<?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 01:39:09"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" 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-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E380017" ref_strand="+" ref_description="SGN-E380017 [TUS-1-D13](-)">
      <seq>catcaagatttacgtggaaaccccttcgatgtgaagagtaaaaaaccacgggtccaaaagctccactataatcaccaagagttacaatattgttctccaaaattggccacaaaacaaagtgtcaaacaacgagcaacaacaaaataagattgctccaaatctagagaattaaaggagcaaaatcaccaatttcgcagctactgttcacgacagcaaaactgaagctgcagaccaccaaatccaactctgtcagttcctaatcaaagattgagatgaagataatatgctgtccaaaaatcagctcaatcggacaagaaacgaagcgggaatcgcaatttgaagttggttgttatggctggatttttgactgcgaatttctctcttttttctctcttttagctgctgaaaaactctctctgaaaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="13741" stop="12718"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13441" g_stop="13018" g_length="424"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="425" r_length="425" r_score="0.932"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E380017" ref_strand="+">
        <total_alignment_score>0.932</total_alignment_score>
        <cumulative_length_of_scored_exons>424</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E380017" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13441" e_stop="13018"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACCAAGATTTACGTGGAAAACCCTTTGATGTGAAGAGTAAAAAACCACGGGACCAAAAGCTCCACTATAATCACCAAGAGTTACAATATTGTTCTCCAAAATTGGCCACAAAAC-AAGTGTCAAACAACGAGCAACAACAAAATAAGATTGCACCAAATCTAGAGAATTAAAGGAACAAAATCACCAATTTCGCAGCTACTATTCACGACAGCAAAACTGAAGATGCAGGCCACCAAATCCAACTCTGTCAGTTCCTAATCAAAGATTGAGATGAGGATAATATGCTGTCCAAAAATCAGCTCAATCGGATAAGAAACGAAGCGGGAATCGCAATTTGAAGTTGGCTGTTATGGCT-GAAATTTGACTGCGAAAATCTGCTCTTTTTCTCTCTTTTTGGCTACTAAAAAACTCTCTCTAAAAAAT</genome_strand>
        <mrna_strand>CATCAAGATTTACGTGGAAACCCCTTCGATGTGAAGAGTAAAAAACCACGGGTCCAAAAGCTCCACTATAATCACCAAGAGTTACAATATTGTTCTCCAAAATTGGCCACAAAACAAAGTGTCAAACAACGAGCAACAACAAAATAAGATTGCTCCAAATCTAGAGAATTAAAGGAGCAAAATCACCAATTTCGCAGCTACTGTTCACGACAGCAAAACTGAAGCTGCAGACCACCAAATCCAACTCTGTCAGTTCCTAATCAAAGATTGAGATGAAGATAATATGCTGTCCAAAAATCAGCTCAATCGGACAAGAAACGAAGCGGGAATCGCAATTTGAAGTTGGTTGTTATGGCTGGATTTTTGACTGCGAATTTCTCTCTTTTTTCTCTC-TTTTAGCTGCTGAAAAACTCTCTCTGAAAAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E452069" ref_strand="+" ref_description="SGN-E452069 [cSTS-15-F13]">
      <seq>gcgctgaaaaagtctcagagagagaaagcgagtgagtgagagagaaggagaaagaggaggaagagcttgttaggtgttcttcatttcgggttcatcagcatccggggcaaggctagtggggtgtggatatcttctcaaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaaccctgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagtcaagttggagagggcatggacttgaactagatataataaatttccatgctttcgtctgtttaattntactttctttttggactggattangaacaatttcataatttccatggcagactagattgtcttgccattttgtangaggacttatattctacattcctatggact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15386" stop="17845"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15674" g_stop="15764" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="96" r_length="96" r_score="0.780"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16897" i_length="1133">
            <donor d_prob="0.999" d_score="0.88"/>
            <acceptor a_prob="0.674" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16898" g_stop="17545" g_length="648"/>
          <reference_exon_boundary r_type="cDNA" r_start="97" r_stop="743" r_length="647" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E452069" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>739</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E452069" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15674" e_stop="15764"/>
          <exon e_start="16898" e_stop="17545"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTTGAAAAAGTCTTAGAGAGAGAAAGTGAGTGA--CA-AGTG-A-GAGAAGGAGAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATGACAGACTAGATTGTCTTGCCATTTTGTAGGAGGACTTATATTCTACATTCCTGTGGACT</genome_strand>
        <mrna_strand>GCGCTGAAAAAGTCTCAGAGAGAGAAAGCGAGTGAGTGAGAGAGAAGGAGAAAGAGGAGGAAGAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATCCGGGGCAAGGCTAGTGGGGTGTGGATATCTTCTCA-AACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATGCTTTCGTCTGTTTAATTNTACTTTCTTTTTGGACTGGATTANGAACAATTTCATAATTTCCATGGCAGACTAGATTGTCTTGCCATTTTGTANGAGGACTTATATTCTACATTCCTATGGACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E487509" ref_strand="+" ref_description="SGN-E487509 [cSTE-25-D16]">
