACTAATAACCTAAGCCGCTATATGTGTTACATATTATATTAATCAGGAAGTTCATTCGGAAAGGTGTACTGGTATCTTTTTGTTGGTTGTAGTGCCTAATTCTTGCAATAAAGGAAGCCTTTTCCTTCCCTTATCTTAGGGCGTTTGGGGCTGGAGTCAATCATGATATGACGTCATTCAGTTATTAGTATAATTCAATTTAGGCTCCATTAGTGCTAATTCAGTTGCTGGATTTGGGATCTGACAGGCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTAATGTGATCTCTCTTGCAATAATTCTTATAGTTAAAAGG</genome_strand>
        <mrna_strand>GCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTGGAATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG.............................................................................................................................................................................................................................................................................................................................................................................................GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG..............................................................................................................................................................................................................................................................................................................ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTAATGTGATCTCTCTTGCAATAATTCTTATAGTTAAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E392118" ref_strand="+" ref_description="SGN-E392118 [TUS-24-H8](-)">
      <seq>cgcaagttcacaaaggcattggctgtcactgttgttgtatctgttggatggatgtgctatgagctgtacttcaagtccgatgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttttggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaactccatgagatatgcctactctgatgatggtgaagagttcgataaggacgttacatttacgctcataaagccgtcccctctgctgccaaaggatgtaagaagccaacctgaagtgaggccaacattgggtaacagcgaactatttaatggtgaagttgtagaagacaagaccgagtaaagcaagacacacaacttttttacagtacgttaaagaaaggtacccgtcagactgagtaaattgtttttagaatcatgttatctatgttgtctgtataaaaaaagtacgaatcttaatcaggagaagtcttttaggtaaaacaaacttgtaatagttgttttttttagaaataaagttcattaatctaatgtgatctctctcgcaataattcaaaatagaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23885" stop="26003"/>
      </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="24185" g_stop="24247" 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="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="0.98"/>
            <acceptor a_prob="0.252" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="64" r_stop="200" r_length="137" r_score="0.978"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="25312" g_stop="25691" g_length="380"/>
          <reference_exon_boundary r_type="cDNA" r_start="201" r_stop="580" r_length="380" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="588" polyA_stop="602"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E392118" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>580</cumulative_length_of_scored_exons>
        <coverage percentage="0.963" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E392118" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24185" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25312" e_stop="25691"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTAATGTGATCTCTCTTGCAATAATTC</genome_strand>
        <mrna_strand>CGCAAGTTCACAAAGGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCGATGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTTTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG..............................................................................................................................................................................................................................................................................................................ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGTTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATTTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATCTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATAGTTGTTTTTTTTAGAAATAAAGTTCATTAATCTAATGTGATCTCTCTCGCAATAATTC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E700004" ref_strand="+" ref_description="SGN-E700004 [FA11DD03]">
      <seq>aacagatacaacaacagtgacagccaatgcatttgttggatggatgtgctatgagctgtacttcaagtccactgatgtgtacaatgagcgatggcgaaatgcctggattattcctgccttctggcaagtgctatctttctctctcctttgcatcatctgcgttctttgggcaccatctcaaaactccatgagatatgccttatcgaactcttcaccatcatcagagtaggcatatctcatggagttttgcctactctgatgatggtgaagagttcgataaggacgctacattaacgctcattaagccgtcccctctgctgccaaaggatgtaagaagccaacctgaagtgaggccaacattgggtaacagcgaactatctaatggtgaagttgtagaagacaagaccgagtaaagcaagacacacaactttttttacagtacgttaaagaaaggtacccgtcagactgagtaaattgtttttagaatcatgttatctatgttgtctgtataaaaaaagtacgaatgttaatcaggagaagtcttttaggtaaaacaaatttgtaattgttgtttttttttagaagtaatgttcatttatctanaaaaaaaaaaaaaaaaaaaaaaaaaaaaacctttgggggggggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="23920" stop="25967"/>
      </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="24193" g_stop="24247" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="0.709"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625">
            <donor d_prob="0.993" d_score="0.72"/>
            <acceptor a_prob="0.252" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24873" g_stop="25009" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="192" r_length="137" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="25010" i_stop="25252" i_length="243">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="0.46"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="25253" g_stop="25667" g_length="415"/>
          <reference_exon_boundary r_type="cDNA" r_start="193" r_stop="602" r_length="410" r_score="0.901"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="604" polyA_stop="633"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E700004" ref_strand="+">
        <total_alignment_score>0.906</total_alignment_score>
        <cumulative_length_of_scored_exons>607</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E700004" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24193" e_stop="24247"/>
          <exon e_start="24873" e_stop="25009"/>
          <exon e_start="25253" e_stop="25667"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAGGTAATTTTCAATTCCTACATGATGTGGCTGGTTCTTCATTTTAGTAACTTCTGACAAGTATCTTTGTTGCCTGTTTGAAGAATCTGAGTTAATAAAGGGAAGTGGTTATAAGGACCTTATTGTCGACTGGTCTGCTTGATGTGACATGATTACTTTAGCAGAATGACTTAACACCAAAAAAATGAACATATATAATCCACCAAATTTGGCCTGCAATCCAATTTTCTGGAGAGAGGACTTAAATTTCCAATAATACAGGAAGCAGAAGCATAATTAGGCCTTTTTAATGTTTTGCAATCATTCTGTTATTCATTTTCATATGTTCAGGTCACTTAAATGTGTCAAAGCATCACAAATCAATTGGTCTCTTCCCTATTTCTTTTTACTAGTCAAGAAAGGAACTTCAACAAGTGATTCTTGGTTTGCCATTTGCGTCACAACTCAATTCAGGTTCGACTTGGGTTGTGGCACTCCATGTATTACCTTCAAGAGAAAAGGCACCTTCTAGAAATTGAGCATGATCATATCTTCCAACTACATCAGACATAGGGTTCATAATTTTCTCAACTGTTCCTGATAATGTATTGAAGCACAATGCGTTAACCATTTTCACCCCTTTTGGCAGCTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAGGTACTACCCAGCTTCCACCTTATTGCGAGTGTACATTCATTTTACAGAGTTTTCACTATTCTAACCCTTCTAGTTCTTATAATTTCATCATATCTGCACTTTATATCTTGTGTTTAAATGCAAACTCTCAAAATTGTATTTCCTGAATCATTATGTTCAAACATCTCATAGCATCTTTCTATTTTCATCACTATAAGAAGTCAAAATCTTATAATAGCAAGTCTTATTTACAATAATAGCCAGTCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAAC-TTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTG-TTTTTTTTAGAAGTAATGTTCATTAATCTA</genome_strand>
        <mrna_strand>AACAGATACAACAACAGTGACAGCCAATGCATTTGTTGGATGGATGTGCTATGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG...................................................................................................................................................................................................................................................ATATGCCTTA-TCG-AACTCTTCACCATCATCAGAGTA-GGCATAT-C-T-CAT-GGAGTTTTGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTAACGCTCATTAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAATTTGTAATTGTTGTTTTTTTTTAGAAGTAATGTTCATTTATCTA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E222637" ref_strand="+" ref_description="SGN-E222637 [cLEL-16-L3](-)">
      <seq>tggtgaagagttcgataaggacgctacatttacgctcataaagccgtcccctctgctgccaaaggatgtaagaagccaacctgaagtgaggccaacattgggtaacagcgaactatctaatggtgaagttgtagaagacaagaccgagtaaagcaagacacacaacttttttacagtacgttaaagaaaggtacccgtcagactgagtaaattgtttttagaatcatgttatctatgttgtctgtataaaaaaagtacgaatgttaatcaggagaagtcttttaggtaaaacaaacttgtaattgttgttttttttagaagtaatgttcattaatctaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="25030" stop="25968"/>
      </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="25330" g_stop="25667" g_length="338"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="338" r_length="338" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="339" polyA_stop="355"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E222637" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>338</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E222637" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25330" e_stop="25667"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTA</genome_strand>
        <mrna_strand>TGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E222392" ref_strand="+" ref_description="SGN-E222392 [cLEL-16-L3](-)">
      <seq>acgctacatttacgctcataaagccgtcccctctgctgccaaaggatgtaagaagccaacctgaagtgaggccaacattgggtaacagcgaactatctaatggtgaagttgtagaagacaagaccgagtaaagcaagacacacaacttttttacagtacgttaaagaaaggtacccgtcagactgagtaaattgtttttagaatcatgttatctatgttgtctgtataaaaaaagtacgaatgttaatcaggagaagtcttttaggtaaaacaaacttgtaattgatgttttttttagaagtaatgttcattagactaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="25050" stop="25968"/>
      </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="25350" g_stop="25676" g_length="327"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="327" r_length="327" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E222392" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>327</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E222392" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25350" e_stop="25676"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTAATGTGATCT</genome_strand>
        <mrna_strand>ACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGATGTTTTTTTTAGAAGTAATGTTCATTAGACTAAAAAAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E366500" ref_strand="-" ref_description="SGN-E366500 [cLPT-13-B13]">
      <seq>gatcatttcttggacgattcaggagccatatagaaagcggaaggcatccagaaaactatatcaagtatactgtggaggacctagagaatgctgtcttagatttctttgaggggtacgctgtgtcacagcacctaagaagaagatctcagtgaaagaatattagtttcaacagttagttctttaggccattctttgaatttttttcatggagttattcaggggctcaggttatggcattctggtgtttctcgagtttctacttccatttgtagtattccagggtgattggctgctgaaaacttcaggaagatcaactgttatcaatcaagaagggtcagtgcctcctgcctctggatgctctgccctgtaagcatgttgttgttgtatttcttccatacttctagacttcatttcactttgtccatatctgaactgttgtgttgattactttattgaaattttatcattatcatgattttgttaaaaaaaaaaaaaaaaaaaactcgagactagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="28248" stop="27165"/>
      </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="27948" g_stop="27465" g_length="484"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="484" r_length="484" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="485" polyA_stop="503"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E366500" ref_strand="-">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>484</cumulative_length_of_scored_exons>
        <coverage percentage="0.942" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E366500" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="27948" e_stop="27465"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCATTTCTTGGACGATTCAGGAGCCATATAGAAAGCGGAAGGCATCCAGAAAACTATATCAAGTATACTGTGGAGGACCTAGAGAATGCTGTCTTAGATTTCTTTGAGGGGTACGCTGTGTCACAGCACCTAAGAAGAAGATCTCAGTGAAAGAATATTAGTTTCAACAGTTAGTTCTTTAGGCCATTCTTTGAATTTTTTTCATGGAGTTATTCAGGGGCTGAGGTTACGGCATTCTGGTGTTTCTCGAGTTTCTACTTCCATTTCTAGTATTCCAGGGTGATTGGCTGCTGAAAACTTCAGGAAGATCAACTGTTATCAATCAAGAAGGGTCAGTGCCTCCTGCCTCTGGATGCTCTGCCCTGTAAGCATGTTGTTGTTGTATTTCTTCCATACTTCTAGACTTCATTTCAATTTGTCCATATCTGAACTGTTGTGTTGATTACTTTCTTGAAATTTTATCATTATCATGATTTTGTTAA</genome_strand>
        <mrna_strand>GATCATTTCTTGGACGATTCAGGAGCCATATAGAAAGCGGAAGGCATCCAGAAAACTATATCAAGTATACTGTGGAGGACCTAGAGAATGCTGTCTTAGATTTCTTTGAGGGGTACGCTGTGTCACAGCACCTAAGAAGAAGATCTCAGTGAAAGAATATTAGTTTCAACAGTTAGTTCTTTAGGCCATTCTTTGAATTTTTTTCATGGAGTTATTCAGGGGCTCAGGTTATGGCATTCTGGTGTTTCTCGAGTTTCTACTTCCATTTGTAGTATTCCAGGGTGATTGGCTGCTGAAAACTTCAGGAAGATCAACTGTTATCAATCAAGAAGGGTCAGTGCCTCCTGCCTCTGGATGCTCTGCCCTGTAAGCATGTTGTTGTTGTATTTCTTCCATACTTCTAGACTTCATTTCACTTTGTCCATATCTGAACTGTTGTGTTGATTACTTTATTGAAATTTTATCATTATCATGATTTTGTTAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E314897" ref_strand="+" ref_description="SGN-E314897 [cTOA-31-M23]">
      <seq>taatttcctttatctaccccatcttatcatctctattctctaccataacattcacatgttccttccacttgcttcctttttcttcttcactactacataacttctctagctaccctaaaattgtcacaatccttaatttctgtttctatcaattttggattttttttctcatcggcagatatgtcgaatttatgtgacgctcgccggaggaatggaaacggcaaggcgccggagagatcaagtttcgtacagacttgtaacttgttgagtcagtttattaaagggaaagctactattagagatctgaatctcggaatcgccggtcagccggaagctgcagggaaaactgaaactgcaactatggatttattaacagtcatggaaaaaccatctattgatctaacaaaagaagaacacaaatccgtagatcttgttacaacagagtcttctagagagaaggaggccgctgtaaatgagcccagcacaagcaaagaggcaccaaaggagcctaaggcagcccaattgactatgttctatgatggtaaagtgattgtttttgatgatttccctgctgacaagctagagcagtgatgttattggctagtaaaggatgtcctcagaagtcatttgggactttccaggctataaacatcgacaaaattaacacatgttctcctgcccctgcttctttgaaagtaatagaactgattctgttgcacacagca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="44857" stop="46714"/>
      </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="45157" g_stop="45496" g_length="340"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="340" r_length="340" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45497" i_stop="45779" i_length="283">
            <donor d_prob="1.000" 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="45780" g_stop="45927" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="341" r_stop="488" r_length="148" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="45928" i_stop="46174" i_length="247">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46175" g_stop="46414" g_length="240"/>
          <reference_exon_boundary r_type="cDNA" r_start="489" r_stop="725" r_length="237" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E314897" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>728</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E314897" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45157" e_stop="45496"/>
          <exon e_start="45780" e_stop="45927"/>
          <exon e_start="46175" e_stop="46414"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATTTCCTTTATCTACCCCATCTTATCATCTCTATTCTCTACCATAACATTCACATGTTCCTTCCACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAGGTATTTTTTATTTTCAATTAATAGTATTTCTAAGAGATCTAGTTAATTAATGGAATTCCGTACATAGAGTTTTATTTTTTGTTGATATTGTAAACTGAATTTGGAAATATGTGAATTGAATATTATATTTTGGGGAGTTGTGATTCGAGGAAGATTTGTTGGCTGTAACTATCTTAATCTGGTAATTTTTAATTGGAGAAAATAGAATAAAACAAGTTTTAGAAGAAGAAGCTGCTGCTAAGTTTTCTATAGTTTCTCAACTGTGCTGTGCTTTCTCTTCCAGGGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAGGTTCGTCCCTCTGTGTATTTTAACCTGTTTTAGCTAGTAATTCAAGTTATAATTACACTTGCTATGAACGATTAATATGAAAAAGAATTATGATTGTCGGTAGAAGTTGAAAGTTGAAACTCTTACCCCTTTTACTTTTTAGTCTATTATGAAGTTCGCATCTCCCTAGCTCAGTTTATTGGTTACATGAACGTTCACCTAAGTTACTAATTTCACATGCTGATTTATGTTTGATTTCCTTTTTCAGCAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACATGTTCTCCTGCCCCTGCTTCTTTGACAAGTAATAGAACTGATTCTGTTGCACCACAGCA</genome_strand>
        <mrna_strand>TAATTTCCTTTATCTACCCCATCTTATCATCTCTATTCTCTACCATAACATTCACATGTTCCTTCCACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAG...........................................................................................................................................................................................................................................................................................GGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAG.......................................................................................................................................................................................................................................................CAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGAC-AAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAAGTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACATGTTCTCCTGCCCCTGCTTCTTTGA-AAGTAATAGAACTGATTCTGTTGCA-CACAGCA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E240334" ref_strand="+" ref_description="SGN-E240334 [cLED-25-A20]">
      <seq>cacttgcttcctttttcttcttcactactacataacttctctagctaccctaaaattgtcacaatccttaatttctgtttctatcaattttggattttttttctcatcggcagatatgtcgaatttatgtgacgctcgccggaggaatggaaacggcaaggcgccggagagatcaagtttcgtacagacttgtaacttgttgagtcagtttattaaagggaaagctactattagagatctgaatctcggaatcgccggtcagccggaagctgcagggaaaactgaaactgcaactatggatttattaacagtcatggaaaaaccatctattgatctaacaaaagaagaacacaaatccgtagatcttgttacaacagagtcttctagagagaaggaggccgctgtaaatgagcccagcacaagcaaagaggcaccataggagcctaaggcagcccaattgactatgttctatgatggtaaagtgattgtttttgatgatttccctgctgacaaagctagagcagtgatgttattggctagtaaaggatgtcctcagagttcatttgggactttccaggctataaacatcgacaaaattaacacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="44922" stop="46656"/>
      </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="45222" g_stop="45496" g_length="275"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="275" r_length="275" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45497" i_stop="45779" i_length="283">
            <donor d_prob="1.000" 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="45780" g_stop="45927" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="276" r_stop="423" r_length="148" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="45928" i_stop="46174" i_length="247">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46175" g_stop="46356" g_length="182"/>
          <reference_exon_boundary r_type="cDNA" r_start="424" r_stop="605" r_length="182" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E240334" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>605</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E240334" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45222" e_stop="45496"/>
          <exon e_start="45780" e_stop="45927"/>
          <exon e_start="46175" e_stop="46356"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAGGTATTTTTTATTTTCAATTAATAGTATTTCTAAGAGATCTAGTTAATTAATGGAATTCCGTACATAGAGTTTTATTTTTTGTTGATATTGTAAACTGAATTTGGAAATATGTGAATTGAATATTATATTTTGGGGAGTTGTGATTCGAGGAAGATTTGTTGGCTGTAACTATCTTAATCTGGTAATTTTTAATTGGAGAAAATAGAATAAAACAAGTTTTAGAAGAAGAAGCTGCTGCTAAGTTTTCTATAGTTTCTCAACTGTGCTGTGCTTTCTCTTCCAGGGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAGGTTCGTCCCTCTGTGTATTTTAACCTGTTTTAGCTAGTAATTCAAGTTATAATTACACTTGCTATGAACGATTAATATGAAAAAGAATTATGATTGTCGGTAGAAGTTGAAAGTTGAAACTCTTACCCCTTTTACTTTTTAGTCTATTATGAAGTTCGCATCTCCCTAGCTCAGTTTATTGGTTACATGAACGTTCACCTAAGTTACTAATTTCACATGCTGATTTATGTTTGATTTCCTTTTTCAGCAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACAT</genome_strand>
        <mrna_strand>CACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAG...........................................................................................................................................................................................................................................................................................GGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAG.......................................................................................................................................................................................................................................................CAAAGAGGCACCATAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACAT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E368751" ref_strand="+" ref_description="SGN-E368751 [TUS-22-L20]">
      <seq>cacttgcttcctttttcttcttcactactacataacttctctagctaccctaaaattgtcacaatccttaatttctgtttctatcaattttggattttttttctcatcggcagatatgtcgaatttatgtgacgctcgccggaggaatggaaacggcaaggcgccggagagatcaagtttcgtacagacttgtaacttgttgagtcagatttattaaagggaaagctactatttgagatttgaatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="44922" stop="45767"/>
      </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="45222" g_stop="45467" g_length="246"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="247" r_length="247" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E368751" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>246</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E368751" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45222" e_stop="45467"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAG-TTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCT</genome_strand>
        <mrna_strand>CACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGATTTATTAAAGGGAAAGCTACTATTTGAGATTTGAATCT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E240716" ref_strand="+" ref_description="SGN-E240716 [cLED-24-A15]">
      <seq>cacttgcttcctttttcttcttcactactacataacttctctagctaccctaaaattgtcacaatccttaatttctgtttctatcaattttggattttttttctcatcggcagatatgtcgaatttatgtgacgctcgccggaggaatggaaacggcaaggcgccggagagatcaagtttcgtacagacttgtaacttgttgagtcagtttattaaagggaaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="44922" stop="45747"/>
      </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="45222" g_stop="45447" g_length="226"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="226" r_length="226" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E240716" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>226</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E240716" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45222" e_stop="45447"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCT</genome_strand>
        <mrna_strand>CACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E702973" ref_strand="+" ref_description="SGN-E702973 [FA20AH01]">
      <seq>acttgcttcctttttcttcttcactactacataacttctctagctaccctaaaattgtcacaatccttaatttctgtttctatcaattttggattttttttctcatcggcagatatgtcgaatttatgtgacgctcgccggaggaatggaaacggcaaggcgccggagagatcaagtttcgtacagacttgtaacttgttgagtcagtttattaaagggaaagctactattagagatctgaatctcggaatcgccggtcagccggaagctgcagggaaaactgaaactgcaactatggatttattaacagtcatggaaaaaccatctattgatctaacaaaagaagaacacaaatccgtagatcttgttacaacagagtcttctagagagaaggaggccgctgtaaatgagcccagcacaagcaaagaggcaccaaaggagcctaaggcagcccaattgactatgttctatgatggtaaagtgattgtttttgatgatttccctgctgacaaagctagagcagtgatgttattggctagtaaaggatgtcctcagagttcatttgggactttccaggctataaacatcgacaaaattaacacatgttctcctgcccctgcttctttgacaagtaatagaactgattctgttgcaccacagcaacaacacctccagattaagccagactcttgctctgctgcaccgcaacagcacaagcacaattcgcccccactccatgtttgtagtagtactaaaactgatcagcttaagctcggatcagtttcatctgcacccctagtagagcaggagcaacacaagcaaatccagtcacaggctgccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="44923" stop="46893"/>
      </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="45223" g_stop="45496" g_length="274"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="274" r_length="274" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45497" i_stop="45779" i_length="283">
            <donor d_prob="1.000" 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="45780" g_stop="45927" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="275" r_stop="422" r_length="148" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="45928" i_stop="46174" i_length="247">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46175" g_stop="46593" g_length="419"/>
          <reference_exon_boundary r_type="cDNA" r_start="423" r_stop="841" r_length="419" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E702973" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>841</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E702973" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45223" e_stop="45496"/>
          <exon e_start="45780" e_stop="45927"/>
          <exon e_start="46175" e_stop="46593"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAGGTATTTTTTATTTTCAATTAATAGTATTTCTAAGAGATCTAGTTAATTAATGGAATTCCGTACATAGAGTTTTATTTTTTGTTGATATTGTAAACTGAATTTGGAAATATGTGAATTGAATATTATATTTTGGGGAGTTGTGATTCGAGGAAGATTTGTTGGCTGTAACTATCTTAATCTGGTAATTTTTAATTGGAGAAAATAGAATAAAACAAGTTTTAGAAGAAGAAGCTGCTGCTAAGTTTTCTATAGTTTCTCAACTGTGCTGTGCTTTCTCTTCCAGGGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAGGTTCGTCCCTCTGTGTATTTTAACCTGTTTTAGCTAGTAATTCAAGTTATAATTACACTTGCTATGAACGATTAATATGAAAAAGAATTATGATTGTCGGTAGAAGTTGAAAGTTGAAACTCTTACCCCTTTTACTTTTTAGTCTATTATGAAGTTCGCATCTCCCTAGCTCAGTTTATTGGTTACATGAACGTTCACCTAAGTTACTAATTTCACATGCTGATTTATGTTTGATTTCCTTTTTCAGCAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACATGTTCTCCTGCCCCTGCTTCTTTGACAAGTAATAGAACTGATTCTGTTGCACCACAGCAACAACACCTCCAGATTAAGCCAGACTCTTGCTCTGCTGCACCGCAACAGCACAAGCACAATTCGCCCCCACTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCG</genome_strand>
        <mrna_strand>ACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAG...........................................................................................................................................................................................................................................................................................GGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAG.......................................................................................................................................................................................................................................................CAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACATGTTCTCCTGCCCCTGCTTCTTTGACAAGTAATAGAACTGATTCTGTTGCACCACAGCAACAACACCTCCAGATTAAGCCAGACTCTTGCTCTGCTGCACCGCAACAGCACAAGCACAATTCGCCCCCACTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCCTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E203532" ref_strand="+" ref_description="SGN-E203532 [cLEC-15-K4]">
      <seq>tcactactacataacttctctagctaccctaaaattgtcacaatccttaatttctgtttctatcaattttggattttttttctcatcggcagatatgtcgaatttatgtgacgctcgccggaggaatggaaacggcaaggcgccggagagatcaagtttcgtacagacttgtaacttgttgagtcagtttattaaagggaaagctactattagagatctgaatctcggaatcgccggtcagccggaagctgcagggaaaactgaaactgcaactatggatttattaacagtcatggaaaaaccatctattgatctaacaaaagaagaacacaaatccgtagatcttgttacaacagagtcttctagagagaaggaggccgctgtaaatgagcccagcacaagcaaagaggcaccaaaggagcctaaggcagcccaattgactatgttctatgatggtaaagtgattgtttttgatgatttccctgctgacaaagctagagcagtgatgttattggctagtaaaggatgtcctcagagttcatttgggactttccaggctataaacatcgacaaaattaacacatgttctcctgcccctgcttctttgacaagtaatagaactg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="44943" stop="46695"/>
      </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="45243" g_stop="45496" g_length="254"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="254" r_length="254" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45497" i_stop="45779" i_length="283">
            <donor d_prob="1.000" 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="45780" g_stop="45927" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="255" r_stop="402" r_length="148" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="45928" i_stop="46174" i_length="247">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46175" g_stop="46395" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="403" r_stop="623" r_length="221" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E203532" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>623</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E203532" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45243" e_stop="45496"/>
          <exon e_start="45780" e_stop="45927"/>
          <exon e_start="46175" e_stop="46395"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAGGTATTTTTTATTTTCAATTAATAGTATTTCTAAGAGATCTAGTTAATTAATGGAATTCCGTACATAGAGTTTTATTTTTTGTTGATATTGTAAACTGAATTTGGAAATATGTGAATTGAATATTATATTTTGGGGAGTTGTGATTCGAGGAAGATTTGTTGGCTGTAACTATCTTAATCTGGTAATTTTTAATTGGAGAAAATAGAATAAAACAAGTTTTAGAAGAAGAAGCTGCTGCTAAGTTTTCTATAGTTTCTCAACTGTGCTGTGCTTTCTCTTCCAGGGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAGGTTCGTCCCTCTGTGTATTTTAACCTGTTTTAGCTAGTAATTCAAGTTATAATTACACTTGCTATGAACGATTAATATGAAAAAGAATTATGATTGTCGGTAGAAGTTGAAAGTTGAAACTCTTACCCCTTTTACTTTTTAGTCTATTATGAAGTTCGCATCTCCCTAGCTCAGTTTATTGGTTACATGAACGTTCACCTAAGTTACTAATTTCACATGCTGATTTATGTTTGATTTCCTTTTTCAGCAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACATGTTCTCCTGCCCCTGCTTCTTTGACAAGTAATAGAACTG</genome_strand>
        <mrna_strand>TCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAG...........................................................................................................................................................................................................................................................................................GGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAG.......................................................................................................................................................................................................................................................CAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACATGTTCTCCTGCCCCTGCTTCTTTGACAAGTAATAGAACTG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E365944" ref_strand="+" ref_description="SGN-E365944 [cLPT-11-J22]">
      <seq>tctagctaccctaaaattgtcacaatccttaatttctgtttctatcaattttggattttttctcatcggcaaatatgtcgaatttatgtgacgctcgccggaggaatggaaacggcaaggcgccggagaggtcaagtttcgtacagacttgtaacttgttgagtcagtttattaaagggaaagctactattagagatctgaatctcggaatcgccggtcagccggaagctgcagggaaaactgaaactgcaactatggatttattaacagtcatggaaaaaccatctattgatctaacaaaagaagaacacaaatgcgtagatcttgttacaacagagtcttctatagagaaggaggccgctgtaaatgagcccagcacatgcaaagaggcaccaaaggagcctaaggcagcccaattgactatgttctatgatggtaaagtgattgtttttgatgatttccctgctgacaaagctagagcagtgatgtta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="44961" stop="46583"/>
      </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="45261" g_stop="45496" g_length="236"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="234" r_length="234" r_score="0.983"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45497" i_stop="45779" i_length="283">
            <donor d_prob="1.000" 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="45780" g_stop="45927" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="235" r_stop="382" r_length="148" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="45928" i_stop="46174" i_length="247">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46175" g_stop="46283" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="383" r_stop="491" r_length="109" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E365944" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>493</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E365944" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45261" e_stop="45496"/>
          <exon e_start="45780" e_stop="45927"/>
          <exon e_start="46175" e_stop="46283"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAGGTATTTTTTATTTTCAATTAATAGTATTTCTAAGAGATCTAGTTAATTAATGGAATTCCGTACATAGAGTTTTATTTTTTGTTGATATTGTAAACTGAATTTGGAAATATGTGAATTGAATATTATATTTTGGGGAGTTGTGATTCGAGGAAGATTTGTTGGCTGTAACTATCTTAATCTGGTAATTTTTAATTGGAGAAAATAGAATAAAACAAGTTTTAGAAGAAGAAGCTGCTGCTAAGTTTTCTATAGTTTCTCAACTGTGCTGTGCTTTCTCTTCCAGGGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAGGTTCGTCCCTCTGTGTATTTTAACCTGTTTTAGCTAGTAATTCAAGTTATAATTACACTTGCTATGAACGATTAATATGAAAAAGAATTATGATTGTCGGTAGAAGTTGAAAGTTGAAACTCTTACCCCTTTTACTTTTTAGTCTATTATGAAGTTCGCATCTCCCTAGCTCAGTTTATTGGTTACATGAACGTTCACCTAAGTTACTAATTTCACATGCTGATTTATGTTTGATTTCCTTTTTCAGCAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTA</genome_strand>
        <mrna_strand>TCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGA--TTTTTTCTCATCGGCAAATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGGTCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAG...........................................................................................................................................................................................................................................................................................GGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATGCGTAGATCTTGTTACAACAGAGTCTTCTATAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACATG.......................................................................................................................................................................................................................................................CAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E211837" ref_strand="+" ref_description="SGN-E211837 [cLEC-66-D20]">
      <seq>gaaggaggccgctgtaaatgagcccagcacaagcaaagaggcaccaaaggagcctaaggcagcccaattgactatgttctatgatggtaaagtgattgtttttgatgatttccctgctgacaaagctagagcagtgatgttattggctagtaaaggatgtcctcagagttcatttgggactttccaggctataaacatcgacaaaattaacacatgttctcctgcccctgcttctttgacaagtaatagaactgattctgttgcaccacagcaacaacacctccagattaagccagactcttgctctgctgcaccgcaacagcacaagcacaattcgcccccactccatgtttgtagtagtactaaaactgatcagcttaagctcggatcagtttcatctgcacccttagtagagcaggagcaacacaagcaaatccagtcacaggctgccgaaattagcagcagctccgagctacctatcgcaagaagatcttcacttcataggtttctcgagaagaggaaagatagggcaactgttagagctccataccaagttgtacgtaacaatccgttgttaccatcttcttcgaatactaatggtgaatcatcttctaaggatagcgaagatcagctcgatctcaatttcaagttatagccagaactccactctcgcagntggaattccatagcttttttttggttgaccacactgcatgagctagtag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="45595" stop="47576"/>
      </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="45895" g_stop="45927" 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="45928" i_stop="46174" i_length="247">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46175" g_stop="46611" g_length="437"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="470" r_length="437" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46612" i_stop="46916" i_length="305">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.943" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46917" g_stop="46974" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="471" r_stop="528" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="46975" i_stop="47077" i_length="103">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="47078" g_stop="47276" g_length="199"/>
          <reference_exon_boundary r_type="cDNA" r_start="529" r_stop="725" r_length="197" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E211837" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>727</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E211837" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45895" e_stop="45927"/>
          <exon e_start="46175" e_stop="46611"/>
          <exon e_start="46917" e_stop="46974"/>
          <exon e_start="47078" e_stop="47276"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGGAGGCCGCTGTAAATGAGCCCAGCACAAGGTTCGTCCCTCTGTGTATTTTAACCTGTTTTAGCTAGTAATTCAAGTTATAATTACACTTGCTATGAACGATTAATATGAAAAAGAATTATGATTGTCGGTAGAAGTTGAAAGTTGAAACTCTTACCCCTTTTACTTTTTAGTCTATTATGAAGTTCGCATCTCCCTAGCTCAGTTTATTGGTTACATGAACGTTCACCTAAGTTACTAATTTCACATGCTGATTTATGTTTGATTTCCTTTTTCAGCAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACATGTTCTCCTGCCCCTGCTTCTTTGACAAGTAATAGAACTGATTCTGTTGCACCACAGCAACAACACCTCCAGATTAAGCCAGACTCTTGCTCTGCTGCACCGCAACAGCACAAGCACAATTCGCCCCCACTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCGAAATTAGCAGCAGCTCCGGTGAGCAAATTACATCCTTCTTTTTCATTTTATATAGCAGTATTTGACTACACACAAAATATATGAAAGGTAGACAGACGTTTGGGGTCTACTTTAATACTCTTCAAACAAGTGGTCTTAAACTGTCATGATGTATAAACAACTACGTTATGTTAAAAGAGTTTCCAATATAAAACATATTTTTTCTTAAACGGACTAAAAAGAATAGGATATAAAATGAAATAAAGCGAGTACTACTTACTCATGTTGCATGATAAAATTTTCACAGATCGGTTCTAATATGCATTATATCTTTGGTTTCTCAGAGCTACCTATCGCAAGAAGATCTTCACTTCATAGGTTTCTCGAGAAGAGGAAAGATAGGTAAGCGGAATTTAAATTTGTGTTTATACCAAAACTTTTTCCAAACAACTTTTGAGGTTTGTTTAGTGTAAAAGAATCTCACTTCTTTTTCTGTCTTATTCAGGGCAACTGTTAGAGCTCCATACCAAGTTGTACGTAACAATCCGTTGTTACCATCTTCTTCGAATACTAATGGTGAATCATCTTCTAAGGATAGCGAAGATCAGCTCGATCTCAATTTCAAGTTATAGCCAGAACTCCACTCTCGCAGTTGGAATTCCATAAGCTTTTTTTTGGTTGACCACCACTGCATGAGCTAGTAG</genome_strand>
        <mrna_strand>GAAGGAGGCCGCTGTAAATGAGCCCAGCACAAG.......................................................................................................................................................................................................................................................CAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACATGTTCTCCTGCCCCTGCTTCTTTGACAAGTAATAGAACTGATTCTGTTGCACCACAGCAACAACACCTCCAGATTAAGCCAGACTCTTGCTCTGCTGCACCGCAACAGCACAAGCACAATTCGCCCCCACTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCGAAATTAGCAGCAGCTCCG.................................................................................................................................................................................................................................................................................................................AGCTACCTATCGCAAGAAGATCTTCACTTCATAGGTTTCTCGAGAAGAGGAAAGATAG.......................................................................................................GGCAACTGTTAGAGCTCCATACCAAGTTGTACGTAACAATCCGTTGTTACCATCTTCTTCGAATACTAATGGTGAATCATCTTCTAAGGATAGCGAAGATCAGCTCGATCTCAATTTCAAGTTATAGCCAGAACTCCACTCTCGCAGNTGGAATTCCAT-AGCTTTTTTTTGGTTGACCA-CACTGCATGAGCTAGTAG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E287447" ref_strand="+" ref_description="SGN-E287447 [cLES-9-A15]">
      <seq>gattctgttgcaccacagcaacaacacctccagattaagccagactcttgctctgctgcaccgcaacagcacaagcacaattcgcccccactccatgtttgtagtagtactaaaactgatcagcttaagctcggatcagtttcatctgcacccttagtagagcaggagcaacacaagcaaatccagtcacaggctgccgaaattagcagcagctccgagctacctatcgcaagaagatcttcacttcataggtttctcgagaagaggaaagatagggcaactgttagagctccataccaagttgtacgtaacaatccgttgttaccatcttcttcgaatactaatggtgaatcatcttctaaggatagcga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="46095" stop="47473"/>
      </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="46395" g_stop="46611" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="217" r_length="217" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="46612" i_stop="46916" i_length="305">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.943" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46917" g_stop="46974" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="218" r_stop="275" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46975" i_stop="47077" i_length="103">
            <donor d_prob="0.991" 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="47078" g_stop="47173" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="276" r_stop="371" r_length="96" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E287447" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>371</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E287447" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46395" e_stop="46611"/>
          <exon e_start="46917" e_stop="46974"/>
          <exon e_start="47078" e_stop="47173"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTCTGTTGCACCACAGCAACAACACCTCCAGATTAAGCCAGACTCTTGCTCTGCTGCACCGCAACAGCACAAGCACAATTCGCCCCCACTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCGAAATTAGCAGCAGCTCCGGTGAGCAAATTACATCCTTCTTTTTCATTTTATATAGCAGTATTTGACTACACACAAAATATATGAAAGGTAGACAGACGTTTGGGGTCTACTTTAATACTCTTCAAACAAGTGGTCTTAAACTGTCATGATGTATAAACAACTACGTTATGTTAAAAGAGTTTCCAATATAAAACATATTTTTTCTTAAACGGACTAAAAAGAATAGGATATAAAATGAAATAAAGCGAGTACTACTTACTCATGTTGCATGATAAAATTTTCACAGATCGGTTCTAATATGCATTATATCTTTGGTTTCTCAGAGCTACCTATCGCAAGAAGATCTTCACTTCATAGGTTTCTCGAGAAGAGGAAAGATAGGTAAGCGGAATTTAAATTTGTGTTTATACCAAAACTTTTTCCAAACAACTTTTGAGGTTTGTTTAGTGTAAAAGAATCTCACTTCTTTTTCTGTCTTATTCAGGGCAACTGTTAGAGCTCCATACCAAGTTGTACGTAACAATCCGTTGTTACCATCTTCTTCGAATACTAATGGTGAATCATCTTCTAAGGATAGCGA</genome_strand>
        <mrna_strand>GATTCTGTTGCACCACAGCAACAACACCTCCAGATTAAGCCAGACTCTTGCTCTGCTGCACCGCAACAGCACAAGCACAATTCGCCCCCACTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCGAAATTAGCAGCAGCTCCG.................................................................................................................................................................................................................................................................................................................AGCTACCTATCGCAAGAAGATCTTCACTTCATAGGTTTCTCGAGAAGAGGAAAGATAG.......................................................................................................GGCAACTGTTAGAGCTCCATACCAAGTTGTACGTAACAATCCGTTGTTACCATCTTCTTCGAATACTAATGGTGAATCATCTTCTAAGGATAGCGA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291671" ref_strand="-" ref_description="SGN-E291671 [cLET-6-I21]">
      <seq>actccatgtttgtagtagtactanaactgatcagcttaagctcggatcagtttcatctgcacccttagtagagcaggagcaacacaagcaaatccagtcacaggctgccgaaattagcagcagctccgagctacctatcgcaagaagatcttcacttcataggtttctcgagaagaggaaagatagggcaactgttagagctccataccaagttgtacgtaacaatccgttgttaccatcttcttcgaatactaatggtgaatcatcttctaaggatagcgaagatcagctcgatctcaatttcaagttatagccagaactccactctcgcagttggaattccataagcttttttttggttgaccaccactgcatgagctagtagtattaatatatatttagatcagtgatttgaagattatttttccagctcagcttagcttacagattatatttcttgtattagatatcgtttattattaccaactgaatattatgacttttttggttgttaaaatagaatgtgtaattaatctttaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="46184" stop="47729"/>
      </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="46484" g_stop="46611" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="128" r_length="128" r_score="0.992"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="46612" i_stop="46916" i_length="305">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.943" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46917" g_stop="46974" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="129" r_stop="186" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46975" i_stop="47077" i_length="103">
            <donor d_prob="0.991" 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="47078" g_stop="47430" g_length="353"/>
          <reference_exon_boundary r_type="cDNA" r_start="187" r_stop="539" r_length="353" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E291671" ref_strand="-">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291671" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="46484" e_stop="46611"/>
          <exon e_start="46917" e_stop="46974"/>
          <exon e_start="47078" e_stop="47430"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCGAAATTAGCAGCAGCTCCGGTGAGCAAATTACATCCTTCTTTTTCATTTTATATAGCAGTATTTGACTACACACAAAATATATGAAAGGTAGACAGACGTTTGGGGTCTACTTTAATACTCTTCAAACAAGTGGTCTTAAACTGTCATGATGTATAAACAACTACGTTATGTTAAAAGAGTTTCCAATATAAAACATATTTTTTCTTAAACGGACTAAAAAGAATAGGATATAAAATGAAATAAAGCGAGTACTACTTACTCATGTTGCATGATAAAATTTTCACAGATCGGTTCTAATATGCATTATATCTTTGGTTTCTCAGAGCTACCTATCGCAAGAAGATCTTCACTTCATAGGTTTCTCGAGAAGAGGAAAGATAGGTAAGCGGAATTTAAATTTGTGTTTATACCAAAACTTTTTCCAAACAACTTTTGAGGTTTGTTTAGTGTAAAAGAATCTCACTTCTTTTTCTGTCTTATTCAGGGCAACTGTTAGAGCTCCATACCAAGTTGTACGTAACAATCCGTTGTTACCATCTTCTTCGAATACTAATGGTGAATCATCTTCTAAGGATAGCGAAGATCAGCTCGATCTCAATTTCAAGTTATAGCCAGAACTCCACTCTCGCAGTTGGAATTCCATAAGCTTTTTTTTGGTTGACCACCACTGCATGAGCTAGTAGTATTAATATATATTTAGATCAGTGATTTGAAGATTATTTTTCCAGCTCAGCTTAGCTTACAGATTATATTTCTTGTATTAGATATCGTTTATTATTACCAACTGAATATTATGACTTTTTTGGTTGTTAAAATAGAATGTGTAATTAATCTTTG</genome_strand>
        <mrna_strand>ACTCCATGTTTGTAGTAGTACTANAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCGAAATTAGCAGCAGCTCCG.................................................................................................................................................................................................................................................................................................................AGCTACCTATCGCAAGAAGATCTTCACTTCATAGGTTTCTCGAGAAGAGGAAAGATAG.......................................................................................................GGCAACTGTTAGAGCTCCATACCAAGTTGTACGTAACAATCCGTTGTTACCATCTTCTTCGAATACTAATGGTGAATCATCTTCTAAGGATAGCGAAGATCAGCTCGATCTCAATTTCAAGTTATAGCCAGAACTCCACTCTCGCAGTTGGAATTCCATAAGCTTTTTTTTGGTTGACCACCACTGCATGAGCTAGTAGTATTAATATATATTTAGATCAGTGATTTGAAGATTATTTTTCCAGCTCAGCTTAGCTTACAGATTATATTTCTTGTATTAGATATCGTTTATTATTACCAACTGAATATTATGACTTTTTTGGTTGTTAAAATAGAATGTGTAATTAATCTTTA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E217283" ref_strand="+" ref_description="SGN-E217283 [cLEL-21-B16](-)">
      <seq>ctccatgtttgtagtagtactaaaactgatcagcttagctcggatcagtttcatctgcacccttagtagagcaggagcaacacaagccaatccagtcacaggctgccgaaattagcagcagctccgagctacctatcgcaagaagatcttcacttcataggtttctcgagaagaggaaagatagggcaactgttagagctccataccaagttgtacgtaacaatccgttgttaccatcttcttcgaatactaatggtgaatcatcttctaaggatagcgaagatcagctcgatctcaatttcaagttatagccagaactccactctcgcagttggaattccataagcttttttttggttgaccaccactgcatgagctagtagtattaatatatatttagatcagtgatttgaagattatttttccagctcagcttagcttacagattatatttcttgtattagatatcgtttattattaccaactgaatattatgacttttttggttgttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="46185" stop="47713"/>
      </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="46485" g_stop="46611" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="126" r_length="126" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="46612" i_stop="46916" i_length="305">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.943" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46917" g_stop="46974" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="127" r_stop="184" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46975" i_stop="47077" i_length="103">