      <seq>cgctgaaaaagtctcagagagagaaagcgagtgagtgagagagaaggagaaagaggaggaagagcttgttaggtgttcttcatttcgggttcatcagcatccggggcaaggctagtggggtgtggatatcttctcaaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaaccctgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagtcaagttggagagggcatggacttgaactagatataataaatttcccatgcttcgnctgtttaattttactttctttttggactggattanngacaatttcataatttccatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15386" stop="17786"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15675" g_stop="15764" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="95" r_length="95" r_score="0.778"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16897" i_length="1133">
            <donor d_prob="0.999" d_score="0.88"/>
            <acceptor a_prob="0.674" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16898" g_stop="17486" g_length="589"/>
          <reference_exon_boundary r_type="cDNA" r_start="96" r_stop="682" r_length="587" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E487509" ref_strand="+">
        <total_alignment_score>0.946</total_alignment_score>
        <cumulative_length_of_scored_exons>679</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E487509" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15675" e_stop="15764"/>
          <exon e_start="16898" e_stop="17486"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTGAAAAAGTCTTAGAGAGAGAAAGTGAGTGA--CA-AGTG-A-GAGAAGGAGAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATG</genome_strand>
        <mrna_strand>CGCTGAAAAAGTCTCAGAGAGAGAAAGCGAGTGAGTGAGAGAGAAGGAGAAAGAGGAGGAAGAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATCCGGGGCAAGGCTAGTGGGGTGTGGATATCTTCTCA-AACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGAC-AAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCCATGCTTCGNCTGTTTAATTTTACTTTCTTTTTGGACTGGATTANNGACAATTTCATAATTTCCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E365916" ref_strand="+" ref_description="SGN-E365916 [cLPT-11-J19]">
      <seq>gaaaaagtctcatagagagaaagtgagtgacaagtgagagaaggagaagggaagagcttgttaggtgttcttcatttcgggttcatcagcatccggggcaaggcgagtggggtgtggatatcttctcgaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaaccctgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgactaactgggctgacacacatttgcgacaaaaattgtaaccagcgaatattgtatgataaccataactctctttgcagagttagccaacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaacggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15379" stop="17667"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15679" g_stop="15764" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="87" r_length="87" r_score="0.930"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16897" i_length="1133">
            <donor d_prob="0.999" d_score="0.92"/>
            <acceptor a_prob="0.674" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16898" g_stop="17367" g_length="470"/>
          <reference_exon_boundary r_type="cDNA" r_start="88" r_stop="556" r_length="469" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E365916" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>556</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E365916" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15679" e_stop="15764"/>
          <exon e_start="16898" e_stop="17367"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAAAGTCTTAGAGAGAGAAAGTGAGTGACAAGTGAGAGAAGGAGAA-GAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCAT</genome_strand>
        <mrna_strand>GAAAAAGTCTCATAGAGAGAAAGTGAGTGACAAGTGAGAGAAGGAGAAGGGAAGAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTC-GAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGACTAACTGGGCTGACACACATTTGCGACAAAAATTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCAACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAACGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E477260" ref_strand="+" ref_description="SGN-E477260 [cSTB-47-N3]">
      <seq>gaaaaagtctcagagagagaaagtgagtgagagagaaggagaaagaggaggaagagcttgttaggtgttcttcatttcgggttcatctctgcagagcatccggggcaaggcgagtggggtgtggatatcttctcaaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaacactgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15379" stop="17597"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15679" g_stop="15764" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="87" r_length="87" r_score="0.872"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16890" i_length="1126">
            <donor d_prob="0.999" d_score="0.90"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16891" g_stop="17297" g_length="407"/>
          <reference_exon_boundary r_type="cDNA" r_start="88" r_stop="493" r_length="406" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E477260" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>493</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E477260" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15679" e_stop="15764"/>
          <exon e_start="16891" e_stop="17297"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAAAGTCTTAGAGAGAGAAAGTGAGTGACA-AGTGAGAGAAGGAGAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCT</genome_strand>
        <mrna_strand>GAAAAAGTCTCAGAGAGAGAAAGTGAGTGAGAGAGAAGGAGAAAGAGGAGGAAGAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCA-AACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACACTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E454739" ref_strand="+" ref_description="SGN-E454739 [cSTS-24-A8]">
      <seq>aaaagtctcagagagagaaagtgagtgagagagaaggagaaagaggaggaagagcttgttaggtgttcttcatttcgggttcatctctgcagagcatccggggcaaggcgagtggggtgtggatatcttctcaaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaacactgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagtcaagttggagatggcatggacttgaactagatataataaatttccatgcttttgtctgtttaatcttactttctttttggactggattangaacaatttcataatttccatggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15381" stop="17788"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15681" g_stop="15764" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="85" r_length="85" r_score="0.869"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16890" i_length="1126">
            <donor d_prob="0.999" d_score="0.90"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16891" g_stop="17488" g_length="598"/>
          <reference_exon_boundary r_type="cDNA" r_start="86" r_stop="682" r_length="597" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E454739" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>682</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E454739" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15681" e_stop="15764"/>
          <exon e_start="16891" e_stop="17488"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAGTCTTAGAGAGAGAAAGTGAGTGACA-AGTGAGAGAAGGAGAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATGAC</genome_strand>
        <mrna_strand>AAAAGTCTCAGAGAGAGAAAGTGAGTGAGAGAGAAGGAGAAAGAGGAGGAAGAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCA-AACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACACTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGATGGCATGGACTTGAACTAGATATAATAAATTTCCATGCTTTTGTCTGTTTAATCTTACTTTCTTTTTGGACTGGATTANGAACAATTTCATAATTTCCATGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E469955" ref_strand="+" ref_description="SGN-E469955 [cSTB-16-A21]">
      <seq>gagaaagtgagtgagagagaaggagaaagaggaggaagagcttgttaggtgttcttcatttcgggttcatctctgcagagcatccggggcaaggcgagtggggtgtggatatcttctcaaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaacactgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15397" stop="17674"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15695" g_stop="15764" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="71" r_length="71" r_score="0.857"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16890" i_length="1126">
            <donor d_prob="0.999" d_score="0.90"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16891" g_stop="17374" g_length="484"/>
          <reference_exon_boundary r_type="cDNA" r_start="72" r_stop="554" r_length="483" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E469955" ref_strand="+">