            <donor d_prob="0.991" 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="47078" g_stop="47421" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="185" r_stop="528" r_length="344" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E217283" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>529</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E217283" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46485" e_stop="46611"/>
          <exon e_start="46917" e_stop="46974"/>
          <exon e_start="47078" e_stop="47421"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCGAAATTAGCAGCAGCTCCGGTGAGCAAATTACATCCTTCTTTTTCATTTTATATAGCAGTATTTGACTACACACAAAATATATGAAAGGTAGACAGACGTTTGGGGTCTACTTTAATACTCTTCAAACAAGTGGTCTTAAACTGTCATGATGTATAAACAACTACGTTATGTTAAAAGAGTTTCCAATATAAAACATATTTTTTCTTAAACGGACTAAAAAGAATAGGATATAAAATGAAATAAAGCGAGTACTACTTACTCATGTTGCATGATAAAATTTTCACAGATCGGTTCTAATATGCATTATATCTTTGGTTTCTCAGAGCTACCTATCGCAAGAAGATCTTCACTTCATAGGTTTCTCGAGAAGAGGAAAGATAGGTAAGCGGAATTTAAATTTGTGTTTATACCAAAACTTTTTCCAAACAACTTTTGAGGTTTGTTTAGTGTAAAAGAATCTCACTTCTTTTTCTGTCTTATTCAGGGCAACTGTTAGAGCTCCATACCAAGTTGTACGTAACAATCCGTTGTTACCATCTTCTTCGAATACTAATGGTGAATCATCTTCTAAGGATAGCGAAGATCAGCTCGATCTCAATTTCAAGTTATAGCCAGAACTCCACTCTCGCAGTTGGAATTCCATAAGCTTTTTTTTGGTTGACCACCACTGCATGAGCTAGTAGTATTAATATATATTTAGATCAGTGATTTGAAGATTATTTTTCCAGCTCAGCTTAGCTTACAGATTATATTTCTTGTATTAGATATCGTTTATTATTACCAACTGAATATTATGACTTTTTTGGTTGTTAAAATAGAATGTGTAAT</genome_strand>
        <mrna_strand>CTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTT-AGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCCAATCCAGTCACAGGCTGCCGAAATTAGCAGCAGCTCCG.................................................................................................................................................................................................................................................................................................................AGCTACCTATCGCAAGAAGATCTTCACTTCATAGGTTTCTCGAGAAGAGGAAAGATAG.......................................................................................................GGCAACTGTTAGAGCTCCATACCAAGTTGTACGTAACAATCCGTTGTTACCATCTTCTTCGAATACTAATGGTGAATCATCTTCTAAGGATAGCGAAGATCAGCTCGATCTCAATTTCAAGTTATAGCCAGAACTCCACTCTCGCAGTTGGAATTCCATAAGCTTTTTTTTGGTTGACCACCACTGCATGAGCTAGTAGTATTAATATATATTTAGATCAGTGATTTGAAGATTATTTTTCCAGCTCAGCTTAGCTTACAGATTATATTTCTTGTATTAGATATCGTTTATTATTACCAACTGAATATTATGACTTTTTTGGTTGTTAAAAAAAAAAAAAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E549313" ref_strand="+" ref_description="SGN-E549313 [TUS-69-E7]">
      <seq>taaaaacaagaaggtggagatactggaggcgtgaactctaatctgtatcctacggggctaaaaaatggcaggtgaaccagttgatgtgaatgaatttgaagagctagctaggcaagttcttccaaagatatcctatgacttcttttctggaggagctgaggaccagcacacactcaaagaaaatattgaagcatttcatagaatcataatccagccaagaatacttgttgatgtgagcagaatagacatgtcaactgttatactcagtcacaagacgtcagctcctataatgattgccccaactatgatgcacaaatttgcacaccctgaaggttgtactaaatcaattactccattcatttcaatttgtttgtgtggttttgacttgacacaacatttaagaaagtaaagaagatttttgtgtcttattatcttaaactaaagatatgtagaatgtaccaaaagatgtttaaccttgtgcttttaaacatgtcacgtgcaaagatagacttaaagacttctcaaataagaaaagaggaaccgactaaaaaggaaagtaagagaaacaaattggaacggagaatatctccttggtcacttatggttaactgattctacaaacctgttatatttatgccaggagaaattgcaacagctagaggtgctgcatcgtgtaatgttatcgcggtaatattttctggaaaaaaaagacagattttatcgaattctggtgtctggatgctaaattctcttggataccgggattgtcatttacgttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="64733" stop="63186"/>
      </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="64434" g_stop="64379" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="0.982"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64378" i_stop="64279" i_length="100">
            <donor d_prob="0.975" 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="64278" g_stop="64128" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="207" r_length="151" r_score="0.987"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="64127" i_stop="64050" i_length="78">
            <donor d_prob="0.992" d_score="0.98"/>
            <acceptor a_prob="0.862" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="64049" g_stop="63484" g_length="566"/>
          <reference_exon_boundary r_type="cDNA" r_start="208" r_stop="779" r_length="572" r_score="0.915"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E549313" ref_strand="+">
        <total_alignment_score>0.934</total_alignment_score>
        <cumulative_length_of_scored_exons>773</cumulative_length_of_scored_exons>
        <coverage percentage="0.992" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E549313" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64434" e_stop="64379"/>
          <exon e_start="64278" e_stop="64128"/>
          <exon e_start="64049" e_stop="63484"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAAACAAGAAGGTGGAGATACTGGAGGCGTGAACTCTAATCTGTATCCTACGGGGTACTAATATCTATACTTCAAAACCTCAAATTCTTCCCTCAAAACAAGACCAAAATTCTACAACAAGAACAATTTAACATATGAATGCTCTTGCGTGCAGGCTAATAAATGGCAGGTGAACCAGTTGATGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAACAAAATATTGAAGCATTTCATAGAATCATGTAAGTTTGTAATTTCTTGCTCTTGAATTGTCCATGGACAGATATCTATCACTATTAACTAATTTTCAAAAAACTCAGAATCCAGCCAACAATACTTGTTGATGTGAGCAGAATAGACATGTCAACTGTTATACTCAGTCACAAGACGTCAGCTCCTATAATGATTGCCCCAACTATGATGCACAAATTTGCACACCCTGAAGGTTGTACTAAATCAATTACTCAATTCATTTCAATTTGTTTGTCTGATTTTGACTTGACACAACATTTAAGAAGTAAAAGAAGATTTTTGTATCTTATTATCTTAAACTAAAGATATGTAGACTGTACC---A-ATG----ATCTTATGCTTTTAAACATGTCAGGTGGAAAGATAGACTTAAAGACTTCTCAAAGAAGGAAAGAGGAACCGACCAAAAAGGAAAGTAAGAGAAACAAATTGAAACGGGAAGTATCTCCTTAGTCGCTTATGGTTAACTGATTCTACAAACCTGTTATATTTATGCCAGGAGAAATTGCAACAGCTAGAGGCGCTGCATCATGTAATGTTATCGCGGTAATATTTTCTGAAAAAAAAAGAACAAATTTTATCGAATTCTAGTGTCTGGATGCTAAAATTCTCTTGGATACAGGGATTGTCATTTACGTGC</genome_strand>
        <mrna_strand>TAAAAACAAGAAGGTGGAGATACTGGAGGCGTGAACTCTAATCTGTATCCTACGGG....................................................................................................GCTAAAAAATGGCAGGTGAACCAGTTGATGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAAGAAAATATTGAAGCATTTCATAGAATCAT..............................................................................AATCCAGCCAAGAATACTTGTTGATGTGAGCAGAATAGACATGTCAACTGTTATACTCAGTCACAAGACGTCAGCTCCTATAATGATTGCCCCAACTATGATGCACAAATTTGCACACCCTGAAGGTTGTACTAAATCAATTACTCCATTCATTTCAATTTGTTTGTGTGGTTTTGACTTGACACAACATTTAAGAAAGTAAAGAAGATTTTTGTGTCTTATTATCTTAAACTAAAGATATGTAGAATGTACCAAAAGATGTTTAACCTTGTGCTTTTAAACATGTCACGTGCAAAGATAGACTTAAAGACTTCTCAAATAAGAAAAGAGGAACCGACTAAAAAGGAAAGTAAGAGAAACAAATTGGAACGGAGAATATCTCCTTGGTCACTTATGGTTAACTGATTCTACAAACCTGTTATATTTATGCCAGGAGAAATTGCAACAGCTAGAGGTGCTGCATCGTGTAATGTTATCGCGGTAATATTTTCTGGAAAAAAAAG-ACAGATTTTATCGAATTCTGGTGTCTGGATGCT-AAATTCTCTTGGATACCGGGATTGTCATTTACGTTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E546651" ref_strand="+" ref_description="SGN-E546651 [TUS-70-C1]">
      <seq>cttatattcttgcctcaaaacctccgattctgctctcaaaagaaccaaaattcagtgctttaacatataaatgcataaatggcaggtgaaccagttaacataaatgaatttgaagagctagctaagcaagttcttccaaagatatcctatgacttcttttctggaggagctgaggaccagcacacactcagagaaaatattgaagcatttcgtagaattactatccggccaagaatactagttgatgtgagcaaaattgacatgtcaactattatactcggtcacaagacatcagctccaattatagttgccccaacttcgtcgcatcaattggcacatcctgaaggagaagttgcaacagctagaggcgctgcagcatgtaatgttatcatgggagtggcatttacgtcaacatgcacaatggaggaggttgcttcaagctgcaaggctgttcgcttcattcagactttcgctttcaagagagagataacagcaaatatggtacagagagctgaacgcaatgggttcagggctataatcctcactgctgatactcccaggctaggtagaaaggaggcagatataaagaataagatgattgcacctcctttcaagaactttgaaggtcttatatcaactgtagctgtttctgacaaaggctcaaatgttgaagcttacgctgcagaaactcttgatccttcgttttgctggaaggatatagcatggttaaatcaattaccaagttgccaattctgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="64396" stop="66922"/>
      </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="64696" g_stop="64916" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="221" r_length="221" r_score="0.968"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64917" i_stop="64984" i_length="68">
            <donor d_prob="0.996" d_score="0.94"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64985" g_stop="65109" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="222" r_stop="346" r_length="125" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="65110" i_stop="65203" i_length="94">
            <donor d_prob="0.371" d_score="1.00"/>
            <acceptor a_prob="0.424" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="65204" g_stop="65250" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="347" r_stop="393" r_length="47" r_score="0.979"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="65251" i_stop="65580" i_length="330">
            <donor d_prob="0.982" d_score="0.98"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="65581" g_stop="65658" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="471" r_length="78" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="65659" i_stop="65752" i_length="94">
            <donor d_prob="0.953" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="65753" g_stop="65874" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="593" r_length="122" r_score="0.992"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="65875" i_stop="66036" i_length="162">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.470" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="66037" g_stop="66094" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="594" r_stop="651" r_length="58" r_score="0.983"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="66095" i_stop="66325" i_length="231">
            <donor d_prob="0.852" d_score="0.98"/>
            <acceptor a_prob="0.924" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="66326" g_stop="66388" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="652" r_stop="714" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="66389" i_stop="66578" i_length="190">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.970" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="66579" g_stop="66622" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="715" r_stop="757" r_length="43" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E546651" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>758</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E546651" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64696" e_stop="64916"/>
          <exon e_start="64985" e_stop="65109"/>
          <exon e_start="65204" e_stop="65250"/>
          <exon e_start="65581" e_stop="65658"/>
          <exon e_start="65753" e_stop="65874"/>
          <exon e_start="66037" e_stop="66094"/>
          <exon e_start="66326" e_stop="66388"/>
          <exon e_start="66579" e_stop="66622"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGATTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAACAAAATATTGAAGCATTTCGTAGAATCACGTAAGTTTGTAACTTCTTGCTCTTGATTAGGTAATAGAGATCACAGCACTAACCTTTTAGAAACTCAGTATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGATATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAGGTTCGGATAAATCAATTAGTAAAACCTAGTATGTTAGCTTAAGGTACCCCCACCGCGTAGTTCTTACTCCAAAAAGCTGTTGTATTTATGCCAGGAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATGGTAATGGTTTTGGTTTGGTAAAAAACATACCTAAAGTATCTACTTTGAGTTCCATACTTGAACTACCATGTGTGCAAGTTTACCAACTATTTAACAAAAAACAATTCAACTATCAGGTAGGAATATGGAACATTTGATAGTTGAGGTATCTTTTGATACATAGTTGGTGATAGTTTAAGTAGGAAACTCACACACATAATAGTTCAGTTATTGAACTCAAAAAAGCAGGATACTTGTAGCTATATTTTTGACCCTTCCGTCTAATATTTTCTAAAAAAACAGATCAAGTTCGAATTCTGGTATGTGAATGCTAAATTCTCTTGGATGTAGGGAGTGGCATTTACGTCAACATGCACAATGGAGGAGGTTGCTTCAAGCTGCAAGGCTGTTCGCTTCATTCAGACTTTCGTAACTTACTATCCCCAACTCTCACATCCCGGTACATATTTACTGATTTTTGTGTTCTACAAAAGATAGGTAATTTTTTTTTCTTTGAAAATAGGCTTTCAAGAGAGAGATAACAGCAAATATGGTACAGAGAGCTGAACGCAATGGGTTCAGGGCTATAATACTCACTGCTGATACTCCCAGGCTAGGTAGAAAGGAGGCAGATATAAAGAATAAGTAAGTTGTATATACAATTGTTGTCATTCAAGAATCAACTCTAGCTAAAATCCTTTTCATGATTCATCTTCACTCTAATCCGGAATAGTCGGTTTCATCATTCAGTACTTGAAAAATATATATAATTTTGGTAATCTATGTTGATAAAGAGAACAAATGCAGGATGATTGCACCTCCTTTCAAGAACTTTGAAGGTCTTATATCTACTGTAGCTGTTTCTGTAAGTAAAAGCAATTATTAGACATATTGACAACTTAAGCTGAAAAGCAAAACTTGAAACTCCTCAAAGAAACTTAGTTTGCAGGACTACAATGTGTCAAATTAGCTGGTTCCTTCTACTATAAGCATTAGTTTTCTTTTTTATTTTGTTATATAACACAATTTCCATCGATATATCTACTTGAAAAATACTGTACACTAGGCTTACTAATCCACGGATAAAATTCTGCAGGACAAAGGCTCAAATGTTGAAGCTTACGCTGCAGAAACTCTTGATCCTTCGTTTTGCTGGAAGGTACAAAATTTAAAAGTTTAGCATATGTGTTCCTTAATACCACATGAAATGATCATATGATGAAATATATTCTTGGTCCTTGAATGCAAATTATATTGAGGCTGTCAACATTTGTTAAAAGTACATTACGGAAGGAGCATTTCTAGTTTCATAGTCTTCTGTAACCTCACAATCTCCAAAAACTTTGCAGGATATAGCATGGTTAAAATCAATTACCAAGTTGCCAATTCTGAT</genome_strand>
        <mrna_strand>CTTATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGCTTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACATAAATGAATTTGAAGAGCTAGCTAAGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAGAGAAAATATTGAAGCATTTCGTAGAATTAC....................................................................TATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGACATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAG..............................................................................................GAGAAGTTGCAACAGCTAGAGGCGCTGCAGCATGTAATGTTATCATG..........................................................................................................................................................................................................................................................................................................................................GGAGTGGCATTTACGTCAACATGCACAATGGAGGAGGTTGCTTCAAGCTGCAAGGCTGTTCGCTTCATTCAGACTTTC..............................................................................................GCTTTCAAGAGAGAGATAACAGCAAATATGGTACAGAGAGCTGAACGCAATGGGTTCAGGGCTATAATCCTCACTGCTGATACTCCCAGGCTAGGTAGAAAGGAGGCAGATATAAAGAATAA..................................................................................................................................................................GATGATTGCACCTCCTTTCAAGAACTTTGAAGGTCTTATATCAACTGTAGCTGTTTCT.......................................................................................................................................................................................................................................GACAAAGGCTCAAATGTTGAAGCTTACGCTGCAGAAACTCTTGATCCTTCGTTTTGCTGGAAG..............................................................................................................................................................................................GATATAGCATGGTT-AAATCAATTACCAAGTTGCCAATTCTGAT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E546610" ref_strand="+" ref_description="SGN-E546610 [TUS-70-B1]">
      <seq>cttatattcttgcctcaaaacctccgattctgctctcaaaagaaccaaaattcagtgctttaacatataaatgcataaatggcaggtgaaccagttaacataaatgaatttgaagagctagctaagcaagttcttccaaagatatcctatgacttcttttctggaggagctgaggaccagcacacactcagagaaaatattgaagcatttcgtagaattactatccggccaagaatactagttgatgtgagcaaaattgacatgtcaactattatactcggtcacaagacatcagctccaattatagttgccccaacttcgtcgcatcaattggcacatcctgaaggagaagttgcaacagctagaggcgctgcagcatgtaatgttatcatgggagtggcatttacgtcaacatgcacaatggaggaggttgcttcaagctgcaaggctgttcgcttcattcagactttcgctttcaagagagagataacagcaaatatggtacagagagctgaacgcaatgggttcagggctataatcctcactgctgatactcccaggctaggtagaaaggaggcagatataaagaataagatgattgcacctcctttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="64396" stop="66355"/>
      </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="64696" g_stop="64916" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="221" r_length="221" r_score="0.968"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64917" i_stop="64984" i_length="68">
            <donor d_prob="0.996" d_score="0.94"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64985" g_stop="65109" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="222" r_stop="346" r_length="125" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="65110" i_stop="65203" i_length="94">
            <donor d_prob="0.371" d_score="1.00"/>
            <acceptor a_prob="0.424" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="65204" g_stop="65250" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="347" r_stop="393" r_length="47" r_score="0.979"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="65251" i_stop="65580" i_length="330">
            <donor d_prob="0.982" d_score="0.98"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="65581" g_stop="65658" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="471" r_length="78" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="65659" i_stop="65752" i_length="94">
            <donor d_prob="0.953" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="65753" g_stop="65874" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="593" r_length="122" r_score="0.992"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="65875" i_stop="66036" i_length="162">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.470" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="66037" g_stop="66055" g_length="19"/>
          <reference_exon_boundary r_type="cDNA" r_start="594" r_stop="612" r_length="19" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E546610" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>612</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E546610" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64696" e_stop="64916"/>
          <exon e_start="64985" e_stop="65109"/>
          <exon e_start="65204" e_stop="65250"/>
          <exon e_start="65581" e_stop="65658"/>
          <exon e_start="65753" e_stop="65874"/>
          <exon e_start="66037" e_stop="66055"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGATTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAACAAAATATTGAAGCATTTCGTAGAATCACGTAAGTTTGTAACTTCTTGCTCTTGATTAGGTAATAGAGATCACAGCACTAACCTTTTAGAAACTCAGTATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGATATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAGGTTCGGATAAATCAATTAGTAAAACCTAGTATGTTAGCTTAAGGTACCCCCACCGCGTAGTTCTTACTCCAAAAAGCTGTTGTATTTATGCCAGGAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATGGTAATGGTTTTGGTTTGGTAAAAAACATACCTAAAGTATCTACTTTGAGTTCCATACTTGAACTACCATGTGTGCAAGTTTACCAACTATTTAACAAAAAACAATTCAACTATCAGGTAGGAATATGGAACATTTGATAGTTGAGGTATCTTTTGATACATAGTTGGTGATAGTTTAAGTAGGAAACTCACACACATAATAGTTCAGTTATTGAACTCAAAAAAGCAGGATACTTGTAGCTATATTTTTGACCCTTCCGTCTAATATTTTCTAAAAAAACAGATCAAGTTCGAATTCTGGTATGTGAATGCTAAATTCTCTTGGATGTAGGGAGTGGCATTTACGTCAACATGCACAATGGAGGAGGTTGCTTCAAGCTGCAAGGCTGTTCGCTTCATTCAGACTTTCGTAACTTACTATCCCCAACTCTCACATCCCGGTACATATTTACTGATTTTTGTGTTCTACAAAAGATAGGTAATTTTTTTTTCTTTGAAAATAGGCTTTCAAGAGAGAGATAACAGCAAATATGGTACAGAGAGCTGAACGCAATGGGTTCAGGGCTATAATACTCACTGCTGATACTCCCAGGCTAGGTAGAAAGGAGGCAGATATAAAGAATAAGTAAGTTGTATATACAATTGTTGTCATTCAAGAATCAACTCTAGCTAAAATCCTTTTCATGATTCATCTTCACTCTAATCCGGAATAGTCGGTTTCATCATTCAGTACTTGAAAAATATATATAATTTTGGTAATCTATGTTGATAAAGAGAACAAATGCAGGATGATTGCACCTCCTTTC</genome_strand>
        <mrna_strand>CTTATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGCTTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACATAAATGAATTTGAAGAGCTAGCTAAGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAGAGAAAATATTGAAGCATTTCGTAGAATTAC....................................................................TATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGACATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAG..............................................................................................GAGAAGTTGCAACAGCTAGAGGCGCTGCAGCATGTAATGTTATCATG..........................................................................................................................................................................................................................................................................................................................................GGAGTGGCATTTACGTCAACATGCACAATGGAGGAGGTTGCTTCAAGCTGCAAGGCTGTTCGCTTCATTCAGACTTTC..............................................................................................GCTTTCAAGAGAGAGATAACAGCAAATATGGTACAGAGAGCTGAACGCAATGGGTTCAGGGCTATAATCCTCACTGCTGATACTCCCAGGCTAGGTAGAAAGGAGGCAGATATAAAGAATAA..................................................................................................................................................................GATGATTGCACCTCCTTTC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E359413" ref_strand="+" ref_description="SGN-E359413 [cLHT-31-O9]">
      <seq>ttatattcttgcctcaaaacctccgattctgctctcaaaagaaccaaaattcagtgctttaacatataaatgcataaatggcaggtgaaccagttaacataaatgaatttgaagagctagctaagcaagttcttccaaagatatcctatgacttcttttctggaggagctgaggaccagcacacactcagagaaaatattgaagcatttcgtagaattactatccggccaagaatactagttgatgtgagcaaaattgacatgtcaactattatactcggtcacaagacatcagctccaattatagttgccccaacttcgtcgcatcaattggcacatcctgaaggagaagttgcaacagctagaggcgctgcagcatgtaatgttatcatgggagtggcatttacgtcaacatgcacaatggaggaggttgcttcaagctgcaaggctgttcgcttcattcagactttcgctttcaagagagagataacagcaaatatggtacagagagctgaacgcaatgggttcagggctataatcctcactgctgatactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="64397" stop="66137"/>
      </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="64697" g_stop="64916" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="220" r_length="220" r_score="0.968"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64917" i_stop="64984" i_length="68">
            <donor d_prob="0.996" d_score="0.94"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64985" g_stop="65109" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="345" r_length="125" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="65110" i_stop="65203" i_length="94">
            <donor d_prob="0.371" d_score="1.00"/>
            <acceptor a_prob="0.424" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="65204" g_stop="65250" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="346" r_stop="392" r_length="47" r_score="0.979"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="65251" i_stop="65580" i_length="330">
            <donor d_prob="0.982" d_score="0.98"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="65581" g_stop="65658" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="393" r_stop="470" r_length="78" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="65659" i_stop="65752" i_length="94">
            <donor d_prob="0.953" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="65753" g_stop="65837" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="471" r_stop="555" r_length="85" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E359413" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>555</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E359413" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64697" e_stop="64916"/>
          <exon e_start="64985" e_stop="65109"/>
          <exon e_start="65204" e_stop="65250"/>
          <exon e_start="65581" e_stop="65658"/>
          <exon e_start="65753" e_stop="65837"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGATTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAACAAAATATTGAAGCATTTCGTAGAATCACGTAAGTTTGTAACTTCTTGCTCTTGATTAGGTAATAGAGATCACAGCACTAACCTTTTAGAAACTCAGTATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGATATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAGGTTCGGATAAATCAATTAGTAAAACCTAGTATGTTAGCTTAAGGTACCCCCACCGCGTAGTTCTTACTCCAAAAAGCTGTTGTATTTATGCCAGGAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATGGTAATGGTTTTGGTTTGGTAAAAAACATACCTAAAGTATCTACTTTGAGTTCCATACTTGAACTACCATGTGTGCAAGTTTACCAACTATTTAACAAAAAACAATTCAACTATCAGGTAGGAATATGGAACATTTGATAGTTGAGGTATCTTTTGATACATAGTTGGTGATAGTTTAAGTAGGAAACTCACACACATAATAGTTCAGTTATTGAACTCAAAAAAGCAGGATACTTGTAGCTATATTTTTGACCCTTCCGTCTAATATTTTCTAAAAAAACAGATCAAGTTCGAATTCTGGTATGTGAATGCTAAATTCTCTTGGATGTAGGGAGTGGCATTTACGTCAACATGCACAATGGAGGAGGTTGCTTCAAGCTGCAAGGCTGTTCGCTTCATTCAGACTTTCGTAACTTACTATCCCCAACTCTCACATCCCGGTACATATTTACTGATTTTTGTGTTCTACAAAAGATAGGTAATTTTTTTTTCTTTGAAAATAGGCTTTCAAGAGAGAGATAACAGCAAATATGGTACAGAGAGCTGAACGCAATGGGTTCAGGGCTATAATACTCACTGCTGATACTC</genome_strand>
        <mrna_strand>TTATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGCTTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACATAAATGAATTTGAAGAGCTAGCTAAGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAGAGAAAATATTGAAGCATTTCGTAGAATTAC....................................................................TATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGACATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAG..............................................................................................GAGAAGTTGCAACAGCTAGAGGCGCTGCAGCATGTAATGTTATCATG..........................................................................................................................................................................................................................................................................................................................................GGAGTGGCATTTACGTCAACATGCACAATGGAGGAGGTTGCTTCAAGCTGCAAGGCTGTTCGCTTCATTCAGACTTTC..............................................................................................GCTTTCAAGAGAGAGATAACAGCAAATATGGTACAGAGAGCTGAACGCAATGGGTTCAGGGCTATAATCCTCACTGCTGATACTC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E359539" ref_strand="+" ref_description="SGN-E359539 [cLHT-31-P20]">
      <seq>ttatattcttgcctcaaaacctccgattctgctctcaaaagaaccaaaattcagtgctttaacatataaatgcataaatggcaggtgaaccagttaacataaatgaatttgaagagctagctaagcaagttcttccaaagatatcctatgacttcttttctggaggagctgaggaccagcacacactcagagaaaatattgaagcatttcgtagaattactatccggccaagaatactagttgatgtgagcaaaattgacatgtcaactattatactcggtcacaagacatcagctccaattatagttgccccaacttcgtcgcatcaattggcacatcctgaaggagaagttgcaacagctagaggcgctgcagcatgtaatgttatcatgggagtggcatttacgtcaacatgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="64397" stop="65905"/>
      </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="64697" g_stop="64916" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="220" r_length="220" r_score="0.968"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64917" i_stop="64984" i_length="68">
            <donor d_prob="0.996" d_score="0.94"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64985" g_stop="65109" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="345" r_length="125" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="65110" i_stop="65203" i_length="94">
            <donor d_prob="0.371" d_score="1.00"/>
            <acceptor a_prob="0.424" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="65204" g_stop="65250" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="346" r_stop="392" r_length="47" r_score="0.979"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="65251" i_stop="65580" i_length="330">
            <donor d_prob="0.982" d_score="0.98"/>
            <acceptor a_prob="0.989" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="65581" g_stop="65605" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="393" r_stop="417" r_length="25" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E359539" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>417</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E359539" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64697" e_stop="64916"/>
          <exon e_start="64985" e_stop="65109"/>
          <exon e_start="65204" e_stop="65250"/>
          <exon e_start="65581" e_stop="65605"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGATTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAACAAAATATTGAAGCATTTCGTAGAATCACGTAAGTTTGTAACTTCTTGCTCTTGATTAGGTAATAGAGATCACAGCACTAACCTTTTAGAAACTCAGTATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGATATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAGGTTCGGATAAATCAATTAGTAAAACCTAGTATGTTAGCTTAAGGTACCCCCACCGCGTAGTTCTTACTCCAAAAAGCTGTTGTATTTATGCCAGGAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATGGTAATGGTTTTGGTTTGGTAAAAAACATACCTAAAGTATCTACTTTGAGTTCCATACTTGAACTACCATGTGTGCAAGTTTACCAACTATTTAACAAAAAACAATTCAACTATCAGGTAGGAATATGGAACATTTGATAGTTGAGGTATCTTTTGATACATAGTTGGTGATAGTTTAAGTAGGAAACTCACACACATAATAGTTCAGTTATTGAACTCAAAAAAGCAGGATACTTGTAGCTATATTTTTGACCCTTCCGTCTAATATTTTCTAAAAAAACAGATCAAGTTCGAATTCTGGTATGTGAATGCTAAATTCTCTTGGATGTAGGGAGTGGCATTTACGTCAACATGCA</genome_strand>
        <mrna_strand>TTATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGCTTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACATAAATGAATTTGAAGAGCTAGCTAAGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAGAGAAAATATTGAAGCATTTCGTAGAATTAC....................................................................TATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGACATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAG..............................................................................................GAGAAGTTGCAACAGCTAGAGGCGCTGCAGCATGTAATGTTATCATG..........................................................................................................................................................................................................................................................................................................................................GGAGTGGCATTTACGTCAACATGCA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731175" ref_strand="+" ref_description="SGN-E731175 [LA26BE02]">
      <seq>atattcttgcctcaaaacctccgattctgctctcaaaagaaccaaaattcagtgatttaacatataaatgcataaatggcaggtgaaccagttaacgtgaatgaatttgaagagctagctaggcaagttcttccaaagatatcctatgacttcttttctggaggagctgaggaccagcacacactcaaacaaaatattgaagcatttcgtagaatcactatccggccaagaatactagttgatgtgagcaaaattgatatgtcaactattatactcggtcacaagacatcagctccaattatagttgccccaacttcgtcgcatcaattggcacatcctgaaggagaagttgcaacagctagaggtgctgcagcatgtaatgttatcatgggagtggcatttacgtcaacatgcacaatggaggaggttgcttcaagctgcaaggctgttcgcttcattcagactttcgctttcaagagagagataacagcaaatatggtacagagagctgaacgcaatgggttcagggctataatactcactgctgatactcccaggctaggtagaaaggaggcagatataaagaataagatgattgcacctcctttcaagaactttgaaggtcttatatctactgtagctgtttctgacaaaggctcaaatgttgaagcttacgctgcagaaactcttgatccttcgttttgctggaaggata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="64399" stop="66691"/>
      </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="64699" g_stop="64916" g_length="218"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="218" r_length="218" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64917" i_stop="64984" i_length="68">
            <donor d_prob="0.996" 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="64985" g_stop="65109" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="219" r_stop="343" r_length="125" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="65110" i_stop="65203" i_length="94">
            <donor d_prob="0.371" d_score="1.00"/>
            <acceptor a_prob="0.424" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="65204" g_stop="65250" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="344" r_stop="390" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="65251" i_stop="65580" i_length="330">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="65581" g_stop="65658" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="391" r_stop="468" r_length="78" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="65659" i_stop="65752" i_length="94">
            <donor d_prob="0.953" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="65753" g_stop="65874" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="469" r_stop="590" r_length="122" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="65875" i_stop="66036" i_length="162">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.470" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="66037" g_stop="66094" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="591" r_stop="648" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="66095" i_stop="66325" i_length="231">
            <donor d_prob="0.852" d_score="1.00"/>
            <acceptor a_prob="0.924" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="66326" g_stop="66388" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="649" r_stop="711" r_length="63" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E731175" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>711</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731175" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64699" e_stop="64916"/>
          <exon e_start="64985" e_stop="65109"/>
          <exon e_start="65204" e_stop="65250"/>
          <exon e_start="65581" e_stop="65658"/>
          <exon e_start="65753" e_stop="65874"/>
          <exon e_start="66037" e_stop="66094"/>
          <exon e_start="66326" e_stop="66388"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGATTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAACAAAATATTGAAGCATTTCGTAGAATCACGTAAGTTTGTAACTTCTTGCTCTTGATTAGGTAATAGAGATCACAGCACTAACCTTTTAGAAACTCAGTATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGATATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAGGTTCGGATAAATCAATTAGTAAAACCTAGTATGTTAGCTTAAGGTACCCCCACCGCGTAGTTCTTACTCCAAAAAGCTGTTGTATTTATGCCAGGAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATGGTAATGGTTTTGGTTTGGTAAAAAACATACCTAAAGTATCTACTTTGAGTTCCATACTTGAACTACCATGTGTGCAAGTTTACCAACTATTTAACAAAAAACAATTCAACTATCAGGTAGGAATATGGAACATTTGATAGTTGAGGTATCTTTTGATACATAGTTGGTGATAGTTTAAGTAGGAAACTCACACACATAATAGTTCAGTTATTGAACTCAAAAAAGCAGGATACTTGTAGCTATATTTTTGACCCTTCCGTCTAATATTTTCTAAAAAAACAGATCAAGTTCGAATTCTGGTATGTGAATGCTAAATTCTCTTGGATGTAGGGAGTGGCATTTACGTCAACATGCACAATGGAGGAGGTTGCTTCAAGCTGCAAGGCTGTTCGCTTCATTCAGACTTTCGTAACTTACTATCCCCAACTCTCACATCCCGGTACATATTTACTGATTTTTGTGTTCTACAAAAGATAGGTAATTTTTTTTTCTTTGAAAATAGGCTTTCAAGAGAGAGATAACAGCAAATATGGTACAGAGAGCTGAACGCAATGGGTTCAGGGCTATAATACTCACTGCTGATACTCCCAGGCTAGGTAGAAAGGAGGCAGATATAAAGAATAAGTAAGTTGTATATACAATTGTTGTCATTCAAGAATCAACTCTAGCTAAAATCCTTTTCATGATTCATCTTCACTCTAATCCGGAATAGTCGGTTTCATCATTCAGTACTTGAAAAATATATATAATTTTGGTAATCTATGTTGATAAAGAGAACAAATGCAGGATGATTGCACCTCCTTTCAAGAACTTTGAAGGTCTTATATCTACTGTAGCTGTTTCTGTAAGTAAAAGCAATTATTAGACATATTGACAACTTAAGCTGAAAAGCAAAACTTGAAACTCCTCAAAGAAACTTAGTTTGCAGGACTACAATGTGTCAAATTAGCTGGTTCCTTCTACTATAAGCATTAGTTTTCTTTTTTATTTTGTTATATAACACAATTTCCATCGATATATCTACTTGAAAAATACTGTACACTAGGCTTACTAATCCACGGATAAAATTCTGCAGGACAAAGGCTCAAATGTTGAAGCTTACGCTGCAGAAACTCTTGATCCTTCGTTTTGCTGGAAG</genome_strand>
        <mrna_strand>ATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGATTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAACAAAATATTGAAGCATTTCGTAGAATCAC....................................................................TATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGATATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAG..............................................................................................GAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATG..........................................................................................................................................................................................................................................................................................................................................GGAGTGGCATTTACGTCAACATGCACAATGGAGGAGGTTGCTTCAAGCTGCAAGGCTGTTCGCTTCATTCAGACTTTC..............................................................................................GCTTTCAAGAGAGAGATAACAGCAAATATGGTACAGAGAGCTGAACGCAATGGGTTCAGGGCTATAATACTCACTGCTGATACTCCCAGGCTAGGTAGAAAGGAGGCAGATATAAAGAATAA..................................................................................................................................................................GATGATTGCACCTCCTTTCAAGAACTTTGAAGGTCTTATATCTACTGTAGCTGTTTCT.......................................................................................................................................................................................................................................GACAAAGGCTCAAATGTTGAAGCTTACGCTGCAGAAACTCTTGATCCTTCGTTTTGCTGGAAG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E546609" ref_strand="+" ref_description="SGN-E546609 [TUS-70-B1](-)">
      <seq>actggtgaagatgcaccccaaagcaatgtaagcaggagttgcaggaataatcgtctctaaccatggagctcggcagctggattacactccagctactatttctgttcttgaagaggtggtccatgatgttcaaggtgaagttccagttcttttcgatgggggaattaggcgaggaactgacatattcaaggcgttagcactaggcgcaaaagctgttctgattggtcgaccagtcatctatggcctagctgctaagggggagaccggggttaaacaagttatagaaatgctcaagaatgaattggagcagaccatggctcttgctggctgccgcactgtggatgacattaccagaagccatgttaatacagagaccgaaaggatcgtatgtaggatgtagtttaatcctatgttcctctaaataaacggcttattagcgctaaactctataatcatgtcacgtcttgctttctaataatcctcatgtgtagtagcatttctgctcctctccaataactaaatccttgtataggattgtgataatttccttatggtaactgcagtggcctagccacatacaataaaggttcatccgttgaacacctttaaaacaaaaaaaggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="66495" stop="67859"/>
      </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="66636" g_stop="66648" g_length="13"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="13" r_length="13" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="66649" i_stop="66791" i_length="143">
            <donor d_prob="0.993" d_score="0.00"/>
            <acceptor a_prob="0.976" a_score="0.88"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66792" g_stop="66892" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="14" r_stop="115" r_length="102" r_score="0.931"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="66893" i_stop="66982" i_length="90">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.997" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="66983" g_stop="67087" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="116" r_stop="220" r_length="105" r_score="0.952"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67088" i_stop="67171" i_length="84">
            <donor d_prob="0.972" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67172" g_stop="67566" g_length="395"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="616" r_length="396" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E546609" ref_strand="+">
        <total_alignment_score>0.952</total_alignment_score>
        <cumulative_length_of_scored_exons>614</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E546609" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="66636" e_stop="66648"/>
          <exon e_start="66792" e_stop="66892"/>
          <exon e_start="66983" e_stop="67087"/>
          <exon e_start="67172" e_stop="67566"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGGTGAAGATGGTAATAATTTTACCTTATGTCAACAGAAACTCTAATCAGCTCTATATGATTTGACAAATATACACTATAAACTTGATTCTGCAACTAAGTCTCACCAATTGAGCATTTCTTCCAAAGAATTTTTTTCATACAATTCTTTGCAGCA-ACCAAAGCAATTGAAGCAGGAGTTGCAGGAATAATTGTCTCTAACCATGGAGCTCGGCAGCTGGATTACACTCCAGCTACTATTTCTGCTCTTGAAGAGGTGATTTTCTTCCTTACATGTTTGATGTCCTCTTTTTAGCTAGTGTATTGGCTTCCATATATTCCTTCCTGAATGTCCAAATGGTTTCAGGTGGTCCATGCTGTTCAAGTTAAAGTTCCAGTTCTTTTCGATGGAGGAATTAGGCGAGGAACTGACATATTCAAGGCGTTAGCACTAGGCGCTAAAGCTGTTCTGGTGAACTTAATGATTTACAGAAATGTATTTAGCTTATATATGCTAAGAGTGTATTGAAATTAACTTAATGTTTAAACTCTACAGATTGGTCGACCAGTCATCTACGGCCTAGCTGCTAAGGGGGAGACCGGGGTAAAACAAGTTATAGAAATGCTCAAGAATGAATTGGAGCAGACCATGGCTCTTGCTGGCTGCCGCACTGTGGATGACATTACCAGAAGCCATGTTAATACAGAGACCGAAAGGATGGAATGTAGGATGTAGTTTAATCCTATGTTCCTCTAAATAAACGGCTTATTAGCGCTAAACTCCATAATCATGTCACGTCTTGCTTTCTAATAATCCTC-TGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</genome_strand>
        <mrna_strand>ACTGGTGAAGATG...............................................................................................................................................CACCCCAAAGCAATGTAAGCAGGAGTTGCAGGAATAATCGTCTCTAACCATGGAGCTCGGCAGCTGGATTACACTCCAGCTACTATTTCTGTTCTTGAAGAG..........................................................................................GTGGTCCATGATGTTCAAGGTGAAGTTCCAGTTCTTTTCGATGGGGGAATTAGGCGAGGAACTGACATATTCAAGGCGTTAGCACTAGGCGCAAAAGCTGTTCTG....................................................................................ATTGGTCGACCAGTCATCTATGGCCTAGCTGCTAAGGGGGAGACCGGGGTTAAACAAGTTATAGAAATGCTCAAGAATGAATTGGAGCAGACCATGGCTCTTGCTGGCTGCCGCACTGTGGATGACATTACCAGAAGCCATGTTAATACAGAGACCGAAAGGATCGTATGTAGGATGTAGTTTAATCCTATGTTCCTCTAAATAAACGGCTTATTAGCGCTAAACTCTATAATCATGTCACGTCTTGCTTTCTAATAATCCTCATGTGTAGTAGCATTTCTGCTCCTCTCCAATAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTAACTGCAGTGGCCTAGCCACATACAATAAAGGTTCATCCGTTGAACACCTTTAAAACAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E218879" ref_strand="+" ref_description="SGN-E218879 [cLEL-18-G23](-)">
      <seq>ggcaccaggtcacgtcatgctttctaaataatcctctgtgtagtagcatttctgctcttctccactaactaaatccttgtataggaatgtgataatttccttatggttactgcagtggcctagccacataaaataaaggttcatccattgaacacatttcatcgaaaaaaaaagaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67103" stop="67866"/>
      </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="67400" g_stop="67566" g_length="167"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="168" r_length="168" r_score="0.946"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="169" polyA_stop="185"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E218879" ref_strand="+">
        <total_alignment_score>0.946</total_alignment_score>
        <cumulative_length_of_scored_exons>167</cumulative_length_of_scored_exons>
        <coverage percentage="0.903" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E218879" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67400" e_stop="67566"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAATCATGTCACGTCTTGCTTTCT-AATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</genome_strand>
        <mrna_strand>GGCACCAGGTCACGTCATGCTTTCTAAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGAATGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E223269" ref_strand="+" ref_description="SGN-E223269 [cLEL-14-K13](-)">
      <seq>ggcgccaggtcacgtcttgctttctaataatcctctgtgtagtagcatttctgctcttctccactaactaaatccttgtataggattgtgataatttccttatggttactgcagtggcctagccacataaaataaaggttcatccattgaacacatttcatcgaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67105" stop="67866"/>
      </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="67400" g_stop="67566" g_length="167"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="167" r_length="167" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="168" polyA_stop="184"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E223269" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>167</cumulative_length_of_scored_exons>
        <coverage percentage="0.908" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E223269" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67400" e_stop="67566"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAATCATGTCACGTCTTGCTTTCTAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</genome_strand>
        <mrna_strand>GGCGCCAGGTCACGTCTTGCTTTCTAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E223045" ref_strand="+" ref_description="SGN-E223045 [cLEL-14-K13](-)">
      <seq>ggcaccaggtcacgtcttgctttctaataatcctctgtgtagtagcatttctgctcttctccactaactaaatccttgtataggattgtgataatttccttatggttactgcagtggcctagccacataaaataaaggttcatccattgaacacatttcatcgaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67103" stop="67866"/>
      </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="67400" g_stop="67566" g_length="167"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="167" r_length="167" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="168" polyA_stop="184"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E223045" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>167</cumulative_length_of_scored_exons>
        <coverage percentage="0.908" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E223045" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67400" e_stop="67566"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAATCATGTCACGTCTTGCTTTCTAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</genome_strand>
        <mrna_strand>GGCACCAGGTCACGTCTTGCTTTCTAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E234228" ref_strand="+" ref_description="SGN-E234228 [cLEL-8-M20](-)">
      <seq>ggcaccaggtcacgtcttgctttctaataatcctctgtgtagtagcatttctgctcttctccactaactaaatccttgtataggattgtgataatttccttatggttactgcagtggcctagccacataaaataaaggttcatccattgaacacatttcatcgaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67103" stop="67866"/>
      </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="67400" g_stop="67566" g_length="167"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="167" r_length="167" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="168" polyA_stop="184"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E234228" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>167</cumulative_length_of_scored_exons>
        <coverage percentage="0.908" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E234228" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67400" e_stop="67566"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAATCATGTCACGTCTTGCTTTCTAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</genome_strand>
        <mrna_strand>GGCACCAGGTCACGTCTTGCTTTCTAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E234140" ref_strand="+" ref_description="SGN-E234140 [cLEL-8-M20](-)">
      <seq>gcaccaggtcacgtcttgctttctaataatcctctgtgtagtagcatttctgctcttctccactaactaaatccttgtataggattgtgataatttccttatggttactgcagtggcctagccacataaaataaaggttcatccattgaacacatttcatcgaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67103" stop="67866"/>
      </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="67401" g_stop="67566" g_length="166"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="166" r_length="166" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="167" polyA_stop="183"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E234140" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>166</cumulative_length_of_scored_exons>
        <coverage percentage="0.907" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E234140" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67401" e_stop="67566"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATCATGTCACGTCTTGCTTTCTAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</genome_strand>
        <mrna_strand>GCACCAGGTCACGTCTTGCTTTCTAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E708119" ref_strand="+" ref_description="SGN-E708119 [FA34DF04]">
      <seq>ctattatcaagattattgtaatcttgaattatgctaatcatttacagtgaactataattctctagttcaatcaactacaactattagctaattaattgagcagtgaactttaactcttctctgttttctatacaacaggctaaaatggcgggtgaaccagttaatgtgtatgaatttcaagagcttgctaggaaagttcttccaaaaatgtactatgacttctttgctggaggagctgaggatgagtacacactcaaagaaaatgtcgaagcatttcatagaatcactattcagccaagaatactagttgatgtgagcagaatagacatgtcaactgtcatacttggtcacaagacatcagctccaattatacttgccccttcttctgcgcatcaattggcacatcctgaaggagaagttgcaacagctagaggtgctgcagcatgtaatgttatcatgggactgtcatttatgtctacctgcacagtggaggaggttgcttcaagctgcaatgctgttcgcttctttcaaatatatgttttcaaaaagagagatgtaacagaatttatggtacgtcgagctgagaagaatgggttcagggcaataattctcactgctgatactccaaggcttggcagaagggaggctgatataaagaataagatgatatcatttcggctgaggaattttgaaggttttatatcaactgatgttgtttctgacaaaggctcaaatcttgcagcatatgctgaagaaactcttgatccgtcgctttgctggaaggatatcgcgtggctaaaatcaattactaagttgccaattttgattaagggtgttctcaatggtgaagatgcaatgaaagcaattgaagcaggagttgtaggaaatatcgtctctaatcatggagctcgacaactagattactctccagctactat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="71538" stop="68374"/>
      </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="71238" g_stop="71100" g_length="139"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="138" r_length="138" r_score="0.978"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="71099" i_stop="70595" i_length="505">
            <donor d_prob="0.952" 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="70594" g_stop="70446" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="139" r_stop="287" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="70445" i_stop="70364" i_length="82">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="70363" g_stop="70239" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="288" r_stop="412" r_length="125" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="70238" i_stop="70144" i_length="95">
            <donor d_prob="0.794" d_score="1.00"/>
            <acceptor a_prob="0.815" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="70143" g_stop="70097" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="413" r_stop="459" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="70096" i_stop="69826" i_length="271">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.959" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="69825" g_stop="69748" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="460" r_stop="537" r_length="78" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="69747" i_stop="69656" i_length="92">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="69655" g_stop="69531" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="538" r_stop="662" r_length="125" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="69530" i_stop="69401" i_length="130">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.890" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="69400" g_stop="69343" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="663" r_stop="720" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="69342" i_stop="69165" i_length="178">
            <donor d_prob="0.858" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="69164" g_stop="69102" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="721" r_stop="783" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="69101" i_stop="68916" i_length="186">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.925" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="68915" g_stop="68846" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="784" r_stop="853" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="9">
          <gDNA_intron_boundary i_start="68845" i_stop="68759" i_length="87">
            <donor d_prob="0.813" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="10">
          <gDNA_exon_boundary g_start="68758" g_stop="68674" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="854" r_stop="938" r_length="85" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E708119" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>939</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E708119" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="71238" e_stop="71100"/>
          <exon e_start="70594" e_stop="70446"/>
          <exon e_start="70363" e_stop="70239"/>
          <exon e_start="70143" e_stop="70097"/>
          <exon e_start="69825" e_stop="69748"/>
          <exon e_start="69655" e_stop="69531"/>
          <exon e_start="69400" e_stop="69343"/>
          <exon e_start="69164" e_stop="69102"/>
          <exon e_start="68915" e_stop="68846"/>
          <exon e_start="68758" e_stop="68674"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTACTATCAAGATTATTGTAATTATTGAATTATGCTAATCATTTACAGTGAACTATAATTCTCTAGTTCAATCAACTACAACTATTAGCTAATTAATTGAGCAGTGAACTTTAACTCTTCTCTGTTTTCTATACAACAGGTATTCAATGTTTTTACTTCCAAAAATTAATTGAATTTTGATCTAAATTTGTGTTTGCTCCGTGTGTACTTGTTCAACACATAGACCGATTCAAAATTTTAAAGTTTTAAGTTAAGTTGATATATTAAAACTACTAAAGCTACTGGATTCTGCCGAATATATAACATCAACTTTAGATAGATCTGTCCCTACCTGTGGGAAATGAAAATATTTGAATTGAACATAGGAAATTTCGCCTTTACTTTTAATTAATTATATTACTAATATCTCAACATTTGCTTTTACAATTTTCGTGTTTGCTGTTTGTTGATTTTAGTTGCACGGACTCTCCAAACGTGCTTCTGACACTCAGGACAGTTTTGAAGAGTCTAAGCAACATAGCTAAATCCTATAATTGTTTGTTTAGCTGAATTGATTTTTATTCCTAACCAAACTTGAGGGATATATTGAACACAAAATTCAACTATATGAGATGAATTTAACATACGAATGCTCGTGTGTGCAGGCTAAAATGGCGGGTGAACCAGTTAATGTGTATGAATTTCAAGAGCTTGCTAGGAAAGTTCTTCCAAAAATGTACTATGACTTCTTTGCTGGAGGAGCTGAGGATGAGTACACACTCAAAGAAAATGTCGAAGCATTTCATAGAATCACGTAAGTTTGTAATTTCTTGCTCTTGATTAATTTTGGCAAAAAAAAATAAAATGGTAGCAATACTAACATTTCAGAAACTCAGTATTCAGCCAAGAATACTAGTTGATGTGAGCAGAATAGACATGTCAACTGTCATACTTGGTCACAAGACATCAGCTCCAATTATACTTGCCCCTTCTTCTGCGCATCAATTGGCACATCCTGAAGGTTCGGATTAAATCAATTAGTAAAAACTAGTCTGTTAGCTTAAGGTACCCCCACCGCGTACTTCTTACTCTAACAAGCTATTGTATTTATGCCAGGAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATGGTAAAATATCTGTTTCCAATTCTGGTGTGTGGAATGTTAAGACGATTTCTCAGATAATCATTAACTAATTGATTATTATCTCAAAACTCACTTTCTTTTTTGAAAACTGAAATCAAGAACATTGGTGATTTTCTGAGATAATACTACTAGTTGAGAAATCAACTCATGGATTATTGAAATTGTATGACTTTTTCATCTAAATAAAAGCTTACGTTGTTATTACTTAATTATAATATGTTTCAACAAAGATGTTGAGTTTTCTTGAATATAGGGACTGTCATTTATGTCTACCTGCACAGTGGAGGAGGTTGCTTCAAGCTGCAATGCTGTTCGCTTCTTTCAAATATATGTAACTTCTATTATTCCAAACTCTGATCATTGTTATATATATATATATATAGTGTTCTGTTATCAGATAGGTAATTTATTCTTTGTCAATAGGTTTTCAAAAAGAGAGATGTAACAGAATTTATGGTACGTCGAGCTGAGAAGAATGGGTTCAGGGCAATAATTCTCACTGCTGATACTCCAAGGCTTGGCAGAAGGGAGGCTGATATAAAGAATAAGTAAGCTGTATATCTTTTATACTTAAATTCTTTACATACGAATCCGGAATAAGTTGGTTTCACTAATTTAGCTCTTAAAGAATTTCTTTTTAGTAATACTGTGTTAATCTACTAAGAGTGGGAATTGCAGGATGATATCATTTCGGCTGAGGAATTTTGAAGGTTTTATATCAACTGATGTTGTTTCTGTAAGTAAAACCATAAAAATTTCTGCTAATCATCGAAGATAAGGTTGATTTCTTAGATGCGACATTCTGAGATAATAACTATTAGTTGAGTGACCCTAACAAATCCAACTTGTGATAGATATATTAACTTGAAACTAGTGTAGACTATGCTTACTAATCCACTTACAAAACTCTGCAGGACAAAGGCTCAAATCTTGCAGCATATGCTGAAGAAACTCTTGATCCGTCGCTTTGCTGGAAGGTACAAGATTTAAAAGTTAAATGCATCCGTTCCTTATTATATGATGAAATACAATCTTTGATACACGAACTCAAATTTCTCGAGTGTAGACAGTATGTTAAAATATGTGAAATTGCTGATCTACAAATAGAGTTGAAGTCAAATATGATCATTATGTAATCCTCACACTCACTGAAAACTTTGCAGGATATCGCGTGGCTAAAATCAATTACTAAGTTGCCAATTTTGATTAAGGGTGTTCTCAATGGTGAAGATGGTACTAGTATTATCAGTGAACCTTAGCTATTTGCATATAAAACCTCAGATTTCCTACAAGTTGACTGGCATATACTTTTTTTTTCAGCAATGAAAGCAATTGAAGCAGGAGTTGTAGGAATTATCGTCTCTAATCATGGAGCTCGACAACTAGATTACTCTCCAGCTACTAT</genome_strand>
        <mrna_strand>CTATTATCAAGATTATTGTAA-TCTTGAATTATGCTAATCATTTACAGTGAACTATAATTCTCTAGTTCAATCAACTACAACTATTAGCTAATTAATTGAGCAGTGAACTTTAACTCTTCTCTGTTTTCTATACAACAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTAAAATGGCGGGTGAACCAGTTAATGTGTATGAATTTCAAGAGCTTGCTAGGAAAGTTCTTCCAAAAATGTACTATGACTTCTTTGCTGGAGGAGCTGAGGATGAGTACACACTCAAAGAAAATGTCGAAGCATTTCATAGAATCAC..................................................................................TATTCAGCCAAGAATACTAGTTGATGTGAGCAGAATAGACATGTCAACTGTCATACTTGGTCACAAGACATCAGCTCCAATTATACTTGCCCCTTCTTCTGCGCATCAATTGGCACATCCTGAAG...............................................................................................GAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATG...............................................................................................................................................................................................................................................................................GGACTGTCATTTATGTCTACCTGCACAGTGGAGGAGGTTGCTTCAAGCTGCAATGCTGTTCGCTTCTTTCAAATATAT............................................................................................GTTTTCAAAAAGAGAGATGTAACAGAATTTATGGTACGTCGAGCTGAGAAGAATGGGTTCAGGGCAATAATTCTCACTGCTGATACTCCAAGGCTTGGCAGAAGGGAGGCTGATATAAAGAATAA..................................................................................................................................GATGATATCATTTCGGCTGAGGAATTTTGAAGGTTTTATATCAACTGATGTTGTTTCT..................................................................................................................................................................................GACAAAGGCTCAAATCTTGCAGCATATGCTGAAGAAACTCTTGATCCGTCGCTTTGCTGGAAG..........................................................................................................................................................................................GATATCGCGTGGCTAAAATCAATTACTAAGTTGCCAATTTTGATTAAGGGTGTTCTCAATGGTGAAGATG.......................................................................................CAATGAAAGCAATTGAAGCAGGAGTTGTAGGAAATATCGTCTCTAATCATGGAGCTCGACAACTAGATTACTCTCCAGCTACTAT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E359304" ref_strand="+" ref_description="SGN-E359304 [cLHT-31-K12]">
      <seq>aatcctctctgccctgcactgaggaagttgactgtttgaaatacaacggatggtcccctgcaactttcacggcaccttcctgtaataccatcttcagtcttgatccaattccaatttctcatctgggtgctatagtttcacaaatggtggcttcatctctggcatctccactatgtacatggctcgtagcagcttgcatgtctgtatccagcgaaaaggatcaatttcggaagcctgcttctagctttcagtcttccaagttcatgggtaggagaagaaaagcgattaccaagtgcaaaagtgggagcttgatgaatggttctgtaatgaacacttcttggcatacttgttttggttttgagccctgtgaggagtattataaatcagacggattctctgcttctttttcgtctttatttgccgaaaatccgttttctgtatttgggtttaaacaggtgccattgaatcgaaggcagaggagaatgagctctgctgctcatcctggcaaacccatggctgtggctgtgcaacctgcaatggaagccacgacaacgaagaaacctcttatgaggaacaggagagttgttgtgaccggngtcggtgtagtatcaccaaatggtcatgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="74384" stop="76285"/>
      </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="74684" g_stop="75210" g_length="527"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="504" r_length="504" r_score="0.945"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="75211" i_stop="75863" i_length="653">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75864" g_stop="75985" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="505" r_stop="626" r_length="122" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E359304" ref_strand="+">
        <total_alignment_score>0.951</total_alignment_score>
        <cumulative_length_of_scored_exons>649</cumulative_length_of_scored_exons>
        <coverage percentage="1.037" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E359304" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="74684" e_stop="75210"/>
          <exon e_start="75864" e_stop="75985"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATCCTCTCTGCCCTGCACTGAGGAAGTTGACTGTTTGAAATACAACTGATGGTCCCCTGCAACTTTCACGGCACCTTCCTGTAATACCATCTTCAGTCTTGATCCAATTCAGTTTATCATCCAATTTCTCATCTGGGTCACTGTTTTTATGCTATAGTTTCACAAATGGTGGCTTCTTCTCTGGCATCTCCACTATGTACATGGCTCGTAGCAGCTTGCATGTCTGTATCCAGCGAAAAGGATCAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAATTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTGGTAATTTTACTTAATCAAAACCTTATTGATATAATCTGATGAACTGTATTTGGTAGCTTATTGTCTAACGACTTTTAGATCGACTTAATCGACCCATTGGATTTTGGGTATATTCTATGTCTTTAGTATGTGACTACGGATGTGATATAGCACAACGACTGAATAATGAATTGTAATACAACTCAAAAACGTTTTCGGGTTTGGTTCTTTTTAATTCATAAGTTGTTTTATCAAATTTATATGTTTGGCTTATTTGCCCAAAGCTTTTTTTTTTTTTTAAAAAAAAAAACTCTGTGTCAATAAATGGTATGGAGGCAGTAAAATTAAACTATATTTCTTCGATTTGAATAGCTAAAGATCTGTGACTGATGCTTTAAATAACAAATATCTCAATCCTCAAAACAACTATATGAGCTTTTGCTAGTTATTTTGGGATTGATGTTTGTGTTTTGTGAGGAAAACGTGAATGAAATTCGTGCACACAGAGAGAACTACCTACTCGAACTTGTAGAGTGTTATCTTTGTTTATACATATTATTCAAGATATGTTTCATGCCTATCAAACATTTCTAGCATATGTCTTCGAAGAATGTTTAAACTGCATGACTCCAACAATGTGATGAACTGTTCATTTTGATTTGATGTACTTCTAGGCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGAT</genome_strand>
        <mrna_strand>AATCCTCTCTGCCCTGCACTGAGGAAGTTGACTGTTTGAAATACAACGGATGGTCCCCTGCAACTTTCACGGCACCTTCCTGTAATACCATCTTCAGTCTTGAT-C----CA----AT--TCCAATTTCTCATCT-GG-----G------TGCTATAGTTTCACAAATGGTGGCTTCATCTCTGGCATCTCCACTATGTACATGGCTCGTAGCAGCTTGCATGTCTGTATCCAGCGAAAAGGATCAATTTCGGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTGCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATACTTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAACGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGNGTCGGTGTAGTATCACCAAATGGTCATGAT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740686" ref_strand="+" ref_description="SGN-E740686 [LC22BH07]">
      <seq>cttatttgactgtttgaaatacaactgatggtcccctgtaactttcacggggccttcctgtaataacatcttcagtcttgatccaattcagtttatcatccaatttctcatctgggtcactgtttttatgctatagtttcacaaatggtggcttcttctctggcatctccactatgtacatggctcgtagcagcttgcatgtctgtatccagcgaaaaggatcaattttcgaagcctgcttctagctttcagtcttccaagttcatgggtaggagaagaaaagcgattaccaagttcaaaagtgggagcttgatgaatggttctgtaatgaacacttcttggcatagttgttttggttttgagccctgtgaggagtattataaatcagacggattctctgcttctttttcgtctttatttgccgaaaatccgttttctgtatttgggtttaaacaggtgccattgaatcgaaggcagaggagaatgagctctgctgctcatcctggcaaacccatggctgtggctgtgcaacctgcaatggaagccacgacaacgaagaaacctcttatgaggaacaggagagttgttgtgaccggggtcggtgtagtatcaccaattggtcatgatccagacatgttttatagtaatcttcttgaaggcatcagtggtataagtcagattgaggctttcgactgttctgaatttcccagtagaattgctggggaaatcaaggaattttcgactaatgggtgggttgcacccaaactttcgaaaagagcagataagttcatgctctatatgcttactgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="74409" stop="76588"/>
      </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="74706" g_stop="75210" g_length="505"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="505" r_length="505" r_score="0.982"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="75211" i_stop="75863" i_length="653">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75864" g_stop="76069" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="506" r_stop="711" r_length="206" r_score="0.995"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="76070" i_stop="76188" i_length="119">
            <donor d_prob="0.875" d_score="1.00"/>
            <acceptor a_prob="0.731" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="76189" g_stop="76288" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="712" r_stop="811" r_length="100" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E740686" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>811</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E740686" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="74706" e_stop="75210"/>
          <exon e_start="75864" e_stop="76069"/>
          <exon e_start="76189" e_stop="76288"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAGTTGACTGTTTGAAATACAACTGATGGTCCCCTGCAACTTTCACGGCACCTTCCTGTAATACCATCTTCAGTCTTGATCCAATTCAGTTTATCATCCAATTTCTCATCTGGGTCACTGTTTTTATGCTATAGTTTCACAAATGGTGGCTTCTTCTCTGGCATCTCCACTATGTACATGGCTCGTAGCAGCTTGCATGTCTGTATCCAGCGAAAAGGATCAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAATTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTGGTAATTTTACTTAATCAAAACCTTATTGATATAATCTGATGAACTGTATTTGGTAGCTTATTGTCTAACGACTTTTAGATCGACTTAATCGACCCATTGGATTTTGGGTATATTCTATGTCTTTAGTATGTGACTACGGATGTGATATAGCACAACGACTGAATAATGAATTGTAATACAACTCAAAAACGTTTTCGGGTTTGGTTCTTTTTAATTCATAAGTTGTTTTATCAAATTTATATGTTTGGCTTATTTGCCCAAAGCTTTTTTTTTTTTTTAAAAAAAAAAACTCTGTGTCAATAAATGGTATGGAGGCAGTAAAATTAAACTATATTTCTTCGATTTGAATAGCTAAAGATCTGTGACTGATGCTTTAAATAACAAATATCTCAATCCTCAAAACAACTATATGAGCTTTTGCTAGTTATTTTGGGATTGATGTTTGTGTTTTGTGAGGAAAACGTGAATGAAATTCGTGCACACAGAGAGAACTACCTACTCGAACTTGTAGAGTGTTATCTTTGTTTATACATATTATTCAAGATATGTTTCATGCCTATCAAACATTTCTAGCATATGTCTTCGAAGAATGTTTAAACTGCATGACTCCAACAATGTGATGAACTGTTCATTTTGATTTGATGTACTTCTAGGCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTCTTGAAGGCATCAGTGGTATAAGTCAGATTGAGGCTTTCGACTGTTCTGAATTTCCCAGTGTAATTTTCCATGATTGCTTTAGCACGTCAAACTGTTAATCTATCTTCTACTTTGACTAATATTTTTCACTAACCAAAGTGTCTTTCAAGATGTTTCACAATGGTCTTCCTTGCGACAGAGAATTGCTGGGGAAATCAAGGAATTTTCGACTAATGGATGGGTTGCACCCAAACTTTCGAAAAGAGCAGATAAGTTCATGCTTTATATGCTTACTGCTG</genome_strand>
        <mrna_strand>CTTATTTGACTGTTTGAAATACAACTGATGGTCCCCTGTAACTTTCACGGGGCCTTCCTGTAATAACATCTTCAGTCTTGATCCAATTCAGTTTATCATCCAATTTCTCATCTGGGTCACTGTTTTTATGCTATAGTTTCACAAATGGTGGCTTCTTCTCTGGCATCTCCACTATGTACATGGCTCGTAGCAGCTTGCATGTCTGTATCCAGCGAAAAGGATCAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAGTTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAACGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTCTTGAAGGCATCAGTGGTATAAGTCAGATTGAGGCTTTCGACTGTTCTGAATTTCCCAGT.......................................................................................................................AGAATTGCTGGGGAAATCAAGGAATTTTCGACTAATGGGTGGGTTGCACCCAAACTTTCGAAAAGAGCAGATAAGTTCATGCTCTATATGCTTACTGCTG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E369809" ref_strand="+" ref_description="SGN-E369809 [TUS-25-G19]">
      <seq>ttctctggcatctccactatgtacatggctcgtagcagcttgcatgtctgtatccagcgaaaaggatcaattttcgaagcctgcttctagctttcagtcttccaagttcatgggtaggagaagaaaagcgattaccaagttcaaaagtgggagcttgatgaatggttctgtaatgaacacttcttggcataattgttttggttttgagccctgtgaggagtattataaatcagacggattctctgcttctttttcgtctttatttgccgaaaatccgttttctgtatttgggtttaaacaggtgccattgaatcgaaggcagaggagaatgagctctgctgctcatcctggcaaacccatggctgtggctgtgcaacctgcaatggaagccacgacaatgaagaaacctcttatgaggaacaggagagttgttgtgaccggggtcggtgtagtatcaccaattggtcatgatccagacatgttttatagtaatctttcttgaaggcatcagtggtataagtcagattgaggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="74561" stop="76346"/>
      </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="74861" g_stop="75210" g_length="350"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="350" r_length="350" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="75211" i_stop="75863" i_length="653">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75864" g_stop="76046" g_length="183"/>
          <reference_exon_boundary r_type="cDNA" r_start="351" r_stop="534" r_length="184" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E369809" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>533</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E369809" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="74861" e_stop="75210"/>
          <exon e_start="75864" e_stop="76046"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTGGCATCTCCACTATGTACATGGCTCGTAGCAGCTTGCATGTCTGTATCCAGCGAAAAGGATCAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAATTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTGGTAATTTTACTTAATCAAAACCTTATTGATATAATCTGATGAACTGTATTTGGTAGCTTATTGTCTAACGACTTTTAGATCGACTTAATCGACCCATTGGATTTTGGGTATATTCTATGTCTTTAGTATGTGACTACGGATGTGATATAGCACAACGACTGAATAATGAATTGTAATACAACTCAAAAACGTTTTCGGGTTTGGTTCTTTTTAATTCATAAGTTGTTTTATCAAATTTATATGTTTGGCTTATTTGCCCAAAGCTTTTTTTTTTTTTTAAAAAAAAAAACTCTGTGTCAATAAATGGTATGGAGGCAGTAAAATTAAACTATATTTCTTCGATTTGAATAGCTAAAGATCTGTGACTGATGCTTTAAATAACAAATATCTCAATCCTCAAAACAACTATATGAGCTTTTGCTAGTTATTTTGGGATTGATGTTTGTGTTTTGTGAGGAAAACGTGAATGAAATTCGTGCACACAGAGAGAACTACCTACTCGAACTTGTAGAGTGTTATCTTTGTTTATACATATTATTCAAGATATGTTTCATGCCTATCAAACATTTCTAGCATATGTCTTCGAAGAATGTTTAAACTGCATGACTCCAACAATGTGATGAACTGTTCATTTTGATTTGATGTACTTCTAGGCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATC-TTCTTGAAGGCATCAGTGGTATAAGTCAGATTGAGGCTT</genome_strand>
        <mrna_strand>TTCTCTGGCATCTCCACTATGTACATGGCTCGTAGCAGCTTGCATGTCTGTATCCAGCGAAAAGGATCAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAATTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTTCTTGAAGGCATCAGTGGTATAAGTCAGATTGAGGCTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E248828" ref_strand="+" ref_description="SGN-E248828 [cLEF-49-G1]">
      <seq>ttctctggcatctccactatgtacatggctcgtagcagcttgcatgtctgtatccagcgaaaaggatcaattttcgaagcctgcttctagctttcagtcttccaagttcatgggtaggagaagaaaagcgattaccaagttcaaaagtgggagcttgatgaatggttctgtaatgaacacttcttggcataattgttttggttttgagccctgtgaggagtattataaatcagacggattctctgcttctttttcgtctttatttgccgaaaatccgttttctgtatttgggtttaaacaggtgccattgaatcgaaggcagaggagaatgagctctgctgctcatcctggcaaacccatggctgtggctgtgcaacctgcaatggaagccacgacaatgaagaaacctcttatgaggaacaggagagttgttgtgaccggggtcggtgtagtatcaccaattggtcatgatccagacatgttttatagtaatcttctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="74561" stop="76312"/>
      </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="74861" g_stop="75210" g_length="350"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="350" r_length="350" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="75211" i_stop="75863" i_length="653">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75864" g_stop="76012" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="351" r_stop="499" r_length="149" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E248828" ref_strand="+">
        <total_alignment_score>1.000</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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E248828" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="74861" e_stop="75210"/>
          <exon e_start="75864" e_stop="76012"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTGGCATCTCCACTATGTACATGGCTCGTAGCAGCTTGCATGTCTGTATCCAGCGAAAAGGATCAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAATTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTGGTAATTTTACTTAATCAAAACCTTATTGATATAATCTGATGAACTGTATTTGGTAGCTTATTGTCTAACGACTTTTAGATCGACTTAATCGACCCATTGGATTTTGGGTATATTCTATGTCTTTAGTATGTGACTACGGATGTGATATAGCACAACGACTGAATAATGAATTGTAATACAACTCAAAAACGTTTTCGGGTTTGGTTCTTTTTAATTCATAAGTTGTTTTATCAAATTTATATGTTTGGCTTATTTGCCCAAAGCTTTTTTTTTTTTTTAAAAAAAAAAACTCTGTGTCAATAAATGGTATGGAGGCAGTAAAATTAAACTATATTTCTTCGATTTGAATAGCTAAAGATCTGTGACTGATGCTTTAAATAACAAATATCTCAATCCTCAAAACAACTATATGAGCTTTTGCTAGTTATTTTGGGATTGATGTTTGTGTTTTGTGAGGAAAACGTGAATGAAATTCGTGCACACAGAGAGAACTACCTACTCGAACTTGTAGAGTGTTATCTTTGTTTATACATATTATTCAAGATATGTTTCATGCCTATCAAACATTTCTAGCATATGTCTTCGAAGAATGTTTAAACTGCATGACTCCAACAATGTGATGAACTGTTCATTTTGATTTGATGTACTTCTAGGCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTCTT</genome_strand>
        <mrna_strand>TTCTCTGGCATCTCCACTATGTACATGGCTCGTAGCAGCTTGCATGTCTGTATCCAGCGAAAAGGATCAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAATTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTCTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E315455" ref_strand="+" ref_description="SGN-E315455 [cTOA-22-H11]">
      <seq>ctgtatccagcgaaaaggacaattttcgaagcctgcttctagctttcagtcttccaagttcatgggtaggagaagaaaagcgattaccaagttcaaaagtgggagcttgatgaatggttctgtaatgaacacttcttggcataattgttttggttttgagccctgtgaggagtattataaatcagacggattctctgcttctttttcgtctttatttgccgaaaatccgttttctgtatttgggtttaaacaggtgccattgaatcgaaggcagaggagaatgagctctgctgctcatcctgacaaacccatggatgtggctgtgcaacctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="74608" stop="76193"/>
      </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="74908" g_stop="75210" g_length="303"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="302" r_length="302" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="75211" i_stop="75863" i_length="653">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75864" g_stop="75893" g_length="30"/>
          <reference_exon_boundary r_type="cDNA" r_start="303" r_stop="332" r_length="30" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E315455" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>333</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E315455" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="74908" e_stop="75210"/>
          <exon e_start="75864" e_stop="75893"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTATCCAGCGAAAAGGATCAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAATTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTGGTAATTTTACTTAATCAAAACCTTATTGATATAATCTGATGAACTGTATTTGGTAGCTTATTGTCTAACGACTTTTAGATCGACTTAATCGACCCATTGGATTTTGGGTATATTCTATGTCTTTAGTATGTGACTACGGATGTGATATAGCACAACGACTGAATAATGAATTGTAATACAACTCAAAAACGTTTTCGGGTTTGGTTCTTTTTAATTCATAAGTTGTTTTATCAAATTTATATGTTTGGCTTATTTGCCCAAAGCTTTTTTTTTTTTTTAAAAAAAAAAACTCTGTGTCAATAAATGGTATGGAGGCAGTAAAATTAAACTATATTTCTTCGATTTGAATAGCTAAAGATCTGTGACTGATGCTTTAAATAACAAATATCTCAATCCTCAAAACAACTATATGAGCTTTTGCTAGTTATTTTGGGATTGATGTTTGTGTTTTGTGAGGAAAACGTGAATGAAATTCGTGCACACAGAGAGAACTACCTACTCGAACTTGTAGAGTGTTATCTTTGTTTATACATATTATTCAAGATATGTTTCATGCCTATCAAACATTTCTAGCATATGTCTTCGAAGAATGTTTAAACTGCATGACTCCAACAATGTGATGAACTGTTCATTTTGATTTGATGTACTTCTAGGCAAACCCATGGCTGTGGCTGTGCAACCTG</genome_strand>
        <mrna_strand>CTGTATCCAGCGAAAAGGA-CAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAATTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAAACCCATGGATGTGGCTGTGCAACCTG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E213315" ref_strand="+" ref_description="SGN-E213315 [cLEC-71-N13]">
      <seq>aaatcagacggattctctgcttctttttcgtctttatttgccgaaaatccgttttctgtatttgggtttaaacaggtgccattgaatcgaaggcagaggagaatgagctctgctgctcatcctggcaaacccatggctgtggctgtgcaacctgcaatggaagccacgacaatgaagaaacctcttatgaggaacaggagagttgttgtgaccggggtcggtgtagtatcaccaattggtcatgatccagacatgttttatagtaatcttcttgaaggcatcagtggtataagtcagattgaggctttcgactgttctgaatttcccagtagaattgctggggaaatcaaggaattttcgactaatggatgggttgcacccaaactttcgaaaagagcagataagttcatgctttatatgcttactgctggaaagaaagctttggcagatggtgggatcacagaagacttattgcaggaattagataaggctagatgtggggtccttattggctctgcccttggagggatgaaggtcttccatgatggcattgaggctttacaggtgtcgtacaagaagctgaatcctttctgtgtacctttttgcacatccaatatgggagctgccatgcttgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="74787" stop="77245"/>
      </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="75087" g_stop="75210" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="124" r_length="124" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="75211" i_stop="75863" i_length="653">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75864" g_stop="76069" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="330" r_length="206" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="76070" i_stop="76188" i_length="119">
            <donor d_prob="0.875" d_score="1.00"/>
            <acceptor a_prob="0.731" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="76189" g_stop="76392" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="534" r_length="204" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="76393" i_stop="76843" i_length="451">
            <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="76844" g_stop="76945" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="535" r_stop="636" r_length="102" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E213315" ref_strand="+">
        <total_alignment_score>0.995</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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E213315" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="75087" e_stop="75210"/>
          <exon e_start="75864" e_stop="76069"/>
          <exon e_start="76189" e_stop="76392"/>
          <exon e_start="76844" e_stop="76945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTGGTAATTTTACTTAATCAAAACCTTATTGATATAATCTGATGAACTGTATTTGGTAGCTTATTGTCTAACGACTTTTAGATCGACTTAATCGACCCATTGGATTTTGGGTATATTCTATGTCTTTAGTATGTGACTACGGATGTGATATAGCACAACGACTGAATAATGAATTGTAATACAACTCAAAAACGTTTTCGGGTTTGGTTCTTTTTAATTCATAAGTTGTTTTATCAAATTTATATGTTTGGCTTATTTGCCCAAAGCTTTTTTTTTTTTTTAAAAAAAAAAACTCTGTGTCAATAAATGGTATGGAGGCAGTAAAATTAAACTATATTTCTTCGATTTGAATAGCTAAAGATCTGTGACTGATGCTTTAAATAACAAATATCTCAATCCTCAAAACAACTATATGAGCTTTTGCTAGTTATTTTGGGATTGATGTTTGTGTTTTGTGAGGAAAACGTGAATGAAATTCGTGCACACAGAGAGAACTACCTACTCGAACTTGTAGAGTGTTATCTTTGTTTATACATATTATTCAAGATATGTTTCATGCCTATCAAACATTTCTAGCATATGTCTTCGAAGAATGTTTAAACTGCATGACTCCAACAATGTGATGAACTGTTCATTTTGATTTGATGTACTTCTAGGCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTCTTGAAGGCATCAGTGGTATAAGTCAGATTGAGGCTTTCGACTGTTCTGAATTTCCCAGTGTAATTTTCCATGATTGCTTTAGCACGTCAAACTGTTAATCTATCTTCTACTTTGACTAATATTTTTCACTAACCAAAGTGTCTTTCAAGATGTTTCACAATGGTCTTCCTTGCGACAGAGAATTGCTGGGGAAATCAAGGAATTTTCGACTAATGGATGGGTTGCACCCAAACTTTCGAAAAGAGCAGATAAGTTCATGCTTTATATGCTTACTGCTGGAAAGAAAGCTTTGGCAGATGGTGGGATCACAGAAGACTTATTGCAGGAATTAGATAAGGCTAGATGTGGGGTCCTTATTGGCTCTGCCCTTGGAGGGATGAAGGTAACAAATGAACTTGCTTAAGATATATGCCTTTTTTTAAACATTTTATGACTGTGGTGTCCGGGCCAGCTTTCGTGCACCTCGACTAAATCACGGAATACCTGACACCTCCCACCACCAACAGGTGCTAGGTTATTCTGTCTACAAGGCTATGACCTATTACGACTAAATGATCATTCCGAGAGCCCTAAAAGAGAAGCTCTTGTAATTCATTGTTCCAAAGAATGCCATCTAGCATAATGATGATATAATTTTGAGAAGAGTTGTTAAACTTGTTAACTGTAAAAATCAAGCAATACTGTTACCATAAAAAGCTAAACAAGTAATGACAAATGAGGTTCCAGTTCATATTGTATTTTCATGATATCAGAGCTGCCACTTACCATTCTATGGCATATTAAATTCCTCTTTTTTCCATCTCCAAATAATTGATTGTTTTCTCTTTGATCAGGTCTTCCATGATGGCATTGAGGCTTTACAGGTGTCGTACAAGAAGCTGAATCCTTTCTGTGTACCTTTTGCAACATCCAATATGGGAGCTGCCATGCTTGCA</genome_strand>
        <mrna_strand>AAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTCTTGAAGGCATCAGTGGTATAAGTCAGATTGAGGCTTTCGACTGTTCTGAATTTCCCAGT.......................................................................................................................AGAATTGCTGGGGAAATCAAGGAATTTTCGACTAATGGATGGGTTGCACCCAAACTTTCGAAAAGAGCAGATAAGTTCATGCTTTATATGCTTACTGCTGGAAAGAAAGCTTTGGCAGATGGTGGGATCACAGAAGACTTATTGCAGGAATTAGATAAGGCTAGATGTGGGGTCCTTATTGGCTCTGCCCTTGGAGGGATGAAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTTCCATGATGGCATTGAGGCTTTACAGGTGTCGTACAAGAAGCTGAATCCTTTCTGTGTACCTTTTTGCACATCCAATATGGGAGCTGCCATGCTTGCA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E205471" ref_strand="+" ref_description="SGN-E205471 [cLEC-28-I17]">
      <seq>gcaatggaagccacgacaatgaagaaacctcttatgaggaacaggagagttgttgtgaccggggtcggtgtagtatcaccaattggtcatgatccagacatgttttatagtaatcttcttgaaggcatcagtggtataagtcagattgaggctttcgactgttctgaatttcccagtagaattgctggggaaatcaaggaattttcgactaatggatgggttgcacccaaactttcgaaaagagcagataagttcatgctttatatgcttactgctggaaagaaagctttggcagatggtgggatcacagaagacttattgcaggaattagataaggctagatgtggggtccttattggctctgcccttggagggatgaaggtcttccatgatggcattgaggctttacaggtgtcgtacaagaagctgaatcctttctgtgtaccttttgcaacatccaatatgggagctgccatgcttgcaatagatttgggttggatgggtccaaactactcaatctccactgcatgtgcaacaagtaacttctgtatattgagtgcttcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="75593" stop="77412"/>
      </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="75893" g_stop="76069" 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="76070" i_stop="76188" i_length="119">
            <donor d_prob="0.875" d_score="1.00"/>
            <acceptor a_prob="0.731" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="76189" g_stop="76392" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="178" r_stop="381" r_length="204" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="76393" i_stop="76843" i_length="451">
            <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="3">
          <gDNA_exon_boundary g_start="76844" g_stop="76954" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="382" r_stop="492" r_length="111" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="76955" i_stop="77039" i_length="85">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.820" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="77040" g_stop="77112" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="565" r_length="73" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E205471" ref_strand="+">
        <total_alignment_score>0.998</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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E205471" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="75893" e_stop="76069"/>
          <exon e_start="76189" e_stop="76392"/>
          <exon e_start="76844" e_stop="76954"/>
          <exon e_start="77040" e_stop="77112"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTCTTGAAGGCATCAGTGGTATAAGTCAGATTGAGGCTTTCGACTGTTCTGAATTTCCCAGTGTAATTTTCCATGATTGCTTTAGCACGTCAAACTGTTAATCTATCTTCTACTTTGACTAATATTTTTCACTAACCAAAGTGTCTTTCAAGATGTTTCACAATGGTCTTCCTTGCGACAGAGAATTGCTGGGGAAATCAAGGAATTTTCGACTAATGGATGGGTTGCACCCAAACTTTCGAAAAGAGCAGATAAGTTCATGCTTTATATGCTTACTGCTGGAAAGAAAGCTTTGGCAGATGGTGGGATCACAGAAGACTTATTGCAGGAATTAGATAAGGCTAGATGTGGGGTCCTTATTGGCTCTGCCCTTGGAGGGATGAAGGTAACAAATGAACTTGCTTAAGATATATGCCTTTTTTTAAACATTTTATGACTGTGGTGTCCGGGCCAGCTTTCGTGCACCTCGACTAAATCACGGAATACCTGACACCTCCCACCACCAACAGGTGCTAGGTTATTCTGTCTACAAGGCTATGACCTATTACGACTAAATGATCATTCCGAGAGCCCTAAAAGAGAAGCTCTTGTAATTCATTGTTCCAAAGAATGCCATCTAGCATAATGATGATATAATTTTGAGAAGAGTTGTTAAACTTGTTAACTGTAAAAATCAAGCAATACTGTTACCATAAAAAGCTAAACAAGTAATGACAAATGAGGTTCCAGTTCATATTGTATTTTCATGATATCAGAGCTGCCACTTACCATTCTATGGCATATTAAATTCCTCTTTTTTCCATCTCCAAATAATTGATTGTTTTCTCTTTGATCAGGTCTTCCATGATGGCATTGAGGCTTTACAGGTGTCGTACAAGAAGCTGAATCCTTTCTGTGTACCTTTTGCAACATCCAATATGGGAGCTGCCATGCTTGCAATAGATTTGGTAAGTTACTTATTGGATGAGATCAAAATATGATTGAAAGAACTGTTTCTCCTTATTCATTCAAAGCTGATTGAAACAACTGCAGGGTTGGATGGGTCCAAGCTACTCAATCTCCACTGCATGTGCAACAAGTAACTTCTGTATATTGAGTGCTTCAA</genome_strand>
        <mrna_strand>GCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTCTTGAAGGCATCAGTGGTATAAGTCAGATTGAGGCTTTCGACTGTTCTGAATTTCCCAGT.......................................................................................................................AGAATTGCTGGGGAAATCAAGGAATTTTCGACTAATGGATGGGTTGCACCCAAACTTTCGAAAAGAGCAGATAAGTTCATGCTTTATATGCTTACTGCTGGAAAGAAAGCTTTGGCAGATGGTGGGATCACAGAAGACTTATTGCAGGAATTAGATAAGGCTAGATGTGGGGTCCTTATTGGCTCTGCCCTTGGAGGGATGAAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTTCCATGATGGCATTGAGGCTTTACAGGTGTCGTACAAGAAGCTGAATCCTTTCTGTGTACCTTTTGCAACATCCAATATGGGAGCTGCCATGCTTGCAATAGATTTG.....................................................................................GGTTGGATGGGTCCAAACTACTCAATCTCCACTGCATGTGCAACAAGTAACTTCTGTATATTGAGTGCTTCAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E247143" ref_strand="+" ref_description="SGN-E247143 [cLEF-46-M8]">
      <seq>ttgcacccaaactttcgaaaagagcagataagttcatgctttatatgcttactgctggaaagaaagctttggcagatggtgggatcacagaagacttattgcaggaattagataaggctagatgtggggtccttattggctctgcccttggagggatgaaggtcttccatgatggcattgaggctttacaggtgtcgtacaagaagctgaatcctttctgtgtaccttttgcaacatccaatatgggagctgccatgcttgcaatagatttgggttggatgggtccaagctactcaatctccactgcatgtgcaacaagtaacttctgtatattgagtgcttcaaatcatataattagaggtgaaacagatatgatgctttgtggggggtcagattcggcaattattcctataggcttgggaggtttcagtgcttgtggagccctgtcacagaggaatagtgatccaacaagggcttcacgtccctgggatatggaccgtgatggatttgtgattggggaaagatccggcgtcttacttttagaagaacttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="75932" stop="78224"/>
      </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="76232" g_stop="76392" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="161" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="76393" i_stop="76843" i_length="451">
            <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="76844" g_stop="76954" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="272" r_length="111" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="76955" i_stop="77039" i_length="85">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.820" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="77040" g_stop="77135" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="273" r_stop="368" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="77136" i_stop="77235" i_length="100">
            <donor d_prob="0.409" d_score="1.00"/>
            <acceptor a_prob="0.971" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="77236" g_stop="77281" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="369" r_stop="414" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="77282" i_stop="77370" i_length="89">
            <donor d_prob="0.982" 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="77371" g_stop="77450" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="415" r_stop="494" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="77451" i_stop="77866" i_length="416">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.842" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="77867" g_stop="77924" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="495" r_stop="552" r_length="58" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E247143" ref_strand="+">
        <total_alignment_score>0.998</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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E247143" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="76232" e_stop="76392"/>
          <exon e_start="76844" e_stop="76954"/>
          <exon e_start="77040" e_stop="77135"/>
          <exon e_start="77236" e_stop="77281"/>
          <exon e_start="77371" e_stop="77450"/>
          <exon e_start="77867" e_stop="77924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCACCCAAACTTTCGAAAAGAGCAGATAAGTTCATGCTTTATATGCTTACTGCTGGAAAGAAAGCTTTGGCAGATGGTGGGATCACAGAAGACTTATTGCAGGAATTAGATAAGGCTAGATGTGGGGTCCTTATTGGCTCTGCCCTTGGAGGGATGAAGGTAACAAATGAACTTGCTTAAGATATATGCCTTTTTTTAAACATTTTATGACTGTGGTGTCCGGGCCAGCTTTCGTGCACCTCGACTAAATCACGGAATACCTGACACCTCCCACCACCAACAGGTGCTAGGTTATTCTGTCTACAAGGCTATGACCTATTACGACTAAATGATCATTCCGAGAGCCCTAAAAGAGAAGCTCTTGTAATTCATTGTTCCAAAGAATGCCATCTAGCATAATGATGATATAATTTTGAGAAGAGTTGTTAAACTTGTTAACTGTAAAAATCAAGCAATACTGTTACCATAAAAAGCTAAACAAGTAATGACAAATGAGGTTCCAGTTCATATTGTATTTTCATGATATCAGAGCTGCCACTTACCATTCTATGGCATATTAAATTCCTCTTTTTTCCATCTCCAAATAATTGATTGTTTTCTCTTTGATCAGGTCTTCCATGATGGCATTGAGGCTTTACAGGTGTCGTACAAGAAGCTGAATCCTTTCTGTGTACCTTTTGCAACATCCAATATGGGAGCTGCCATGCTTGCAATAGATTTGGTAAGTTACTTATTGGATGAGATCAAAATATGATTGAAAGAACTGTTTCTCCTTATTCATTCAAAGCTGATTGAAACAACTGCAGGGTTGGATGGGTCCAAGCTACTCAATCTCCACTGCATGTGCAACAAGTAACTTCTGTATATTGAGTGCTTCAAATCATATAATTAGAGGTGAAACAGTAAGTGGGTGAATTACTCTTACTCCATTGTTTTCGTATGTAATTTCCAGACCATGTGAAGTATAATGACACTTTGTATATCATAACATGGAAATTTCAGGATATGATGCTTTGTGGGGGGTCAGATTCGGCAATTATTCCTATAGGTTAGTTAAATATGGTAAAACTATCTGGGGAATAATTTAGTTATAATTTATTCTCAAAGTTTCCATCCTTAAATTGTGATCGGTGGCAGGCTTGGGAGGTTTCAGTGCTTGTGGAGCCCTGTCACAGAGGAATAGTGATCCAACAAGGGCTTCACGTCCCTGGGATATGGTATTGCAATCAAATTTCTCTATTTCTCTGCTGTTTCAAGTTTCAATCAACTGTTGACGAAAATTCTGCTTTTTGATGCATAAATTAGATTTCTTGATGTATTTTGAAATTATCAGCATAAGTGTCATTATGTGAACGATTAAGCATGGACTTCAGCGCTGTTTTTCTAAAAATGAGTTTCTTGAATATGTACATGTACAGTTTGTTGTGACTTCCTACACATGTAAATATTTTACTTTAAATAGGAAAAGAAAAGAGACTATCTTCGAATTGTGAGTCATGTTTGCTATTACTTTGTTATTTCCCTTTTGGAATTTCTTACTGGTTAGTAGCTTGGGAACCATTTTCTTTGTTTTGCTCTTGAAAGATCCCTGCTACTGTTTACTGAAGCTGCATTTGTTTTCTTGATGGAGCAGGACCGTGATGGATTTGTGATTGGGGAAGGATCCGGCGTCTTACTTTTAGAAGAACTTG</genome_strand>
        <mrna_strand>TTGCACCCAAACTTTCGAAAAGAGCAGATAAGTTCATGCTTTATATGCTTACTGCTGGAAAGAAAGCTTTGGCAGATGGTGGGATCACAGAAGACTTATTGCAGGAATTAGATAAGGCTAGATGTGGGGTCCTTATTGGCTCTGCCCTTGGAGGGATGAAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTTCCATGATGGCATTGAGGCTTTACAGGTGTCGTACAAGAAGCTGAATCCTTTCTGTGTACCTTTTGCAACATCCAATATGGGAGCTGCCATGCTTGCAATAGATTTG.....................................................................................GGTTGGATGGGTCCAAGCTACTCAATCTCCACTGCATGTGCAACAAGTAACTTCTGTATATTGAGTGCTTCAAATCATATAATTAGAGGTGAAACA....................................................................................................GATATGATGCTTTGTGGGGGGTCAGATTCGGCAATTATTCCTATAG.........................................................................................GCTTGGGAGGTTTCAGTGCTTGTGGAGCCCTGTCACAGAGGAATAGTGATCCAACAAGGGCTTCACGTCCCTGGGATATG................................................................................................................................................................................................................................................................................................................................................................................................................................GACCGTGATGGATTTGTGATTGGGGAAAGATCCGGCGTCTTACTTTTAGAAGAACTTG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E257394" ref_strand="-" ref_description="SGN-E257394 [cLEG-45-G8](-)">
      <seq>cttcctataggcttgggaggtttcagtgcttgtggagccctgtcacagaggaatagtgatccaacaagggcttcacgtccctgggatatggaccgtgatggatttgtgattggggaaggatccggcgtcttacttttagaagaacttgaacatgcaaagacgagaaaggctaaaatatatgctgagtttttgggtggaagcttcacttctgatgcttatcacatgatagagccacatccagaaggaagtggagttgttctctgcatagaaaaggccttggctcaatctggggtgaaacgtgaagatgtcaactatataaatgctcatgctgcatcaacgccagccggtgacctgaacgaatatcaggctattctgcattgctttgggaagaaccctgaacttaaaataaattcaacaaagtccatgactggtcatctccttggggctgctggtgctgtggaagccatcgcaacagtcaaggccatacatacaggatggatccatccaaacatcaatcttgagaaccctgacaatggcttggatatgaatgtgctggtgggctctaagaaggagcgcttggatatcaaggttgcactctccaactcatttggctttggangacacaactcgtctattctatttgcgccttataagaatgtctaattcaatccttgcacatatcatgttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="77069" stop="80383"/>
      </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="77272" g_stop="77281" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="0.900"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="77282" i_stop="77370" i_length="89">
            <donor d_prob="0.982" d_score="0.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="77371" g_stop="77450" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="90" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="77451" i_stop="77866" i_length="416">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.842" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="77867" g_stop="77935" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="91" r_stop="159" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="77936" i_stop="78048" i_length="113">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="78049" g_stop="78133" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="244" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="78134" i_stop="78265" i_length="132">
            <donor d_prob="0.805" d_score="1.00"/>
            <acceptor a_prob="0.914" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="78266" g_stop="78420" g_length="155"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="399" r_length="155" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="78421" i_stop="78526" i_length="106">
            <donor d_prob="0.803" d_score="1.00"/>
            <acceptor a_prob="0.892" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="78527" g_stop="78607" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="400" r_stop="480" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="78608" i_stop="79732" i_length="1125">
            <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="7">
          <gDNA_exon_boundary g_start="79733" g_stop="79792" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="481" r_stop="540" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="79793" i_stop="79935" i_length="143">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="79936" g_stop="80083" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="541" r_stop="688" r_length="148" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E257394" ref_strand="-">
        <total_alignment_score>0.999</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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E257394" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="77272" e_stop="77281"/>
          <exon e_start="77371" e_stop="77450"/>
          <exon e_start="77867" e_stop="77935"/>
          <exon e_start="78049" e_stop="78133"/>
          <exon e_start="78266" e_stop="78420"/>
          <exon e_start="78527" e_stop="78607"/>
          <exon e_start="79733" e_stop="79792"/>
          <exon e_start="79936" e_stop="80083"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCCTATAGGTTAGTTAAATATGGTAAAACTATCTGGGGAATAATTTAGTTATAATTTATTCTCAAAGTTTCCATCCTTAAATTGTGATCGGTGGCAGGCTTGGGAGGTTTCAGTGCTTGTGGAGCCCTGTCACAGAGGAATAGTGATCCAACAAGGGCTTCACGTCCCTGGGATATGGTATTGCAATCAAATTTCTCTATTTCTCTGCTGTTTCAAGTTTCAATCAACTGTTGACGAAAATTCTGCTTTTTGATGCATAAATTAGATTTCTTGATGTATTTTGAAATTATCAGCATAAGTGTCATTATGTGAACGATTAAGCATGGACTTCAGCGCTGTTTTTCTAAAAATGAGTTTCTTGAATATGTACATGTACAGTTTGTTGTGACTTCCTACACATGTAAATATTTTACTTTAAATAGGAAAAGAAAAGAGACTATCTTCGAATTGTGAGTCATGTTTGCTATTACTTTGTTATTTCCCTTTTGGAATTTCTTACTGGTTAGTAGCTTGGGAACCATTTTCTTTGTTTTGCTCTTGAAAGATCCCTGCTACTGTTTACTGAAGCTGCATTTGTTTTCTTGATGGAGCAGGACCGTGATGGATTTGTGATTGGGGAAGGATCCGGCGTCTTACTTTTAGAAGAACTTGAACATGCAAAGGTATGCTTCCACTTAACCAATATGCATCTGATAATGTGGAGTTACTTTGATCATTCAGAAGGTTTTGTCAATTTGATTGTAGCTGTGTTGTGTTTTTTTCTGATTAACTACAGACGAGAAAGGCTAAAATATATGCTGAGTTTTTGGGTGGAAGCTTCACTTCTGATGCTTATCACATGATAGAGCCACATCCAGAAGGTAATTTCATACATGGAAATTACCATCGTATTGCTGGTATTCCAGCTCAGATTTTATATCGTGTACATAGCCATTCTAAAGCATGGAAGACTTGTATTCCTACTGATTTCTTTTATATGCTTTACAAAATAGGAAGTGGAGTTGTTCTCTGCATAGAAAAGGCCTTGGCTCAATCTGGGGTGAAACGTGAAGATGTCAACTATATAAATGCTCATGCTGCATCAACGCCAGCCGGTGACCTGAACGAATATCAGGCTATTCTGCATTGCTTTGGGAAGAACCCTGAAGTAATGCTCTTGTACGCCTTTATTTTTGTTTTAGAAGATGTCCTCATATAGCTTGTTCTCAGCAACTGCTCTCTAATTCTCTTATAATGAGTTCTTTCTCATTCAGCTTAAAATAAATTCAACAAAGTCCATGACTGGTCATCTCCTTGGGGCTGCTGGTGCTGTGGAAGCCATCGCAACAGTCAAGGTAATAAAGTTTAAGATCGTTGCATACAAATACCCTATACAAGCTTAATATGGACTTTTATATTCAGAGAGGGATGAAAGGTTTAGATAGAAAATTACAAATTATGTTTTCTACAAGTAGCTGGTGCTGTGGAAGCCATTACAACAGTTAAGAGGTAATGAATATTAAGATAGTTGCATACAAATACCTTGTAAAAGCTTAAGATGAACTTTTAAACCCATAGAGGGATGAAAAGATTTACATAGAAATTTACATAAGTACCAGGTATGTTGTTTCTTTTAATAAGTGAAAGCATCAGGTATGTTTTATGATTGGAAATAAAATTTCAGAAAATATTTATGAATTACCGCAACTAGTTTAGAATCGAGGCATTGTTGTTGTATATTTATAGAGTCGTCAATACTTAGTAAAAGGACAGCTGGCTGTTGTAATGTAACTTCTTCGAATGATGGCTTGCTGCTGGTTTGCTTCATAACATCTTTATTGGGCCTTAATAGGCAACTTTTAGCTGTTGAAGTACGCATTAAGTCATTAGTAATCTATATGTTTTTGAGACAGCACAAGCTAGGTGTACAGATGGAAAGAGAACAACTAGTGTTTTTTTGTCTCGAATTTAAACCTGATATCACATGGTTCTTAACCCACTTCATTGACTGCTAGGCCACACTATGATCTTTTGTGTTTTGCCCATCAGAATAAAAACCTTCTTAGGTAAATAGATTGGTACTGGATGCCCGCAGGGGAAAAAAGCTTTTTAGATTGTCATGCCAAGTATTGAAGCAATCTGCTAGTTCGTTTTAACACGTGGAGAATGAAGTAGTTTCTACTTCTATTGACTTGTAGTTGGTTGACATAAGTTACTGTTTCTGAAGAAGTCTGTATCTGCAGTAATTGTGTCTTGAAATGTACTTTTAGTTGAGGTAATATAGCATTCATTTCCAATGGAGAGAAGCTGGAACACAATCGCTTTCTACTAGTCTATTTGTGCTTAGAGTAATTACAACTATCTCAGACCAAAAAAATAAAAAATAAAAATTAAAAATTACAACTATCTCTGCACCCTAGCTTTCAGTTTTTATATGAAAGTTTGCTAATACTTGTTTATTTGGAATTTTATATATATAGGCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTGGTATGTATCTGGTTAATTAATGCCCTCAGCTTTTTGAACAAGCTTGCACTCCCTATCTAATATTGATGCGATTAAGAAGCCATTGCATCTTAATCAGCTTTAATTAGTTAACTATGTTCTAATGTTGCTAAACATGATATTAGGATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTT</genome_strand>