        <total_alignment_score>0.971</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="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E469955" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15695" e_stop="15764"/>
          <exon e_start="16891" e_stop="17374"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGAAAGTGAGTGACA-AGTGAGAGAAGGAGAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGT</genome_strand>
        <mrna_strand>GAGAAAGTGAGTGAGAGAGAAGGAGAAAGAGGAGGAAGAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCA-AACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACACTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E409602" ref_strand="+" ref_description="SGN-E409602 [PPI-14-F9]">
      <seq>tgctgaaaaagtctcagagagagaaagcgagtgagtgagagagaaggagaaagaggaggaagagcttgttaggtgttcttcatttcgggttcatcagcatccggggcaaggctagtggggtgtggatatcttctcaaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaaccctgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagtcaagttggagagggcatggacttgaactagatataataaatttccatgctttcgtctgtttaattttactttctttttggactggattangaacatttcataatttccatggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15386" stop="17788"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15717" g_stop="15764" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="95" r_length="48" r_score="0.917"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16897" i_length="1133">
            <donor d_prob="0.999" d_score="0.92"/>
            <acceptor a_prob="0.674" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16898" g_stop="17488" g_length="591"/>
          <reference_exon_boundary r_type="cDNA" r_start="96" r_stop="684" r_length="589" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E409602" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>639</cumulative_length_of_scored_exons>
        <coverage percentage="0.934" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E409602" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15717" e_stop="15764"/>
          <exon e_start="16898" e_stop="17488"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAGGAGAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATGAC</genome_strand>
        <mrna_strand>AGAAAGAGGAGGAAGAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATCCGGGGCAAGGCTAGTGGGGTGTGGATATCTTCTCA-AACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATGCTTTCGTCTGTTTAATTTTACTTTCTTTTTGGACTGGATTANGAAC-ATTTCATAATTTCCATGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E408514" ref_strand="+" ref_description="SGN-E408514 [PPI-11-G14]">
      <seq>gctgaaaaagtctcagagagagaaagcgagtgagtgagagagaaggagaaagaggaggaagagcttgttaggtgttcttcatttcgggttcatcagcatccggggcaaggctagtggggtgtggatatcttctcaaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaaccctgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagtcaagttggagagggcatggacttgaactagatataataaatttccatgctttcgtctgtttaattttactttctttttggactggattanngaacatttcataatttccatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15386" stop="17786"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15717" g_stop="15764" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="94" r_length="48" r_score="0.917"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16897" i_length="1133">
            <donor d_prob="0.999" d_score="0.92"/>
            <acceptor a_prob="0.674" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16898" g_stop="17486" g_length="589"/>
          <reference_exon_boundary r_type="cDNA" r_start="95" r_stop="682" r_length="588" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E408514" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>637</cumulative_length_of_scored_exons>
        <coverage percentage="0.934" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E408514" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15717" e_stop="15764"/>
          <exon e_start="16898" e_stop="17486"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAGGAGAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATG</genome_strand>
        <mrna_strand>AGAAAGAGGAGGAAGAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATCCGGGGCAAGGCTAGTGGGGTGTGGATATCTTCTCA-AACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATGCTTTCGTCTGTTTAATTTTACTTTCTTTTTGGACTGGATTANNGAACATTTCATAATTTCCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E363921" ref_strand="+" ref_description="SGN-E363921 [cLPT-10-N22]">