        <mrna_strand>CTTCCTATAG.........................................................................................GCTTGGGAGGTTTCAGTGCTTGTGGAGCCCTGTCACAGAGGAATAGTGATCCAACAAGGGCTTCACGTCCCTGGGATATG................................................................................................................................................................................................................................................................................................................................................................................................................................GACCGTGATGGATTTGTGATTGGGGAAGGATCCGGCGTCTTACTTTTAGAAGAACTTGAACATGCAAAG.................................................................................................................ACGAGAAAGGCTAAAATATATGCTGAGTTTTTGGGTGGAAGCTTCACTTCTGATGCTTATCACATGATAGAGCCACATCCAGAAG....................................................................................................................................GAAGTGGAGTTGTTCTCTGCATAGAAAAGGCCTTGGCTCAATCTGGGGTGAAACGTGAAGATGTCAACTATATAAATGCTCATGCTGCATCAACGCCAGCCGGTGACCTGAACGAATATCAGGCTATTCTGCATTGCTTTGGGAAGAACCCTGAA..........................................................................................................CTTAAAATAAATTCAACAAAGTCCATGACTGGTCATCTCCTTGGGGCTGCTGGTGCTGTGGAAGCCATCGCAACAGTCAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTG...............................................................................................................................................GATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGANGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E367172" ref_strand="+" ref_description="SGN-E367172 [cLPT-5-L16]">
      <seq>ttgaacatgcaaagacgagaaaggctaaaatatatgctgagtttttgggtggaagcttcacttctgatgcttatcacatgatagaaccacatccagaaggaagtggagttgttctctgcatagaaaaggccttggctcaatctggggtgaaacgtgaagatgtcaactatataaatgctcatgctgcatcaacgccagccggtgacctgaacgaatatcaggccattctgcattgttttgggaagaaccctgaacttaaaataaattcaacaaagtccatgactggtcatctccttggggctgctggtgctgtggaagccattgcaacagtcaaggccatacatacaggatggatccatccaaacatcaatcttgagaaccctgacaatggcttggatatgaatgtgctggtgggctctaagaaggagcgcttggatatcaaggttgcactctccaactcatttggctttggaggacacaactcgtctattctatttgcgccttataagaatgtctaattcaatccttgcacatatcatgtttaaagaatgtaatgttgcgttgattttcatca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="77745" stop="80414"/>
      </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="77922" g_stop="77935" g_length="14"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="14" r_length="14" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="77936" i_stop="78048" i_length="113">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="78049" g_stop="78133" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="99" r_length="85" r_score="0.988"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="78134" i_stop="78265" i_length="132">
            <donor d_prob="0.805" d_score="0.98"/>
            <acceptor a_prob="0.914" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="78266" g_stop="78420" g_length="155"/>
          <reference_exon_boundary r_type="cDNA" r_start="100" r_stop="254" r_length="155" r_score="0.987"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="78421" i_stop="78526" i_length="106">
            <donor d_prob="0.803" d_score="0.96"/>
            <acceptor a_prob="0.892" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="78527" g_stop="78607" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="255" r_stop="335" r_length="81" r_score="0.988"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="78608" i_stop="79732" i_length="1125">
            <donor d_prob="0.998" 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="79733" g_stop="79792" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="336" r_stop="395" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="79793" i_stop="79935" i_length="143">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="79936" g_stop="80114" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="396" r_stop="574" r_length="179" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E367172" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>574</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E367172" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="77922" e_stop="77935"/>
          <exon e_start="78049" e_stop="78133"/>
          <exon e_start="78266" e_stop="78420"/>
          <exon e_start="78527" e_stop="78607"/>
          <exon e_start="79733" e_stop="79792"/>
          <exon e_start="79936" e_stop="80114"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGAACATGCAAAGGTATGCTTCCACTTAACCAATATGCATCTGATAATGTGGAGTTACTTTGATCATTCAGAAGGTTTTGTCAATTTGATTGTAGCTGTGTTGTGTTTTTTTCTGATTAACTACAGACGAGAAAGGCTAAAATATATGCTGAGTTTTTGGGTGGAAGCTTCACTTCTGATGCTTATCACATGATAGAGCCACATCCAGAAGGTAATTTCATACATGGAAATTACCATCGTATTGCTGGTATTCCAGCTCAGATTTTATATCGTGTACATAGCCATTCTAAAGCATGGAAGACTTGTATTCCTACTGATTTCTTTTATATGCTTTACAAAATAGGAAGTGGAGTTGTTCTCTGCATAGAAAAGGCCTTGGCTCAATCTGGGGTGAAACGTGAAGATGTCAACTATATAAATGCTCATGCTGCATCAACGCCAGCCGGTGACCTGAACGAATATCAGGCTATTCTGCATTGCTTTGGGAAGAACCCTGAAGTAATGCTCTTGTACGCCTTTATTTTTGTTTTAGAAGATGTCCTCATATAGCTTGTTCTCAGCAACTGCTCTCTAATTCTCTTATAATGAGTTCTTTCTCATTCAGCTTAAAATAAATTCAACAAAGTCCATGACTGGTCATCTCCTTGGGGCTGCTGGTGCTGTGGAAGCCATCGCAACAGTCAAGGTAATAAAGTTTAAGATCGTTGCATACAAATACCCTATACAAGCTTAATATGGACTTTTATATTCAGAGAGGGATGAAAGGTTTAGATAGAAAATTACAAATTATGTTTTCTACAAGTAGCTGGTGCTGTGGAAGCCATTACAACAGTTAAGAGGTAATGAATATTAAGATAGTTGCATACAAATACCTTGTAAAAGCTTAAGATGAACTTTTAAACCCATAGAGGGATGAAAAGATTTACATAGAAATTTACATAAGTACCAGGTATGTTGTTTCTTTTAATAAGTGAAAGCATCAGGTATGTTTTATGATTGGAAATAAAATTTCAGAAAATATTTATGAATTACCGCAACTAGTTTAGAATCGAGGCATTGTTGTTGTATATTTATAGAGTCGTCAATACTTAGTAAAAGGACAGCTGGCTGTTGTAATGTAACTTCTTCGAATGATGGCTTGCTGCTGGTTTGCTTCATAACATCTTTATTGGGCCTTAATAGGCAACTTTTAGCTGTTGAAGTACGCATTAAGTCATTAGTAATCTATATGTTTTTGAGACAGCACAAGCTAGGTGTACAGATGGAAAGAGAACAACTAGTGTTTTTTTGTCTCGAATTTAAACCTGATATCACATGGTTCTTAACCCACTTCATTGACTGCTAGGCCACACTATGATCTTTTGTGTTTTGCCCATCAGAATAAAAACCTTCTTAGGTAAATAGATTGGTACTGGATGCCCGCAGGGGAAAAAAGCTTTTTAGATTGTCATGCCAAGTATTGAAGCAATCTGCTAGTTCGTTTTAACACGTGGAGAATGAAGTAGTTTCTACTTCTATTGACTTGTAGTTGGTTGACATAAGTTACTGTTTCTGAAGAAGTCTGTATCTGCAGTAATTGTGTCTTGAAATGTACTTTTAGTTGAGGTAATATAGCATTCATTTCCAATGGAGAGAAGCTGGAACACAATCGCTTTCTACTAGTCTATTTGTGCTTAGAGTAATTACAACTATCTCAGACCAAAAAAATAAAAAATAAAAATTAAAAATTACAACTATCTCTGCACCCTAGCTTTCAGTTTTTATATGAAAGTTTGCTAATACTTGTTTATTTGGAATTTTATATATATAGGCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTGGTATGTATCTGGTTAATTAATGCCCTCAGCTTTTTGAACAAGCTTGCACTCCCTATCTAATATTGATGCGATTAAGAAGCCATTGCATCTTAATCAGCTTTAATTAGTTAACTATGTTCTAATGTTGCTAAACATGATATTAGGATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCA</genome_strand>
        <mrna_strand>TTGAACATGCAAAG.................................................................................................................ACGAGAAAGGCTAAAATATATGCTGAGTTTTTGGGTGGAAGCTTCACTTCTGATGCTTATCACATGATAGAACCACATCCAGAAG....................................................................................................................................GAAGTGGAGTTGTTCTCTGCATAGAAAAGGCCTTGGCTCAATCTGGGGTGAAACGTGAAGATGTCAACTATATAAATGCTCATGCTGCATCAACGCCAGCCGGTGACCTGAACGAATATCAGGCCATTCTGCATTGTTTTGGGAAGAACCCTGAA..........................................................................................................CTTAAAATAAATTCAACAAAGTCCATGACTGGTCATCTCCTTGGGGCTGCTGGTGCTGTGGAAGCCATTGCAACAGTCAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTG...............................................................................................................................................GATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGCGTTGATTTTCATCA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E262874" ref_strand="-" ref_description="SGN-E262874 [cLEG-59-M10]">
      <seq>ggggtgaaacgtgaagatgtcagctatataaatgctcatgctgcatcaacgccagccggtgacctgaacgaatatcaggctattctgcattgctttgggaagaaccctgaacttaaaataaattcaacaaagtccatgactggtcatctccttggggctgctggtgctgtggaagccatcgcaacagtcaaggccatacatacaggatggatccatccaaacatcaatcttgagaaccctgacaatggctcggatatgaatgtgctggtgggctctaagaaggagcgcttggatatcaaggttgcactctccaactcatttggttttggaggacacaactcgtctattctatttgcgccttataagaatgtgtaattcaatccttgcacatatcatgtttaaagaatgtaatgtcgtgttgattttcatcaagttgcccttgaaagattccagcatgccatcgaaagctagaacatgaactaaacatctttactagttcatcaaaaaggaaagttggcaccggagatcacgagtgtgtgaagtcattttcctaactgtactacctttttaactactatagatattttgaaattgggttcatctttctattagttgttcttaggtatgaactgtagcagccaatacataattcatttcacatctgcttggaaatgagaaatatgtttttttctttgtgatatcctattgttgtatttgctatggctataaaaaaaaaaaaaaaaagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="78010" stop="80716"/>
      </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="78310" g_stop="78420" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="111" r_length="111" r_score="0.991"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="78421" i_stop="78526" i_length="106">
            <donor d_prob="0.803" d_score="1.00"/>
            <acceptor a_prob="0.892" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="78527" g_stop="78607" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="112" r_stop="192" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="78608" i_stop="79732" i_length="1125">
            <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="3">
          <gDNA_exon_boundary g_start="79733" g_stop="79792" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="193" r_stop="252" r_length="60" r_score="0.983"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="79793" i_stop="79935" i_length="143">
            <donor d_prob="0.987" d_score="0.98"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="79936" g_stop="80416" g_length="481"/>
          <reference_exon_boundary r_type="cDNA" r_start="253" r_stop="733" r_length="481" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="734" polyA_stop="745"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E262874" ref_strand="-">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>733</cumulative_length_of_scored_exons>
        <coverage percentage="0.980" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E262874" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="78310" e_stop="78420"/>
          <exon e_start="78527" e_stop="78607"/>
          <exon e_start="79733" e_stop="79792"/>
          <exon e_start="79936" e_stop="80416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGGTGAAACGTGAAGATGTCAACTATATAAATGCTCATGCTGCATCAACGCCAGCCGGTGACCTGAACGAATATCAGGCTATTCTGCATTGCTTTGGGAAGAACCCTGAAGTAATGCTCTTGTACGCCTTTATTTTTGTTTTAGAAGATGTCCTCATATAGCTTGTTCTCAGCAACTGCTCTCTAATTCTCTTATAATGAGTTCTTTCTCATTCAGCTTAAAATAAATTCAACAAAGTCCATGACTGGTCATCTCCTTGGGGCTGCTGGTGCTGTGGAAGCCATCGCAACAGTCAAGGTAATAAAGTTTAAGATCGTTGCATACAAATACCCTATACAAGCTTAATATGGACTTTTATATTCAGAGAGGGATGAAAGGTTTAGATAGAAAATTACAAATTATGTTTTCTACAAGTAGCTGGTGCTGTGGAAGCCATTACAACAGTTAAGAGGTAATGAATATTAAGATAGTTGCATACAAATACCTTGTAAAAGCTTAAGATGAACTTTTAAACCCATAGAGGGATGAAAAGATTTACATAGAAATTTACATAAGTACCAGGTATGTTGTTTCTTTTAATAAGTGAAAGCATCAGGTATGTTTTATGATTGGAAATAAAATTTCAGAAAATATTTATGAATTACCGCAACTAGTTTAGAATCGAGGCATTGTTGTTGTATATTTATAGAGTCGTCAATACTTAGTAAAAGGACAGCTGGCTGTTGTAATGTAACTTCTTCGAATGATGGCTTGCTGCTGGTTTGCTTCATAACATCTTTATTGGGCCTTAATAGGCAACTTTTAGCTGTTGAAGTACGCATTAAGTCATTAGTAATCTATATGTTTTTGAGACAGCACAAGCTAGGTGTACAGATGGAAAGAGAACAACTAGTGTTTTTTTGTCTCGAATTTAAACCTGATATCACATGGTTCTTAACCCACTTCATTGACTGCTAGGCCACACTATGATCTTTTGTGTTTTGCCCATCAGAATAAAAACCTTCTTAGGTAAATAGATTGGTACTGGATGCCCGCAGGGGAAAAAAGCTTTTTAGATTGTCATGCCAAGTATTGAAGCAATCTGCTAGTTCGTTTTAACACGTGGAGAATGAAGTAGTTTCTACTTCTATTGACTTGTAGTTGGTTGACATAAGTTACTGTTTCTGAAGAAGTCTGTATCTGCAGTAATTGTGTCTTGAAATGTACTTTTAGTTGAGGTAATATAGCATTCATTTCCAATGGAGAGAAGCTGGAACACAATCGCTTTCTACTAGTCTATTTGTGCTTAGAGTAATTACAACTATCTCAGACCAAAAAAATAAAAAATAAAAATTAAAAATTACAACTATCTCTGCACCCTAGCTTTCAGTTTTTATATGAAAGTTTGCTAATACTTGTTTATTTGGAATTTTATATATATAGGCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTGGTATGTATCTGGTTAATTAATGCCCTCAGCTTTTTGAACAAGCTTGCACTCCCTATCTAATATTGATGCGATTAAGAAGCCATTGCATCTTAATCAGCTTTAATTAGTTAACTATGTTCTAATGTTGCTAAACATGATATTAGGATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTTCTTTGTGATATACTATTGTTGTATTTGCTATGGCTATAAAAAA</genome_strand>
        <mrna_strand>GGGGTGAAACGTGAAGATGTCAGCTATATAAATGCTCATGCTGCATCAACGCCAGCCGGTGACCTGAACGAATATCAGGCTATTCTGCATTGCTTTGGGAAGAACCCTGAA..........................................................................................................CTTAAAATAAATTCAACAAAGTCCATGACTGGTCATCTCCTTGGGGCTGCTGGTGCTGTGGAAGCCATCGCAACAGTCAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTCG...............................................................................................................................................GATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGTTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTGTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTCGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCATCGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGTTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATTTCACATCTGCTTGGAAATGAGAAATATGTTTTTTTCTTTGTGATATCCTATTGTTGTATTTGCTATGGCTATAAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E322040" ref_strand="-" ref_description="SGN-E322040 [cTOB-29-P18]">
      <seq>ctgctggtgctgtggaagccatcgcaacagtcaaggccatacatacaggatggatccatccaaacatcaatcttgagaaccctgacaatggcttggatatgaatgtgctggtgggctctaagaaggagcgcttggatatcaaggttgcactctccaactcatttggctttggaggacacaactcgtctattctatttgcgccttataagaatgtctaattcaatccttgcacatatcatgtttaaagaatgtaatgttgtgttgattttcatcaagttgcccttgaaagattccagcatgccaacgaaagctagaacatgaactaaacatctttactagttcatcaaaaaggaaagctggcaccggagatcacgagtgtgtgaagtcattttcctaactgtactacctttttaactactatagatattttgaaattgggttcatctttctattagttgttcttaggtatgaactgtagcagccaatacataattcatctcacatctgcttggaaatgagaaatatgtttttttctttgtgatatactattgttgtatttgctatggctataaaaaagtgatgtccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="78427" stop="80727"/>
      </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="78573" g_stop="78607" 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="78608" i_stop="79732" i_length="1125">
            <donor d_prob="0.998" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="79733" g_stop="79792" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="95" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="79793" i_stop="79935" i_length="143">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="79936" g_stop="80427" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="96" r_stop="587" r_length="492" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E322040" 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="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E322040" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="78573" e_stop="78607"/>
          <exon e_start="79733" e_stop="79792"/>
          <exon e_start="79936" e_stop="80427"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTGGTGCTGTGGAAGCCATCGCAACAGTCAAGGTAATAAAGTTTAAGATCGTTGCATACAAATACCCTATACAAGCTTAATATGGACTTTTATATTCAGAGAGGGATGAAAGGTTTAGATAGAAAATTACAAATTATGTTTTCTACAAGTAGCTGGTGCTGTGGAAGCCATTACAACAGTTAAGAGGTAATGAATATTAAGATAGTTGCATACAAATACCTTGTAAAAGCTTAAGATGAACTTTTAAACCCATAGAGGGATGAAAAGATTTACATAGAAATTTACATAAGTACCAGGTATGTTGTTTCTTTTAATAAGTGAAAGCATCAGGTATGTTTTATGATTGGAAATAAAATTTCAGAAAATATTTATGAATTACCGCAACTAGTTTAGAATCGAGGCATTGTTGTTGTATATTTATAGAGTCGTCAATACTTAGTAAAAGGACAGCTGGCTGTTGTAATGTAACTTCTTCGAATGATGGCTTGCTGCTGGTTTGCTTCATAACATCTTTATTGGGCCTTAATAGGCAACTTTTAGCTGTTGAAGTACGCATTAAGTCATTAGTAATCTATATGTTTTTGAGACAGCACAAGCTAGGTGTACAGATGGAAAGAGAACAACTAGTGTTTTTTTGTCTCGAATTTAAACCTGATATCACATGGTTCTTAACCCACTTCATTGACTGCTAGGCCACACTATGATCTTTTGTGTTTTGCCCATCAGAATAAAAACCTTCTTAGGTAAATAGATTGGTACTGGATGCCCGCAGGGGAAAAAAGCTTTTTAGATTGTCATGCCAAGTATTGAAGCAATCTGCTAGTTCGTTTTAACACGTGGAGAATGAAGTAGTTTCTACTTCTATTGACTTGTAGTTGGTTGACATAAGTTACTGTTTCTGAAGAAGTCTGTATCTGCAGTAATTGTGTCTTGAAATGTACTTTTAGTTGAGGTAATATAGCATTCATTTCCAATGGAGAGAAGCTGGAACACAATCGCTTTCTACTAGTCTATTTGTGCTTAGAGTAATTACAACTATCTCAGACCAAAAAAATAAAAAATAAAAATTAAAAATTACAACTATCTCTGCACCCTAGCTTTCAGTTTTTATATGAAAGTTTGCTAATACTTGTTTATTTGGAATTTTATATATATAGGCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTGGTATGTATCTGGTTAATTAATGCCCTCAGCTTTTTGAACAAGCTTGCACTCCCTATCTAATATTGATGCGATTAAGAAGCCATTGCATCTTAATCAGCTTTAATTAGTTAACTATGTTCTAATGTTGCTAAACATGATATTAGGATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTTCTTTGTGATATACTATTGTTGTATTTGCTATGGCTATAAAAAAGTGATGTCCAT</genome_strand>
        <mrna_strand>CTGCTGGTGCTGTGGAAGCCATCGCAACAGTCAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTG...............................................................................................................................................GATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTTCTTTGTGATATACTATTGTTGTATTTGCTATGGCTATAAAAAAGTGATGTCCAT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E252509" ref_strand="+" ref_description="SGN-E252509 [cLEG-20-M12]">
      <seq>ctgcaggcaaagccatacatacaggatggatccatccaaacatcaatcttgagaaccctgacaatggctaggatatgaatgtgctggtgggctctaagaaagagcgcttggatatcaaggttgcactctccaactcatttggctttggaggacacaactcgtctattctatttgcgccttataagaatgtctaattcaatccttgcacatatcatgtttaaagaatgtaatgttgtgttgattttcatcaagttgcccttgaaagattccagcatgccaacgaaagctagaacatgaactaaacatctttactagttcatcaaaaaggaaagctggcaccggagatcacgagtgtgtgaagtcattttcctaactgtactacctttttaactactatagatattttgaaattgggttcatctttctattagttgttcttaggtatgaactgtagcagccaatacataattcatctcacatctgcttggaaatgagaaatatgtttttttctttgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="79431" stop="80680"/>
      </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="79733" g_stop="79792" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="71" r_length="60" r_score="0.983"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="79793" i_stop="79935" i_length="143">
            <donor d_prob="0.987" d_score="0.98"/>
            <acceptor a_prob="0.995" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="79936" g_stop="80380" g_length="445"/>
          <reference_exon_boundary r_type="cDNA" r_start="72" r_stop="516" r_length="445" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E252509" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>505</cumulative_length_of_scored_exons>
        <coverage percentage="0.979" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E252509" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="79733" e_stop="79792"/>
          <exon e_start="79936" e_stop="80380"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTGGTATGTATCTGGTTAATTAATGCCCTCAGCTTTTTGAACAAGCTTGCACTCCCTATCTAATATTGATGCGATTAAGAAGCCATTGCATCTTAATCAGCTTTAATTAGTTAACTATGTTCTAATGTTGCTAAACATGATATTAGGATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTTCTTTGTG</genome_strand>
        <mrna_strand>GCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTAG...............................................................................................................................................GATATGAATGTGCTGGTGGGCTCTAAGAAAGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTTCTTTGTG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286290" ref_strand="-" ref_description="SGN-E286290 [cLES-11-J6]">
      <seq>tacatacaggatggatccatccaaacatcaatcttgagaaccctgacaatggcttggatatgaatgtgctggtgggctctaagaaggagcgcttggatatcaaggttgcactctccaactcatttggctttggaggacacaactcgtctattctatttgcgccttataagaatgtctaattcaatccttgcacatatcatgtttaaagaatgtaatgttgtgttgattttcatcaagttgcccttgaaagattccagcatgccaacgaaagctagaacatgaactaaacatctttactagttcatcaaaaaggaaagctggcaccggagatcacgagtgtgtgaagtcattttcctaactgtactacctttttaactactatagatattttgaaattgggttcatctttctattagttgttcttaggtatgaactgtagcagccaatacataattcatctcacatctgcttggaaatgagaaatatgttttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="79437" stop="80673"/>
      </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="79737" g_stop="79792" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="79793" i_stop="79935" i_length="143">
            <donor d_prob="0.987" 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="79936" g_stop="80373" g_length="438"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="494" r_length="438" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E286290" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>494</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E286290" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="79737" e_stop="79792"/>
          <exon e_start="79936" e_stop="80373"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTGGTATGTATCTGGTTAATTAATGCCCTCAGCTTTTTGAACAAGCTTGCACTCCCTATCTAATATTGATGCGATTAAGAAGCCATTGCATCTTAATCAGCTTTAATTAGTTAACTATGTTCTAATGTTGCTAAACATGATATTAGGATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTT</genome_strand>
        <mrna_strand>TACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTG...............................................................................................................................................GATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E257393" ref_strand="-" ref_description="SGN-E257393 [cLEG-45-G8]">
      <seq>tataagaatgtntaattcaatccttgcacatatcatgtttaaagaatgtaatgttgtgttgattttcatcaagttgcccttgaaagattccagcatgccaacgaaagctagaacatgaactaaacatctttactagttcatcaaaaaggaaagctggcaccggagatcacgagtgtgtgaagtcattttcctaactgtactacctttttaactactatagatattttgaaattgggttcatctttctattagttgttcttaggtatgaactgtagcagccaatacataattcatctcacatctgcttggaaatgagaaatatgtttttttctttgtgatatactattgttgtatttgctatggctataaaaaaaaaaaaaaaaactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="+" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="79744" stop="80716"/>
      </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="80044" g_stop="80416" g_length="373"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="373" r_length="373" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="374" polyA_stop="385"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="+" ref_id="SGN-E257393" ref_strand="-">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>373</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E257393" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="80044" e_stop="80416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTTCTTTGTGATATACTATTGTTGTATTTGCTATGGCTATAAAAAA</genome_strand>
        <mrna_strand>TATAAGAATGTNTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTTCTTTGTGATATACTATTGTTGTATTTGCTATGGCTATAAAAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E392088" ref_strand="+" ref_description="SGN-E392088 [TUS-24-B18](-)">
      <seq>caggtcagtcaaatttccagccgtttgacatttgaatcccggatatatgctgataaagcaaaagaattaaattgtcaggctttgatttgaaaatgggctcctgttgttattgtgcttggagttgtcattttttttttttggttcagaacaaaaatttggggatgcttccatacagatgcagctcagggaggacaatactgtcaaaagttttattcatatttgtccccatcagactttgcacaacccagagaaccccctcccattacagttatccagcatgggttgtgccatatcagttttatagtgtaaaagaggaaaggaaccgggaggaattatgtcccttaaccttgggaaattacattaattttggcttttttttatatattgttttgttagtttaggttcaaaattccaacaagtagttcattttagtttcagttatgaaaataatttatttcagaatttacagcaaatataaacaatccttcagattgttatgcacgggagtttggtgctttgtttaccaattttgcaaaaagaaaaatacaaaaaataaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="92514" stop="91092"/>
      </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="92215" g_stop="92138" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="78" r_length="78" r_score="0.936"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="0.94"/>
            <acceptor a_prob="0.989" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="91844" g_stop="91396" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="79" r_stop="527" r_length="449" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="534" polyA_stop="544"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E392088" ref_strand="+">
        <total_alignment_score>0.928</total_alignment_score>
        <cumulative_length_of_scored_exons>527</cumulative_length_of_scored_exons>
        <coverage percentage="0.925" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E392088" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="92215" e_stop="92138"/>
          <exon e_start="91844" e_stop="91396"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAGCTTCAAAACTCCAACAAGTAGCTCATTGTAGTTTCAGCTATGAAACTAACTTATTTCAGAATATACAGCAAATATAAACAATCCTTCAGACTGTTATGCACGGGAGTTTGGTGCTTTGTTTACCAA</genome_strand>
        <mrna_strand>CAGGTCAGTCAAATTTCCAGCCGTTTGACATTTGAATCCCGGATATATGCTGATAAAGCAAAAGAATTAAATTGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTTGAAAATGGGCTCCTGTTGTTATTGTGCTTGGAGTTGTCATTTTTTTTTTTTGGTTCAGAACAAAAATTTGGGGATGCTTCCATACAGATGCAGCTCAGGGAGGACAATACTGTCAAAAGTTTTATTCATATTTGTCCCCATCAGACTTTGCACAACCCAGAGAACCCCCTCCCATTACAGTTATCCAGCATGGGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGGGAGGAATTATGTCCCTTAACCTTGGGAAATTACATTAATTTTGGCTTTTTTTTATATATTGTTTTGTTAGTTTAGGTTCAAAATTCCAACAAGTAGTTCATTTTAGTTTCAGTTATGAAAATAATTTATTTCAGAATTTACAGCAAATATAAACAATCCTTCAGATTGTTATGCACGGGAGTTTGGTGCTTTGTTTACCAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E229076" ref_strand="+" ref_description="SGN-E229076 [cLEL-29-K4](-)">
      <seq>agttgtcattctctttttctggctcagaacaaagatctggtgatgcttccatacagatgcagctcagtgacgacaatactgtcaaatgttttattcatatttgtcaccatcagactctgcacaacccagagaaccacctcacattacagttatccagcatgtgttgtgccatatcagttttatagtgtaaaagaggaaaggaaccgcgatgaattatgtcccttaaccttgagaaattacattaattttggctctcttttatatattgtcttgttagtttagcttcaaaactccaacaagtagctcattgtagtttcagctatgaaactaacttatttcagaatatacagcaaatataaacaatccttcagactgttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="92103" stop="91126"/>
      </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="91803" g_stop="91427" g_length="377"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="377" r_length="377" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="378" polyA_stop="395"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E229076" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>377</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E229076" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91803" e_stop="91427"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAGCTTCAAAACTCCAACAAGTAGCTCATTGTAGTTTCAGCTATGAAACTAACTTATTTCAGAATATACAGCAAATATAAACAATCCTTCAGACTGTT</genome_strand>
        <mrna_strand>AGTTGTCATTCTCTTTTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAGCTTCAAAACTCCAACAAGTAGCTCATTGTAGTTTCAGCTATGAAACTAACTTATTTCAGAATATACAGCAAATATAAACAATCCTTCAGACTGTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E251033" ref_strand="-" ref_description="SGN-E251033 [cLEG-17-H15]">
      <seq>ccatgttcattgccctatttgttattccatttatgatcatcttaggtggttattgactagattgtcgaatgtcaattttgcagaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcgtcaggctttgattcgaaaatgggctcctgttgctattgtgcttggagttgtcattctcttcttctggctcagaacaaagatctggtgatgcttccatacagatgcagctcagtgacgacaatactgtcaaatgttttattcatatttgtcaccatcagactctgcacaacccagagaaccacctcacattacagttatccagcatgtgttgtgccatatcagttttatagtgtaaaagaggaaaggaaccgcgatgaattatgtcccttaaccttgagaaattacattaattttggctctcttttatatattgtcttgttagtttagcttcaaaactccaacaagtagctcattgtagtttcagctatgaaactaacttatttcagaatatacagcaaatataaacgaaaaaataaaaaaaaaactcgatagtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="92597" stop="91141"/>
      </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="92297" g_stop="92138" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="91844" g_stop="91442" g_length="403"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="563" r_length="403" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="564" polyA_stop="580"/>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E251033" ref_strand="-">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>563</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E251033" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="92297" e_stop="92138"/>
          <exon e_start="91844" e_stop="91442"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAGCTTCAAAACTCCAACAAGTAGCTCATTGTAGTTTCAGCTATGAAACTAACTTATTTCAGAATATACAGCAAATATAAACA</genome_strand>
        <mrna_strand>CCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAGCTTCAAAACTCCAACAAGTAGCTCATTGTAGTTTCAGCTATGAAACTAACTTATTTCAGAATATACAGCAAATATAAACG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E392089" ref_strand="+" ref_description="SGN-E392089 [TUS-24-B18]">
      <seq>gaataccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattacatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcgtcaggctttgattcgaaaatgggctcctgttgctattgtgcttggagttgtcattctcttcttctggctcagaacaaagatctggtgatgcttccatacagatgcagctcagtgacgacaatactgtcaaatgttttattcatatttgtcaccatcagactctgcacaacccagagaaccacctcacattacagttatccagcatgtgttgtgccatatcagttttatagtgtaaaagaggaaaggaaccgcgatgaattatgtcccttaaccttgagaaattacattaattttggctctcttttatatattgtcttgttagtttagccttcaaaaactccaacaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="93943" stop="91205"/>
      </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="93643" g_stop="93562" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="82" r_length="82" r_score="0.976"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="0.98"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="83" r_stop="229" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92214" g_stop="92138" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="230" r_stop="306" r_length="77" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="91844" g_stop="91505" g_length="340"/>
          <reference_exon_boundary r_type="cDNA" r_start="307" r_stop="648" r_length="342" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E392089" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>646</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E392089" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="93643" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92138"/>
          <exon e_start="91844" e_stop="91505"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAG-CTTC-AAAACTCCAACAA</genome_strand>
        <mrna_strand>GAATACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTACATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAGCCTTCAAAAACTCCAACAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E228361" ref_strand="+" ref_description="SGN-E228361 [cLED-3-D11]">
      <seq>aagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgatagaccatatgcttttattaaatttgattcattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttgtaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcgtcaggctttgattcgaaaatgggctcctgttgctattgtgcttggagttgtcattctcttcttctggctcagaacaaagatctggtgatgcttccatacagatgcagctcagtgacgacaatactgtcaaatgttttattcatatttgacaccatcagactctgcacaacccagagaaccacctcacattacaggtatccagcatgtgttgtgccatatcagatttatagtgtaaaagaggaaaggaaccgcgatgaattatgtcccttaaccttgagaaattacattaattttggctctcttttatatat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="93942" stop="91238"/>
      </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="93642" g_stop="93562" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="81" r_length="81" r_score="0.988"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="0.98"/>
            <acceptor a_prob="0.972" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="82" r_stop="228" r_length="147" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92214" g_stop="92138" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="229" r_stop="305" r_length="77" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="91844" g_stop="91538" g_length="307"/>
          <reference_exon_boundary r_type="cDNA" r_start="306" r_stop="612" r_length="307" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E228361" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>612</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E228361" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="93642" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92138"/>
          <exon e_start="91844" e_stop="91538"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATAT</genome_strand>
        <mrna_strand>AAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGATAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATTCATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTGTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGACACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGGTATCCAGCATGTGTTGTGCCATATCAGATTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATAT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E231643" ref_strand="+" ref_description="SGN-E231643 [cLED-4-M5]">
      <seq>aagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcgtcaggctttgattcgaaaatgggctcctgttgctattgtgcttggagttgtcattctcttcttctggctcagaacaaagatctggtgatgcttccatacagatgcagctcagtgacgacaatactgtcaaatgttttattcatatttgtcaccatcagactctgcacaacccagagaaccacctcacattacagttatccagcatgtgttgtgccatatca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="93942" stop="91328"/>
      </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="93642" g_stop="93562" 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="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="82" r_stop="228" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92214" g_stop="92138" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="229" r_stop="305" r_length="77" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="91844" g_stop="91628" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="306" r_stop="522" r_length="217" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E231643" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E231643" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="93642" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92138"/>
          <exon e_start="91844" e_stop="91628"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCA</genome_strand>
        <mrna_strand>AAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E709746" ref_strand="+" ref_description="SGN-E709746 [FA53AA06]">
      <seq>cgatactcttaacaagtttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgatgcttcaaggatgtctattgaaactgggccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcgtcaggctttgattcgaaaatgggctcctgttgctattgtgcttggagttgtcattctcttcttctggctcagaacaaagatctggtgatgcttccatatagatgcagctcagtgacgacaatactgtcaaatgttttattcatatttgtcaccatcagactctgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96148" stop="91383"/>
      </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="95865" g_stop="95784" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="82" r_length="82" r_score="0.866"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="83" r_stop="290" r_length="208" r_score="0.990"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="0.96"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="291" r_stop="451" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="452" r_stop="598" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92214" g_stop="92138" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="599" r_stop="675" r_length="77" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="91844" g_stop="91683" g_length="162"/>
          <reference_exon_boundary r_type="cDNA" r_start="676" r_stop="837" r_length="162" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E709746" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>837</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E709746" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95865" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92138"/>
          <exon e_start="91844" e_stop="91683"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCA</genome_strand>
        <mrna_strand>CGATACTCTTAACAAGTTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGATGCTTCAAGGATGTCTATTGAAACTGGGCCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATATAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E693194" ref_strand="+" ref_description="SGN-E693194 [LH_Ea10K24]">
      <seq>tccatttattcccagctccgattcaaactcttaacaagtttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagctgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtgaaggccttattcaagaacctgtcaatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaacgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaattgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcagataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcagatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcgtcaggctttgattcgaaaatgggctcctgttgctattgtgcttggagttgtcattctcttcttctggctcagaacaaagatctggtgatgcttccatacagatgcagctcagtgacgacaatattgtcaaatgttttattcatatttgtcaccatcagactctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96182" stop="91385"/>
      </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="95883" g_stop="95784" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="104" r_length="104" r_score="0.910"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="105" r_stop="312" r_length="208" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="313" r_stop="473" r_length="161" r_score="0.994"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="474" r_stop="620" r_length="147" r_score="0.986"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92214" g_stop="92138" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="621" r_stop="697" r_length="77" r_score="0.987"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="91844" g_stop="91685" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="698" r_stop="857" r_length="160" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E693194" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>853</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E693194" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95883" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92138"/>
          <exon e_start="91844" e_stop="91685"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCATTTATTCCCAGCTCCGATTCAAACTCTTAAC----TTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTG</genome_strand>
        <mrna_strand>TCCATTTATTCCCAGCTCCGATTCAAACTCTTAACAAGTTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCTGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTGAAGGCCTTATTCAAGAACCTGTCAATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAACGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAATTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAGATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAGATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATATTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E396078" ref_strand="+" ref_description="SGN-E396078 [TUS-19-A17]">
      <seq>gaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcttcaggctttgattcgaaaatgggctcctgttgctattgtgcttggagttgtcattctcttcttctggctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="93943" stop="91478"/>
      </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="93643" g_stop="93562" 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="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="83" r_stop="229" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92214" g_stop="92138" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="230" r_stop="306" r_length="77" r_score="0.987"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="0.98"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="91844" g_stop="91778" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="307" r_stop="373" r_length="67" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E396078" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>373</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E396078" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="93643" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92138"/>
          <exon e_start="91844" e_stop="91778"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCA</genome_strand>
        <mrna_strand>GAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCTTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E214777" ref_strand="+" ref_description="SGN-E214777 [cLEC-79-E12]">
      <seq>tttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcgtcaggctttgattcgaaaatgggctcctgttgctattgtgcttggagttgtcattctcttcttctggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="95033" stop="91481"/>
      </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="94733" g_stop="94590" 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="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="145" r_stop="305" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="306" r_stop="452" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92214" g_stop="92138" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="453" r_stop="529" r_length="77" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="91844" g_stop="91781" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="530" r_stop="593" r_length="64" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E214777" 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="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E214777" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94733" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92138"/>
          <exon e_start="91844" e_stop="91781"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGC</genome_strand>
        <mrna_strand>TTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E693224" ref_strand="+" ref_description="SGN-E693224 [LH_Ea10M06]">
      <seq>tccatttattcccagctccgattcaaactcttaacaagtttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagctgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtgaaggccttattcaagaacctgtcaatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaacgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaattgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcagataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcagatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcgtcaggctttgattcgaaaatgggctcctgttgctattgtgcttggagttgtca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96182" stop="91496"/>
      </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="95883" g_stop="95784" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="104" r_length="104" r_score="0.910"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="105" r_stop="312" r_length="208" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="313" r_stop="473" r_length="161" r_score="0.994"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="474" r_stop="620" r_length="147" r_score="0.986"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92214" g_stop="92138" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="621" r_stop="697" r_length="77" r_score="0.987"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="91844" g_stop="91796" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="698" r_stop="746" r_length="49" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E693224" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>742</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E693224" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95883" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92138"/>
          <exon e_start="91844" e_stop="91796"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCATTTATTCCCAGCTCCGATTCAAACTCTTAAC----TTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCA</genome_strand>
        <mrna_strand>TCCATTTATTCCCAGCTCCGATTCAAACTCTTAACAAGTTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCTGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTGAAGGCCTTATTCAAGAACCTGTCAATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAACGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAATTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAGATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAGATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340461" ref_strand="+" ref_description="SGN-E340461 [cTOF-1-I10]">
      <seq>ttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaaagacttaaatcgtcaggctttgattcgaaaatgggctcctgttgctatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96153" stop="91512"/>
      </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="95784" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="70" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="71" r_stop="278" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="279" r_stop="439" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="440" r_stop="586" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92214" g_stop="92138" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="587" r_stop="663" r_length="77" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="91844" g_stop="91812" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="664" r_stop="696" r_length="33" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E340461" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>696</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340461" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95853" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92138"/>
          <exon e_start="91844" e_stop="91812"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAGGTTAGTTTCATTGACTTCACAAGATGATTCACCTCATAATTTTGTTTGGAAGTTGTACAGTTTAAATTAATAGTAATACTAAAGCTGTACAAGAAACTGAAGGAACATACTCAGTGTGATTTCTTTTAGTTCTGCTAAAATGCAGCCATCATGTTGGTACCTTATTAGGCTCCGACACAAGCAAAGACAAGCAGCTTATGTTACTGATGGTTTTGTCTCATTTGTTTTATCTTTAAGCATGTGATCTGGATATTTGATATTGCTTTAATTACTGATTCATTACTTGACTTTAGGCTTTGATTCGAAAATGGGCTCCTGTTGCTATT</genome_strand>
        <mrna_strand>TTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG.....................................................................................................................................................................................................................................................................................................GCTTTGATTCGAAAATGGGCTCCTGTTGCTATT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E314825" ref_strand="+" ref_description="SGN-E314825 [cTOA-20-B18]">
      <seq>ccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttncagaagttctgggagttggtgaaaagttggacaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96182" stop="91854"/>
      </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="95882" g_stop="95784" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="99" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="100" r_stop="307" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="308" r_stop="468" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="469" r_stop="614" r_length="146" r_score="0.973"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="0.92"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92214" g_stop="92154" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="615" r_stop="675" r_length="61" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E314825" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>676</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E314825" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95882" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92154"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAA</genome_strand>
        <mrna_strand>CCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTNCAGAAGTTCTGGGAGTTGGTGAAAAGTTGGA-C.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E314613" ref_strand="+" ref_description="SGN-E314613 [cTOA-20-D13]">
      <seq>atgcttgcgggaaaatatggcgaacttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagatggaccaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagcaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="95093" stop="91854"/>
      </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="94793" g_stop="94590" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="204" r_length="204" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="205" r_stop="365" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="366" r_stop="512" r_length="147" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92214" g_stop="92154" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="513" r_stop="573" r_length="61" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E314613" ref_strand="+">
        <total_alignment_score>0.995</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="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E314613" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94793" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92154"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAA</genome_strand>
        <mrna_strand>ATGCTTGCGGGAAAATATGGCGAACTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGATGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E211360" ref_strand="+" ref_description="SGN-E211360 [cLEC-70-P2]">
      <seq>gttcctatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatggttcagaaagtcttggagttggtgaaaagttggacangtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctgataaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96191" stop="91857"/>
      </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="95891" g_stop="95784" 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="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="109" r_stop="316" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="317" r_stop="477" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="478" r_stop="623" r_length="146" r_score="0.959"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="0.88"/>
            <acceptor a_prob="0.989" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92214" g_stop="92157" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="624" r_stop="681" r_length="58" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E211360" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>682</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E211360" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95891" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92157"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGC</genome_strand>
        <mrna_strand>GTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGGTTCAGAAAGTCTTGGAGTTGGTGAAAAGTTGGA-C.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ANGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E213600" ref_strand="+" ref_description="SGN-E213600 [cLEC-76-G13]">
      <seq>aaaacccctctttgttcctatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatggntcagaagttcttggagttggtgaaaagtggaccaggtcagtcaaatgtccagccgtttgacatctgaatcccggatatatgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96204" stop="91864"/>
      </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="95904" g_stop="95784" 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="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="329" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="330" r_stop="490" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="491" r_stop="636" r_length="146" r_score="0.966"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095">
            <donor d_prob="0.989" d_score="0.90"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92214" g_stop="92164" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="637" r_stop="687" r_length="51" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E213600" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>688</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E213600" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95904" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92214" e_stop="92164"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAATGTAATATAACACGGTTAAGTGTTTATTCCTTTATGTCTCATTAACTCCCAGAATGATTTCTTCTATCAGAAACTTCCAAGGTATAATTGTGTAGGCTGCATCTTATATGCTAATATTGAAGGCAGAAAATAACATTTTTGGGTTTATTATTAAGGTAATTTAAATGGAGTATTGTGGTTGTGAACTTGTGAGATGAGATTTTTATTTGGAATCATTAAAGTCCATGTTAAAAGATAGTGGGTTCTCTATATTGTTGAGAAAAAATTATGATTCTCTTGGTATAAAAGTAGTGGACACCAAATCCATCTCTATGCAAATAACATTGGGAGTTGTGTCAGTTCCGACAATATTTGCCACTTCCTAAATCCAAAAGGCACATGACATTAGTCAGCTGTAGGATTTGCAGCTTTGACATTGATTGGACACTCTTATGATGATGTATAATTTTTATATAGTTGGTTCGCTCCTATTTTCACCCTTCCCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTG</genome_strand>
        <mrna_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGGNTCAGAAGTTCTTGGAGTTGGTGAAAAG-TGGACC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E306368" ref_strand="+" ref_description="SGN-E306368 [cLEX-13-H21]">
      <seq>cttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaacaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgttccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagatcttggagttggtgaaaagttggaccgtcgggagacaaaaacagacgagagtggatgctgtggaagattgctgagaagtaaaatggtttaaaagaccacacttcgacgtccttaaaatttgataa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="94964" stop="92480"/>
      </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="94664" g_stop="94590" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="75" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="76" r_stop="236" r_length="161" r_score="0.994"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="237" r_stop="383" r_length="147" r_score="0.986"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93309" i_stop="92879" i_length="431">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.997" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92878" g_stop="92780" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="384" r_stop="482" r_length="99" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E306368" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>482</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E306368" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94664" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
          <exon e_start="92878" e_stop="92780"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTGGATTTCTTTGATTTGATTATCTCGAAAGATATTGTGCTAATGTGCTATTAACTTAACTTTTCAGTTTATTATATCGGCAATGTCAACTAATTGATATTAAAATTGAGCTTGTGGTATTACAGTTACATTAGTTCTGAACTTCTGGTGTTTATAAGGATCTTTCTAGTTTGGTTAGAGACTTGTATGTCCATGTACGGCAAGTGTGAGATTTGGACAATCTATGGTAAGGTTTTCTTTACTTTCCCATAGCAGCCTCGCTAAATTTTAAATTATGGTTGTCTCCAAGAGTTTCCTATCAGAACTTCAGGTGTCCATTGGTAGTGTATCACAAGTCTAAATGTCTGTAATTTTCAAGTTTATATGTCTTGATGTAGTAGGTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAA</genome_strand>
        <mrna_strand>CTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAACAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTTCCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGATCTTGGAGTTGGTGAAAAGTTGGACC...............................................................................................................................................................................................................................................................................................................................................................................................................................................GTCGGGAGACAAAAACAGACGAGAGTGGATGCTGTGGAAGATTGCTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E202636" ref_strand="+" ref_description="SGN-E202636 [cLEC-19-N8]">
      <seq>tttggcatttcaatcattaacgcatccaaagtatgtgaacttccggagtagattactgttgccgtaactacttttttttgtcatgtatgctttctgtaccaccagtaatattgctcttctgtctctatttcaccctcttgagaaagtttactccatgtatatagtattctcttaacccgtgctctcagttatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccgtaagtttctcattctaacattcctcttttgtgaacaatacctcgttcattctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="94208" stop="92956"/>
      </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="93908" g_stop="93562" g_length="347"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="349" r_length="349" r_score="0.988"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93456" g_stop="93256" g_length="201"/>
          <reference_exon_boundary r_type="cDNA" r_start="350" r_stop="550" r_length="201" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E202636" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>548</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E202636" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="93908" e_stop="93562"/>
          <exon e_start="93456" e_stop="93256"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTA-ATTACTGTTGCCGTAACTAC-TTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTG</genome_strand>
        <mrna_strand>TTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAGATTACTGTTGCCGTAACTACTTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTG</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E310987" ref_strand="+" ref_description="SGN-E310987 [cLEZ-17-G1]">
      <seq>agcgatcggcgactggtttccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcaaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96133" stop="93004"/>
      </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="95833" g_stop="95784" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="50" r_length="50" r_score="0.980"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="0.98"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="51" r_stop="258" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="259" r_stop="419" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="420" r_stop="566" r_length="147" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E310987" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>566</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E310987" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95833" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC</genome_strand>
        <mrna_strand>AGCGATCGGCGACTGGTTTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E305864" ref_strand="+" ref_description="SGN-E305864 [cLEX-14-N16]">
      <seq>tttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagttggtgaaaagttggaccaggtcagtcaaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="95033" stop="93004"/>
      </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="94733" g_stop="94590" 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="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="145" r_stop="305" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93456" g_stop="93310" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="306" r_stop="452" r_length="147" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E305864" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E305864" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94733" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93310"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC</genome_strand>
        <mrna_strand>TTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E313971" ref_strand="+" ref_description="SGN-E313971 [cTOA-19-I14]">
      <seq>ttcctatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgactcgaaatgttcaagaagttcttggagtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96190" stop="93026"/>
      </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="95890" g_stop="95821" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="70" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95820" i_stop="94746" i_length="1075">
            <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="94745" g_stop="94590" g_length="156"/>
          <reference_exon_boundary r_type="cDNA" r_start="71" r_stop="226" r_length="156" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="227" r_stop="387" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93326" g_length="131"/>
          <reference_exon_boundary r_type="cDNA" r_start="388" r_stop="518" r_length="131" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E313971" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>518</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E313971" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95890" e_stop="95821"/>
          <exon e_start="94745" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93326"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTT</genome_strand>
        <mrna_strand>TTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGAC...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E211354" ref_strand="+" ref_description="SGN-E211354 [cLEC-70-N2]">
      <seq>gttcctatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcnaataatgactcgaaatgttcaagaagttcttgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96191" stop="93029"/>
      </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="95891" g_stop="95784" 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="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="109" r_stop="316" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="317" r_stop="477" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93329" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="478" r_stop="605" r_length="128" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E211354" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>605</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E211354" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95891" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93329"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGA</genome_strand>
        <mrna_strand>GTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCNAATAATGACTCGAAATGTTCAAGAAGTTCTTGGA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E247376" ref_strand="+" ref_description="SGN-E247376 [cLEF-46-E18]">
      <seq>aaaacccctctttgttcctatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96204" stop="93053"/>
      </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="95904" g_stop="95784" 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="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="329" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="330" r_stop="490" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93353" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="491" r_stop="594" r_length="104" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E247376" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>594</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E247376" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95904" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93353"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACT</genome_strand>
        <mrna_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E248643" ref_strand="+" ref_description="SGN-E248643 [cLEF-58-O12]">
      <seq>aaaacccctctttgttcctatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtaccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaataatgact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96204" stop="93053"/>
      </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="95904" g_stop="95784" 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="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="329" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="330" r_stop="490" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93353" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="491" r_stop="594" r_length="104" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E248643" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>594</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E248643" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95904" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93353"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACT</genome_strand>
        <mrna_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E310862" ref_strand="+" ref_description="SGN-E310862 [cLEZ-15-J13]">
      <seq>cagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaacaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcatacagaagacgaagaaactgtgccaggatactagaactcaacgcaacatttctaagttgaatgatgagctttacgaagttcatcaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96171" stop="93060"/>
      </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="95871" g_stop="95784" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="88" r_length="88" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="89" r_stop="296" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="297" r_stop="457" r_length="161" r_score="0.994"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93360" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="458" r_stop="554" r_length="97" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E310862" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>554</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E310862" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95871" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93360"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAAT</genome_strand>
        <mrna_strand>CAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAACAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATACAGAAGACGAAGAAACTGTGCCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAAT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E277367" ref_strand="+" ref_description="SGN-E277367 [cLER-3-C24]">
      <seq>tatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaatttgatacattcata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96186" stop="93254"/>
      </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="95886" g_stop="95784" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="103" r_length="103" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="104" r_stop="311" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93562" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="312" r_stop="472" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105">
            <donor d_prob="0.947" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="93456" g_stop="93446" g_length="11"/>
          <reference_exon_boundary r_type="cDNA" r_start="473" r_stop="483" r_length="11" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E277367" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>483</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E277367" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95886" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93562"/>
          <exon e_start="93456" e_stop="93446"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTGGTAATCTATTGGAGTATTTTCTTTTATGTTCTTTGCTGTCCAATTATATTTTGGTGAAACTGATATTTTGATGCTTGCAATATGTGATTTACCCTGTTGTAAAAGATACATTCATA</genome_strand>
        <mrna_strand>TATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG.........................................................................................................ATACATTCATA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E314732" ref_strand="+" ref_description="SGN-E314732 [cTOA-20-C22]">
      <seq>ccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgctgctagaccatatgcttttattaaattttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96182" stop="93261"/>
      </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="95882" g_stop="95784" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="99" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="100" r_stop="307" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93566" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="308" r_stop="464" r_length="157" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E314732" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="0.987" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E314732" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95882" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93566"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAA</genome_strand>
        <mrna_strand>CCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E264330" ref_strand="+" ref_description="SGN-E264330 [cLEG-70-H20]">
      <seq>aatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaactgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="94936" stop="93291"/>
      </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="94636" g_stop="94590" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="47" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93722" g_stop="93591" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="179" r_length="132" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E264330" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>179</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E264330" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94636" e_stop="94590"/>
          <exon e_start="93722" e_stop="93591"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGC</genome_strand>
        <mrna_strand>AATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGC</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E206216" ref_strand="+" ref_description="SGN-E206216 [cLEC-29-F21]">
      <seq>aaaacccctctttgttcctatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaattgaaact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96204" stop="93293"/>
      </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="95904" g_stop="95784" 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="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="329" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93593" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="330" r_stop="459" r_length="130" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E206216" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>459</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E206216" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95904" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93593"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACT</genome_strand>
        <mrna_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACT</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E206711" ref_strand="+" ref_description="SGN-E206711 [cLEC-31-E22]">
      <seq>aaaacccctctttgttcctatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgcaagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattgaagggcatgtttgttatctgacaatgtgtgatcgctcttatcccaagaaacttgcctttcaatacctggaagaccttaagaatgagtttgagcgcgccaatgggagtcaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96204" stop="93301"/>
      </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="95904" g_stop="95784" 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="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="329" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.067" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93722" g_stop="93601" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="330" r_stop="451" r_length="122" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E206711" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>451</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E206711" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95904" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
          <exon e_start="93722" e_stop="93601"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCAGTATCCTTATGTTCATGTTATATTTCCAACGTGACTTCACCGGTTTACTTATGGGTAAAATCCCAATAATATATTGTGTTTTGATTTTCTCTCGAAGATGAGAGAATGTGCAACTTCCTTTCTGAGCTTGACAAGTTATTTCTTCTAATAGGGTTTTGCCGGGGTGGGATGGGGGATTCATTTGAAACTTTTAATGAATATTTTGCATTTTTAGTAATCAATTTGCCCCTTCCCTAACTGTTTCAATTAACTTGTACTATTGCCCATGTTTCAATTATATCTTGGTACTGCTTATTGGGGGTATTTTAATTTGAAAACTCTATGAAGTCAATACTTGTTAGAAAAGGAAATATCCTGTTGATTGAATGCTCAGCATTCATAGTCCTTAAAACTTTCCCATTTGGTTTCAATATAACAGACAAGTTGGAGTTTTCTGTTTATTTCAGAAATGATCAGTGTTGCTGGTTTAGTGCTTTAGATGAATGAGATTCCACCTTGGTGTGTCTAAGCTGTTAAATACTCTTGATCCCTTATGCGACATACATTCTCTTGGTTTGTTTAGTATCTCCACTTGATAAGCTTTCACAACTAAAACATTGTACTTCTAGTTTTTTACTGGATTTTGAGTAGCATCGATTTCATCATTATCATGGCTGACTGAATGTGAAATATCAAGGATGATTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAA</genome_strand>
        <mrna_strand>AAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAA</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-C03HBa0121O11-6s352/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E243810" ref_strand="+" ref_description="SGN-E243810 [cLED-35-F14]">
      <seq>aaactcagcaaaacccctctttgttcctatcccatttattcccagctccgattcaaactcttaacttatcaaaggcggtcagcgatcggcgactggattccgagcagtcacgccagcgtatgatcgatcgctgtatgcttgcgggaaaatatggtgaagttgactttgattgctcgcgtgactgatggccttcctttagccgaggggctggatgatggtcgtgatgttcaaaatgcagatttctacaaacagcaggtcaaggccttattcaagaacctgtcgatgcgccaaaatgacgcttcaaggatgtctattgaaactggaccttacgtcttccattatatcattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0121O11-6s352/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0121O11.1" temp_strand="-" temp_description="C03HBa0121O11.1  AC238451.1 htgs_phase:2 submitted_to_sgn_as:gi|260903624|gb|AC238451.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0121o11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="96213" stop="94286"/>
      </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="95913" g_stop="95784" 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="95783" i_stop="94798" i_length="986">
            <donor d_prob="0.993" d_score="0.98"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94797" g_stop="94590" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="338" r_length="208" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0121O11.1" gen_strand="-" ref_id="SGN-E243810" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>338</cumulative_length_of_scored_exons>
        <coverage percentage="0.968" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0121O11.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E243810" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95913" e_stop="95784"/>
          <exon e_start="94797" e_stop="94590"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTCAGCAAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCGGTAATTTTTTATCTATGCTGATAATAACTTCGTGAGCAATCTGTTTATATCATTGTGTTTGTTTGCGTGATTTTGTGTTTATTAGATTTGATTTTAGTCGTTCTTCATTGGAATTGAATGTCGTAGGTTTGAGTTGTTAGGGTTAGAGAATTATTCTGCAAATCAGTTCTGTCGATGTGCCTCTACTGCCTTAAAGTATTCAGGGATTAAACTCTTGTAAAATAACATGAATGCTCCTTGGAGATTATCTATTTTGTTTAAGGAATACGGCTTCTGTTGAATTTTTTTAAAAATGTGTATATTTTGTGGTTTCAATTTGATTGTCTTGTAAGTAAAAGAACTTTTGAATGTACCAAATTATCTGGTGATCTTGTAAGTCTTAAACATGCTACGCTGGAACCTAGAATTAAAGCGTTGCAAAAGAAAAGAAAGAAGGAAAGAGTCATTCTTTCTGGAATAAATTAAAAAGGAAAGTAATTGAGGGAGATTTTTTAAAGCAACTCGAAGCAGAAGCGGAAGGAATTTGCCTAAGTTAGCTAAGAAGAAGATAGAACTTGGGATTTTCTTCTGTGCTTCCAAATGAGCTGCAGATCAATATATATACTCTACTACCTTGCCAAAAGTGTGACTATGCAAATTTGTACATAAAAATAGTTTTACTTAAAAACGTAAGGACTAATCCGTGAAGCTTTTTAAATAATAACTAACTCCCCCTTCAGCCGCTAAGTACTCCTCTTAAAGTGTAATAAACCATCCTGACTGCACAGCGTCTACTTCATCATTTTAGAACACGTCAGCTTTATGTTTATTAGATTGAAAGCAAACAGTCGCACTGACTGGAAGTATAATGCATTAGTTGTTGTCATTTGTGGGAATGTTGTTCATATAGATGATCCTGTTAGAAGTTAGACGGCATGGACAAAGTAGAAAATATAGAAATTTGACTACAAAAAGTTGAATTCTCACCTTTTTGTGTTTCGATGTAGCTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA</genome_strand>
        <mrna_strand>AAACTCAGCAAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCCAGCGTATGATCGATCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>112</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="3534" PGL_stop="3087"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="3534" e_stop="3087"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.911"/>
        </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="0.911">
            <gDNA_exon_boundary e_start="3534" e_stop="3087" e_length="448"/>
          </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="3534" stop="3213"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393076" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3534" stop="3244"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393075" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3533" stop="3087"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200845" 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>TAAAATGTATGTATATTGCATAATTATAAGTGTATAGCAAGAAGATATATGTTTTTCTCGCTTTATACAAAAACAGAAACACAATATATACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATGTCACTGCAATTGTATAATTCGCAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTAAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTATAAAACGAAGATATACATTTTTCCATGTGTATATATAATTTTCTCTCGCTTTATACAAAACAGAAACAGAATTATACACTTCTGTGTATAAAGCGAGAGAAACGAGCGAGAATTGAGAGTGGCGAGCGAGATTTTTGGGAGAGAGGCGCTGGCAAATTTTAGCTAAGGTTTGCTATGGAGCACAATTAAATCAAACCCTAGTTATTCCATTTAATTTAAGTTATTAG</gDNA_template>
            <first_frame> *  N  V  C  I  L  H  N  Y  K  C  I  A  R  R  Y  M  F  F  S  L  Y  T  K  T  E  T  Q  Y  I  H  F  C  C  I  K  L  E  K  I  V  C  H  C  N  C  I  I  R  N  C  I  I  R  W  P  F  S  L  Q  Y  L  K  *  N  V  C  K  L  Y  N  *  V  Y  K  T  K  I  Y  I  F  P  C  V  Y  I  I  F  S  R  F  I  Q  N  R  N  R  I  I  H  F  C  V  *  S  E  R  N  E  R  E  L  R  V  A  S  E  I  F  G  R  E  A  L  A  N  F  S  *  G  L  L  W  S  T  I  K  S  N  P  S  Y  S  I  *  F  K  L  L  </first_frame>
            <second_frame>  K  M  Y  V  Y  C  I  I  I  S  V  *  Q  E  D  I  C  F  S  R  F  I  Q  K  Q  K  H  N  I  Y  T  S  V  V  *  S  *  R  K  L  Y  V  T  A  I  V  *  F  A  I  V  *  F  V  G  L  F  L  C  N  I  *  S  K  M  F  V  N  C  I  I  K  C  I  K  R  R  Y  T  F  F  H  V  Y  I  *  F  S  L  A  L  Y  K  T  E  T  E  L  Y  T  S  V  Y  K  A  R  E  T  S  E  N  *  E  W  R  A  R  F  L  G  E  R  R  W  Q  I  L  A  K  V  C  Y  G  A  Q  L  N  Q  T  L  V  I  P  F  N  L  S  Y  * </second_frame>
            <third_frame>   K  C  M  Y  I  A  *  L  *  V  Y  S  K  K  I  Y  V  F  L  A  L  Y  K  N  R  N  T  I  Y  T  L  L  L  Y  K  A  R  E  N  C  M  S  L  Q  L  Y  N  S  Q  L  Y  N  S  L  A  F  F  S  A  I  F  K  V  K  C  L  *  I  V  *  L  S  V  *  N  E  D  I  H  F  S  M  C  I  Y  N  F  L  S  L  Y  T  K  Q  K  Q  N  Y  T  L  L  C  I  K  R  E  K  R  A  R  I  E  S  G  E  R  D  F  W  E  R  G  A  G  K  F  *  L  R  F  A  M  E  H  N  *  I  K  P  *  L  F  H  L  I  *  V  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/">
            <none gDNA_id="C03HBa0121O11.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="8657" PGL_stop="10284"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="8657" e_stop="9062"/>
            <exon e_start="9879" e_stop="10031"/>
            <exon e_start="10134" e_stop="10284"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.978" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.357" e_score="1.000"/>
          <exon-only e_score="0.947"/>
        </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="8657" e_stop="9062" e_length="406"/>
          </exon>
          <intron i_serial="1" don_prob="0.978" acc_prob="0.996">
            <gDNA_intron_boundary i_start="9063" i_stop="9878" i_length="816"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="9879" e_stop="10031" e_length="153"/>
          </exon>
          <intron i_serial="2" don_prob="0.994" acc_prob="0.357">
            <gDNA_intron_boundary i_start="10032" i_stop="10133" i_length="102"/>
          </intron>
          <exon e_serial="3" e_score="0.947">
            <gDNA_exon_boundary e_start="10134" e_stop="10284" e_length="151"/>
          </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="8657" stop="9062"/>
              <exon start="9879" stop="10031"/>
              <exon start="10134" stop="10284"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703567" 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>CTGTTTTTTCTGCTCGCCGGAAAGTATGGCGGATGAGTTTGCATCGTCGGTAGATATGGGGCTTCAGTTAACTAAACGGATTTACTACGGTAAAAATCCGCCGAAGCCACTTGTAATGGAGAAAAAATCATCTGAGATTAATAACTTGCCGACGGCACCTATGGTGTACGCCGTCGTTAGGGACCCATCGATGGTGGATAATCCTGATATTCCGAGCTATCAACCGTATGTTCACGGCCGTTGTGATCCGCCGGCGTTGATTCCGCTTGACATGCAGGGGATCGCAATGGAGGTTGATTGTTATATGGATACTGCTTTTGTAACGGTCAACGGAACTTGGCGTGTGCACTGTATTGCTTCTAGTCGATATTGCGATTGTCGAATCGCTGTACCAATGGGAGAGCAG : GGTTCAGTTCTAGGTGTGGAGATTGAAACACCATCAAGATCGTATTCCACCTTATTGATTGAATCAAATGATACCAAAGATGCCGGTTTAGTAGCCAATGCTAAAGATGGCTTCTTACTAAATCGCCGGATATACACATTAAAGGTCCCTCAG : GTTGCTGGAGGTTCTATTCTCTCCGTTAAAGTCAGTTGGTCACAGAAAATACTGTATCAAGATGGTCAATTTTCCTTTAGTATACCTTTCAGTTTCCCGTGGTATGTCAATCCAATTGCAAAACTATTGTGCAAGAAAGAGAGGATTCGGT</gDNA_template>
            <first_frame> L  F  F  L  L  A  G  K  Y  G  G  *  V  C  I  V  G  R  Y  G  A  S  V  N  *  T  D  L  L  R  *  K  S  A  E  A  T  C  N  G  E  K  I  I  *  D  *  *  L  A  D  G  T  Y  G  V  R  R  R  *  G  P  I  D  G  G  *  S  *  Y  S  E  L  S  T  V  C  S  R  P  L  *  S  A  G  V  D  S  A  *  H  A  G  D  R  N  G  G  *  L  L  Y  G  Y  C  F  C  N  G  Q  R  N  L  A  C  A  L  Y  C  F  *  S  I  L  R  L  S  N  R  C  T  N  G  R  A   : G  F  S  S  R  C  G  D  *  N  T  I  K  I  V  F  H  L  I  D  *  I  K  *  Y  Q  R  C  R  F  S  S  Q  C  *  R  W  L  L  T  K  S  P  D  I  H  I  K  G  P  S   : G  C  W  R  F  Y  S  L  R  *  S  Q  L  V  T  E  N  T  V  S  R  W  S  I  F  L  *  Y  T  F  Q  F  P  V  V  C  Q  S  N  C  K  T  I  V  Q  E  R  E  D  S   </first_frame>
            <second_frame>  C  F  F  C  S  P  E  S  M  A  D  E  F  A  S  S  V  D  M  G  L  Q  L  T  K  R  I  Y  Y  G  K  N  P  P  K  P  L  V  M  E  K  K  S  S  E  I  N  N  L  P  T  A  P  M  V  Y  A  V  V  R  D  P  S  M  V  D  N  P  D  I  P  S  Y  Q  P  Y  V  H  G  R  C  D  P  P  A  L  I  P  L  D  M  Q  G  I  A  M  E  V  D  C  Y  M  D  T  A  F  V  T  V  N  G  T  W  R  V  H  C  I  A  S  S  R  Y  C  D  C  R  I  A  V  P  M  G  E  Q  :  G  S  V  L  G  V  E  I  E  T  P  S  R  S  Y  S  T  L  L  I  E  S  N  D  T  K  D  A  G  L  V  A  N  A  K  D  G  F  L  L  N  R  R  I  Y  T  L  K  V  P  Q  :  V  A  G  G  S  I  L  S  V  K  V  S  W  S  Q  K  I  L  Y  Q  D  G  Q  F  S  F  S  I  P  F  S  F  P  W  Y  V  N  P  I  A  K  L  L  C  K  K  E  R  I  R  </second_frame>
            <third_frame>   V  F  S  A  R  R  K  V  W  R  M  S  L  H  R  R  *  I  W  G  F  S  *  L  N  G  F  T  T  V  K  I  R  R  S  H  L  *  W  R  K  N  H  L  R  L  I  T  C  R  R  H  L  W  C  T  P  S  L  G  T  H  R  W  W  I  I  L  I  F  R  A  I  N  R  M  F  T  A  V  V  I  R  R  R  *  F  R  L  T  C  R  G  S  Q  W  R  L  I  V  I  W  I  L  L  L  *  R  S  T  E  L  G  V  C  T  V  L  L  L  V  D  I  A  I  V  E  S  L  Y  Q  W  E  S  R :   V  Q  F  *  V  W  R  L  K  H  H  Q  D  R  I  P  P  Y  *  L  N  Q  M  I  P  K  M  P  V  *  *  P  M  L  K  M  A  S  Y  *  I  A  G  Y  T  H  *  R  S  L  R :   L  L  E  V  L  F  S  P  L  K  S  V  G  H  R  K  Y  C  I  K  M  V  N  F  P  L  V  Y  L  S  V  S  R  G  M  S  I  Q  L  Q  N  Y  C  A  R  K  R  G  F  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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="8658" stop="9062"/>
                    <exon start="9879" stop="10031"/>
                    <exon start="10134" stop="10283"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>708</number_coding_nucleotides>
                  <number_encoded_amino_acids>236</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>CFFCSPESMADEFASSVDMGLQLTKRIYYGKNPPKPLVMEKKSSEINNLPTAPMVYAVVRDPSMVDNPDIPSYQPYVHGRCDPPALIPLDMQGIAMEVDCYMDTAFVTVNGTWRVHCIASSRYCDCRIAVPMGEQGSVLGVEIETPSRSYSTLLIESNDTKDAGLVANAKDGFLLNRRIYTLKVPQVAGGSILSVKVSWSQKILYQDGQFSFSIPFSFPWYVNPIAKLLCKKERIR</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="12560" PGL_stop="14242"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="12560" e_stop="12574"/>
            <exon e_start="12825" e_stop="12995"/>
            <exon e_start="13297" e_stop="13371"/>
            <exon e_start="13578" e_stop="13685"/>
            <exon e_start="14153" e_stop="14242"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="0.986" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.998" e_score="0.982"/>
          <exon-intron don_prob="0.830" acc_prob="0.995" e_score="0.987"/>
          <exon-intron don_prob="0.968" acc_prob="0.609" 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="12560" e_stop="12574" e_length="15"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="0.986">
            <gDNA_intron_boundary i_start="12575" i_stop="12824" i_length="250"/>
          </intron>
          <exon e_serial="2" e_score="0.982">
            <gDNA_exon_boundary e_start="12825" e_stop="12995" e_length="171"/>
          </exon>
          <intron i_serial="2" don_prob="0.990" acc_prob="0.998">
            <gDNA_intron_boundary i_start="12996" i_stop="13296" i_length="301"/>
          </intron>
          <exon e_serial="3" e_score="0.987">
            <gDNA_exon_boundary e_start="13297" e_stop="13371" e_length="75"/>
          </exon>
          <intron i_serial="3" don_prob="0.830" acc_prob="0.995">
            <gDNA_intron_boundary i_start="13372" i_stop="13577" i_length="206"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="13578" e_stop="13685" e_length="108"/>
          </exon>
          <intron i_serial="4" don_prob="0.968" acc_prob="0.609">
            <gDNA_intron_boundary i_start="13686" i_stop="14152" i_length="467"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="14153" e_stop="14242" e_length="90"/>
          </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="12560" stop="12574"/>
              <exon start="12825" stop="12995"/>
              <exon start="13297" stop="13371"/>
              <exon start="13578" stop="13685"/>
              <exon start="14153" stop="14242"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E254193" 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>CTTGATTCATTTGAG : CTATATCCATGTTATCTGCCGGACCTGTTGTCTTCAAGACCACTGATTGTCTCTGGCAGATTCATCGGGACCTGCCCTGGTTCTGTTAAAGTTAGTGGCACGCTAGCAGATTTGAGCAGTTTTGTGGTCAATGTCAAAGTACAAAAAGCAAAGGATCTTCCTTTGGAAAGA : GTTTTTGCAAAGAGACAAATTGAAACAATAACTGGGAATGCCTGGTTTTCCGGAAGCAAGCAACTAGAGGAGATG : GTTGCGAAATTGAGCTTGCAAACTGGGGTGCCTTCAGAGTACACCAACTTGATTTTGGTTGAAAATTTAAAGGAGAAGCAGACGTCTAAATTAGAGACAGTAGATGAG : AAGGCCTCTGATCAGTTGAATGTCAAGAAGATCATATACCTTCGAGCACTCGGTGTTGGTTTTGGGAACTTGAAGGCAACTGCAGACAAT</gDNA_template>
            <first_frame> L  D  S  F  E  :  L  Y  P  C  Y  L  P  D  L  L  S  S  R  P  L  I  V  S  G  R  F  I  G  T  C  P  G  S  V  K  V  S  G  T  L  A  D  L  S  S  F  V  V  N  V  K  V  Q  K  A  K  D  L  P  L  E  R  :  V  F  A  K  R  Q  I  E  T  I  T  G  N  A  W  F  S  G  S  K  Q  L  E  E  M  :  V  A  K  L  S  L  Q  T  G  V  P  S  E  Y  T  N  L  I  L  V  E  N  L  K  E  K  Q  T  S  K  L  E  T  V  D  E  :  K  A  S  D  Q  L  N  V  K  K  I  I  Y  L  R  A  L  G  V  G  F  G  N  L  K  A  T  A  D  N </first_frame>
            <second_frame>  L  I  H  L  S :   Y  I  H  V  I  C  R  T  C  C  L  Q  D  H  *  L  S  L  A  D  S  S  G  P  A  L  V  L  L  K  L  V  A  R  *  Q  I  *  A  V  L  W  S  M  S  K  Y  K  K  Q  R  I  F  L  W  K  E :   F  L  Q  R  D  K  L  K  Q  *  L  G  M  P  G  F  P  E  A  S  N  *  R  R  W :   L  R  N  *  A  C  K  L  G  C  L  Q  S  T  P  T  *  F  W  L  K  I  *  R  R  S  R  R  L  N  *  R  Q  *  M  R :   R  P  L  I  S  *  M  S  R  R  S  Y  T  F  E  H  S  V  L  V  L  G  T  *  R  Q  L  Q  T   </second_frame>
            <third_frame>   *  F  I  *   : A  I  S  M  L  S  A  G  P  V  V  F  K  T  T  D  C  L  W  Q  I  H  R  D  L  P  W  F  C  *  S  *  W  H  A  S  R  F  E  Q  F  C  G  Q  C  Q  S  T  K  S  K  G  S  S  F  G  K   : S  F  C  K  E  T  N  *  N  N  N  W  E  C  L  V  F  R  K  Q  A  T  R  G  D   : G  C  E  I  E  L  A  N  W  G  A  F  R  V  H  Q  L  D  F  G  *  K  F  K  G  E  A  D  V  *  I  R  D  S  R  *   : E  G  L  *  S  V  E  C  Q  E  D  H  I  P  S  S  T  R  C  W  F  W  E  L  E  G  N  C  R  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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="12560" stop="12574"/>
                    <exon start="12825" stop="12995"/>
                    <exon start="13297" stop="13371"/>
                    <exon start="13578" stop="13685"/>
                    <exon start="14153" stop="14242"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>459</number_coding_nucleotides>
                  <number_encoded_amino_acids>153</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LDSFELYPCYLPDLLSSRPLIVSGRFIGTCPGSVKVSGTLADLSSFVVNVKVQKAKDLPLERVFAKRQIETITGNAWFSGSKQLEEMVAKLSLQTGVPSEYTNLILVENLKEKQTSKLETVDEKASDQLNVKKIIYLRALGVGFGNLKATADN</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="14622" PGL_stop="14267"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="14622" e_stop="14267"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.980"/>
        </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="0.980">
            <gDNA_exon_boundary e_start="14622" e_stop="14267" e_length="356"/>
          </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="14622" stop="14267"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E273039" 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>ATACATATATACATATAATTTTTTTAAAAGTTACAAGGTGCACGTGCACCCCCACCATATGGTGTGGGTCCGCATCTGAATACAACTATACATATAAATAGCGTGACAGTCTAACCATATTTAATTTCTGCTACATCTGTGGTAATATATTAGCCACAGTCTCCACATACTTCACAACAAAAACTAATACACTCAAAACAAGCGAGCGCTGTACAGATTTGTGCTAATGTCACAGCACATTGATCACTAACCCGAGAGCAGAACTGTATGAAACACATGCAACAGCAAAAGTCACATAATTTGCCACATAAGTTTGAAGCAGCGGCAAATACCATTTCTGATGTTTCATGCAACTT</gDNA_template>
            <first_frame> I  H  I  Y  I  *  F  F  *  K  L  Q  G  A  R  A  P  P  P  Y  G  V  G  P  H  L  N  T  T  I  H  I  N  S  V  T  V  *  P  Y  L  I  S  A  T  S  V  V  I  Y  *  P  Q  S  P  H  T  S  Q  Q  K  L  I  H  S  K  Q  A  S  A  V  Q  I  C  A  N  V  T  A  H  *  S  L  T  R  E  Q  N  C  M  K  H  M  Q  Q  Q  K  S  H  N  L  P  H  K  F  E  A  A  A  N  T  I  S  D  V  S  C  N   </first_frame>
            <second_frame>  Y  I  Y  T  Y  N  F  F  K  S  Y  K  V  H  V  H  P  H  H  M  V  W  V  R  I  *  I  Q  L  Y  I  *  I  A  *  Q  S  N  H  I  *  F  L  L  H  L  W  *  Y  I  S  H  S  L  H  I  L  H  N  K  N  *  Y  T  Q  N  K  R  A  L  Y  R  F  V  L  M  S  Q  H  I  D  H  *  P  E  S  R  T  V  *  N  T  C  N  S  K  S  H  I  I  C  H  I  S  L  K  Q  R  Q  I  P  F  L  M  F  H  A  T  </second_frame>
            <third_frame>   T  Y  I  H  I  I  F  L  K  V  T  R  C  T  C  T  P  T  I  W  C  G  S  A  S  E  Y  N  Y  T  Y  K  *  R  D  S  L  T  I  F  N  F  C  Y  I  C  G  N  I  L  A  T  V  S  T  Y  F  T  T  K  T  N  T  L  K  T  S  E  R  C  T  D  L  C  *  C  H  S  T  L  I  T  N  P  R  A  E  L  Y  E  T  H  A  T  A  K  V  T  *  F  A  T  *  V  *  S  S  G  K  Y  H  F  *  C  F  M  Q  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/">
            <none gDNA_id="C03HBa0121O11.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="+" PGL_start="16004" PGL_stop="21007"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="16004" e_stop="16373"/>
            <exon e_start="19183" e_stop="19251"/>
            <exon e_start="19331" e_stop="19446"/>
            <exon e_start="19540" e_stop="19602"/>
            <exon e_start="20335" e_stop="20748"/>
            <exon e_start="20970" e_stop="21007"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.742" e_score="0.997"/>
          <exon-intron don_prob="0.813" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.970" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.987" e_score="1.000"/>
          <exon-intron don_prob="0.641" acc_prob="0.962" e_score="0.998"/>
          <exon-only e_score="0.550"/>
        </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="16004" e_stop="16373" e_length="370"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.742">