      <seq>aagggaagagcttgttaggtgttcttcatttcgggttcatcagcatccggagcaaggcgagtggggtgtggatatcttctcgaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaaccctgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgcgacaaaaattgtaaccagcgaatattgtatgataaccataactctctttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15425" stop="17490"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15724" g_stop="15764" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="41" r_length="41" r_score="0.902"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16897" i_length="1133">
            <donor d_prob="0.999" d_score="0.90"/>
            <acceptor a_prob="0.674" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16898" g_stop="17190" g_length="293"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="333" r_length="292" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E363921" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>334</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E363921" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15724" e_stop="15764"/>
          <exon e_start="16898" e_stop="17190"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTG</genome_strand>
        <mrna_strand>AAGGGAAGAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATCCGGAGCAAGGCGAGTGGGGTGTGGATATCTTCTC-GAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAATTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E456191" ref_strand="+" ref_description="SGN-E456191 [cSTS-28-F12]">
      <seq>ttgttaggtgttcttcatttcgggttcatcagcatccggggcaaggcgagtggggtgtggatatcttctcaaacctcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaaccctgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagtcaagttggagagggcatggacttgaactagatataataaatttccatgctttcgtctgtttaattntactttctttttggactggattaggaacaatttcataatttccatggcagactagattgtcttgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="15435" stop="17806"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15735" g_stop="15764" g_length="30"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="30" r_length="30" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15765" i_stop="16897" i_length="1133">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.674" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16898" g_stop="17506" g_length="609"/>
          <reference_exon_boundary r_type="cDNA" r_start="31" r_stop="639" r_length="609" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E456191" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>639</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E456191" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15735" e_stop="15764"/>
          <exon e_start="16898" e_stop="17506"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTTAGGTGTTCTTCATTTCGGGTTCATCGTAAGTTTCTTCTTCTTTTTTTTCATGATCTTTTTGTTGTTTATTGTTTGATTTTGCCTGAGAATTAGTTAGTTGTGATTTTCATCATTTTTTTTTGGGATAATTCTGTTGTAGTTCTTCAGATTTGGTTGTAATGCTAACGTAAATGGTTGTGTGAGAGGAAATTCTATATGCTTGAGCTGAAATTGGAACTTTTTACTGTTCATTTTGCCCTTGTTTAGTCAGTTTTGTACAGGATCTTTTGTTTTGGGGTCGAAATTTTTTTAGGTTGAAAAGAAGGAATTCACCTAACCTAATAAAGAAATTCTTTTATGAAATACTTGTAAACAAAAAAAATTTCACGTATACAAAACAACAATGTAATTAGATTTGCTCTAGATGTGTAAATCAACAGAGCTAAGATTTGTTGCCAGTTAATTGTTAGTTTTCTGGTGAACCACTCTAGCTTGTGGTGGGGGTAGGAACAGAGTTGGCAATTGGGTAGGTTGGCTCAAATTTGGGCGGGTCAAAATGGGCCATAATACTAAACGGGTCTAGACCCAATTTAATTTTAGGTTGAATTAAATTTGGATGGGTCAAAACTCAATCCAATCTTGGGTTGGGCCAACATAACAAACGGGTCTATACCTTGGGCTGGGTCAAAACGGGTCAAGTAATGAGTCATAATCCATGCTTAAATTTTTACTGAAGTGTTAATTGTTTTTCTGAAATTTTTAATACATAATAATTTGCATATTTTTATTATGGCTATACGTAATATATCAAAATAAAAATAAAGTCCCTTGAAAATATCTTGACAAGATTTTTCATTAGTCAATTTAGGCTACATATGAATTCAATTTTGAATGAGTTGAGTTGAAATGGATTAAGCTAATAGATGTACGGGTTATTTTAAGTGGGTTGGGCGGGTTAGGCTTAATTATGCCACCCTTGTTTTGAGTCTCCACTAGCAATTGCTCGAGTATAAGGTTTTATATTTTATGTTCTTTACTGAGGTTTGCTTAGTCACCTAAATGTTGCTTTTCAGTTTCCATAGGAAAATTTTATTAGATGGTTTTTGTCCTTCGAAACAAACAATTATATTCCATGATCCACCCACCAATCTTGACGGATCTTGTTTATCAAGTCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATGACAGACTAGATTGTCTTGCC</genome_strand>