            <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="19183" e_stop="19251" e_length="69"/>
          </exon>
          <intron i_serial="2" don_prob="0.813" acc_prob="0.994">
            <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="19331" e_stop="19446" e_length="116"/>
          </exon>
          <intron i_serial="3" don_prob="0.970" acc_prob="0.999">
            <gDNA_intron_boundary i_start="19447" i_stop="19539" i_length="93"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="19540" e_stop="19602" e_length="63"/>
          </exon>
          <intron i_serial="4" don_prob="0.999" acc_prob="0.987">
            <gDNA_intron_boundary i_start="19603" i_stop="20334" i_length="732"/>
          </intron>
          <exon e_serial="5" e_score="0.998">
            <gDNA_exon_boundary e_start="20335" e_stop="20748" e_length="414"/>
          </exon>
          <intron i_serial="5" don_prob="0.641" acc_prob="0.962">
            <gDNA_intron_boundary i_start="20749" i_stop="20969" i_length="221"/>
          </intron>
          <exon e_serial="6" e_score="0.550">
            <gDNA_exon_boundary e_start="20970" e_stop="21007" e_length="38"/>
          </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="16004" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20408"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327004" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16007" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19387"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E311984" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16016" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20748"/>
              <exon start="20970" stop="20989"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E745340" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16024" stop="16373"/>
              <exon start="19183" stop="19240"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E338212" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16032" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19581"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203365" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16034" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20486"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328930" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16040" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20541"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E262413" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16040" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20485"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E260832" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16040" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19423"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257794" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16040" stop="16303"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375749" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16050" stop="16373"/>
              <exon start="19183" stop="19240"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E267327" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16249" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19428"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257712" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="19560" stop="19602"/>
              <exon start="20335" stop="20748"/>
              <exon start="20970" stop="21007"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203366" 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>AAAGCGTATGACTCCCCCAAAATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA : AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTG : CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTG : GACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGG : GCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGTAAAGGTTACTGGTGTTAAGACATGGTGAATGGGGAAACAAGTGTTTGAGTTGTTCCATTTCCCGTCTTTTATGCTAGTCTGGAGGAATTGTAGTTTTAAGTTAGACTCTGTATATGCTGTGAAATGGGAGTTTCCGGTATTTGCTTTTTTTCCAATGTCCTTTTCTTATTCAACATTAATCAAGCGCGTTGCTCAGTTTATTTTTAG : CAAGTGCAAACTGAAGAAAAAGCACTGCACCGACAACG</gDNA_template>
            <first_frame> K  A  Y  D  S  P  K  I  L  G  I  G  R  I  *  G  S  S  R  S  E  Q  P  K  V  N  K  F  F  F  S  N  F  S  Q  I  *  G  L  W  S  F  F  Y  F  L  I  *  R  *  N  *  D  F  S  L  C  V  L  S  E  A  A  K  L  L  L  G  H  C  K  A  G  N  R  I  C  Q  C  K  L  N  *  N  L  K  K  F  R  *  F  L  G  Y  R  K  R  *  T  E  S  K  S  M  S  W  A  S  P  E  D  I  Y  T  S  T  S  L  A  S  Y  L  D   : K  K  L  L  V  L  L  R  D  G  R  K  L  L  G  I  L  R  S  F  D  Q  F   : A  N  A  V  L  E  S  A  C  E  R  A  I  V  G  D  L  Y  C  D  I  P  L  G  L  Y  I  I  R  G  E  N  V  V  L  I  G  E  L  :  D  V  D  K  E  E  L  P  P  H  M  T  R  V  S  E  A  E  I  R  R  :  A  Q  K  A  E  R  D  S  T  D  L  K  G  S  M  R  K  R  M  E  F  L  D  M  D  *  R  F  T  V  V  Y  D  N  S  M  S  S  A  N  I  I  A  V  A  A  W  R  S  F  S  P  G  I  F  C  V  H  L  *  H  V  F  L  L  *  R  L  S  K  G  Y  W  C  *  D  M  V  N  G  E  T  S  V  *  V  V  P  F  P  V  F  Y  A  S  L  E  E  L  *  F  *  V  R  L  C  I  C  C  E  M  G  V  S  G  I  C  F  F  S  N  V  L  F  L  F  N  I  N  Q  A  R  C  S  V  Y  F  *  :  Q  V  Q  T  E  E  K  A  L  H  R  Q   </first_frame>
            <second_frame>  K  R  M  T  P  P  K  F  W  G  *  A  E  F  R  V  P  P  D  L  S  N  Q  K  S  T  N  F  F  F  Q  T  S  L  R  F  R  G  F  G  V  F  F  I  S  *  F  S  A  R  I  R  I  L  V  Y  V  F  S  V  K  R  R  S  F  C  *  G  T  V  K  R  V  I  G  S  A  N  A  N  *  I  E  I  S  R  S  F  G  D  F  W  D  T  E  S  V  K  L  K  A  N  Q  C  L  G  Q  V  Q  K  I  S  I  P  P  L  L  L  Q  V  I  S  T  :  R  N  F  L  C  C  C  E  M  G  E  S  F  *  E  Y  F  V  L  L  T  N  L  :  L  M  L  F  L  K  V  H  V  S  V  L  L  L  V  I  Y  I  V  I  S  H  *  V  S  I  L  Y  V  G  K  M  L  C  *  L  V  N  W :   T  W  I  R  R  S  F  L  P  I  *  H  V  F  Q  K  L  R  *  E  G :   H  R  K  Q  K  G  T  L  Q  I  L  K  V  Q  *  G  R  G  W  N  F  L  I  W  I  K  G  L  L  L  F  T  I  I  P  C  L  L  Q  I  L  S  Q  L  L  R  G  V  R  F  L  L  G  Y  S  V  F  I  C  N  M  C  F  F  Y  D  V  *  V  K  V  T  G  V  K  T  W  *  M  G  K  Q  V  F  E  L  F  H  F  P  S  F  M  L  V  W  R  N  C  S  F  K  L  D  S  V  Y  A  V  K  W  E  F  P  V  F  A  F  F  P  M  S  F  S  Y  S  T  L  I  K  R  V  A  Q  F  I  F  S :   K  C  K  L  K  K  K  H  C  T  D  N  </second_frame>
            <third_frame>   S  V  *  L  P  Q  N  F  G  D  R  P  N  L  G  F  L  P  I  *  A  T  K  S  Q  Q  I  F  F  F  K  L  L  S  D  L  G  A  L  E  F  F  L  F  L  D  L  A  L  E  L  G  F  *  F  M  C  S  Q  *  S  G  E  A  F  V  R  A  L  *  S  G  *  S  D  L  P  M  Q  I  E  L  K  S  Q  E  V  S  V  I  F  G  I  P  K  A  L  N  *  K  Q  I  N  V  L  G  K  S  R  R  Y  L  Y  L  H  F  S  C  K  L  S  R  Q :   E  T  S  C  A  V  A  R  W  A  K  A  F  R  N  T  S  F  F  *  P  I  C :   *  C  C  S  *  K  C  M  *  A  C  Y  C  W  *  S  I  L  *  Y  P  I  R  S  L  Y  Y  T  W  G  K  C  C  V  N  W  *  T   : G  R  G  *  G  G  A  S  S  P  Y  D  T  C  F  R  S  *  D  K  K   : G  T  E  S  R  K  G  L  Y  R  S  *  R  F  N  E  E  E  D  G  I  S  *  Y  G  L  K  V  Y  C  C  L  R  *  F  H  V  F  C  K  Y  Y  R  S  C  C  V  A  F  V  F  S  W  D  I  L  C  S  F  V  T  C  V  S  F  M  T  F  E  *  R  L  L  V  L  R  H  G  E  W  G  N  K  C  L  S  C  S  I  S  R  L  L  C  *  S  G  G  I  V  V  L  S  *  T  L  Y  M  L  *  N  G  S  F  R  Y  L  L  F  F  Q  C  P  F  L  I  Q  H  *  S  S  A  L  L  S  L  F  L   : A  S  A  N  *  R  K  S  T  A  P  T  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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="16298" stop="16373"/>
                    <exon start="19183" stop="19251"/>
                    <exon start="19331" stop="19446"/>
                    <exon start="19540" stop="19602"/>
                    <exon start="20335" stop="20412"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>399</number_coding_nucleotides>
                  <number_encoded_amino_acids>133</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TESKSMSWASPEDIYTSTSLASYLDKKLLVLLRDGRKLLGILRSFDQFANAVLESACERAIVGDLYCDIPLGLYIIRGENVVLIGELDVDKEELPPHMTRVSEAEIRRAQKAERDSTDLKGSMRKRMEFLDMD*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="20570" stop="20748"/>
                    <exon start="20970" stop="21006"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>216</number_coding_nucleotides>
                  <number_encoded_amino_acids>72</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MGKQVFELFHFPSFMLVWRNCSFKLDSVYAVKWEFPVFAFFPMSFSYSTLIKRVAQFIFSKCKLKKKHCTDN</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="16004" e_stop="16373"/>
            <exon e_start="19183" e_stop="19251"/>
            <exon e_start="19331" e_stop="19446"/>
            <exon e_start="19540" e_stop="19602"/>
            <exon e_start="20335" e_stop="20695"/>
            <exon e_start="20873" e_stop="20877"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.742" e_score="0.997"/>
          <exon-intron don_prob="0.813" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.970" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.987" e_score="1.000"/>
          <exon-intron don_prob="0.900" acc_prob="0.052" e_score="0.986"/>
          <exon-only e_score="0.800"/>
        </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="16004" e_stop="16373" e_length="370"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.742">
            <gDNA_intron_boundary i_start="16374" i_stop="19182" i_length="2809"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="19183" e_stop="19251" e_length="69"/>
          </exon>
          <intron i_serial="2" don_prob="0.813" acc_prob="0.994">
            <gDNA_intron_boundary i_start="19252" i_stop="19330" i_length="79"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="19331" e_stop="19446" e_length="116"/>
          </exon>
          <intron i_serial="3" don_prob="0.970" acc_prob="0.999">
            <gDNA_intron_boundary i_start="19447" i_stop="19539" i_length="93"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="19540" e_stop="19602" e_length="63"/>
          </exon>
          <intron i_serial="4" don_prob="0.999" acc_prob="0.987">
            <gDNA_intron_boundary i_start="19603" i_stop="20334" i_length="732"/>
          </intron>
          <exon e_serial="5" e_score="0.986">
            <gDNA_exon_boundary e_start="20335" e_stop="20695" e_length="361"/>
          </exon>
          <intron i_serial="5" don_prob="0.900" acc_prob="0.052">
            <gDNA_intron_boundary i_start="20696" i_stop="20872" i_length="177"/>
          </intron>
          <exon e_serial="6" e_score="0.800">
            <gDNA_exon_boundary e_start="20873" e_stop="20877" 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="16004" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20408"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327004" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16007" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19387"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E311984" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16024" stop="16373"/>
              <exon start="19183" stop="19240"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E338212" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16032" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19581"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203365" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16034" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20486"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328930" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16040" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20541"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E262413" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16040" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20485"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E260832" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16040" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19423"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257794" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16040" stop="16303"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375749" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16050" stop="16373"/>
              <exon start="19183" stop="19240"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E267327" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16249" stop="16373"/>
              <exon start="19183" stop="19251"/>
              <exon start="19331" stop="19428"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257712" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="19370" stop="19446"/>
              <exon start="19540" stop="19602"/>
              <exon start="20335" stop="20695"/>
              <exon start="20873" stop="20877"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E337497" 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="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>AAAGCGTATGACTCCCCCAAAATTTTGGGGATAGGCCGAATTTAGGGTTCCTCCCGATCTGAGCAACCAAAAGTCAACAAATTTTTTTTTTCAAACTTCTCTCAGATTTAGGGGCTTTGGAGTTTTTTTTATTTCTTGATTTAGCGCTAGAATTAGGATTTTAGTTTATGTGTTCTCAGTGAAGCGGCGAAGCTTTTGTTAGGGCACTGTAAAGCGGGTAATCGGATCTGCCAATGCAAATTGAATTGAAATCTCAAGAAGTTTCGGTGATTTTTGGGATACCGAAAGCGTTAAACTGAAAGCAAATCAATGTCTTGGGCAAGTCCAGAAGATATCTATACCTCCACTTCTCTTGCAAGTTATCTCGACA : AGAAACTTCTTGTGCTGTTGCGAGATGGGCGAAAGCTTTTAGGAATACTTCGTTCTTTTGACCAATTTG : CTAATGCTGTTCTTGAAAGTGCATGTGAGCGTGCTATTGTTGGTGATCTATATTGTGATATCCCATTAGGTCTCTATATTATACGTGGGGAAAATGTTGTGTTAATTGGTGAACTG : GACGTGGATAAGGAGGAGCTTCCTCCCCATATGACACGTGTTTCAGAAGCTGAGATAAGAAGG : GCACAGAAAGCAGAAAGGGACTCTACAGATCTTAAAGGTTCAATGAGGAAGAGGATGGAATTTCTTGATATGGATTAAAGGTTTACTGTTGTTTACGATAATTCCATGTCTTCTGCAAATATTATCGCAGTTGCTGCGTGGCGTTCGTTTTCTCCTGGGATATTCTGTGTTCATTTGTAACATGTGTTTCTTTTATGACGTTTGAGTAAAGGTTACTGGTGTTAAGACATGGTGAATGGGGAAACAAGTGTTTGAGTTGTTCCATTTCCCGTCTTTTATGCTAGTCTGGAGGAATTGTAGTTTTAAGTTAGACTCTGTATATGCTGTGAAATGGGAGTTTCCGGTATTTGCTTTTTTTCCA : AAGAA</gDNA_template>
            <first_frame> K  A  Y  D  S  P  K  I  L  G  I  G  R  I  *  G  S  S  R  S  E  Q  P  K  V  N  K  F  F  F  S  N  F  S  Q  I  *  G  L  W  S  F  F  Y  F  L  I  *  R  *  N  *  D  F  S  L  C  V  L  S  E  A  A  K  L  L  L  G  H  C  K  A  G  N  R  I  C  Q  C  K  L  N  *  N  L  K  K  F  R  *  F  L  G  Y  R  K  R  *  T  E  S  K  S  M  S  W  A  S  P  E  D  I  Y  T  S  T  S  L  A  S  Y  L  D   : K  K  L  L  V  L  L  R  D  G  R  K  L  L  G  I  L  R  S  F  D  Q  F   : A  N  A  V  L  E  S  A  C  E  R  A  I  V  G  D  L  Y  C  D  I  P  L  G  L  Y  I  I  R  G  E  N  V  V  L  I  G  E  L  :  D  V  D  K  E  E  L  P  P  H  M  T  R  V  S  E  A  E  I  R  R  :  A  Q  K  A  E  R  D  S  T  D  L  K  G  S  M  R  K  R  M  E  F  L  D  M  D  *  R  F  T  V  V  Y  D  N  S  M  S  S  A  N  I  I  A  V  A  A  W  R  S  F  S  P  G  I  F  C  V  H  L  *  H  V  F  L  L  *  R  L  S  K  G  Y  W  C  *  D  M  V  N  G  E  T  S  V  *  V  V  P  F  P  V  F  Y  A  S  L  E  E  L  *  F  *  V  R  L  C  I  C  C  E  M  G  V  S  G  I  C  F  F  S   : K  E </first_frame>
            <second_frame>  K  R  M  T  P  P  K  F  W  G  *  A  E  F  R  V  P  P  D  L  S  N  Q  K  S  T  N  F  F  F  Q  T  S  L  R  F  R  G  F  G  V  F  F  I  S  *  F  S  A  R  I  R  I  L  V  Y  V  F  S  V  K  R  R  S  F  C  *  G  T  V  K  R  V  I  G  S  A  N  A  N  *  I  E  I  S  R  S  F  G  D  F  W  D  T  E  S  V  K  L  K  A  N  Q  C  L  G  Q  V  Q  K  I  S  I  P  P  L  L  L  Q  V  I  S  T  :  R  N  F  L  C  C  C  E  M  G  E  S  F  *  E  Y  F  V  L  L  T  N  L  :  L  M  L  F  L  K  V  H  V  S  V  L  L  L  V  I  Y  I  V  I  S  H  *  V  S  I  L  Y  V  G  K  M  L  C  *  L  V  N  W :   T  W  I  R  R  S  F  L  P  I  *  H  V  F  Q  K  L  R  *  E  G :   H  R  K  Q  K  G  T  L  Q  I  L  K  V  Q  *  G  R  G  W  N  F  L  I  W  I  K  G  L  L  L  F  T  I  I  P  C  L  L  Q  I  L  S  Q  L  L  R  G  V  R  F  L  L  G  Y  S  V  F  I  C  N  M  C  F  F  Y  D  V  *  V  K  V  T  G  V  K  T  W  *  M  G  K  Q  V  F  E  L  F  H  F  P  S  F  M  L  V  W  R  N  C  S  F  K  L  D  S  V  Y  A  V  K  W  E  F  P  V  F  A  F  F  P  :  K   </second_frame>
            <third_frame>   S  V  *  L  P  Q  N  F  G  D  R  P  N  L  G  F  L  P  I  *  A  T  K  S  Q  Q  I  F  F  F  K  L  L  S  D  L  G  A  L  E  F  F  L  F  L  D  L  A  L  E  L  G  F  *  F  M  C  S  Q  *  S  G  E  A  F  V  R  A  L  *  S  G  *  S  D  L  P  M  Q  I  E  L  K  S  Q  E  V  S  V  I  F  G  I  P  K  A  L  N  *  K  Q  I  N  V  L  G  K  S  R  R  Y  L  Y  L  H  F  S  C  K  L  S  R  Q :   E  T  S  C  A  V  A  R  W  A  K  A  F  R  N  T  S  F  F  *  P  I  C :   *  C  C  S  *  K  C  M  *  A  C  Y  C  W  *  S  I  L  *  Y  P  I  R  S  L  Y  Y  T  W  G  K  C  C  V  N  W  *  T   : G  R  G  *  G  G  A  S  S  P  Y  D  T  C  F  R  S  *  D  K  K   : G  T  E  S  R  K  G  L  Y  R  S  *  R  F  N  E  E  E  D  G  I  S  *  Y  G  L  K  V  Y  C  C  L  R  *  F  H  V  F  C  K  Y  Y  R  S  C  C  V  A  F  V  F  S  W  D  I  L  C  S  F  V  T  C  V  S  F  M  T  F  E  *  R  L  L  V  L  R  H  G  E  W  G  N  K  C  L  S  C  S  I  S  R  L  L  C  *  S  G  G  I  V  V  L  S  *  T  L  Y  M  L  *  N  G  S  F  R  Y  L  L  F  F  Q :   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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="16298" stop="16373"/>
                    <exon start="19183" stop="19251"/>
                    <exon start="19331" stop="19446"/>
                    <exon start="19540" stop="19602"/>
                    <exon start="20335" stop="20412"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>399</number_coding_nucleotides>
                  <number_encoded_amino_acids>133</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TESKSMSWASPEDIYTSTSLASYLDKKLLVLLRDGRKLLGILRSFDQFANAVLESACERAIVGDLYCDIPLGLYIIRGENVVLIGELDVDKEELPPHMTRVSEAEIRRAQKAERDSTDLKGSMRKRMEFLDMD*</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="21505" PGL_stop="25705"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="21505" e_stop="21864"/>
            <exon e_start="22852" e_stop="23770"/>
            <exon e_start="24152" e_stop="24247"/>
            <exon e_start="24873" e_stop="25009"/>
            <exon e_start="25312" e_stop="25705"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.998" acc_prob="0.940" e_score="0.994"/>
          <exon-intron don_prob="0.906" acc_prob="0.826" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="0.252" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.961" e_score="1.000"/>
          <exon-only e_score="0.995"/>
        </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="21505" e_stop="21864" e_length="360"/>
          </exon>
          <intron i_serial="1" don_prob="0.998" acc_prob="0.940">
            <gDNA_intron_boundary i_start="21865" i_stop="22851" i_length="987"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="22852" e_stop="23770" e_length="919"/>
          </exon>
          <intron i_serial="2" don_prob="0.906" acc_prob="0.826">
            <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="24152" e_stop="24247" e_length="96"/>
          </exon>
          <intron i_serial="3" don_prob="0.993" acc_prob="0.252">
            <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="24873" e_stop="25009" e_length="137"/>
          </exon>
          <intron i_serial="4" don_prob="0.997" acc_prob="0.961">
            <gDNA_intron_boundary i_start="25010" i_stop="25311" i_length="302"/>
          </intron>
          <exon e_serial="5" e_score="0.995">
            <gDNA_exon_boundary e_start="25312" e_stop="25705" 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="21505" stop="21864"/>
              <exon start="22852" stop="23080"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698941" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21568" stop="21864"/>
              <exon start="22852" stop="23265"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335030" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21570" stop="21864"/>
              <exon start="22852" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25312" stop="25705"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E746771" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21571" stop="21864"/>
              <exon start="22852" stop="23155"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E270373" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21571" stop="21864"/>
              <exon start="22852" stop="23014"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E270221" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21632" stop="21864"/>
              <exon start="22852" stop="23177"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E313429" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22933" stop="23544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290798" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23610" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25312" stop="25441"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E392119" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23610" stop="23770"/>
              <exon start="24152" stop="24214"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396098" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23611" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25312" stop="25705"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E377135" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23611" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25312" stop="25581"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E238342" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23611" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25312" stop="25375"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E231087" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23611" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25312" stop="25372"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E238471" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23611" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25312" stop="25368"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E236493" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23611" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25001"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E240874" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23611" stop="23770"/>
              <exon start="24152" stop="24245"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239888" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23675" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25312" stop="25705"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E377134" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="24185" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25312" stop="25691"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E392118" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25330" stop="25667"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222637" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25350" stop="25676"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222392" 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>AGTAAACGAGTATTTACTAGTGAAACGTAGTCGCCAGTGGGTCCAATCTCCTCTCTCCATCACTCCGGTATTGCTGCTACTTGAGCAACAGCAGATCTGCTACTCTTTCACTCGCTGAGCTGATCTCTGAATTCGGCAAATGCTGTGGTTCAAGTCAATTGGAGCTTCAGGATTACTATTTCTACTCTGGTTATGGCTGTTCCAGACGACTGAAGCTTCAGTGCATGATTACAATGTGGAGAAATTCGTGAGCAAGGGCAATGCATTTGTGGTTCACGGAGGTAGCGAAGGAATTTACTCCTCTGTTCCTAACCTCACTGAATCTCCTTCCTATTCTTCTAACACCGACTCCTTCATTCG : GTTTGAAAAGATTATATTTCGGAGGCCAAAGGAATTCTCAAACTTCAGCTCAGACCCAGTTCATGCAATTGTTTTTGAGGTGGATGATCGAGAGTTAATTGGGGGCTCTGCTTATGGTGGCCAAAGAGCTATTTGTTGCACAGTGGATCTTGCAAAACTTGGAGTTTGTACACAAGGGCAAATAATTCACCGCCCATCTGCTAGTAATCCCGGATGGCCTAAAGTTTTTAGTGCCTCATTCAGCATTGATGAAGTTGATGTAGCACTGCAGTCGAGATCAATCCCCATTACAAAAACTGGGATGTATAACGTGTATTTTATTCACTGTGAGCCAAATCTTAAGGAAATAACTGTTGAAGGGAAAACCATATGGAAGAATCCTACTGGTTACCTACCTGGTAGAATGGCTCCCCTTATGAACTTCTATGGGTACATGTCTCTTGCATTCGTGTTACTAGGGATCTTTTGGTTTTCGCAGTATGCAAGATTCTGGAGAGAAGTTATTCCTTTACAAAATTGTATTACACTCGTTATAACATTGGGCATGCTTGAAATGGCCTTTTGGTACTTTGACTATGCTGAATTCAATGAAACTGGAGTCAGGCCCACTGGTACCACTGTATGGGCTGTGACATTTGGTACAGTAAAGCGCACAGTTGCACGTTTGGTCATTCTGATAGTCTCTATGGGCTATGGTGTTGTTAGACCTACTCTGGGTGGTCTCACATCAAAGGTCCTTTTGCTTGGAGGAACATTCTTTTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG : GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG : CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG : ATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTAATGTGATCTCTCTTGCAATAATTCTTATAGTTAAAAGG</gDNA_template>
            <first_frame> S  K  R  V  F  T  S  E  T  *  S  P  V  G  P  I  S  S  L  H  H  S  G  I  A  A  T  *  A  T  A  D  L  L  L  F  H  S  L  S  *  S  L  N  S  A  N  A  V  V  Q  V  N  W  S  F  R  I  T  I  S  T  L  V  M  A  V  P  D  D  *  S  F  S  A  *  L  Q  C  G  E  I  R  E  Q  G  Q  C  I  C  G  S  R  R  *  R  R  N  L  L  L  C  S  *  P  H  *  I  S  F  L  F  F  *  H  R  L  L  H  S  :  V  *  K  D  Y  I  S  E  A  K  G  I  L  K  L  Q  L  R  P  S  S  C  N  C  F  *  G  G  *  S  R  V  N  W  G  L  C  L  W  W  P  K  S  Y  L  L  H  S  G  S  C  K  T  W  S  L  Y  T  R  A  N  N  S  P  P  I  C  *  *  S  R  M  A  *  S  F  *  C  L  I  Q  H  *  *  S  *  C  S  T  A  V  E  I  N  P  H  Y  K  N  W  D  V  *  R  V  F  Y  S  L  *  A  K  S  *  G  N  N  C  *  R  E  N  H  M  E  E  S  Y  W  L  P  T  W  *  N  G  S  P  Y  E  L  L  W  V  H  V  S  C  I  R  V  T  R  D  L  L  V  F  A  V  C  K  I  L  E  R  S  Y  S  F  T  K  L  Y  Y  T  R  Y  N  I  G  H  A  *  N  G  L  L  V  L  *  L  C  *  I  Q  *  N  W  S  Q  A  H  W  Y  H  C  M  G  C  D  I  W  Y  S  K  A  H  S  C  T  F  G  H  S  D  S  L  Y  G  L  W  C  C  *  T  Y  S  G  W  S  H  I  K  G  P  F  A  W  R  N  I  L  F  G  F  *  S  A  *  T  G  R  K  C  W  C  C  Q  *  F  L  R  K  S  K  V  V  F  C  T  S  C  D  I  L  G  C  F  L  Y  R  L  D  I  H  L  L  V  G  N  C  E  *  A  S   : G  *  K  V  V  G  Q  I  R  H  L  S  Q  V  H  K  C  I  G  C  H  C  C  C  I  C  W  M  D  V  L  *   : A  V  L  Q  V  H  *  C  V  Q  *  A  M  A  K  C  L  D  Y  S  C  L  L  A  S  A  I  F  L  S  P  L  H  H  L  R  S  L  G  T  I  S  K  L  H  E  :  I  C  L  L  *  *  W  *  R  V  R  *  G  R  Y  I  Y  A  H  K  A  V  P  S  A  A  K  G  C  K  K  P  T  *  S  E  A  N  I  G  *  Q  R  T  I  *  W  *  S  C  R  R  Q  D  R  V  K  Q  D  T  Q  L  F  Y  S  T  L  K  K  G  T  R  Q  T  E  *  I  V  F  R  I  M  L  S  M  L  S  V  *  K  K  Y  E  C  *  S  G  E  V  F  *  V  K  Q  T  C  N  C  C  F  F  *  K  *  C  S  L  I  *  C  D  L  S  C  N  N  S  Y  S  *  K  </first_frame>
            <second_frame>  V  N  E  Y  L  L  V  K  R  S  R  Q  W  V  Q  S  P  L  S  I  T  P  V  L  L  L  L  E  Q  Q  Q  I  C  Y  S  F  T  R  *  A  D  L  *  I  R  Q  M  L  W  F  K  S  I  G  A  S  G  L  L  F  L  L  W  L  W  L  F  Q  T  T  E  A  S  V  H  D  Y  N  V  E  K  F  V  S  K  G  N  A  F  V  V  H  G  G  S  E  G  I  Y  S  S  V  P  N  L  T  E  S  P  S  Y  S  S  N  T  D  S  F  I  R :   F  E  K  I  I  F  R  R  P  K  E  F  S  N  F  S  S  D  P  V  H  A  I  V  F  E  V  D  D  R  E  L  I  G  G  S  A  Y  G  G  Q  R  A  I  C  C  T  V  D  L  A  K  L  G  V  C  T  Q  G  Q  I  I  H  R  P  S  A  S  N  P  G  W  P  K  V  F  S  A  S  F  S  I  D  E  V  D  V  A  L  Q  S  R  S  I  P  I  T  K  T  G  M  Y  N  V  Y  F  I  H  C  E  P  N  L  K  E  I  T  V  E  G  K  T  I  W  K  N  P  T  G  Y  L  P  G  R  M  A  P  L  M  N  F  Y  G  Y  M  S  L  A  F  V  L  L  G  I  F  W  F  S  Q  Y  A  R  F  W  R  E  V  I  P  L  Q  N  C  I  T  L  V  I  T  L  G  M  L  E  M  A  F  W  Y  F  D  Y  A  E  F  N  E  T  G  V  R  P  T  G  T  T  V  W  A  V  T  F  G  T  V  K  R  T  V  A  R  L  V  I  L  I  V  S  M  G  Y  G  V  V  R  P  T  L  G  G  L  T  S  K  V  L  L  L  G  G  T  F  F  L  A  S  E  V  L  E  L  V  E  N  V  G  A  V  S  D  F  S  G  K  A  R  L  F  F  V  L  P  V  T  F  L  D  A  F  F  I  V  W  I  F  T  S  L  S  A  T  V  N  K  L  Q  :  A  R  R  L  L  A  K  L  D  I  Y  R  K  F  T  N  A  L  A  V  T  V  V  V  S  V  G  W  M  C  Y  E  :  L  Y  F  K  S  T  D  V  Y  N  E  R  W  R  N  A  W  I  I  P  A  F  W  Q  V  L  S  F  S  L  L  C  I  I  C  V  L  W  A  P  S  Q  N  S  M  R :   Y  A  Y  S  D  D  G  E  E  F  D  K  D  A  T  F  T  L  I  K  P  S  P  L  L  P  K  D  V  R  S  Q  P  E  V  R  P  T  L  G  N  S  E  L  S  N  G  E  V  V  E  D  K  T  E  *  S  K  T  H  N  F  F  T  V  R  *  R  K  V  P  V  R  L  S  K  L  F  L  E  S  C  Y  L  C  C  L  Y  K  K  S  T  N  V  N  Q  E  K  S  F  R  *  N  K  L  V  I  V  V  F  F  R  S  N  V  H  *  S  N  V  I  S  L  A  I  I  L  I  V  K  R </second_frame>
            <third_frame>   *  T  S  I  Y  *  *  N  V  V  A  S  G  S  N  L  L  S  P  S  L  R  Y  C  C  Y  L  S  N  S  R  S  A  T  L  S  L  A  E  L  I  S  E  F  G  K  C  C  G  S  S  Q  L  E  L  Q  D  Y  Y  F  Y  S  G  Y  G  C  S  R  R  L  K  L  Q  C  M  I  T  M  W  R  N  S  *  A  R  A  M  H  L  W  F  T  E  V  A  K  E  F  T  P  L  F  L  T  S  L  N  L  L  P  I  L  L  T  P  T  P  S  F   : G  L  K  R  L  Y  F  G  G  Q  R  N  S  Q  T  S  A  Q  T  Q  F  M  Q  L  F  L  R  W  M  I  E  S  *  L  G  A  L  L  M  V  A  K  E  L  F  V  A  Q  W  I  L  Q  N  L  E  F  V  H  K  G  K  *  F  T  A  H  L  L  V  I  P  D  G  L  K  F  L  V  P  H  S  A  L  M  K  L  M  *  H  C  S  R  D  Q  S  P  L  Q  K  L  G  C  I  T  C  I  L  F  T  V  S  Q  I  L  R  K  *  L  L  K  G  K  P  Y  G  R  I  L  L  V  T  Y  L  V  E  W  L  P  L  *  T  S  M  G  T  C  L  L  H  S  C  Y  *  G  S  F  G  F  R  S  M  Q  D  S  G  E  K  L  F  L  Y  K  I  V  L  H  S  L  *  H  W  A  C  L  K  W  P  F  G  T  L  T  M  L  N  S  M  K  L  E  S  G  P  L  V  P  L  Y  G  L  *  H  L  V  Q  *  S  A  Q  L  H  V  W  S  F  *  *  S  L  W  A  M  V  L  L  D  L  L  W  V  V  S  H  Q  R  S  F  C  L  E  E  H  S  F  W  L  L  K  C  L  N  W  *  K  M  L  V  L  S  V  I  S  Q  E  K  Q  G  C  F  L  Y  F  L  *  H  S  W  M  L  S  L  S  F  G  Y  S  P  P  C  R  Q  L  *  I  S  F  R :   L  E  G  C  W  P  N  *  T  S  I  A  S  S  Q  M  H  W  L  S  L  L  L  Y  L  L  D  G  C  A  M  S :   C  T  S  S  P  L  M  C  T  M  S  D  G  E  M  P  G  L  F  L  P  S  G  K  C  Y  L  S  L  S  F  A  S  S  A  F  F  G  H  H  L  K  T  P  *   : D  M  P  T  L  M  M  V  K  S  S  I  R  T  L  H  L  R  S  *  S  R  P  L  C  C  Q  R  M  *  E  A  N  L  K  *  G  Q  H  W  V  T  A  N  Y  L  M  V  K  L  *  K  T  R  P  S  K  A  R  H  T  T  F  L  Q  Y  V  K  E  R  Y  P  S  D  *  V  N  C  F  *  N  H  V  I  Y  V  V  C  I  K  K  V  R  M  L  I  R  R  S  L  L  G  K  T  N  L  *  L  L  F  F  L  E  V  M  F  I  N  L  M  *  S  L  L  Q  *  F  L  *  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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="21635" stop="21864"/>
                    <exon start="22852" stop="23770"/>
                    <exon start="24152" stop="24247"/>
                    <exon start="24873" stop="25009"/>
                    <exon start="25312" stop="25480"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1548</number_coding_nucleotides>
                  <number_encoded_amino_acids>516</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>IRQMLWFKSIGASGLLFLLWLWLFQTTEASVHDYNVEKFVSKGNAFVVHGGSEGIYSSVPNLTESPSYSSNTDSFIRFEKIIFRRPKEFSNFSSDPVHAIVFEVDDRELIGGSAYGGQRAICCTVDLAKLGVCTQGQIIHRPSASNPGWPKVFSASFSIDEVDVALQSRSIPITKTGMYNVYFIHCEPNLKEITVEGKTIWKNPTGYLPGRMAPLMNFYGYMSLAFVLLGIFWFSQYARFWREVIPLQNCITLVITLGMLEMAFWYFDYAEFNETGVRPTGTTVWAVTFGTVKRTVARLVILIVSMGYGVVRPTLGGLTSKVLLLGGTFFLASEVLELVENVGAVSDFSGKARLFFVLPVTFLDAFFIVWIFTSLSATVNKLQARRLLAKLDIYRKFTNALAVTVVVSVGWMCYELYFKSTDVYNERWRNAWIIPAFWQVLSFSLLCIICVLWAPSQNSMRYAYSDDGEEFDKDATFTLIKPSPLLPKDVRSQPEVRPTLGNSELSNGEVVEDKTE*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="23610" e_stop="23770"/>
            <exon e_start="24152" e_stop="24247"/>
            <exon e_start="24873" e_stop="25009"/>
            <exon e_start="25253" e_stop="25676"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.906" acc_prob="0.826" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="0.252" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.000" e_score="1.000"/>
          <exon-only e_score="0.901"/>
        </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="23610" e_stop="23770" e_length="161"/>
          </exon>
          <intron i_serial="1" don_prob="0.906" acc_prob="0.826">
            <gDNA_intron_boundary i_start="23771" i_stop="24151" i_length="381"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="24152" e_stop="24247" e_length="96"/>
          </exon>
          <intron i_serial="2" don_prob="0.993" acc_prob="0.252">
            <gDNA_intron_boundary i_start="24248" i_stop="24872" i_length="625"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="24873" e_stop="25009" e_length="137"/>
          </exon>
          <intron i_serial="3" don_prob="0.997" acc_prob="0.000">
            <gDNA_intron_boundary i_start="25010" i_stop="25252" i_length="243"/>
          </intron>
          <exon e_serial="4" e_score="0.901">
            <gDNA_exon_boundary e_start="25253" e_stop="25676" 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="23610" stop="23770"/>
              <exon start="24152" stop="24214"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396098" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23611" stop="23770"/>
              <exon start="24152" stop="24247"/>
              <exon start="24873" stop="25001"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E240874" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23611" stop="23770"/>
              <exon start="24152" stop="24245"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239888" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="24193" stop="24247"/>
              <exon start="24873" stop="25009"/>
              <exon start="25253" stop="25667"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E700004" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25330" stop="25667"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222637" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25350" stop="25676"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222392" 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>TTTTGGCTTCTGAAGTGCTTGAACTGGTAGAAAATGTTGGTGCTGTCAGTGATTTCTCAGGAAAAGCAAGGTTGTTTTTTGTACTTCCTGTGACATTCTTGGATGCTTTCTTTATCGTTTGGATATTCACCTCCTTGTCGGCAACTGTGAATAAGCTTCAG : GCTAGAAGGTTGTTGGCCAAATTAGACATCTATCGCAAGTTCACAAATGCATTGGCTGTCACTGTTGTTGTATCTGTTGGATGGATGTGCTATGAG : CTGTACTTCAAGTCCACTGATGTGTACAATGAGCGATGGCGAAATGCCTGGATTATTCCTGCCTTCTGGCAAGTGCTATCTTTCTCTCTCCTTTGCATCATCTGCGTTCTTTGGGCACCATCTCAAAACTCCATGAG : TCTTTTCTCAGACGCGAATCTCAACTCTCACTGGTTTATTTTAAATGCTTACATAACAGATATGCCTACTCTGATGATGGTGAAGAGTTCGATAAGGACGCTACATTTACGCTCATAAAGCCGTCCCCTCTGCTGCCAAAGGATGTAAGAAGCCAACCTGAAGTGAGGCCAACATTGGGTAACAGCGAACTATCTAATGGTGAAGTTGTAGAAGACAAGACCGAGTAAAGCAAGACACACAACTTTTTTACAGTACGTTAAAGAAAGGTACCCGTCAGACTGAGTAAATTGTTTTTAGAATCATGTTATCTATGTTGTCTGTATAAAAAAAGTACGAATGTTAATCAGGAGAAGTCTTTTAGGTAAAACAAACTTGTAATTGTTGTTTTTTTTAGAAGTAATGTTCATTAATCTAATGTGATCT</gDNA_template>
            <first_frame> F  W  L  L  K  C  L  N  W  *  K  M  L  V  L  S  V  I  S  Q  E  K  Q  G  C  F  L  Y  F  L  *  H  S  W  M  L  S  L  S  F  G  Y  S  P  P  C  R  Q  L  *  I  S  F  R :   L  E  G  C  W  P  N  *  T  S  I  A  S  S  Q  M  H  W  L  S  L  L  L  Y  L  L  D  G  C  A  M  S :   C  T  S  S  P  L  M  C  T  M  S  D  G  E  M  P  G  L  F  L  P  S  G  K  C  Y  L  S  L  S  F  A  S  S  A  F  F  G  H  H  L  K  T  P  *   : V  F  S  Q  T  R  I  S  T  L  T  G  L  F  *  M  L  T  *  Q  I  C  L  L  *  *  W  *  R  V  R  *  G  R  Y  I  Y  A  H  K  A  V  P  S  A  A  K  G  C  K  K  P  T  *  S  E  A  N  I  G  *  Q  R  T  I  *  W  *  S  C  R  R  Q  D  R  V  K  Q  D  T  Q  L  F  Y  S  T  L  K  K  G  T  R  Q  T  E  *  I  V  F  R  I  M  L  S  M  L  S  V  *  K  K  Y  E  C  *  S  G  E  V  F  *  V  K  Q  T  C  N  C  C  F  F  *  K  *  C  S  L  I  *  C  D   </first_frame>
            <second_frame>  F  G  F  *  S  A  *  T  G  R  K  C  W  C  C  Q  *  F  L  R  K  S  K  V  V  F  C  T  S  C  D  I  L  G  C  F  L  Y  R  L  D  I  H  L  L  V  G  N  C  E  *  A  S   : G  *  K  V  V  G  Q  I  R  H  L  S  Q  V  H  K  C  I  G  C  H  C  C  C  I  C  W  M  D  V  L  *   : A  V  L  Q  V  H  *  C  V  Q  *  A  M  A  K  C  L  D  Y  S  C  L  L  A  S  A  I  F  L  S  P  L  H  H  L  R  S  L  G  T  I  S  K  L  H  E  :  S  F  L  R  R  E  S  Q  L  S  L  V  Y  F  K  C  L  H  N  R  Y  A  Y  S  D  D  G  E  E  F  D  K  D  A  T  F  T  L  I  K  P  S  P  L  L  P  K  D  V  R  S  Q  P  E  V  R  P  T  L  G  N  S  E  L  S  N  G  E  V  V  E  D  K  T  E  *  S  K  T  H  N  F  F  T  V  R  *  R  K  V  P  V  R  L  S  K  L  F  L  E  S  C  Y  L  C  C  L  Y  K  K  S  T  N  V  N  Q  E  K  S  F  R  *  N  K  L  V  I  V  V  F  F  R  S  N  V  H  *  S  N  V  I  </second_frame>
            <third_frame>   L  A  S  E  V  L  E  L  V  E  N  V  G  A  V  S  D  F  S  G  K  A  R  L  F  F  V  L  P  V  T  F  L  D  A  F  F  I  V  W  I  F  T  S  L  S  A  T  V  N  K  L  Q  :  A  R  R  L  L  A  K  L  D  I  Y  R  K  F  T  N  A  L  A  V  T  V  V  V  S  V  G  W  M  C  Y  E  :  L  Y  F  K  S  T  D  V  Y  N  E  R  W  R  N  A  W  I  I  P  A  F  W  Q  V  L  S  F  S  L  L  C  I  I  C  V  L  W  A  P  S  Q  N  S  M  S :   L  F  S  D  A  N  L  N  S  H  W  F  I  L  N  A  Y  I  T  D  M  P  T  L  M  M  V  K  S  S  I  R  T  L  H  L  R  S  *  S  R  P  L  C  C  Q  R  M  *  E  A  N  L  K  *  G  Q  H  W  V  T  A  N  Y  L  M  V  K  L  *  K  T  R  P  S  K  A  R  H  T  T  F  L  Q  Y  V  K  E  R  Y  P  S  D  *  V  N  C  F  *  N  H  V  I  Y  V  V  C  I  K  K  V  R  M  L  I  R  R  S  L  L  G  K  T  N  L  *  L  L  F  F  L  E  V  M  F  I  N  L  M  *  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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="23612" stop="23770"/>
                    <exon start="24152" stop="24247"/>
                    <exon start="24873" stop="25009"/>
                    <exon start="25253" stop="25370"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>507</number_coding_nucleotides>
                  <number_encoded_amino_acids>169</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LASEVLELVENVGAVSDFSGKARLFFVLPVTFLDAFFIVWIFTSLSATVNKLQARRLLAKLDIYRKFTNALAVTVVVSVGWMCYELYFKSTDVYNERWRNAWIIPAFWQVLSFSLLCIICVLWAPSQNSMSLFSDANLNSHWFILNAYITDMPTLMMVKSSIRTLHLRS*</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="27948" PGL_stop="27465"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="27948" e_stop="27465"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.990"/>
        </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="0.990">
            <gDNA_exon_boundary e_start="27948" e_stop="27465" e_length="484"/>
          </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="27948" stop="27465"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E366500" 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>GATCATTTCTTGGACGATTCAGGAGCCATATAGAAAGCGGAAGGCATCCAGAAAACTATATCAAGTATACTGTGGAGGACCTAGAGAATGCTGTCTTAGATTTCTTTGAGGGGTACGCTGTGTCACAGCACCTAAGAAGAAGATCTCAGTGAAAGAATATTAGTTTCAACAGTTAGTTCTTTAGGCCATTCTTTGAATTTTTTTCATGGAGTTATTCAGGGGCTGAGGTTACGGCATTCTGGTGTTTCTCGAGTTTCTACTTCCATTTCTAGTATTCCAGGGTGATTGGCTGCTGAAAACTTCAGGAAGATCAACTGTTATCAATCAAGAAGGGTCAGTGCCTCCTGCCTCTGGATGCTCTGCCCTGTAAGCATGTTGTTGTTGTATTTCTTCCATACTTCTAGACTTCATTTCAATTTGTCCATATCTGAACTGTTGTGTTGATTACTTTCTTGAAATTTTATCATTATCATGATTTTGTTAA</gDNA_template>
            <first_frame> D  H  F  L  D  D  S  G  A  I  *  K  A  E  G  I  Q  K  T  I  S  S  I  L  W  R  T  *  R  M  L  S  *  I  S  L  R  G  T  L  C  H  S  T  *  E  E  D  L  S  E  R  I  L  V  S  T  V  S  S  L  G  H  S  L  N  F  F  H  G  V  I  Q  G  L  R  L  R  H  S  G  V  S  R  V  S  T  S  I  S  S  I  P  G  *  L  A  A  E  N  F  R  K  I  N  C  Y  Q  S  R  R  V  S  A  S  C  L  W  M  L  C  P  V  S  M  L  L  L  Y  F  F  H  T  S  R  L  H  F  N  L  S  I  S  E  L  L  C  *  L  L  S  *  N  F  I  I  I  M  I  L  L  </first_frame>
            <second_frame>  I  I  S  W  T  I  Q  E  P  Y  R  K  R  K  A  S  R  K  L  Y  Q  V  Y  C  G  G  P  R  E  C  C  L  R  F  L  *  G  V  R  C  V  T  A  P  K  K  K  I  S  V  K  E  Y  *  F  Q  Q  L  V  L  *  A  I  L  *  I  F  F  M  E  L  F  R  G  *  G  Y  G  I  L  V  F  L  E  F  L  L  P  F  L  V  F  Q  G  D  W  L  L  K  T  S  G  R  S  T  V  I  N  Q  E  G  S  V  P  P  A  S  G  C  S  A  L  *  A  C  C  C  C  I  S  S  I  L  L  D  F  I  S  I  C  P  Y  L  N  C  C  V  D  Y  F  L  E  I  L  S  L  S  *  F  C  * </second_frame>
            <third_frame>   S  F  L  G  R  F  R  S  H  I  E  S  G  R  H  P  E  N  Y  I  K  Y  T  V  E  D  L  E  N  A  V  L  D  F  F  E  G  Y  A  V  S  Q  H  L  R  R  R  S  Q  *  K  N  I  S  F  N  S  *  F  F  R  P  F  F  E  F  F  S  W  S  Y  S  G  A  E  V  T  A  F  W  C  F  S  S  F  Y  F  H  F  *  Y  S  R  V  I  G  C  *  K  L  Q  E  D  Q  L  L  S  I  K  K  G  Q  C  L  L  P  L  D  A  L  P  C  K  H  V  V  V  V  F  L  P  Y  F  *  T  S  F  Q  F  V  H  I  *  T  V  V  L  I  T  F  L  K  F  Y  H  Y  H  D  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/">
            <none gDNA_id="C03HBa0121O11.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="8" PGL_strand="+" PGL_start="45157" PGL_stop="47430"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="45157" e_stop="45496"/>
            <exon e_start="45780" e_stop="45927"/>
            <exon e_start="46175" e_stop="46611"/>
            <exon e_start="46917" e_stop="46974"/>
            <exon e_start="47078" e_stop="47430"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.943" e_score="1.000"/>
          <exon-intron don_prob="0.991" acc_prob="0.996" e_score="1.000"/>
          <exon-only e_score="0.997"/>
        </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="45157" e_stop="45496" e_length="340"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.992">
            <gDNA_intron_boundary i_start="45497" i_stop="45779" i_length="283"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="45780" e_stop="45927" e_length="148"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.994">
            <gDNA_intron_boundary i_start="45928" i_stop="46174" i_length="247"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="46175" e_stop="46611" e_length="437"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.943">
            <gDNA_intron_boundary i_start="46612" i_stop="46916" i_length="305"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="46917" e_stop="46974" e_length="58"/>
          </exon>
          <intron i_serial="4" don_prob="0.991" acc_prob="0.996">
            <gDNA_intron_boundary i_start="46975" i_stop="47077" i_length="103"/>
          </intron>
          <exon e_serial="5" e_score="0.997">
            <gDNA_exon_boundary e_start="47078" e_stop="47430" e_length="353"/>
          </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="45157" stop="45496"/>
              <exon start="45780" stop="45927"/>
              <exon start="46175" stop="46414"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E314897" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45222" stop="45496"/>
              <exon start="45780" stop="45927"/>
              <exon start="46175" stop="46356"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E240334" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45222" stop="45467"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E368751" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45222" stop="45447"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E240716" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45223" stop="45496"/>
              <exon start="45780" stop="45927"/>
              <exon start="46175" stop="46593"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E702973" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45243" stop="45496"/>
              <exon start="45780" stop="45927"/>
              <exon start="46175" stop="46395"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203532" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45261" stop="45496"/>
              <exon start="45780" stop="45927"/>
              <exon start="46175" stop="46283"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E365944" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45895" stop="45927"/>
              <exon start="46175" stop="46611"/>
              <exon start="46917" stop="46974"/>
              <exon start="47078" stop="47276"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211837" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46395" stop="46611"/>
              <exon start="46917" stop="46974"/>
              <exon start="47078" stop="47173"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E287447" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46484" stop="46611"/>
              <exon start="46917" stop="46974"/>
              <exon start="47078" stop="47430"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291671" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46485" stop="46611"/>
              <exon start="46917" stop="46974"/>