        <mrna_strand>TTGTTAGGTGTTCTTCATTTCGGGTTCATC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAAACCTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATGCTTTCGTCTGTTTAATTNTACTTTCTTTTTGGACTGGATTAGGAACAATTTCATAATTTCCATGGCAGACTAGATTGTCTTGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E399686" ref_strand="+" ref_description="SGN-E399686 [cSTC-2-G19]">
      <seq>gcagagcatccggggcaaggctagtggggtgtggatatcttctcaaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtggcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaaccctgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgttaccagcgaattttgtatgataaccataactctctttgcatagttagcagacagattttccctttaacacaagttgaagtgcaagctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagtcaagttggagagggcatggacttgaactagatataataaatttccatgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="16594" stop="17724"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="16894" g_stop="17424" g_length="531"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="530" r_length="530" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E399686" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>531</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E399686" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16894" e_stop="17424"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCT</genome_strand>
        <mrna_strand>GCAGAGCATCCGGGGCAAGGCTAGTGGGGTGTGGATATCTTCTCA-AACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTGGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTTACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCATAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAAGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E484216" ref_strand="+" ref_description="SGN-E484216 [cSTE-12-D5]">
      <seq>gtggatatcttctcaaactcaagttttttgattaactgaacaatggaggtacttggaaaatctatggtagcagtgcctacaaatgttatatatctgtcaactattcttggccaagatggcccaaaccctgttcacaagtgtgattggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagtcaagttggagagggcatggacttgaactagatataataaatttccatgctttcgtctgtttaattttactttctttttggactggattaggaacaatttcataatttccatggcagactagattgtcttgccattttgtaggaagacttatattctacaatcctatggactgtanctctttataact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="16624" stop="17859"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="16924" g_stop="17559" g_length="636"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="637" r_length="637" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E484216" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>636</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E484216" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16924" e_stop="17559"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATGACAGACTAGATTGTCTTGCCATTTTGTAGGAGGACTTATATTCTACATTCCTGTGGACTGTAG--CTTTATAACT</genome_strand>
        <mrna_strand>GTGGATATCTTCTCA-AACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTTGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATGCTTTCGTCTGTTTAATTTTACTTTCTTTTTGGACTGGATTAGGAACAATTTCATAATTTCCATGGCAGACTAGATTGTCTTGCCATTTTGTAGGAAGACTTATATTCTACAATCCTATGGACTGTANCTCTTTATAACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E403691" ref_strand="+" ref_description="SGN-E403691 [PPC-11-M20]">
      <seq>tggaaatgtgaaaatgaacatgtgtgtgggaacatgttccgctgccgtctaactgggctgacacacatttgtgacaaaaactgtaaccagcgaattttgtatgataaccataactctctttgcagagttagcagacagattttccctttaacacaagttgaagtgcaggctgtgaaaggtgtacggaggaagtttgatgctgatagttccccttctgatagctgcgcctttaagcgcagaagggatgcacatttccacccatcaccatttgagagatctttcactgctgttagtcccatttgcagtcaagttggagatggcatggacttgaactagatataataaatttccatgcttttgtctgtttaatcttactttctttttggactggattaggaacaatttcataatttccatggcagactagattgtcttgccattttgtagggggacttatattctacaatcctatggactgtagctctttataactgtttaggagtaacaatattatgtctgcaaacgctgatatgcgcctgagttgatgtcacatgaaggctttaactatatatagtgcagcattttgtataacctctatttggtttctgtctagtcactttatacttaagtggttacaattatacctttttggggttgtcaaacatctgtattggcttgctggacttatatgactctactaatcactgtgatcaactctgggaggtttattggaatccagtcagtggaactatatactttgtttcctttcctacaggaacttgccctgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="16769" stop="18158"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="17069" g_stop="17858" g_length="790"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="789" r_length="789" r_score="0.948"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E403691" ref_strand="+">
        <total_alignment_score>0.948</total_alignment_score>
        <cumulative_length_of_scored_exons>790</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E403691" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="17069" e_stop="17858"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATGACAGACTAGATTGTCTTGCCATTTTGTAGGAGGACTTATATTCTACATTCCTGTGGACTGTAG--CTTTATAACTGTTTAGGAGTAACAATATTATGTCTGCAAACGTTGGTATGCGCCTGAGTTGATGTTACATGAAGGCTTTAACTATATATAGTGCAGCATTTTGTATAACCTTTATTTGGTTTCTGTCTAGTCACTCTATACTT--GTGGTTACAGTTATACCTTTTAGGGGTTGTCAAACATCTGTATTGGCTTGCTGTACTTGTATAGTTCTCTATTAATCACTGTGATCAATTCTGGGAGGTTTATTGGAATCCAGTCAGTGGAATTATTATATACTTTGTTTCCTATCCTACAGGAACTTGCCCTATC</genome_strand>
        <mrna_strand>TGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGTGACAAAAACTGTAACCAGCGAATTTTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCAGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGATGGCATGGACTTGAACTAGATATAATAAATTTCCATGCTTTTGTCTGTTTAATCTTACTTTCTTTTTGGACTGGATTAGGAACAATTTCATAATTTCCATGGCAGACTAGATTGTCTTGCCATTTTGTAGGGGGACTTATATTCTACAATCCTATGGACTGTAGCTCTTTATAACTGTTTAGGAGTAACAATATTATGTCTGCAAACGCTGATATGCGCCTGAGTTGATGTCACATGAAGGCTTTAACTATATATAGTGCAGCATTTTGTATAACCTCTATTTGGTTTCTGTCTAGTCACTTTATACTTAAGTGGTTACAATTATACCTTTTTGGGGTTGTCAAACATCTGTATTGGCTTGCTGGACTTATAT-G-ACTCTACTAATCACTGTGATCAACTCTGGGAGGTTTATTGGAATCCAGTCAGTGG-A--ACTATATACTTTGTTTCCTTTCCTACAGGAACTTGCCCTGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E462306" ref_strand="+" ref_description="SGN-E462306 [cPRO-11-C18]">
      <seq>atctgtattggcttgctggacttatatgactctactaatcactgtgatcaactctgggaggtttattggaatccagtcagtggaactatatactttgtttcctttcctacaggaacttgccctgtcagatgaagaacacacctttcagtgagctcattaaagctcacctacttttatatctttaactccctatttctttggcaggttttggaagaaagcacagttttatttcatactgttgcactagtctattcttaattcagtttgtatttgctttttgaatttgttcatgtaaagtatcctaaaatggttttacttttgcaggaactcaaaaacatttacagtcaggagagttgagatatagcttattttgttgatgtttaatcatctgtcttattcattaccagcagaatcatgagtttctaactaagtttgttctttcttattcaacagatccgcgctcttccacgagttctagacttcgaacaaatagaatcagctataagccttgaactcttgaacagggataggtctgaggaagaatctaatagctgccaaatcaattggtgttttgtatatccacgctgaagtgtgactaccctgcagtaacattgtgagtaatacagtccaatatcatgtctgatcatttgaaagcaaggtccttttcttggagtcagaaatccggtgtttacttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="17459" stop="18695"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="17728" g_stop="18431" g_length="704"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="695" r_length="695" r_score="0.920"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E462306" ref_strand="+">
        <total_alignment_score>0.920</total_alignment_score>
        <cumulative_length_of_scored_exons>704</cumulative_length_of_scored_exons>
        <coverage percentage="1.013" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E462306" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="17728" e_stop="18431"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTGTATTGGCTTGCTGTACTTGTATAGTTCTCTATTAATCACTGTGATCAATTCTGGGAGGTTTATTGGAATCCAGTCAGTGGAATTATTATATACTTTGTTTCCTATCCTACAGGAACTTGCCCTATCAAAGAAAGAACACACTTTTCAGTGAGCTCACTAAAGCTCACCTACTTTTATGACTTTAACTCCCTATTTCTTTGGCAGGTTTTGGAAGAAAGCACTATTTTATTTCATACTGTTGCACTAGTCTATTCTTAAAATTCAGTTTGTATTTGCTTTTTGAATTTGTTCATGTAAAGTATCCTAAAATGGTTTTACTTTTGCAGGAACTCAAAAACATTTACAGTCAGGAGAGTTGAGATATAGTTTATATTGTTTATGTTTTATCATCTGTCTTATTTATTACCAGCAGAATCATGAGTTTCTAACTAAGTTTGTTCTTTCTTATTCAACAGATCCACGCTCTTCCACGAGGTCTAGAGTTCGAACAAATAAAAATCAGCTCTAAGCTTTGAACTCTTGAACAGGGAGAGGTCTGAGGAAGAATCTAATATCTGCCAAATCAATTGGTGTTTTG--CATCCACGCTGAAGTGTGACTATCCTGCAGTAACATTGTGAGTAATACAGTCGAATTTCATGTCTGATCGTTTGAAAACAAGATCCACCTATTCTTGGAGTCAGAGATCTGGTGTTTACATC</genome_strand>