              <exon start="47078" stop="47421"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217283" 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>TAATTTCCTTTATCTACCCCATCTTATCATCTCTATTCTCTACCATAACATTCACATGTTCCTTCCACTTGCTTCCTTTTTCTTCTTCACTACTACATAACTTCTCTAGCTACCCTAAAATTGTCACAATCCTTAATTTCTGTTTCTATCAATTTTGGATTTTTTTTCTCATCGGCAGATATGTCGAATTTATGTGACGCTCGCCGGAGGAATGGAAACGGCAAGGCGCCGGAGAGATCAAGTTTCGTACAGACTTGTAACTTGTTGAGTCAGTTTATTAAAGGGAAAGCTACTATTAGAGATCTGAATCTCGGAATCGCCGGTCAGCCGGAAGCTGCAG : GGAAAACTGAAACTGCAACTATGGATTTATTAACAGTCATGGAAAAACCATCTATTGATCTAACAAAAGAAGAACACAAATCCGTAGATCTTGTTACAACAGAGTCTTCTAGAGAGAAGGAGGCCGCTGTAAATGAGCCCAGCACAAG : CAAAGAGGCACCAAAGGAGCCTAAGGCAGCCCAATTGACTATGTTCTATGATGGTAAAGTGATTGTTTTTGATGATTTCCCTGCTGACAAAGCTAGAGCAGTGATGTTATTGGCTAGTAAAGGATGTCCTCAGAGTTCATTTGGGACTTTCCAGGCTATAAACATCGACAAAATTAACACATGTTCTCCTGCCCCTGCTTCTTTGACAAGTAATAGAACTGATTCTGTTGCACCACAGCAACAACACCTCCAGATTAAGCCAGACTCTTGCTCTGCTGCACCGCAACAGCACAAGCACAATTCGCCCCCACTCCATGTTTGTAGTAGTACTAAAACTGATCAGCTTAAGCTCGGATCAGTTTCATCTGCACCCTTAGTAGAGCAGGAGCAACACAAGCAAATCCAGTCACAGGCTGCCGAAATTAGCAGCAGCTCCG : AGCTACCTATCGCAAGAAGATCTTCACTTCATAGGTTTCTCGAGAAGAGGAAAGATAG : GGCAACTGTTAGAGCTCCATACCAAGTTGTACGTAACAATCCGTTGTTACCATCTTCTTCGAATACTAATGGTGAATCATCTTCTAAGGATAGCGAAGATCAGCTCGATCTCAATTTCAAGTTATAGCCAGAACTCCACTCTCGCAGTTGGAATTCCATAAGCTTTTTTTTGGTTGACCACCACTGCATGAGCTAGTAGTATTAATATATATTTAGATCAGTGATTTGAAGATTATTTTTCCAGCTCAGCTTAGCTTACAGATTATATTTCTTGTATTAGATATCGTTTATTATTACCAACTGAATATTATGACTTTTTTGGTTGTTAAAATAGAATGTGTAATTAATCTTTG</gDNA_template>
            <first_frame> *  F  P  L  S  T  P  S  Y  H  L  Y  S  L  P  *  H  S  H  V  P  S  T  C  F  L  F  L  L  H  Y  Y  I  T  S  L  A  T  L  K  L  S  Q  S  L  I  S  V  S  I  N  F  G  F  F  F  S  S  A  D  M  S  N  L  C  D  A  R  R  R  N  G  N  G  K  A  P  E  R  S  S  F  V  Q  T  C  N  L  L  S  Q  F  I  K  G  K  A  T  I  R  D  L  N  L  G  I  A  G  Q  P  E  A  A   : G  K  T  E  T  A  T  M  D  L  L  T  V  M  E  K  P  S  I  D  L  T  K  E  E  H  K  S  V  D  L  V  T  T  E  S  S  R  E  K  E  A  A  V  N  E  P  S  T  S :   K  E  A  P  K  E  P  K  A  A  Q  L  T  M  F  Y  D  G  K  V  I  V  F  D  D  F  P  A  D  K  A  R  A  V  M  L  L  A  S  K  G  C  P  Q  S  S  F  G  T  F  Q  A  I  N  I  D  K  I  N  T  C  S  P  A  P  A  S  L  T  S  N  R  T  D  S  V  A  P  Q  Q  Q  H  L  Q  I  K  P  D  S  C  S  A  A  P  Q  Q  H  K  H  N  S  P  P  L  H  V  C  S  S  T  K  T  D  Q  L  K  L  G  S  V  S  S  A  P  L  V  E  Q  E  Q  H  K  Q  I  Q  S  Q  A  A  E  I  S  S  S  S   : E  L  P  I  A  R  R  S  S  L  H  R  F  L  E  K  R  K  D  R :   A  T  V  R  A  P  Y  Q  V  V  R  N  N  P  L  L  P  S  S  S  N  T  N  G  E  S  S  S  K  D  S  E  D  Q  L  D  L  N  F  K  L  *  P  E  L  H  S  R  S  W  N  S  I  S  F  F  L  V  D  H  H  C  M  S  *  *  Y  *  Y  I  F  R  S  V  I  *  R  L  F  F  Q  L  S  L  A  Y  R  L  Y  F  L  Y  *  I  S  F  I  I  T  N  *  I  L  *  L  F  W  L  L  K  *  N  V  *  L  I  F  </first_frame>
            <second_frame>  N  F  L  Y  L  P  H  L  I  I  S  I  L  Y  H  N  I  H  M  F  L  P  L  A  S  F  F  F  F  T  T  T  *  L  L  *  L  P  *  N  C  H  N  P  *  F  L  F  L  S  I  L  D  F  F  S  H  R  Q  I  C  R  I  Y  V  T  L  A  G  G  M  E  T  A  R  R  R  R  D  Q  V  S  Y  R  L  V  T  C  *  V  S  L  L  K  G  K  L  L  L  E  I  *  I  S  E  S  P  V  S  R  K  L  Q  :  G  K  L  K  L  Q  L  W  I  Y  *  Q  S  W  K  N  H  L  L  I  *  Q  K  K  N  T  N  P  *  I  L  L  Q  Q  S  L  L  E  R  R  R  P  L  *  M  S  P  A  Q   : A  K  R  H  Q  R  S  L  R  Q  P  N  *  L  C  S  M  M  V  K  *  L  F  L  M  I  S  L  L  T  K  L  E  Q  *  C  Y  W  L  V  K  D  V  L  R  V  H  L  G  L  S  R  L  *  T  S  T  K  L  T  H  V  L  L  P  L  L  L  *  Q  V  I  E  L  I  L  L  H  H  S  N  N  T  S  R  L  S  Q  T  L  A  L  L  H  R  N  S  T  S  T  I  R  P  H  S  M  F  V  V  V  L  K  L  I  S  L  S  S  D  Q  F  H  L  H  P  *  *  S  R  S  N  T  S  K  S  S  H  R  L  P  K  L  A  A  A  P  :  S  Y  L  S  Q  E  D  L  H  F  I  G  F  S  R  R  G  K  I   : G  Q  L  L  E  L  H  T  K  L  Y  V  T  I  R  C  Y  H  L  L  R  I  L  M  V  N  H  L  L  R  I  A  K  I  S  S  I  S  I  S  S  Y  S  Q  N  S  T  L  A  V  G  I  P  *  A  F  F  W  L  T  T  T  A  *  A  S  S  I  N  I  Y  L  D  Q  *  F  E  D  Y  F  S  S  S  A  *  L  T  D  Y  I  S  C  I  R  Y  R  L  L  L  P  T  E  Y  Y  D  F  F  G  C  *  N  R  M  C  N  *  S  L </second_frame>
            <third_frame>   I  S  F  I  Y  P  I  L  S  S  L  F  S  T  I  T  F  T  C  S  F  H  L  L  P  F  S  S  S  L  L  H  N  F  S  S  Y  P  K  I  V  T  I  L  N  F  C  F  Y  Q  F  W  I  F  F  L  I  G  R  Y  V  E  F  M  *  R  S  P  E  E  W  K  R  Q  G  A  G  E  I  K  F  R  T  D  L  *  L  V  E  S  V  Y  *  R  E  S  Y  Y  *  R  S  E  S  R  N  R  R  S  A  G  S  C  R :   E  N  *  N  C  N  Y  G  F  I  N  S  H  G  K  T  I  Y  *  S  N  K  R  R  T  Q  I  R  R  S  C  Y  N  R  V  F  *  R  E  G  G  R  C  K  *  A  Q  H  K  :  Q  R  G  T  K  G  A  *  G  S  P  I  D  Y  V  L  *  W  *  S  D  C  F  *  *  F  P  C  *  Q  S  *  S  S  D  V  I  G  *  *  R  M  S  S  E  F  I  W  D  F  P  G  Y  K  H  R  Q  N  *  H  M  F  S  C  P  C  F  F  D  K  *  *  N  *  F  C  C  T  T  A  T  T  P  P  D  *  A  R  L  L  L  C  C  T  A  T  A  Q  A  Q  F  A  P  T  P  C  L  *  *  Y  *  N  *  S  A  *  A  R  I  S  F  I  C  T  L  S  R  A  G  A  T  Q  A  N  P  V  T  G  C  R  N  *  Q  Q  L  R :   A  T  Y  R  K  K  I  F  T  S  *  V  S  R  E  E  E  R  *  :  G  N  C  *  S  S  I  P  S  C  T  *  Q  S  V  V  T  I  F  F  E  Y  *  W  *  I  I  F  *  G  *  R  R  S  A  R  S  Q  F  Q  V  I  A  R  T  P  L  S  Q  L  E  F  H  K  L  F  F  G  *  P  P  L  H  E  L  V  V  L  I  Y  I  *  I  S  D  L  K  I  I  F  P  A  Q  L  S  L  Q  I  I  F  L  V  L  D  I  V  Y  Y  Y  Q  L  N  I  M  T  F  L  V  V  K  I  E  C  V  I  N  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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="8" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45205" stop="45496"/>
                    <exon start="45780" stop="45927"/>
                    <exon start="46175" stop="46611"/>
                    <exon start="46917" stop="46974"/>
                    <exon start="47078" stop="47204"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1059</number_coding_nucleotides>
                  <number_encoded_amino_acids>353</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>HSHVPSTCFLFLLHYYITSLATLKLSQSLISVSINFGFFFSSADMSNLCDARRRNGNGKAPERSSFVQTCNLLSQFIKGKATIRDLNLGIAGQPEAAGKTETATMDLLTVMEKPSIDLTKEEHKSVDLVTTESSREKEAAVNEPSTSKEAPKEPKAAQLTMFYDGKVIVFDDFPADKARAVMLLASKGCPQSSFGTFQAINIDKINTCSPAPASLTSNRTDSVAPQQQHLQIKPDSCSAAPQQHKHNSPPLHVCSSTKTDQLKLGSVSSAPLVEQEQHKQIQSQAAEISSSSELPIARRSSLHRFLEKRKDRATVRAPYQVVRNNPLLPSSSNTNGESSSKDSEDQLDLNFKL*</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="64434" PGL_stop="63484"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="64434" e_stop="64379"/>
            <exon e_start="64278" e_stop="64128"/>
            <exon e_start="64049" e_stop="63484"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.975" acc_prob="0.992" e_score="0.982"/>
          <exon-intron don_prob="0.992" acc_prob="0.862" e_score="0.987"/>
          <exon-only e_score="0.915"/>
        </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="0.982">
            <gDNA_exon_boundary e_start="64434" e_stop="64379" e_length="56"/>
          </exon>
          <intron i_serial="1" don_prob="0.975" acc_prob="0.992">
            <gDNA_intron_boundary i_start="64378" i_stop="64279" i_length="100"/>
          </intron>
          <exon e_serial="2" e_score="0.987">
            <gDNA_exon_boundary e_start="64278" e_stop="64128" e_length="151"/>
          </exon>
          <intron i_serial="2" don_prob="0.992" acc_prob="0.862">
            <gDNA_intron_boundary i_start="64127" i_stop="64050" i_length="78"/>
          </intron>
          <exon e_serial="3" e_score="0.915">
            <gDNA_exon_boundary e_start="64049" e_stop="63484" e_length="566"/>
          </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="64434" stop="64379"/>
              <exon start="64278" stop="64128"/>
              <exon start="64049" stop="63484"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E549313" 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>AAAAAACAAGAAGGTGGAGATACTGGAGGCGTGAACTCTAATCTGTATCCTACGGG : GCTAATAAATGGCAGGTGAACCAGTTGATGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAACAAAATATTGAAGCATTTCATAGAATCAT : AATCCAGCCAACAATACTTGTTGATGTGAGCAGAATAGACATGTCAACTGTTATACTCAGTCACAAGACGTCAGCTCCTATAATGATTGCCCCAACTATGATGCACAAATTTGCACACCCTGAAGGTTGTACTAAATCAATTACTCAATTCATTTCAATTTGTTTGTCTGATTTTGACTTGACACAACATTTAAGAAGTAAAAGAAGATTTTTGTATCTTATTATCTTAAACTAAAGATATGTAGACTGTACCAATGATCTTATGCTTTTAAACATGTCAGGTGGAAAGATAGACTTAAAGACTTCTCAAAGAAGGAAAGAGGAACCGACCAAAAAGGAAAGTAAGAGAAACAAATTGAAACGGGAAGTATCTCCTTAGTCGCTTATGGTTAACTGATTCTACAAACCTGTTATATTTATGCCAGGAGAAATTGCAACAGCTAGAGGCGCTGCATCATGTAATGTTATCGCGGTAATATTTTCTGAAAAAAAAAGAACAAATTTTATCGAATTCTAGTGTCTGGATGCTAAAATTCTCTTGGATACAGGGATTGTCATTTACGTGC</gDNA_template>
            <first_frame> K  K  Q  E  G  G  D  T  G  G  V  N  S  N  L  Y  P  T  G :   L  I  N  G  R  *  T  S  *  C  E  *  I  *  R  A  S  *  A  S  S  S  K  D  I  L  *  L  L  F  W  R  S  *  G  P  A  H  T  Q  T  K  Y  *  S  I  S  *  N  H  :  N  P  A  N  N  T  C  *  C  E  Q  N  R  H  V  N  C  Y  T  Q  S  Q  D  V  S  S  Y  N  D  C  P  N  Y  D  A  Q  I  C  T  P  *  R  L  Y  *  I  N  Y  S  I  H  F  N  L  F  V  *  F  *  L  D  T  T  F  K  K  *  K  K  I  F  V  S  Y  Y  L  K  L  K  I  C  R  L  Y  Q  *  S  Y  A  F  K  H  V  R  W  K  D  R  L  K  D  F  S  K  K  E  R  G  T  D  Q  K  G  K  *  E  K  Q  I  E  T  G  S  I  S  L  V  A  Y  G  *  L  I  L  Q  T  C  Y  I  Y  A  R  R  N  C  N  S  *  R  R  C  I  M  *  C  Y  R  G  N  I  F  *  K  K  K  N  K  F  Y  R  I  L  V  S  G  C  *  N  S  L  G  Y  R  D  C  H  L  R   </first_frame>
            <second_frame>  K  N  K  K  V  E  I  L  E  A  *  T  L  I  C  I  L  R   : G  *  *  M  A  G  E  P  V  D  V  N  E  F  E  E  L  A  R  Q  V  L  P  K  I  S  Y  D  F  F  S  G  G  A  E  D  Q  H  T  L  K  Q  N  I  E  A  F  H  R  I  I :   I  Q  P  T  I  L  V  D  V  S  R  I  D  M  S  T  V  I  L  S  H  K  T  S  A  P  I  M  I  A  P  T  M  M  H  K  F  A  H  P  E  G  C  T  K  S  I  T  Q  F  I  S  I  C  L  S  D  F  D  L  T  Q  H  L  R  S  K  R  R  F  L  Y  L  I  I  L  N  *  R  Y  V  D  C  T  N  D  L  M  L  L  N  M  S  G  G  K  I  D  L  K  T  S  Q  R  R  K  E  E  P  T  K  K  E  S  K  R  N  K  L  K  R  E  V  S  P  *  S  L  M  V  N  *  F  Y  K  P  V  I  F  M  P  G  E  I  A  T  A  R  G  A  A  S  C  N  V  I  A  V  I  F  S  E  K  K  R  T  N  F  I  E  F  *  C  L  D  A  K  I  L  L  D  T  G  I  V  I  Y  V  </second_frame>
            <third_frame>   K  T  R  R  W  R  Y  W  R  R  E  L  *  S  V  S  Y  G  :  A  N  K  W  Q  V  N  Q  L  M  *  M  N  L  K  S  *  L  G  K  F  F  Q  R  Y  P  M  T  S  F  L  E  E  L  R  T  S  T  H  S  N  K  I  L  K  H  F  I  E  S   : *  S  S  Q  Q  Y  L  L  M  *  A  E  *  T  C  Q  L  L  Y  S  V  T  R  R  Q  L  L  *  *  L  P  Q  L  *  C  T  N  L  H  T  L  K  V  V  L  N  Q  L  L  N  S  F  Q  F  V  C  L  I  L  T  *  H  N  I  *  E  V  K  E  D  F  C  I  L  L  S  *  T  K  D  M  *  T  V  P  M  I  L  C  F  *  T  C  Q  V  E  R  *  T  *  R  L  L  K  E  G  K  R  N  R  P  K  R  K  V  R  E  T  N  *  N  G  K  Y  L  L  S  R  L  W  L  T  D  S  T  N  L  L  Y  L  C  Q  E  K  L  Q  Q  L  E  A  L  H  H  V  M  L  S  R  *  Y  F  L  K  K  K  E  Q  I  L  S  N  S  S  V  W  M  L  K  F  S  W  I  Q  G  L  S  F  T  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="C03HBa0121O11.1" strand="-"/>
                <serials PGL_serial="9" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="64270" stop="64128"/>
                    <exon start="64049" stop="63815"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>375</number_coding_nucleotides>
                  <number_encoded_amino_acids>125</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MAGEPVDVNEFEELARQVLPKISYDFFSGGAEDQHTLKQNIEAFHRIIIQPTILVDVSRIDMSTVILSHKTSAPIMIAPTMMHKFAHPEGCTKSITQFISICLSDFDLTQHLRSKRRFLYLIILN*</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="64696" PGL_stop="66622"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="64696" e_stop="64916"/>
            <exon e_start="64985" e_stop="65109"/>
            <exon e_start="65204" e_stop="65250"/>
            <exon e_start="65581" e_stop="65658"/>
            <exon e_start="65753" e_stop="65874"/>
            <exon e_start="66037" e_stop="66094"/>
            <exon e_start="66326" e_stop="66388"/>
            <exon e_start="66579" e_stop="66622"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.996" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.371" acc_prob="0.424" e_score="1.000"/>
          <exon-intron don_prob="0.982" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.953" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="0.470" e_score="1.000"/>
          <exon-intron don_prob="0.852" acc_prob="0.924" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.970" e_score="1.000"/>
          <exon-only e_score="0.977"/>
        </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="64696" e_stop="64916" e_length="221"/>
          </exon>
          <intron i_serial="1" don_prob="0.996" acc_prob="0.000">
            <gDNA_intron_boundary i_start="64917" i_stop="64984" i_length="68"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="64985" e_stop="65109" e_length="125"/>
          </exon>
          <intron i_serial="2" don_prob="0.371" acc_prob="0.424">
            <gDNA_intron_boundary i_start="65110" i_stop="65203" i_length="94"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="65204" e_stop="65250" e_length="47"/>
          </exon>
          <intron i_serial="3" don_prob="0.982" acc_prob="0.989">
            <gDNA_intron_boundary i_start="65251" i_stop="65580" i_length="330"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="65581" e_stop="65658" e_length="78"/>
          </exon>
          <intron i_serial="4" don_prob="0.953" acc_prob="1.000">
            <gDNA_intron_boundary i_start="65659" i_stop="65752" i_length="94"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="65753" e_stop="65874" e_length="122"/>
          </exon>
          <intron i_serial="5" don_prob="0.993" acc_prob="0.470">
            <gDNA_intron_boundary i_start="65875" i_stop="66036" i_length="162"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="66037" e_stop="66094" e_length="58"/>
          </exon>
          <intron i_serial="6" don_prob="0.852" acc_prob="0.924">
            <gDNA_intron_boundary i_start="66095" i_stop="66325" i_length="231"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="66326" e_stop="66388" e_length="63"/>
          </exon>
          <intron i_serial="7" don_prob="0.997" acc_prob="0.970">
            <gDNA_intron_boundary i_start="66389" i_stop="66578" i_length="190"/>
          </intron>
          <exon e_serial="8" e_score="0.977">
            <gDNA_exon_boundary e_start="66579" e_stop="66622" e_length="44"/>
          </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="64696" stop="64916"/>
              <exon start="64985" stop="65109"/>
              <exon start="65204" stop="65250"/>
              <exon start="65581" stop="65658"/>
              <exon start="65753" stop="65874"/>
              <exon start="66037" stop="66094"/>
              <exon start="66326" stop="66388"/>
              <exon start="66579" stop="66622"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E546651" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64696" stop="64916"/>
              <exon start="64985" stop="65109"/>
              <exon start="65204" stop="65250"/>
              <exon start="65581" stop="65658"/>
              <exon start="65753" stop="65874"/>
              <exon start="66037" stop="66055"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E546610" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64697" stop="64916"/>
              <exon start="64985" stop="65109"/>
              <exon start="65204" stop="65250"/>
              <exon start="65581" stop="65658"/>
              <exon start="65753" stop="65837"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E359413" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64697" stop="64916"/>
              <exon start="64985" stop="65109"/>
              <exon start="65204" stop="65250"/>
              <exon start="65581" stop="65605"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E359539" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64699" stop="64916"/>
              <exon start="64985" stop="65109"/>
              <exon start="65204" stop="65250"/>
              <exon start="65581" stop="65658"/>
              <exon start="65753" stop="65874"/>
              <exon start="66037" stop="66094"/>
              <exon start="66326" stop="66388"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731175" 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>CTTATATTCTTGCCTCAAAACCTCCGATTCTGCTCTCAAAAGAACCAAAATTCAGTGATTTAACATATAAATGCATAAATGGCAGGTGAACCAGTTAACGTGAATGAATTTGAAGAGCTAGCTAGGCAAGTTCTTCCAAAGATATCCTATGACTTCTTTTCTGGAGGAGCTGAGGACCAGCACACACTCAAACAAAATATTGAAGCATTTCGTAGAATCAC : TATCCGGCCAAGAATACTAGTTGATGTGAGCAAAATTGATATGTCAACTATTATACTCGGTCACAAGACATCAGCTCCAATTATAGTTGCCCCAACTTCGTCGCATCAATTGGCACATCCTGAAG : GAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATG : GGAGTGGCATTTACGTCAACATGCACAATGGAGGAGGTTGCTTCAAGCTGCAAGGCTGTTCGCTTCATTCAGACTTTC : GCTTTCAAGAGAGAGATAACAGCAAATATGGTACAGAGAGCTGAACGCAATGGGTTCAGGGCTATAATACTCACTGCTGATACTCCCAGGCTAGGTAGAAAGGAGGCAGATATAAAGAATAA : GATGATTGCACCTCCTTTCAAGAACTTTGAAGGTCTTATATCTACTGTAGCTGTTTCT : GACAAAGGCTCAAATGTTGAAGCTTACGCTGCAGAAACTCTTGATCCTTCGTTTTGCTGGAAG : GATATAGCATGGTTAAAATCAATTACCAAGTTGCCAATTCTGAT</gDNA_template>
            <first_frame> L  I  F  L  P  Q  N  L  R  F  C  S  Q  K  N  Q  N  S  V  I  *  H  I  N  A  *  M  A  G  E  P  V  N  V  N  E  F  E  E  L  A  R  Q  V  L  P  K  I  S  Y  D  F  F  S  G  G  A  E  D  Q  H  T  L  K  Q  N  I  E  A  F  R  R  I  T :   I  R  P  R  I  L  V  D  V  S  K  I  D  M  S  T  I  I  L  G  H  K  T  S  A  P  I  I  V  A  P  T  S  S  H  Q  L  A  H  P  E   : G  E  V  A  T  A  R  G  A  A  A  C  N  V  I  M  :  G  V  A  F  T  S  T  C  T  M  E  E  V  A  S  S  C  K  A  V  R  F  I  Q  T  F  :  A  F  K  R  E  I  T  A  N  M  V  Q  R  A  E  R  N  G  F  R  A  I  I  L  T  A  D  T  P  R  L  G  R  K  E  A  D  I  K  N  K :   M  I  A  P  P  F  K  N  F  E  G  L  I  S  T  V  A  V  S  :  D  K  G  S  N  V  E  A  Y  A  A  E  T  L  D  P  S  F  C  W  K  :  D  I  A  W  L  K  S  I  T  K  L  P  I  L   </first_frame>
            <second_frame>  L  Y  S  C  L  K  T  S  D  S  A  L  K  R  T  K  I  Q  *  F  N  I  *  M  H  K  W  Q  V  N  Q  L  T  *  M  N  L  K  S  *  L  G  K  F  F  Q  R  Y  P  M  T  S  F  L  E  E  L  R  T  S  T  H  S  N  K  I  L  K  H  F  V  E  S   : L  S  G  Q  E  Y  *  L  M  *  A  K  L  I  C  Q  L  L  Y  S  V  T  R  H  Q  L  Q  L  *  L  P  Q  L  R  R  I  N  W  H  I  L  K  :  E  K  L  Q  Q  L  E  V  L  Q  H  V  M  L  S  W :   E  W  H  L  R  Q  H  A  Q  W  R  R  L  L  Q  A  A  R  L  F  A  S  F  R  L  S :   L  S  R  E  R  *  Q  Q  I  W  Y  R  E  L  N  A  M  G  S  G  L  *  Y  S  L  L  I  L  P  G  *  V  E  R  R  Q  I  *  R  I   : R  *  L  H  L  L  S  R  T  L  K  V  L  Y  L  L  *  L  F  L :   T  K  A  Q  M  L  K  L  T  L  Q  K  L  L  I  L  R  F  A  G  R :   I  *  H  G  *  N  Q  L  P  S  C  Q  F  *  </second_frame>
            <third_frame>   Y  I  L  A  S  K  P  P  I  L  L  S  K  E  P  K  F  S  D  L  T  Y  K  C  I  N  G  R  *  T  S  *  R  E  *  I  *  R  A  S  *  A  S  S  S  K  D  I  L  *  L  L  F  W  R  S  *  G  P  A  H  T  Q  T  K  Y  *  S  I  S  *  N  H  :  Y  P  A  K  N  T  S  *  C  E  Q  N  *  Y  V  N  Y  Y  T  R  S  Q  D  I  S  S  N  Y  S  C  P  N  F  V  A  S  I  G  T  S  *  R :   R  S  C  N  S  *  R  C  C  S  M  *  C  Y  H   : G  S  G  I  Y  V  N  M  H  N  G  G  G  C  F  K  L  Q  G  C  S  L  H  S  D  F   : R  F  Q  E  R  D  N  S  K  Y  G  T  E  S  *  T  Q  W  V  Q  G  Y  N  T  H  C  *  Y  S  Q  A  R  *  K  G  G  R  Y  K  E  *  :  D  D  C  T  S  F  Q  E  L  *  R  S  Y  I  Y  C  S  C  F   : *  Q  R  L  K  C  *  S  L  R  C  R  N  S  *  S  F  V  L  L  E   : G  Y  S  M  V  K  I  N  Y  Q  V  A  N  S  D </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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="10" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="64774" stop="64916"/>
                    <exon start="64985" stop="65109"/>
                    <exon start="65204" stop="65250"/>
                    <exon start="65581" stop="65658"/>
                    <exon start="65753" stop="65874"/>
                    <exon start="66037" stop="66094"/>
                    <exon start="66326" stop="66388"/>
                    <exon start="66579" stop="66620"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>678</number_coding_nucleotides>
                  <number_encoded_amino_acids>226</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MAGEPVNVNEFEELARQVLPKISYDFFSGGAEDQHTLKQNIEAFRRITIRPRILVDVSKIDMSTIILGHKTSAPIIVAPTSSHQLAHPEGEVATARGAAACNVIMGVAFTSTCTMEEVASSCKAVRFIQTFAFKREITANMVQRAERNGFRAIILTADTPRLGRKEADIKNKMIAPPFKNFEGLISTVAVSDKGSNVEAYAAETLDPSFCWKDIAWLKSITKLPIL</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="66636" PGL_stop="67566"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="66636" e_stop="66648"/>
            <exon e_start="66792" e_stop="66892"/>
            <exon e_start="66983" e_stop="67087"/>
            <exon e_start="67172" e_stop="67566"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="0.976" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.997" e_score="0.931"/>
          <exon-intron don_prob="0.972" acc_prob="1.000" e_score="0.952"/>
          <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="66636" e_stop="66648" e_length="13"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="0.976">
            <gDNA_intron_boundary i_start="66649" i_stop="66791" i_length="143"/>
          </intron>
          <exon e_serial="2" e_score="0.931">
            <gDNA_exon_boundary e_start="66792" e_stop="66892" e_length="101"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="66893" i_stop="66982" i_length="90"/>
          </intron>
          <exon e_serial="3" e_score="0.952">
            <gDNA_exon_boundary e_start="66983" e_stop="67087" e_length="105"/>
          </exon>
          <intron i_serial="3" don_prob="0.972" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67088" i_stop="67171" i_length="84"/>
          </intron>
          <exon e_serial="4" e_score="0.957">
            <gDNA_exon_boundary e_start="67172" e_stop="67566" e_length="395"/>
          </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="66636" stop="66648"/>
              <exon start="66792" stop="66892"/>
              <exon start="66983" stop="67087"/>
              <exon start="67172" stop="67566"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E546609" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67400" stop="67566"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E218879" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67400" stop="67566"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223269" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67400" stop="67566"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223045" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67400" stop="67566"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234228" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67401" stop="67566"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234140" 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>ACTGGTGAAGATG : CAACCAAAGCAATTGAAGCAGGAGTTGCAGGAATAATTGTCTCTAACCATGGAGCTCGGCAGCTGGATTACACTCCAGCTACTATTTCTGCTCTTGAAGAG : GTGGTCCATGCTGTTCAAGTTAAAGTTCCAGTTCTTTTCGATGGAGGAATTAGGCGAGGAACTGACATATTCAAGGCGTTAGCACTAGGCGCTAAAGCTGTTCTG : ATTGGTCGACCAGTCATCTACGGCCTAGCTGCTAAGGGGGAGACCGGGGTAAAACAAGTTATAGAAATGCTCAAGAATGAATTGGAGCAGACCATGGCTCTTGCTGGCTGCCGCACTGTGGATGACATTACCAGAAGCCATGTTAATACAGAGACCGAAAGGATGGAATGTAGGATGTAGTTTAATCCTATGTTCCTCTAAATAAACGGCTTATTAGCGCTAAACTCCATAATCATGTCACGTCTTGCTTTCTAATAATCCTCTGTGTAGTAGCATTTCTGCTCTTCTCCACTAACTAAATCCTTGTATAGGATTGTGATAATTTCCTTATGGTTACTGCAGTGGCCTAGCCACATAAAATAAAGGTTCATCCATTGAACACATTTCATCGAAAA</gDNA_template>
            <first_frame> T  G  E  D   : A  T  K  A  I  E  A  G  V  A  G  I  I  V  S  N  H  G  A  R  Q  L  D  Y  T  P  A  T  I  S  A  L  E  E  :  V  V  H  A  V  Q  V  K  V  P  V  L  F  D  G  G  I  R  R  G  T  D  I  F  K  A  L  A  L  G  A  K  A  V  L  :  I  G  R  P  V  I  Y  G  L  A  A  K  G  E  T  G  V  K  Q  V  I  E  M  L  K  N  E  L  E  Q  T  M  A  L  A  G  C  R  T  V  D  D  I  T  R  S  H  V  N  T  E  T  E  R  M  E  C  R  M  *  F  N  P  M  F  L  *  I  N  G  L  L  A  L  N  S  I  I  M  S  R  L  A  F  *  *  S  S  V  *  *  H  F  C  S  S  P  L  T  K  S  L  Y  R  I  V  I  I  S  L  W  L  L  Q  W  P  S  H  I  K  *  R  F  I  H  *  T  H  F  I  E   </first_frame>
            <second_frame>  L  V  K  M  :  Q  P  K  Q  L  K  Q  E  L  Q  E  *  L  S  L  T  M  E  L  G  S  W  I  T  L  Q  L  L  F  L  L  L  K  R :   W  S  M  L  F  K  L  K  F  Q  F  F  S  M  E  E  L  G  E  E  L  T  Y  S  R  R  *  H  *  A  L  K  L  F  * :   L  V  D  Q  S  S  T  A  *  L  L  R  G  R  P  G  *  N  K  L  *  K  C  S  R  M  N  W  S  R  P  W  L  L  L  A  A  A  L  W  M  T  L  P  E  A  M  L  I  Q  R  P  K  G  W  N  V  G  C  S  L  I  L  C  S  S  K  *  T  A  Y  *  R  *  T  P  *  S  C  H  V  L  L  S  N  N  P  L  C  S  S  I  S  A  L  L  H  *  L  N  P  C  I  G  L  *  *  F  P  Y  G  Y  C  S  G  L  A  T  *  N  K  G  S  S  I  E  H  I  S  S  K  </second_frame>
            <third_frame>   W  *  R  C :   N  Q  S  N  *  S  R  S  C  R  N  N  C  L  *  P  W  S  S  A  A  G  L  H  S  S  Y  Y  F  C  S  *  R   : G  G  P  C  C  S  S  *  S  S  S  S  F  R  W  R  N  *  A  R  N  *  H  I  Q  G  V  S  T  R  R  *  S  C  S   : D  W  S  T  S  H  L  R  P  S  C  *  G  G  D  R  G  K  T  S  Y  R  N  A  Q  E  *  I  G  A  D  H  G  S  C  W  L  P  H  C  G  *  H  Y  Q  K  P  C  *  Y  R  D  R  K  D  G  M  *  D  V  V  *  S  Y  V  P  L  N  K  R  L  I  S  A  K  L  H  N  H  V  T  S  C  F  L  I  I  L  C  V  V  A  F  L  L  F  S  T  N  *  I  L  V  *  D  C  D  N  F  L  M  V  T  A  V  A  *  P  H  K  I  K  V  H  P  L  N  T  F  H  R  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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="11" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="66636" stop="66648"/>
                    <exon start="66792" stop="66892"/>
                    <exon start="66983" stop="67087"/>
                    <exon start="67172" stop="67351"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>396</number_coding_nucleotides>
                  <number_encoded_amino_acids>132</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TGEDATKAIEAGVAGIIVSNHGARQLDYTPATISALEEVVHAVQVKVPVLFDGGIRRGTDIFKALALGAKAVLIGRPVIYGLAAKGETGVKQVIEMLKNELEQTMALAGCRTVDDITRSHVNTETERMECRM*</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="71238" PGL_stop="68674"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="71238" e_stop="71100"/>
            <exon e_start="70594" e_stop="70446"/>
            <exon e_start="70363" e_stop="70239"/>
            <exon e_start="70143" e_stop="70097"/>
            <exon e_start="69825" e_stop="69748"/>
            <exon e_start="69655" e_stop="69531"/>
            <exon e_start="69400" e_stop="69343"/>
            <exon e_start="69164" e_stop="69102"/>
            <exon e_start="68915" e_stop="68846"/>
            <exon e_start="68758" e_stop="68674"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.952" acc_prob="0.998" e_score="0.978"/>
          <exon-intron don_prob="0.999" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.794" acc_prob="0.815" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.959" e_score="1.000"/>
          <exon-intron don_prob="0.943" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.890" e_score="1.000"/>
          <exon-intron don_prob="0.858" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="0.925" e_score="1.000"/>
          <exon-intron don_prob="0.813" acc_prob="0.989" e_score="1.000"/>
          <exon-only e_score="0.988"/>
        </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="0.978">
            <gDNA_exon_boundary e_start="71238" e_stop="71100" e_length="139"/>
          </exon>
          <intron i_serial="1" don_prob="0.952" acc_prob="0.998">
            <gDNA_intron_boundary i_start="71099" i_stop="70595" i_length="505"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="70594" e_stop="70446" e_length="149"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.000">
            <gDNA_intron_boundary i_start="70445" i_stop="70364" i_length="82"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="70363" e_stop="70239" e_length="125"/>
          </exon>
          <intron i_serial="3" don_prob="0.794" acc_prob="0.815">
            <gDNA_intron_boundary i_start="70238" i_stop="70144" i_length="95"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="70143" e_stop="70097" e_length="47"/>
          </exon>
          <intron i_serial="4" don_prob="0.998" acc_prob="0.959">
            <gDNA_intron_boundary i_start="70096" i_stop="69826" i_length="271"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="69825" e_stop="69748" e_length="78"/>
          </exon>
          <intron i_serial="5" don_prob="0.943" acc_prob="0.997">
            <gDNA_intron_boundary i_start="69747" i_stop="69656" i_length="92"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="69655" e_stop="69531" e_length="125"/>
          </exon>
          <intron i_serial="6" don_prob="0.999" acc_prob="0.890">
            <gDNA_intron_boundary i_start="69530" i_stop="69401" i_length="130"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="69400" e_stop="69343" e_length="58"/>
          </exon>
          <intron i_serial="7" don_prob="0.858" acc_prob="0.990">
            <gDNA_intron_boundary i_start="69342" i_stop="69165" i_length="178"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="69164" e_stop="69102" e_length="63"/>
          </exon>
          <intron i_serial="8" don_prob="0.993" acc_prob="0.925">
            <gDNA_intron_boundary i_start="69101" i_stop="68916" i_length="186"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="68915" e_stop="68846" e_length="70"/>
          </exon>
          <intron i_serial="9" don_prob="0.813" acc_prob="0.989">
            <gDNA_intron_boundary i_start="68845" i_stop="68759" i_length="87"/>
          </intron>
          <exon e_serial="10" e_score="0.988">
            <gDNA_exon_boundary e_start="68758" e_stop="68674" e_length="85"/>
          </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="71238" stop="71100"/>
              <exon start="70594" stop="70446"/>
              <exon start="70363" stop="70239"/>
              <exon start="70143" stop="70097"/>
              <exon start="69825" stop="69748"/>
              <exon start="69655" stop="69531"/>
              <exon start="69400" stop="69343"/>
              <exon start="69164" stop="69102"/>
              <exon start="68915" stop="68846"/>
              <exon start="68758" stop="68674"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E708119" 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>CTACTATCAAGATTATTGTAATTATTGAATTATGCTAATCATTTACAGTGAACTATAATTCTCTAGTTCAATCAACTACAACTATTAGCTAATTAATTGAGCAGTGAACTTTAACTCTTCTCTGTTTTCTATACAACAG : GCTAAAATGGCGGGTGAACCAGTTAATGTGTATGAATTTCAAGAGCTTGCTAGGAAAGTTCTTCCAAAAATGTACTATGACTTCTTTGCTGGAGGAGCTGAGGATGAGTACACACTCAAAGAAAATGTCGAAGCATTTCATAGAATCAC : TATTCAGCCAAGAATACTAGTTGATGTGAGCAGAATAGACATGTCAACTGTCATACTTGGTCACAAGACATCAGCTCCAATTATACTTGCCCCTTCTTCTGCGCATCAATTGGCACATCCTGAAG : GAGAAGTTGCAACAGCTAGAGGTGCTGCAGCATGTAATGTTATCATG : GGACTGTCATTTATGTCTACCTGCACAGTGGAGGAGGTTGCTTCAAGCTGCAATGCTGTTCGCTTCTTTCAAATATAT : GTTTTCAAAAAGAGAGATGTAACAGAATTTATGGTACGTCGAGCTGAGAAGAATGGGTTCAGGGCAATAATTCTCACTGCTGATACTCCAAGGCTTGGCAGAAGGGAGGCTGATATAAAGAATAA : GATGATATCATTTCGGCTGAGGAATTTTGAAGGTTTTATATCAACTGATGTTGTTTCT : GACAAAGGCTCAAATCTTGCAGCATATGCTGAAGAAACTCTTGATCCGTCGCTTTGCTGGAAG : GATATCGCGTGGCTAAAATCAATTACTAAGTTGCCAATTTTGATTAAGGGTGTTCTCAATGGTGAAGATG : CAATGAAAGCAATTGAAGCAGGAGTTGTAGGAATTATCGTCTCTAATCATGGAGCTCGACAACTAGATTACTCTCCAGCTACTAT</gDNA_template>
            <first_frame> L  L  S  R  L  L  *  L  L  N  Y  A  N  H  L  Q  *  T  I  I  L  *  F  N  Q  L  Q  L  L  A  N  *  L  S  S  E  L  *  L  F  S  V  F  Y  T  T   : G  *  N  G  G  *  T  S  *  C  V  *  I  S  R  A  C  *  E  S  S  S  K  N  V  L  *  L  L  C  W  R  S  *  G  *  V  H  T  Q  R  K  C  R  S  I  S  *  N  H  :  Y  S  A  K  N  T  S  *  C  E  Q  N  R  H  V  N  C  H  T  W  S  Q  D  I  S  S  N  Y  T  C  P  F  F  C  A  S  I  G  T  S  *  R :   R  S  C  N  S  *  R  C  C  S  M  *  C  Y  H   : G  T  V  I  Y  V  Y  L  H  S  G  G  G  C  F  K  L  Q  C  C  S  L  L  S  N  I   : C  F  Q  K  E  R  C  N  R  I  Y  G  T  S  S  *  E  E  W  V  Q  G  N  N  S  H  C  *  Y  S  K  A  W  Q  K  G  G  *  Y  K  E  *  :  D  D  I  I  S  A  E  E  F  *  R  F  Y  I  N  *  C  C  F   : *  Q  R  L  K  S  C  S  I  C  *  R  N  S  *  S  V  A  L  L  E   : G  Y  R  V  A  K  I  N  Y  *  V  A  N  F  D  *  G  C  S  Q  W  *  R  C :   N  E  S  N  *  S  R  S  C  R  N  Y  R  L  *  S  W  S  S  T  T  R  L  L  S  S  Y  Y </first_frame>
            <second_frame>  Y  Y  Q  D  Y  C  N  Y  *  I  M  L  I  I  Y  S  E  L  *  F  S  S  S  I  N  Y  N  Y  *  L  I  N  *  A  V  N  F  N  S  S  L  F  S  I  Q  Q  :  A  K  M  A  G  E  P  V  N  V  Y  E  F  Q  E  L  A  R  K  V  L  P  K  M  Y  Y  D  F  F  A  G  G  A  E  D  E  Y  T  L  K  E  N  V  E  A  F  H  R  I  T :   I  Q  P  R  I  L  V  D  V  S  R  I  D  M  S  T  V  I  L  G  H  K  T  S  A  P  I  I  L  A  P  S  S  A  H  Q  L  A  H  P  E   : G  E  V  A  T  A  R  G  A  A  A  C  N  V  I  M  :  G  L  S  F  M  S  T  C  T  V  E  E  V  A  S  S  C  N  A  V  R  F  F  Q  I  Y  :  V  F  K  K  R  D  V  T  E  F  M  V  R  R  A  E  K  N  G  F  R  A  I  I  L  T  A  D  T  P  R  L  G  R  R  E  A  D  I  K  N  K :   M  I  S  F  R  L  R  N  F  E  G  F  I  S  T  D  V  V  S  :  D  K  G  S  N  L  A  A  Y  A  E  E  T  L  D  P  S  L  C  W  K  :  D  I  A  W  L  K  S  I  T  K  L  P  I  L  I  K  G  V  L  N  G  E  D   : A  M  K  A  I  E  A  G  V  V  G  I  I  V  S  N  H  G  A  R  Q  L  D  Y  S  P  A  T   </second_frame>
            <third_frame>   T  I  K  I  I  V  I  I  E  L  C  *  S  F  T  V  N  Y  N  S  L  V  Q  S  T  T  T  I  S  *  L  I  E  Q  *  T  L  T  L  L  C  F  L  Y  N  R :   L  K  W  R  V  N  Q  L  M  C  M  N  F  K  S  L  L  G  K  F  F  Q  K  C  T  M  T  S  L  L  E  E  L  R  M  S  T  H  S  K  K  M  S  K  H  F  I  E  S   : L  F  S  Q  E  Y  *  L  M  *  A  E  *  T  C  Q  L  S  Y  L  V  T  R  H  Q  L  Q  L  Y  L  P  L  L  L  R  I  N  W  H  I  L  K  :  E  K  L  Q  Q  L  E  V  L  Q  H  V  M  L  S  W :   D  C  H  L  C  L  P  A  Q  W  R  R  L  L  Q  A  A  M  L  F  A  S  F  K  Y  M :   F  S  K  R  E  M  *  Q  N  L  W  Y  V  E  L  R  R  M  G  S  G  Q  *  F  S  L  L  I  L  Q  G  L  A  E  G  R  L  I  *  R  I   : R  *  Y  H  F  G  *  G  I  L  K  V  L  Y  Q  L  M  L  F  L :   T  K  A  Q  I  L  Q  H  M  L  K  K  L  L  I  R  R  F  A  G  R :   I  S  R  G  *  N  Q  L  L  S  C  Q  F  *  L  R  V  F  S  M  V  K  M  :  Q  *  K  Q  L  K  Q  E  L  *  E  L  S  S  L  I  M  E  L  D  N  *  I  T  L  Q  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="C03HBa0121O11.1" strand="-"/>
                <serials PGL_serial="12" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="71138" stop="71100"/>
                    <exon start="70594" stop="70446"/>
                    <exon start="70363" stop="70239"/>
                    <exon start="70143" stop="70097"/>
                    <exon start="69825" stop="69748"/>
                    <exon start="69655" stop="69531"/>
                    <exon start="69400" stop="69343"/>
                    <exon start="69164" stop="69102"/>
                    <exon start="68915" stop="68846"/>
                    <exon start="68758" stop="68676"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>837</number_coding_nucleotides>
                  <number_encoded_amino_acids>279</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AVNFNSSLFSIQQAKMAGEPVNVYEFQELARKVLPKMYYDFFAGGAEDEYTLKENVEAFHRITIQPRILVDVSRIDMSTVILGHKTSAPIILAPSSAHQLAHPEGEVATARGAAACNVIMGLSFMSTCTVEEVASSCNAVRFFQIYVFKKRDVTEFMVRRAEKNGFRAIILTADTPRLGRREADIKNKMISFRLRNFEGFISTDVVSDKGSNLAAYAEETLDPSLCWKDIAWLKSITKLPILIKGVLNGEDAMKAIEAGVVGIIVSNHGARQLDYSPAT</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="74684" PGL_stop="80427"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="74684" e_stop="75210"/>
            <exon e_start="75864" e_stop="76069"/>
            <exon e_start="76189" e_stop="76392"/>
            <exon e_start="76844" e_stop="76954"/>
            <exon e_start="77040" e_stop="77135"/>
            <exon e_start="77236" e_stop="77281"/>
            <exon e_start="77371" e_stop="77450"/>
            <exon e_start="77867" e_stop="77935"/>
            <exon e_start="78049" e_stop="78133"/>
            <exon e_start="78266" e_stop="78420"/>
            <exon e_start="78527" e_stop="78607"/>
            <exon e_start="79733" e_stop="79792"/>
            <exon e_start="79936" e_stop="80427"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.988" e_score="0.982"/>
          <exon-intron don_prob="0.875" acc_prob="0.731" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.992" acc_prob="0.820" e_score="1.000"/>
          <exon-intron don_prob="0.409" acc_prob="0.971" e_score="1.000"/>
          <exon-intron don_prob="0.982" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.980" acc_prob="0.842" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="0.805" acc_prob="0.914" e_score="1.000"/>
          <exon-intron don_prob="0.803" acc_prob="0.892" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.987" acc_prob="0.995" 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="0.982">
            <gDNA_exon_boundary e_start="74684" e_stop="75210" e_length="527"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.988">
            <gDNA_intron_boundary i_start="75211" i_stop="75863" i_length="653"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="75864" e_stop="76069" e_length="206"/>
          </exon>
          <intron i_serial="2" don_prob="0.875" acc_prob="0.731">
            <gDNA_intron_boundary i_start="76070" i_stop="76188" i_length="119"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="76189" e_stop="76392" e_length="204"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.999">
            <gDNA_intron_boundary i_start="76393" i_stop="76843" i_length="451"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="76844" e_stop="76954" e_length="111"/>
          </exon>
          <intron i_serial="4" don_prob="0.992" acc_prob="0.820">
            <gDNA_intron_boundary i_start="76955" i_stop="77039" i_length="85"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="77040" e_stop="77135" e_length="96"/>
          </exon>
          <intron i_serial="5" don_prob="0.409" acc_prob="0.971">
            <gDNA_intron_boundary i_start="77136" i_stop="77235" i_length="100"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="77236" e_stop="77281" e_length="46"/>
          </exon>
          <intron i_serial="6" don_prob="0.982" acc_prob="0.998">
            <gDNA_intron_boundary i_start="77282" i_stop="77370" i_length="89"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="77371" e_stop="77450" e_length="80"/>
          </exon>
          <intron i_serial="7" don_prob="0.980" acc_prob="0.842">
            <gDNA_intron_boundary i_start="77451" i_stop="77866" i_length="416"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="77867" e_stop="77935" e_length="69"/>
          </exon>
          <intron i_serial="8" don_prob="0.999" acc_prob="0.992">
            <gDNA_intron_boundary i_start="77936" i_stop="78048" i_length="113"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="78049" e_stop="78133" e_length="85"/>
          </exon>
          <intron i_serial="9" don_prob="0.805" acc_prob="0.914">
            <gDNA_intron_boundary i_start="78134" i_stop="78265" i_length="132"/>
          </intron>
          <exon e_serial="10" e_score="1.000">
            <gDNA_exon_boundary e_start="78266" e_stop="78420" e_length="155"/>
          </exon>
          <intron i_serial="10" don_prob="0.803" acc_prob="0.892">
            <gDNA_intron_boundary i_start="78421" i_stop="78526" i_length="106"/>
          </intron>
          <exon e_serial="11" e_score="1.000">
            <gDNA_exon_boundary e_start="78527" e_stop="78607" e_length="81"/>
          </exon>
          <intron i_serial="11" don_prob="0.998" acc_prob="0.999">
            <gDNA_intron_boundary i_start="78608" i_stop="79732" i_length="1125"/>
          </intron>
          <exon e_serial="12" e_score="1.000">
            <gDNA_exon_boundary e_start="79733" e_stop="79792" e_length="60"/>
          </exon>
          <intron i_serial="12" don_prob="0.987" acc_prob="0.995">
            <gDNA_intron_boundary i_start="79793" i_stop="79935" i_length="143"/>
          </intron>
          <exon e_serial="13" e_score="1.000">
            <gDNA_exon_boundary e_start="79936" e_stop="80427" e_length="492"/>
          </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="74684" stop="75210"/>
              <exon start="75864" stop="75985"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E359304" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="74706" stop="75210"/>
              <exon start="75864" stop="76069"/>
              <exon start="76189" stop="76288"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E740686" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="74861" stop="75210"/>
              <exon start="75864" stop="76046"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E369809" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="74861" stop="75210"/>
              <exon start="75864" stop="76012"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E248828" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="74908" stop="75210"/>
              <exon start="75864" stop="75893"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E315455" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="75087" stop="75210"/>
              <exon start="75864" stop="76069"/>
              <exon start="76189" stop="76392"/>
              <exon start="76844" stop="76945"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E213315" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="75893" stop="76069"/>
              <exon start="76189" stop="76392"/>
              <exon start="76844" stop="76954"/>
              <exon start="77040" stop="77112"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E205471" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="76232" stop="76392"/>
              <exon start="76844" stop="76954"/>
              <exon start="77040" stop="77135"/>
              <exon start="77236" stop="77281"/>
              <exon start="77371" stop="77450"/>
              <exon start="77867" stop="77924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E247143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="77272" stop="77281"/>
              <exon start="77371" stop="77450"/>
              <exon start="77867" stop="77935"/>
              <exon start="78049" stop="78133"/>
              <exon start="78266" stop="78420"/>
              <exon start="78527" stop="78607"/>
              <exon start="79733" stop="79792"/>
              <exon start="79936" stop="80083"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257394" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="77922" stop="77935"/>
              <exon start="78049" stop="78133"/>
              <exon start="78266" stop="78420"/>
              <exon start="78527" stop="78607"/>
              <exon start="79733" stop="79792"/>
              <exon start="79936" stop="80114"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E367172" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="78310" stop="78420"/>
              <exon start="78527" stop="78607"/>
              <exon start="79733" stop="79792"/>
              <exon start="79936" stop="80416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E262874" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="78573" stop="78607"/>
              <exon start="79733" stop="79792"/>
              <exon start="79936" stop="80427"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E322040" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="79733" stop="79792"/>
              <exon start="79936" stop="80380"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E252509" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="79737" stop="79792"/>
              <exon start="79936" stop="80373"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286290" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="80044" stop="80416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257393" 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>AATCCTCTCTGCCCTGCACTGAGGAAGTTGACTGTTTGAAATACAACTGATGGTCCCCTGCAACTTTCACGGCACCTTCCTGTAATACCATCTTCAGTCTTGATCCAATTCAGTTTATCATCCAATTTCTCATCTGGGTCACTGTTTTTATGCTATAGTTTCACAAATGGTGGCTTCTTCTCTGGCATCTCCACTATGTACATGGCTCGTAGCAGCTTGCATGTCTGTATCCAGCGAAAAGGATCAATTTTCGAAGCCTGCTTCTAGCTTTCAGTCTTCCAAGTTCATGGGTAGGAGAAGAAAAGCGATTACCAAGTTCAAAAGTGGGAGCTTGATGAATGGTTCTGTAATGAACACTTCTTGGCATAATTGTTTTGGTTTTGAGCCCTGTGAGGAGTATTATAAATCAGACGGATTCTCTGCTTCTTTTTCGTCTTTATTTGCCGAAAATCCGTTTTCTGTATTTGGGTTTAAACAGGTGCCATTGAATCGAAGGCAGAGGAGAATGAGCTCTGCTGCTCATCCTG : GCAAACCCATGGCTGTGGCTGTGCAACCTGCAATGGAAGCCACGACAATGAAGAAACCTCTTATGAGGAACAGGAGAGTTGTTGTGACCGGGGTCGGTGTAGTATCACCAATTGGTCATGATCCAGACATGTTTTATAGTAATCTTCTTGAAGGCATCAGTGGTATAAGTCAGATTGAGGCTTTCGACTGTTCTGAATTTCCCAGT : AGAATTGCTGGGGAAATCAAGGAATTTTCGACTAATGGATGGGTTGCACCCAAACTTTCGAAAAGAGCAGATAAGTTCATGCTTTATATGCTTACTGCTGGAAAGAAAGCTTTGGCAGATGGTGGGATCACAGAAGACTTATTGCAGGAATTAGATAAGGCTAGATGTGGGGTCCTTATTGGCTCTGCCCTTGGAGGGATGAAG : GTCTTCCATGATGGCATTGAGGCTTTACAGGTGTCGTACAAGAAGCTGAATCCTTTCTGTGTACCTTTTGCAACATCCAATATGGGAGCTGCCATGCTTGCAATAGATTTG : GGTTGGATGGGTCCAAGCTACTCAATCTCCACTGCATGTGCAACAAGTAACTTCTGTATATTGAGTGCTTCAAATCATATAATTAGAGGTGAAACA : GATATGATGCTTTGTGGGGGGTCAGATTCGGCAATTATTCCTATAG : GCTTGGGAGGTTTCAGTGCTTGTGGAGCCCTGTCACAGAGGAATAGTGATCCAACAAGGGCTTCACGTCCCTGGGATATG : GACCGTGATGGATTTGTGATTGGGGAAGGATCCGGCGTCTTACTTTTAGAAGAACTTGAACATGCAAAG : ACGAGAAAGGCTAAAATATATGCTGAGTTTTTGGGTGGAAGCTTCACTTCTGATGCTTATCACATGATAGAGCCACATCCAGAAG : GAAGTGGAGTTGTTCTCTGCATAGAAAAGGCCTTGGCTCAATCTGGGGTGAAACGTGAAGATGTCAACTATATAAATGCTCATGCTGCATCAACGCCAGCCGGTGACCTGAACGAATATCAGGCTATTCTGCATTGCTTTGGGAAGAACCCTGAA : CTTAAAATAAATTCAACAAAGTCCATGACTGGTCATCTCCTTGGGGCTGCTGGTGCTGTGGAAGCCATCGCAACAGTCAAG : GCCATACATACAGGATGGATCCATCCAAACATCAATCTTGAGAACCCTGACAATGGCTTG : GATATGAATGTGCTGGTGGGCTCTAAGAAGGAGCGCTTGGATATCAAGGTTGCACTCTCCAACTCATTTGGCTTTGGAGGACACAACTCGTCTATTCTATTTGCGCCTTATAAGAATGTCTAATTCAATCCTTGCACATATCATGTTTAAAGAATGTAATGTTGTGTTGATTTTCATCAAGTTGCCCTTGAAAGATTCCAGCATGCCAACGAAAGCTAGAACATGAACTAAACATCTTTACTAGTTCATCAAAAAGGAAAGCTGGCACCGGAGATCACGAGTGTGTGAAGTCATTTTCCTAACTGTACTACCTTTTTAACTACTATAGATATTTTGAAATTGGGTTCATCTTTCTATTAGTTGTTCTTAGGTATGAACTGTAGCAGCCAATACATAATTCATCTCACATCTGCTTGGAAATGAGAAATATGTTTTTTTCTTTGTGATATACTATTGTTGTATTTGCTATGGCTATAAAAAAGTGATGTCCAT</gDNA_template>
            <first_frame> N  P  L  C  P  A  L  R  K  L  T  V  *  N  T  T  D  G  P  L  Q  L  S  R  H  L  P  V  I  P  S  S  V  L  I  Q  F  S  L  S  S  N  F  S  S  G  S  L  F  L  C  Y  S  F  T  N  G  G  F  F  S  G  I  S  T  M  Y  M  A  R  S  S  L  H  V  C  I  Q  R  K  G  S  I  F  E  A  C  F  *  L  S  V  F  Q  V  H  G  *  E  K  K  S  D  Y  Q  V  Q  K  W  E  L  D  E  W  F  C  N  E  H  F  L  A  *  L  F  W  F  *  A  L  *  G  V  L  *  I  R  R  I  L  C  F  F  F  V  F  I  C  R  K  S  V  F  C  I  W  V  *  T  G  A  I  E  S  K  A  E  E  N  E  L  C  C  S  S  W :   Q  T  H  G  C  G  C  A  T  C  N  G  S  H  D  N  E  E  T  S  Y  E  E  Q  E  S  C  C  D  R  G  R  C  S  I  T  N  W  S  *  S  R  H  V  L  *  *  S  S  *  R  H  Q  W  Y  K  S  D  *  G  F  R  L  F  *  I  S  Q   : *  N  C  W  G  N  Q  G  I  F  D  *  W  M  G  C  T  Q  T  F  E  K  S  R  *  V  H  A  L  Y  A  Y  C  W  K  E  S  F  G  R  W  W  D  H  R  R  L  I  A  G  I  R  *  G  *  M  W  G  P  Y  W  L  C  P  W  R  D  E   : G  L  P  *  W  H  *  G  F  T  G  V  V  Q  E  A  E  S  F  L  C  T  F  C  N  I  Q  Y  G  S  C  H  A  C  N  R  F   : G  L  D  G  S  K  L  L  N  L  H  C  M  C  N  K  *  L  L  Y  I  E  C  F  K  S  Y  N  *  R  *  N   : R  Y  D  A  L  W  G  V  R  F  G  N  Y  S  Y  R :   L  G  R  F  Q  C  L  W  S  P  V  T  E  E  *  *  S  N  K  G  F  T  S  L  G  Y   : G  P  *  W  I  C  D  W  G  R  I  R  R  L  T  F  R  R  T  *  T  C  K   : D  E  K  G  *  N  I  C  *  V  F  G  W  K  L  H  F  *  C  L  S  H  D  R  A  T  S  R  R :   K  W  S  C  S  L  H  R  K  G  L  G  S  I  W  G  E  T  *  R  C  Q  L  Y  K  C  S  C  C  I  N  A  S  R  *  P  E  R  I  S  G  Y  S  A  L  L  W  E  E  P  *   : T  *  N  K  F  N  K  V  H  D  W  S  S  P  W  G  C  W  C  C  G  S  H  R  N  S  Q   : G  H  T  Y  R  M  D  P  S  K  H  Q  S  *  E  P  *  Q  W  L   : G  Y  E  C  A  G  G  L  *  E  G  A  L  G  Y  Q  G  C  T  L  Q  L  I  W  L  W  R  T  Q  L  V  Y  S  I  C  A  L  *  E  C  L  I  Q  S  L  H  I  S  C  L  K  N  V  M  L  C  *  F  S  S  S  C  P  *  K  I  P  A  C  Q  R  K  L  E  H  E  L  N  I  F  T  S  S  S  K  R  K  A  G  T  G  D  H  E  C  V  K  S  F  S  *  L  Y  Y  L  F  N  Y  Y  R  Y  F  E  I  G  F  I  F  L  L  V  V  L  R  Y  E  L  *  Q  P  I  H  N  S  S  H  I  C  L  E  M  R  N  M  F  F  S  L  *  Y  T  I  V  V  F  A  M  A  I  K  K  *  C  P  </first_frame>
            <second_frame>  I  L  S  A  L  H  *  G  S  *  L  F  E  I  Q  L  M  V  P  C  N  F  H  G  T  F  L  *  Y  H  L  Q  S  *  S  N  S  V  Y  H  P  I  S  H  L  G  H  C  F  Y  A  I  V  S  Q  M  V  A  S  S  L  A  S  P  L  C  T  W  L  V  A  A  C  M  S  V  S  S  E  K  D  Q  F  S  K  P  A  S  S  F  Q  S  S  K  F  M  G  R  R  R  K  A  I  T  K  F  K  S  G  S  L  M  N  G  S  V  M  N  T  S  W  H  N  C  F  G  F  E  P  C  E  E  Y  Y  K  S  D  G  F  S  A  S  F  S  S  L  F  A  E  N  P  F  S  V  F  G  F  K  Q  V  P  L  N  R  R  Q  R  R  M  S  S  A  A  H  P   : G  K  P  M  A  V  A  V  Q  P  A  M  E  A  T  T  M  K  K  P  L  M  R  N  R  R  V  V  V  T  G  V  G  V  V  S  P  I  G  H  D  P  D  M  F  Y  S  N  L  L  E  G  I  S  G  I  S  Q  I  E  A  F  D  C  S  E  F  P  S  :  R  I  A  G  E  I  K  E  F  S  T  N  G  W  V  A  P  K  L  S  K  R  A  D  K  F  M  L  Y  M  L  T  A  G  K  K  A  L  A  D  G  G  I  T  E  D  L  L  Q  E  L  D  K  A  R  C  G  V  L  I  G  S  A  L  G  G  M  K  :  V  F  H  D  G  I  E  A  L  Q  V  S  Y  K  K  L  N  P  F  C  V  P  F  A  T  S  N  M  G  A  A  M  L  A  I  D  L  :  G  W  M  G  P  S  Y  S  I  S  T  A  C  A  T  S  N  F  C  I  L  S  A  S  N  H  I  I  R  G  E  T  :  D  M  M  L  C  G  G  S  D  S  A  I  I  P  I   : G  L  G  G  F  S  A  C  G  A  L  S  Q  R  N  S  D  P  T  R  A  S  R  P  W  D  M  :  D  R  D  G  F  V  I  G  E  G  S  G  V  L  L  L  E  E  L  E  H  A  K  :  T  R  K  A  K  I  Y  A  E  F  L  G  G  S  F  T  S  D  A  Y  H  M  I  E  P  H  P  E   : G  S  G  V  V  L  C  I  E  K  A  L  A  Q  S  G  V  K  R  E  D  V  N  Y  I  N  A  H  A  A  S  T  P  A  G  D  L  N  E  Y  Q  A  I  L  H  C  F  G  K  N  P  E  :  L  K  I  N  S  T  K  S  M  T  G  H  L  L  G  A  A  G  A  V  E  A  I  A  T  V  K  :  A  I  H  T  G  W  I  H  P  N  I  N  L  E  N  P  D  N  G  L  :  D  M  N  V  L  V  G  S  K  K  E  R  L  D  I  K  V  A  L  S  N  S  F  G  F  G  G  H  N  S  S  I  L  F  A  P  Y  K  N  V  *  F  N  P  C  T  Y  H  V  *  R  M  *  C  C  V  D  F  H  Q  V  A  L  E  R  F  Q  H  A  N  E  S  *  N  M  N  *  T  S  L  L  V  H  Q  K  G  K  L  A  P  E  I  T  S  V  *  S  H  F  P  N  C  T  T  F  L  T  T  I  D  I  L  K  L  G  S  S  F  Y  *  L  F  L  G  M  N  C  S  S  Q  Y  I  I  H  L  T  S  A  W  K  *  E  I  C  F  F  L  C  D  I  L  L  L  Y  L  L  W  L  *  K  S  D  V  H </second_frame>
            <third_frame>   S  S  L  P  C  T  E  E  V  D  C  L  K  Y  N  *  W  S  P  A  T  F  T  A  P  S  C  N  T  I  F  S  L  D  P  I  Q  F  I  I  Q  F  L  I  W  V  T  V  F  M  L  *  F  H  K  W  W  L  L  L  W  H  L  H  Y  V  H  G  S  *  Q  L  A  C  L  Y  P  A  K  R  I  N  F  R  S  L  L  L  A  F  S  L  P  S  S  W  V  G  E  E  K  R  L  P  S  S  K  V  G  A  *  *  M  V  L  *  *  T  L  L  G  I  I  V  L  V  L  S  P  V  R  S  I  I  N  Q  T  D  S  L  L  L  F  R  L  Y  L  P  K  I  R  F  L  Y  L  G  L  N  R  C  H  *  I  E  G  R  G  E  *  A  L  L  L  I  L  :  A  N  P  W  L  W  L  C  N  L  Q  W  K  P  R  Q  *  R  N  L  L  *  G  T  G  E  L  L  *  P  G  S  V  *  Y  H  Q  L  V  M  I  Q  T  C  F  I  V  I  F  L  K  A  S  V  V  *  V  R  L  R  L  S  T  V  L  N  F  P  V :   E  L  L  G  K  S  R  N  F  R  L  M  D  G  L  H  P  N  F  R  K  E  Q  I  S  S  C  F  I  C  L  L  L  E  R  K  L  W  Q  M  V  G  S  Q  K  T  Y  C  R  N  *  I  R  L  D  V  G  S  L  L  A  L  P  L  E  G  *  R :   S  S  M  M  A  L  R  L  Y  R  C  R  T  R  S  *  I  L  S  V  Y  L  L  Q  H  P  I  W  E  L  P  C  L  Q  *  I  W :   V  G  W  V  Q  A  T  Q  S  P  L  H  V  Q  Q  V  T  S  V  Y  *  V  L  Q  I  I  *  L  E  V  K  Q :   I  *  C  F  V  G  G  Q  I  R  Q  L  F  L  *  :  A  W  E  V  S  V  L  V  E  P  C  H  R  G  I  V  I  Q  Q  G  L  H  V  P  G  I  W :   T  V  M  D  L  *  L  G  K  D  P  A  S  Y  F  *  K  N  L  N  M  Q  R :   R  E  R  L  K  Y  M  L  S  F  W  V  E  A  S  L  L  M  L  I  T  *  *  S  H  I  Q  K  :  E  V  E  L  F  S  A  *  K  R  P  W  L  N  L  G  *  N  V  K  M  S  T  I  *  M  L  M  L  H  Q  R  Q  P  V  T  *  T  N  I  R  L  F  C  I  A  L  G  R  T  L  N :   L  K  *  I  Q  Q  S  P  *  L  V  I  S  L  G  L  L  V  L  W  K  P  S  Q  Q  S  R :   P  Y  I  Q  D  G  S  I  Q  T  S  I  L  R  T  L  T  M  A  W :   I  *  M  C  W  W  A  L  R  R  S  A  W  I  S  R  L  H  S  P  T  H  L  A  L  E  D  T  T  R  L  F  Y  L  R  L  I  R  M  S  N  S  I  L  A  H  I  M  F  K  E  C  N  V  V  L  I  F  I  K  L  P  L  K  D  S  S  M  P  T  K  A  R  T  *  T  K  H  L  Y  *  F  I  K  K  E  S  W  H  R  R  S  R  V  C  E  V  I  F  L  T  V  L  P  F  *  L  L  *  I  F  *  N  W  V  H  L  S  I  S  C  S  *  V  *  T  V  A  A  N  T  *  F  I  S  H  L  L  G  N  E  K  Y  V  F  F  F  V  I  Y  Y  C  C  I  C  Y  G  Y  K  K  V  M  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="C03HBa0121O11.1" strand="+"/>
                <serials PGL_serial="13" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="74787" stop="75210"/>
                    <exon start="75864" stop="76069"/>
                    <exon start="76189" stop="76392"/>
                    <exon start="76844" stop="76954"/>
                    <exon start="77040" stop="77135"/>
                    <exon start="77236" stop="77281"/>
                    <exon start="77371" stop="77450"/>
                    <exon start="77867" stop="77935"/>
                    <exon start="78049" stop="78133"/>
                    <exon start="78266" stop="78420"/>
                    <exon start="78527" stop="78607"/>
                    <exon start="79733" stop="79792"/>
                    <exon start="79936" stop="80058"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1737</number_coding_nucleotides>
                  <number_encoded_amino_acids>579</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SNSVYHPISHLGHCFYAIVSQMVASSLASPLCTWLVAACMSVSSEKDQFSKPASSFQSSKFMGRRRKAITKFKSGSLMNGSVMNTSWHNCFGFEPCEEYYKSDGFSASFSSLFAENPFSVFGFKQVPLNRRQRRMSSAAHPGKPMAVAVQPAMEATTMKKPLMRNRRVVVTGVGVVSPIGHDPDMFYSNLLEGISGISQIEAFDCSEFPSRIAGEIKEFSTNGWVAPKLSKRADKFMLYMLTAGKKALADGGITEDLLQELDKARCGVLIGSALGGMKVFHDGIEALQVSYKKLNPFCVPFATSNMGAAMLAIDLGWMGPSYSISTACATSNFCILSASNHIIRGETDMMLCGGSDSAIIPIGLGGFSACGALSQRNSDPTRASRPWDMDRDGFVIGEGSGVLLLEELEHAKTRKAKIYAEFLGGSFTSDAYHMIEPHPEGSGVVLCIEKALAQSGVKREDVNYINAHAASTPAGDLNEYQAILHCFGKNPELKINSTKSMTGHLLGAAGAVEAIATVKAIHTGWIHPNINLENPDNGLDMNVLVGSKKERLDIKVALSNSFGFGGHNSSILFAPYKNV*</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="95913" PGL_stop="91396"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="95913" e_stop="95784"/>
            <exon e_start="94797" e_stop="94590"/>
            <exon e_start="93722" e_stop="93562"/>
            <exon e_start="93456" e_stop="93310"/>
            <exon e_start="92214" e_stop="92138"/>
            <exon e_start="91844" e_stop="91427"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="0.978" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.067" e_score="1.000"/>
          <exon-intron don_prob="0.947" acc_prob="0.972" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.989" e_score="1.000"/>
          <exon-only e_score="0.997"/>
        </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="95913" e_stop="95784" e_length="130"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="0.978">
            <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="94797" e_stop="94590" e_length="208"/>
          </exon>
          <intron i_serial="2" don_prob="0.990" acc_prob="0.067">
            <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="93722" e_stop="93562" e_length="161"/>
          </exon>
          <intron i_serial="3" don_prob="0.947" acc_prob="0.972">
            <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="93456" e_stop="93310" e_length="147"/>
          </exon>
          <intron i_serial="4" don_prob="0.989" acc_prob="0.989">
            <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="92214" e_stop="92138" e_length="77"/>
          </exon>
          <intron i_serial="5" don_prob="0.998" acc_prob="0.989">
            <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293"/>
          </intron>
          <exon e_serial="6" e_score="0.997">
            <gDNA_exon_boundary e_start="91844" e_stop="91427" e_length="418"/>
          </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="95913" stop="95784"/>
              <exon start="94797" stop="94590"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243810" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95904" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92164"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E213600" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95904" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93353"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E247376" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95904" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93353"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E248643" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95904" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93593"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E206216" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95904" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93601"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E206711" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95891" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92157"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211360" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95891" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93329"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211354" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95886" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93446"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277367" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95883" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91685"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E693194" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95883" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91796"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E693224" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95882" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92154"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E314825" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95882" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93566"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E314732" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95871" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93360"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310862" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95865" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91683"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E709746" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95853" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91812"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340461" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95833" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310987" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94793" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92154"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E314613" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94733" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91781"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E214777" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94733" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E305864" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94636" stop="94590"/>
              <exon start="93722" stop="93591"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E264330" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93643" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91505"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E392089" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93643" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91778"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396078" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93642" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91538"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228361" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93642" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91628"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E231643" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91803" stop="91427"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E229076" 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>AAACTCAGCAAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG : CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA : TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG : ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC : AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG : GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAGCTTCAAAACTCCAACAAGTAGCTCATTGTAGTTTCAGCTATGAAACTAACTTATTTCAGAATATACAGCAAATATAAACAATCCTTCAGACTGTT</gDNA_template>
            <first_frame> K  L  S  K  T  P  L  C  S  Y  P  I  Y  S  Q  L  R  F  K  L  L  T  Y  Q  R  R  S  A  I  G  D  W  I  P  S  S  H  A  S  V  *  S  I   : A  V  C  L  R  E  N  M  V  K  L  T  L  I  A  R  V  T  D  G  L  P  L  A  E  G  L  D  D  G  R  D  V  Q  N  A  D  F  Y  K  Q  Q  V  K  A  L  F  K  N  L  S  M  R  Q  N  D  A  S  R  M  S  I  E  T  G  P  Y  V  F  H :   Y  I  I  E  G  H  V  C  Y  L  T  M  C  D  R  S  Y  P  K  K  L  A  F  Q  Y  L  E  D  L  K  N  E  F  E  R  A  N  G  S  Q  I  E  T  A  A  R  P  Y  A  F  I  K  F   : D  T  F  I  Q  K  T  K  K  L  Y  Q  D  T  R  T  Q  R  N  I  S  K  L  N  D  E  L  Y  E  V  H  Q  I  M  T  R  N  V  Q  E  V  L  G  V  G  E  K  L  D   : Q  V  S  Q  M  S  S  R  L  T  S  E  S  R  I  Y  A  D  K  A  K  D  L  N  R  Q  :  A  L  I  R  K  W  A  P  V  A  I  V  L  G  V  V  I  L  F  F  W  L  R  T  K  I  W  *  C  F  H  T  D  A  A  Q  *  R  Q  Y  C  Q  M  F  Y  S  Y  L  S  P  S  D  S  A  Q  P  R  E  P  P  H  I  T  V  I  Q  H  V  L  C  H  I  S  F  I  V  *  K  R  K  G  T  A  M  N  Y  V  P  *  P  *  E  I  T  L  I  L  A  L  F  Y  I  L  S  C  *  F  S  F  K  T  P  T  S  S  S  L  *  F  Q  L  *  N  *  L  I  S  E  Y  T  A  N  I  N  N  P  S  D  C  </first_frame>
            <second_frame>  N  S  A  K  P  L  F  V  P  I  P  F  I  P  S  S  D  S  N  S  *  L  I  K  G  G  Q  R  S  A  T  G  F  R  A  V  T  Q  A  Y  D  R  S  :  L  Y  A  C  G  K  I  W  *  S  *  L  *  L  L  A  *  L  M  A  F  L  *  P  R  G  W  M  M  V  V  M  F  K  M  Q  I  S  T  N  S  R  S  R  P  Y  S  R  T  C  R  C  A  K  M  T  L  Q  G  C  L  L  K  L  D  L  T  S  S   : I  I  S  L  K  G  M  F  V  I  *  Q  C  V  I  A  L  I  P  R  N  L  P  F  N  T  W  K  T  L  R  M  S  L  S  A  P  M  G  V  K  L  K  L  L  L  D  H  M  L  L  L  N  L  :  I  H  S  Y  R  R  R  R  N  C  T  R  I  L  E  L  N  A  T  F  L  S  *  M  M  S  F  T  K  F  I  K  *  *  L  E  M  F  K  K  F  L  E  L  V  K  S  W  T  :  R  S  V  K  C  P  A  V  *  H  L  N  P  G  Y  M  L  I  K  Q  K  T  *  I  V  R :   L  *  F  E  N  G  L  L  L  L  L  C  L  E  L  S  F  S  S  S  G  S  E  Q  R  S  G  D  A  S  I  Q  M  Q  L  S  D  D  N  T  V  K  C  F  I  H  I  C  H  H  Q  T  L  H  N  P  E  N  H  L  T  L  Q  L  S  S  M  C  C  A  I  S  V  L  *  C  K  R  G  K  E  P  R  *  I  M  S  L  N  L  E  K  L  H  *  F  W  L  S  F  I  Y  C  L  V  S  L  A  S  K  L  Q  Q  V  A  H  C  S  F  S  Y  E  T  N  L  F  Q  N  I  Q  Q  I  *  T  I  L  Q  T  V </second_frame>
            <third_frame>   T  Q  Q  N  P  S  L  F  L  S  H  L  F  P  A  P  I  Q  T  L  N  L  S  K  A  V  S  D  R  R  L  D  S  E  Q  S  R  K  R  M  I  D  R :   C  M  L  A  G  K  Y  G  E  V  D  F  D  C  S  R  D  *  W  P  S  F  S  R  G  A  G  *  W  S  *  C  S  K  C  R  F  L  Q  T  A  G  Q  G  L  I  Q  E  P  V  D  A  P  K  *  R  F  K  D  V  Y  *  N  W  T  L  R  L  P  :  L  Y  H  *  R  A  C  L  L  S  D  N  V  *  S  L  L  S  Q  E  T  C  L  S  I  P  G  R  P  *  E  *  V  *  A  R  Q  W  E  S  N  *  N  C  C  *  T  I  C  F  Y  *  I  * :   Y  I  H  T  E  D  E  E  T  V  P  G  Y  *  N  S  T  Q  H  F  *  V  E  *  *  A  L  R  S  S  S  N  N  D  S  K  C  S  R  S  S  W  S  W  *  K  V  G  P :   G  Q  S  N  V  Q  P  F  D  I  *  I  P  D  I  C  *  *  S  K  R  L  K  S  S   : G  F  D  S  K  M  G  S  C  C  Y  C  A  W  S  C  H  S  L  L  L  A  Q  N  K  D  L  V  M  L  P  Y  R  C  S  S  V  T  T  I  L  S  N  V  L  F  I  F  V  T  I  R  L  C  T  T  Q  R  T  T  S  H  Y  S  Y  P  A  C  V  V  P  Y  Q  F  Y  S  V  K  E  E  R  N  R  D  E  L  C  P  L  T  L  R  N  Y  I  N  F  G  S  L  L  Y  I  V  L  L  V  *  L  Q  N  S  N  K  *  L  I  V  V  S  A  M  K  L  T  Y  F  R  I  Y  S  K  Y  K  Q  S  F  R  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="C03HBa0121O11.1" strand="-"/>
                <serials PGL_serial="14" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="95790" stop="95784"/>
                    <exon start="94797" stop="94590"/>
                    <exon start="93722" stop="93562"/>
                    <exon start="93456" stop="93310"/>
                    <exon start="92214" stop="92138"/>
                    <exon start="91844" stop="91761"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>681</number_coding_nucleotides>
                  <number_encoded_amino_acids>227</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SIAVCLRENMVKLTLIARVTDGLPLAEGLDDGRDVQNADFYKQQVKALFKNLSMRQNDASRMSIETGPYVFHYIIEGHVCYLTMCDRSYPKKLAFQYLEDLKNEFERANGSQIETAARPYAFIKFDTFIQKTKKLYQDTRTQRNISKLNDELYEVHQIMTRNVQEVLGVGEKLDQVSQMSSRLTSESRIYADKAKDLNRQALIRKWAPVAIVLGVVILFFWLRTKIW*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="95913" e_stop="95784"/>
            <exon e_start="94797" e_stop="94590"/>
            <exon e_start="93722" e_stop="93562"/>
            <exon e_start="93456" e_stop="93310"/>
            <exon e_start="92878" e_stop="92780"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="0.978" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.067" e_score="1.000"/>
          <exon-intron don_prob="0.947" acc_prob="0.972" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.997" e_score="1.000"/>
          <exon-only e_score="0.980"/>
        </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="95913" e_stop="95784" e_length="130"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="0.978">
            <gDNA_intron_boundary i_start="95783" i_stop="94798" i_length="986"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="94797" e_stop="94590" e_length="208"/>
          </exon>
          <intron i_serial="2" don_prob="0.990" acc_prob="0.067">
            <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="93722" e_stop="93562" e_length="161"/>
          </exon>
          <intron i_serial="3" don_prob="0.947" acc_prob="0.972">
            <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="93456" e_stop="93310" e_length="147"/>
          </exon>
          <intron i_serial="4" don_prob="0.989" acc_prob="0.997">
            <gDNA_intron_boundary i_start="93309" i_stop="92879" i_length="431"/>
          </intron>
          <exon e_serial="5" e_score="0.980">
            <gDNA_exon_boundary e_start="92878" e_stop="92780" e_length="99"/>
          </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="95913" stop="95784"/>
              <exon start="94797" stop="94590"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243810" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95904" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93353"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E247376" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95904" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93353"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E248643" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95904" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93593"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E206216" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95904" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93601"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E206711" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95891" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93329"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211354" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95886" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93446"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277367" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95882" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93566"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E314732" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95871" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93360"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310862" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95833" stop="95784"/>
              <exon start="94797" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310987" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94733" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E305864" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94664" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92878" stop="92780"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E306368" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94636" stop="94590"/>
              <exon start="93722" stop="93591"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E264330" 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="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AAACTCAGCAAAACCCCTCTTTGTTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGACTGGATTCCGAGCAGTCACGCAAGCGTATGATCGATCG : CTGTATGCTTGCGGGAAAATATGGTGAAGTTGACTTTGATTGCTCGCGTGACTGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA : TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG : ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC : GTCGGGAGACAAAAACAGAGGAGAGTGGATGCTGTGGAAGATTGTTGAGAAGTAAAATGGTTTAAAAGACCACACTTCGACGTCCTTAAAATTTGATAA</gDNA_template>
            <first_frame> K  L  S  K  T  P  L  C  S  Y  P  I  Y  S  Q  L  R  F  K  L  L  T  Y  Q  R  R  S  A  I  G  D  W  I  P  S  S  H  A  S  V  *  S  I   : A  V  C  L  R  E  N  M  V  K  L  T  L  I  A  R  V  T  D  G  L  P  L  A  E  G  L  D  D  G  R  D  V  Q  N  A  D  F  Y  K  Q  Q  V  K  A  L  F  K  N  L  S  M  R  Q  N  D  A  S  R  M  S  I  E  T  G  P  Y  V  F  H :   Y  I  I  E  G  H  V  C  Y  L  T  M  C  D  R  S  Y  P  K  K  L  A  F  Q  Y  L  E  D  L  K  N  E  F  E  R  A  N  G  S  Q  I  E  T  A  A  R  P  Y  A  F  I  K  F   : D  T  F  I  Q  K  T  K  K  L  Y  Q  D  T  R  T  Q  R  N  I  S  K  L  N  D  E  L  Y  E  V  H  Q  I  M  T  R  N  V  Q  E  V  L  G  V  G  E  K  L  D   : R  R  E  T  K  T  E  E  S  G  C  C  G  R  L  L  R  S  K  M  V  *  K  T  T  L  R  R  P  *  N  L  I  </first_frame>
            <second_frame>  N  S  A  K  P  L  F  V  P  I  P  F  I  P  S  S  D  S  N  S  *  L  I  K  G  G  Q  R  S  A  T  G  F  R  A  V  T  Q  A  Y  D  R  S  :  L  Y  A  C  G  K  I  W  *  S  *  L  *  L  L  A  *  L  M  A  F  L  *  P  R  G  W  M  M  V  V  M  F  K  M  Q  I  S  T  N  S  R  S  R  P  Y  S  R  T  C  R  C  A  K  M  T  L  Q  G  C  L  L  K  L  D  L  T  S  S   : I  I  S  L  K  G  M  F  V  I  *  Q  C  V  I  A  L  I  P  R  N  L  P  F  N  T  W  K  T  L  R  M  S  L  S  A  P  M  G  V  K  L  K  L  L  L  D  H  M  L  L  L  N  L  :  I  H  S  Y  R  R  R  R  N  C  T  R  I  L  E  L  N  A  T  F  L  S  *  M  M  S  F  T  K  F  I  K  *  *  L  E  M  F  K  K  F  L  E  L  V  K  S  W  T  :  V  G  R  Q  K  Q  R  R  V  D  A  V  E  D  C  *  E  V  K  W  F  K  R  P  H  F  D  V  L  K  I  *  * </second_frame>
            <third_frame>   T  Q  Q  N  P  S  L  F  L  S  H  L  F  P  A  P  I  Q  T  L  N  L  S  K  A  V  S  D  R  R  L  D  S  E  Q  S  R  K  R  M  I  D  R :   C  M  L  A  G  K  Y  G  E  V  D  F  D  C  S  R  D  *  W  P  S  F  S  R  G  A  G  *  W  S  *  C  S  K  C  R  F  L  Q  T  A  G  Q  G  L  I  Q  E  P  V  D  A  P  K  *  R  F  K  D  V  Y  *  N  W  T  L  R  L  P  :  L  Y  H  *  R  A  C  L  L  S  D  N  V  *  S  L  L  S  Q  E  T  C  L  S  I  P  G  R  P  *  E  *  V  *  A  R  Q  W  E  S  N  *  N  C  C  *  T  I  C  F  Y  *  I  * :   Y  I  H  T  E  D  E  E  T  V  P  G  Y  *  N  S  T  Q  H  F  *  V  E  *  *  A  L  R  S  S  S  N  N  D  S  K  C  S  R  S  S  W  S  W  *  K  V  G  P :   S  G  D  K  N  R  G  E  W  M  L  W  K  I  V  E  K  *  N  G  L  K  D  H  T  S  T  S  L  K  F  D   </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="C03HBa0121O11.1" strand="-"/>
                <serials PGL_serial="14" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="95790" stop="95784"/>
                    <exon start="94797" stop="94590"/>
                    <exon start="93722" stop="93562"/>
                    <exon start="93456" stop="93310"/>
                    <exon start="92878" stop="92814"/>
                  </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>SIAVCLRENMVKLTLIARVTDGLPLAEGLDDGRDVQNADFYKQQVKALFKNLSMRQNDASRMSIETGPYVFHYIIEGHVCYLTMCDRSYPKKLAFQYLEDLKNEFERANGSQIETAARPYAFIKFDTFIQKTKKLYQDTRTQRNISKLNDELYEVHQIMTRNVQEVLGVGEKLDRRETKTEESGCCGRLLRSKMV*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="95890" e_stop="95821"/>
            <exon e_start="94745" e_stop="94590"/>
            <exon e_start="93722" e_stop="93562"/>
            <exon e_start="93456" e_stop="93310"/>
            <exon e_start="92214" e_stop="92138"/>
            <exon e_start="91844" e_stop="91427"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.067" e_score="1.000"/>
          <exon-intron don_prob="0.947" acc_prob="0.972" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.989" e_score="1.000"/>
          <exon-only e_score="0.997"/>
        </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="95890" e_stop="95821" e_length="70"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="95820" i_stop="94746" i_length="1075"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="94745" e_stop="94590" e_length="156"/>
          </exon>
          <intron i_serial="2" don_prob="0.990" acc_prob="0.067">
            <gDNA_intron_boundary i_start="94589" i_stop="93723" i_length="867"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="93722" e_stop="93562" e_length="161"/>
          </exon>
          <intron i_serial="3" don_prob="0.947" acc_prob="0.972">
            <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="93456" e_stop="93310" e_length="147"/>
          </exon>
          <intron i_serial="4" don_prob="0.989" acc_prob="0.989">
            <gDNA_intron_boundary i_start="93309" i_stop="92215" i_length="1095"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="92214" e_stop="92138" e_length="77"/>
          </exon>
          <intron i_serial="5" don_prob="0.998" acc_prob="0.989">
            <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293"/>
          </intron>
          <exon e_serial="6" e_score="0.997">
            <gDNA_exon_boundary e_start="91844" e_stop="91427" e_length="418"/>
          </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="95890" stop="95821"/>
              <exon start="94745" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93326"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E313971" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94733" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91781"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E214777" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94733" stop="94590"/>
              <exon start="93722" stop="93562"/>
              <exon start="93456" stop="93310"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E305864" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94636" stop="94590"/>
              <exon start="93722" stop="93591"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E264330" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93643" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91505"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E392089" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93643" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91778"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396078" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93642" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91538"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228361" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93642" stop="93562"/>
              <exon start="93456" stop="93310"/>
              <exon start="92214" stop="92138"/>
              <exon start="91844" stop="91628"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E231643" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91803" stop="91427"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E229076" 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="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTCCTATCCCATTTATTCCCAGCTCCGATTCAAACTCTTAACTTATCAAAGGCGGTCAGCGATCGGCGAC : TGATGGCCTTCCTTTAGCCGAGGGGCTGGATGATGGTCGTGATGTTCAAAATGCAGATTTCTACAAACAGCAGGTCAAGGCCTTATTCAAGAACCTGTCGATGCGCCAAAATGACGCTTCAAGGATGTCTATTGAAACTGGACCTTACGTCTTCCA : TTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG : ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACC : AGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG : GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAGCTTCAAAACTCCAACAAGTAGCTCATTGTAGTTTCAGCTATGAAACTAACTTATTTCAGAATATACAGCAAATATAAACAATCCTTCAGACTGTT</gDNA_template>
            <first_frame> F  L  S  H  L  F  P  A  P  I  Q  T  L  N  L  S  K  A  V  S  D  R  R   : L  M  A  F  L  *  P  R  G  W  M  M  V  V  M  F  K  M  Q  I  S  T  N  S  R  S  R  P  Y  S  R  T  C  R  C  A  K  M  T  L  Q  G  C  L  L  K  L  D  L  T  S  S   : I  I  S  L  K  G  M  F  V  I  *  Q  C  V  I  A  L  I  P  R  N  L  P  F  N  T  W  K  T  L  R  M  S  L  S  A  P  M  G  V  K  L  K  L  L  L  D  H  M  L  L  L  N  L  :  I  H  S  Y  R  R  R  R  N  C  T  R  I  L  E  L  N  A  T  F  L  S  *  M  M  S  F  T  K  F  I  K  *  *  L  E  M  F  K  K  F  L  E  L  V  K  S  W  T  :  R  S  V  K  C  P  A  V  *  H  L  N  P  G  Y  M  L  I  K  Q  K  T  *  I  V  R :   L  *  F  E  N  G  L  L  L  L  L  C  L  E  L  S  F  S  S  S  G  S  E  Q  R  S  G  D  A  S  I  Q  M  Q  L  S  D  D  N  T  V  K  C  F  I  H  I  C  H  H  Q  T  L  H  N  P  E  N  H  L  T  L  Q  L  S  S  M  C  C  A  I  S  V  L  *  C  K  R  G  K  E  P  R  *  I  M  S  L  N  L  E  K  L  H  *  F  W  L  S  F  I  Y  C  L  V  S  L  A  S  K  L  Q  Q  V  A  H  C  S  F  S  Y  E  T  N  L  F  Q  N  I  Q  Q  I  *  T  I  L  Q  T  V </first_frame>
            <second_frame>  S  Y  P  I  Y  S  Q  L  R  F  K  L  L  T  Y  Q  R  R  S  A  I  G  D  :  *  W  P  S  F  S  R  G  A  G  *  W  S  *  C  S  K  C  R  F  L  Q  T  A  G  Q  G  L  I  Q  E  P  V  D  A  P  K  *  R  F  K  D  V  Y  *  N  W  T  L  R  L  P  :  L  Y  H  *  R  A  C  L  L  S  D  N  V  *  S  L  L  S  Q  E  T  C  L  S  I  P  G  R  P  *  E  *  V  *  A  R  Q  W  E  S  N  *  N  C  C  *  T  I  C  F  Y  *  I  * :   Y  I  H  T  E  D  E  E  T  V  P  G  Y  *  N  S  T  Q  H  F  *  V  E  *  *  A  L  R  S  S  S  N  N  D  S  K  C  S  R  S  S  W  S  W  *  K  V  G  P :   G  Q  S  N  V  Q  P  F  D  I  *  I  P  D  I  C  *  *  S  K  R  L  K  S  S   : G  F  D  S  K  M  G  S  C  C  Y  C  A  W  S  C  H  S  L  L  L  A  Q  N  K  D  L  V  M  L  P  Y  R  C  S  S  V  T  T  I  L  S  N  V  L  F  I  F  V  T  I  R  L  C  T  T  Q  R  T  T  S  H  Y  S  Y  P  A  C  V  V  P  Y  Q  F  Y  S  V  K  E  E  R  N  R  D  E  L  C  P  L  T  L  R  N  Y  I  N  F  G  S  L  L  Y  I  V  L  L  V  *  L  Q  N  S  N  K  *  L  I  V  V  S  A  M  K  L  T  Y  F  R  I  Y  S  K  Y  K  Q  S  F  R  L   </second_frame>
            <third_frame>   P  I  P  F  I  P  S  S  D  S  N  S  *  L  I  K  G  G  Q  R  S  A  T :   D  G  L  P  L  A  E  G  L  D  D  G  R  D  V  Q  N  A  D  F  Y  K  Q  Q  V  K  A  L  F  K  N  L  S  M  R  Q  N  D  A  S  R  M  S  I  E  T  G  P  Y  V  F  H :   Y  I  I  E  G  H  V  C  Y  L  T  M  C  D  R  S  Y  P  K  K  L  A  F  Q  Y  L  E  D  L  K  N  E  F  E  R  A  N  G  S  Q  I  E  T  A  A  R  P  Y  A  F  I  K  F   : D  T  F  I  Q  K  T  K  K  L  Y  Q  D  T  R  T  Q  R  N  I  S  K  L  N  D  E  L  Y  E  V  H  Q  I  M  T  R  N  V  Q  E  V  L  G  V  G  E  K  L  D   : Q  V  S  Q  M  S  S  R  L  T  S  E  S  R  I  Y  A  D  K  A  K  D  L  N  R  Q  :  A  L  I  R  K  W  A  P  V  A  I  V  L  G  V  V  I  L  F  F  W  L  R  T  K  I  W  *  C  F  H  T  D  A  A  Q  *  R  Q  Y  C  Q  M  F  Y  S  Y  L  S  P  S  D  S  A  Q  P  R  E  P  P  H  I  T  V  I  Q  H  V  L  C  H  I  S  F  I  V  *  K  R  K  G  T  A  M  N  Y  V  P  *  P  *  E  I  T  L  I  L  A  L  F  Y  I  L  S  C  *  F  S  F  K  T  P  T  S  S  S  L  *  F  Q  L  *  N  *  L  I  S  E  Y  T  A  N  I  N  N  P  S  D  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="C03HBa0121O11.1" strand="-"/>
                <serials PGL_serial="14" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="95849" stop="95821"/>
                    <exon start="94745" stop="94590"/>
                    <exon start="93722" stop="93562"/>
                    <exon start="93456" stop="93310"/>
                    <exon start="92214" stop="92138"/>
                    <exon start="91844" stop="91761"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>651</number_coding_nucleotides>
                  <number_encoded_amino_acids>217</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LIKGGQRSATDGLPLAEGLDDGRDVQNADFYKQQVKALFKNLSMRQNDASRMSIETGPYVFHYIIEGHVCYLTMCDRSYPKKLAFQYLEDLKNEFERANGSQIETAARPYAFIKFDTFIQKTKKLYQDTRTQRNISKLNDELYEVHQIMTRNVQEVLGVGEKLDQVSQMSSRLTSESRIYADKAKDLNRQALIRKWAPVAIVLGVVILFFWLRTKIW*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="4">
          <exon_coordinates>
            <exon e_start="92297" e_stop="92138"/>
            <exon e_start="91844" e_stop="91396"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.998" acc_prob="0.989" e_score="1.000"/>
          <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="1.000">
            <gDNA_exon_boundary e_start="92297" e_stop="92138" e_length="160"/>
          </exon>
          <intron i_serial="1" don_prob="0.998" acc_prob="0.989">
            <gDNA_intron_boundary i_start="92137" i_stop="91845" i_length="293"/>
          </intron>
          <exon e_serial="2" e_score="0.927">
            <gDNA_exon_boundary e_start="91844" e_stop="91396" e_length="449"/>
          </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="92297" stop="92138"/>
              <exon start="91844" stop="91442"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E251033" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="92215" stop="92138"/>
              <exon start="91844" stop="91396"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E392088" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91803" stop="91427"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E229076" 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="4" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CCATGTTCATTGCCCTATTTGTTATTCCATTTATGATCATCTTAGGTGGTTATTGACTAGATTGTCGAATGTCAATTTTGCAGAGGTCAGTCAAATGTCCAGCCGTTTGACATCTGAATCCCGGATATATGCTGATAAAGCAAAAGACTTAAATCGTCAG : GCTTTGATTCGAAAATGGGCTCCTGTTGCTATTGTGCTTGGAGTTGTCATTCTCTTCTTCTGGCTCAGAACAAAGATCTGGTGATGCTTCCATACAGATGCAGCTCAGTGACGACAATACTGTCAAATGTTTTATTCATATTTGTCACCATCAGACTCTGCACAACCCAGAGAACCACCTCACATTACAGTTATCCAGCATGTGTTGTGCCATATCAGTTTTATAGTGTAAAAGAGGAAAGGAACCGCGATGAATTATGTCCCTTAACCTTGAGAAATTACATTAATTTTGGCTCTCTTTTATATATTGTCTTGTTAGTTTAGCTTCAAAACTCCAACAAGTAGCTCATTGTAGTTTCAGCTATGAAACTAACTTATTTCAGAATATACAGCAAATATAAACAATCCTTCAGACTGTTATGCACGGGAGTTTGGTGCTTTGTTTACCAA</gDNA_template>
            <first_frame> P  C  S  L  P  Y  L  L  F  H  L  *  S  S  *  V  V  I  D  *  I  V  E  C  Q  F  C  R  G  Q  S  N  V  Q  P  F  D  I  *  I  P  D  I  C  *  *  S  K  R  L  K  S  S   : G  F  D  S  K  M  G  S  C  C  Y  C  A  W  S  C  H  S  L  L  L  A  Q  N  K  D  L  V  M  L  P  Y  R  C  S  S  V  T  T  I  L  S  N  V  L  F  I  F  V  T  I  R  L  C  T  T  Q  R  T  T  S  H  Y  S  Y  P  A  C  V  V  P  Y  Q  F  Y  S  V  K  E  E  R  N  R  D  E  L  C  P  L  T  L  R  N  Y  I  N  F  G  S  L  L  Y  I  V  L  L  V  *  L  Q  N  S  N  K  *  L  I  V  V  S  A  M  K  L  T  Y  F  R  I  Y  S  K  Y  K  Q  S  F  R  L  L  C  T  G  V  W  C  F  V  Y  Q </first_frame>
            <second_frame>  H  V  H  C  P  I  C  Y  S  I  Y  D  H  L  R  W  L  L  T  R  L  S  N  V  N  F  A  E  V  S  Q  M  S  S  R  L  T  S  E  S  R  I  Y  A  D  K  A  K  D  L  N  R  Q  :  A  L  I  R  K  W  A  P  V  A  I  V  L  G  V  V  I  L  F  F  W  L  R  T  K  I  W  *  C  F  H  T  D  A  A  Q  *  R  Q  Y  C  Q  M  F  Y  S  Y  L  S  P  S  D  S  A  Q  P  R  E  P  P  H  I  T  V  I  Q  H  V  L  C  H  I  S  F  I  V  *  K  R  K  G  T  A  M  N  Y  V  P  *  P  *  E  I  T  L  I  L  A  L  F  Y  I  L  S  C  *  F  S  F  K  T  P  T  S  S  S  L  *  F  Q  L  *  N  *  L  I  S  E  Y  T  A  N  I  N  N  P  S  D  C  Y  A  R  E  F  G  A  L  F  T   </second_frame>
            <third_frame>   M  F  I  A  L  F  V  I  P  F  M  I  I  L  G  G  Y  *  L  D  C  R  M  S  I  L  Q  R  S  V  K  C  P  A  V  *  H  L  N  P  G  Y  M  L  I  K  Q  K  T  *  I  V  R :   L  *  F  E  N  G  L  L  L  L  L  C  L  E  L  S  F  S  S  S  G  S  E  Q  R  S  G  D  A  S  I  Q  M  Q  L  S  D  D  N  T  V  K  C  F  I  H  I  C  H  H  Q  T  L  H  N  P  E  N  H  L  T  L  Q  L  S  S  M  C  C  A  I  S  V  L  *  C  K  R  G  K  E  P  R  *  I  M  S  L  N  L  E  K  L  H  *  F  W  L  S  F  I  Y  C  L  V  S  L  A  S  K  L  Q  Q  V  A  H  C  S  F  S  Y  E  T  N  L  F  Q  N  I  Q  Q  I  *  T  I  L  Q  T  V  M  H  G  S  L  V  L  C  L  P  </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="C03HBa0121O11.1" strand="-"/>
                <serials PGL_serial="14" AGS_serial="4" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="92159" stop="92138"/>
                    <exon start="91844" stop="91522"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>342</number_coding_nucleotides>
                  <number_encoded_amino_acids>114</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SKRLKSSGFDSKMGSCCYCAWSCHSLLLAQNKDLVMLPYRCSSVTTILSNVLFIFVTIRLCTTQRTTSHYSYPACVVPYQFYSVKEERNRDELCPLTLRNYINFGSLLYIVLLV*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="5">
          <exon_coordinates>
            <exon e_start="93908" e_stop="93562"/>
            <exon e_start="93456" e_stop="93256"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.947" acc_prob="0.972" e_score="0.988"/>
          <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="0.988">
            <gDNA_exon_boundary e_start="93908" e_stop="93562" e_length="347"/>
          </exon>
          <intron i_serial="1" don_prob="0.947" acc_prob="0.972">
            <gDNA_intron_boundary i_start="93561" i_stop="93457" i_length="105"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="93456" e_stop="93256" e_length="201"/>
          </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="93908" stop="93562"/>
              <exon start="93456" stop="93256"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E202636" 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="5" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTTGGCATTTCAATCATTAACGCATCCAAAGTATGTGAACTTCCGGAGTAATTACTGTTGCCGTAACTACTTTTTTTGTCATGTATGCTTTCTGTACCACCAGTAATATTGCTCTTCTGTCTCTATTTCACCCTCTTGAGAAAGTTTACTCCATGTATATAGTATTCTCTTAACCCGTGCTCTCAGTTATATCATTGAAGGGCATGTTTGTTATCTGACAATGTGTGATCGCTCTTATCCCAAGAAACTTGCCTTTCAATACCTGGAAGACCTTAAGAATGAGTTTGAGCGCGCCAATGGGAGTCAAATTGAAACTGCTGCTAGACCATATGCTTTTATTAAATTTG : ATACATTCATACAGAAGACGAAGAAACTGTACCAGGATACTAGAACTCAACGCAACATTTCTAAGTTGAATGATGAGCTTTACGAAGTTCATCAAATAATGACTCGAAATGTTCAAGAAGTTCTTGGAGTTGGTGAAAAGTTGGACCGTAAGTTTCTCATTCTAACATTCCTCTTTTGTGAACAATACCTCGTTCATTCTG</gDNA_template>
            <first_frame> F  G  I  S  I  I  N  A  S  K  V  C  E  L  P  E  *  L  L  L  P  *  L  L  F  L  S  C  M  L  S  V  P  P  V  I  L  L  F  C  L  Y  F  T  L  L  R  K  F  T  P  C  I  *  Y  S  L  N  P  C  S  Q  L  Y  H  *  R  A  C  L  L  S  D  N  V  *  S  L  L  S  Q  E  T  C  L  S  I  P  G  R  P  *  E  *  V  *  A  R  Q  W  E  S  N  *  N  C  C  *  T  I  C  F  Y  *  I  * :   Y  I  H  T  E  D  E  E  T  V  P  G  Y  *  N  S  T  Q  H  F  *  V  E  *  *  A  L  R  S  S  S  N  N  D  S  K  C  S  R  S  S  W  S  W  *  K  V  G  P  *  V  S  H  S  N  I  P  L  L  *  T  I  P  R  S  F   </first_frame>
            <second_frame>  L  A  F  Q  S  L  T  H  P  K  Y  V  N  F  R  S  N  Y  C  C  R  N  Y  F  F  C  H  V  C  F  L  Y  H  Q  *  Y  C  S  S  V  S  I  S  P  S  *  E  S  L  L  H  V  Y  S  I  L  L  T  R  A  L  S  Y  I  I  E  G  H  V  C  Y  L  T  M  C  D  R  S  Y  P  K  K  L  A  F  Q  Y  L  E  D  L  K  N  E  F  E  R  A  N  G  S  Q  I  E  T  A  A  R  P  Y  A  F  I  K  F   : D  T  F  I  Q  K  T  K  K  L  Y  Q  D  T  R  T  Q  R  N  I  S  K  L  N  D  E  L  Y  E  V  H  Q  I  M  T  R  N  V  Q  E  V  L  G  V  G  E  K  L  D  R  K  F  L  I  L  T  F  L  F  C  E  Q  Y  L  V  H  S  </second_frame>
            <third_frame>   W  H  F  N  H  *  R  I  Q  S  M  *  T  S  G  V  I  T  V  A  V  T  T  F  F  V  M  Y  A  F  C  T  T  S  N  I  A  L  L  S  L  F  H  P  L  E  K  V  Y  S  M  Y  I  V  F  S  *  P  V  L  S  V  I  S  L  K  G  M  F  V  I  *  Q  C  V  I  A  L  I  P  R  N  L  P  F  N  T  W  K  T  L  R  M  S  L  S  A  P  M  G  V  K  L  K  L  L  L  D  H  M  L  L  L  N  L  :  I  H  S  Y  R  R  R  R  N  C  T  R  I  L  E  L  N  A  T  F  L  S  *  M  M  S  F  T  K  F  I  K  *  *  L  E  M  F  K  K  F  L  E  L  V  K  S  W  T  V  S  F  S  F  *  H  S  S  F  V  N  N  T  S  F  I  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="C03HBa0121O11.1" strand="-"/>
                <serials PGL_serial="14" AGS_serial="5" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="93769" stop="93562"/>
                    <exon start="93456" stop="93257"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>408</number_coding_nucleotides>
                  <number_encoded_amino_acids>136</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ESLLHVYSILLTRALSYIIEGHVCYLTMCDRSYPKKLAFQYLEDLKNEFERANGSQIETAARPYAFIKFDTFIQKTKKLYQDTRTQRNISKLNDELYEVHQIMTRNVQEVLGVGEKLDRKFLILTFLFCEQYLVHS</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 185 chains have been computed
$ 
$ memory statistics:
$ 456096 bytes spliced alignments in total
$ 112 spliced alignments have been stored
$ 4072 bytes was the average size of a spliced alignment
$ 24480 bytes predicted gene locations in total
$ 14 predicted gene locations have been stored
$ 1748 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 203 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 01:40:39
-->