        <mrna_strand>ATCTGTATTGGCTTGCTGGACTTATAT-G-ACTCTACTAATCACTGTGATCAACTCTGGGAGGTTTATTGGAATCCAGTCAGTGGAACTAT-ATA--CTTTGTTTCCTTTCCTACAGGAACTTGCCCTGTCAGATGAAGAACACACCTTTCAGTGAGCTCATTAAAGCTCACCTACTTTTATATCTTTAACTCCCTATTTCTTTGGCAGGTTTTGGAAGAAAGCACAGTTTTATTTCATACTGTTGCACTAGTCTATTCTT--AATTCAGTTTGTATTTGCTTTTTGAATTTGTTCATGTAAAGTATCCTAAAATGGTTTTACTTTTGCAGGAACTCAAAAACATTTACAGTCAGGAGAGTTGAGATATAGCTTATTTTGTTGATGTTTAATCATCTGTCTTATTCATTACCAGCAGAATCATGAGTTTCTAACTAAGTTTGTTCTTTCTTATTCAACAGATCCGCGCTCTTCCACGAGTTCTAGACTTCGAACAAAT-AGAATCAGCTATAAGCCTTGAACTCTTGAACAGGGATAGGTCTGAGGAAGAATCTAATAGCTGCCAAATCAATTGGTGTTTTGTATATCCACGCTGAAGTGTGACTACCCTGCAGTAACATTGTGAGTAATACAGTCCAATATCATGTCTGATCATTTGAAAGCAAGGT---CCTTTTCTTGGAGTCAGAAATCCGGTGTTTACTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E300472" ref_strand="+" ref_description="SGN-E300472 [cLET-45-N15]">
      <seq>gagaatgttgatcatcagaccaatgggaatgtcaaagcaaaagctaagaaagcctcggctatggaacaaaagaagggcaagaagggagcaaagataccaaagaaagtaaaaaagaaacctcaagtgcagaagaaaagcaagagcaaaaaataagatatgactctacatatttcattccgttggatatgaatactatcaattccctttcctaattttctttctttttcttcggttctgggtatacatatactgatcatattttttaaaagctaatgaaagtagtctttaggaagctatataattggtagaggccacataatatgtattatttgcaagattttctcatgattatcctccatattaccataaaaattctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="24063" stop="23005"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23763" g_stop="23707" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23706" i_stop="23626" i_length="81">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.790" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23625" g_stop="23297" g_length="329"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="386" r_length="329" r_score="0.939"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E300472" ref_strand="+">
        <total_alignment_score>0.948</total_alignment_score>
        <cumulative_length_of_scored_exons>386</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E300472" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23763" e_stop="23707"/>
          <exon e_start="23625" e_stop="23297"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGAATGTTGATCATCAGACCAATGGGAATGTCAAAGCAAAAGCTAAGAAAGCCTCGGTATGCTCTGTTCTTTTTGGTTACCACTAACAGTTGCTTCACTTTCTAGATCTCAAATTGTGATCCAAGCTCGCTTTGCAGGCTATGGAACAAAAGAAGGGCAAGAAGGGAGCAAAGATACCAAAGAAAGTAAAAAAGAAACCTCAAGTGCAGAAGAAAAGCAAGAGCAAAAAATAAGATATGACTCTACATATTTCATTTCGTTTGATATGTATTCTATTTATTTTCTTTTCTTATTTTCTTTCTTTTTCTTCTGTTCTTTGTATACATATACTGATCATATTTTTTAAAAGCTAATGAAAGTAGTCTTTAGGAAGCTATATAATTGGTAGAGGCCACATAATATGTATTATTTGCAAGATTTTCTCATGATTATCCTCCATATTACCATAAAAATTCTAATGTCGATG</genome_strand>
        <mrna_strand>GAGAATGTTGATCATCAGACCAATGGGAATGTCAAAGCAAAAGCTAAGAAAGCCTCG.................................................................................GCTATGGAACAAAAGAAGGGCAAGAAGGGAGCAAAGATACCAAAGAAAGTAAAAAAGAAACCTCAAGTGCAGAAGAAAAGCAAGAGCAAAAAATAAGATATGACTCTACATATTTCATTCCGTTGGATATGAATACTATCAATTCCCTTTCCTAATTTTCTTTCTTTTTCTTCGGTTCTGGGTATACATATACTGATCATATTTTTTAAAAGCTAATGAAAGTAGTCTTTAGGAAGCTATATAATTGGTAGAGGCCACATAATATGTATTATTTGCAAGATTTTCTCATGATTATCCTCCATATTACCATAAAAATTCTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E374359" ref_strand="+" ref_description="SGN-E374359 [TUS-33-F12]">
      <seq>gagaatgttgatcatcagaccaatgggaatgtcaaagcaaaagctaagaaagcctcggctatggaacaaaagaagggcaagaagggagcaaagataccaaagaaagtaaaaaagaaacctcaagtgcagaagaaaagcaagagcaaaaaataagatatgactctacatatttcatttcgtttgatatgtattctatttattttcttttcttattttctttctttttcttctgttctttgtatacatatactgatcatattttttaaaagctaatgaaagtagtctttaggaagctatataattggtagaggccacataatatgtattatttgcaagattttctcatgattatcctccatattaccataaaaattctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="24063" stop="23005"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23763" g_stop="23707" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23706" i_stop="23626" i_length="81">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.790" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23625" g_stop="23297" g_length="329"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="386" r_length="329" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E374359" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>386</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E374359" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23763" e_stop="23707"/>
          <exon e_start="23625" e_stop="23297"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGAATGTTGATCATCAGACCAATGGGAATGTCAAAGCAAAAGCTAAGAAAGCCTCGGTATGCTCTGTTCTTTTTGGTTACCACTAACAGTTGCTTCACTTTCTAGATCTCAAATTGTGATCCAAGCTCGCTTTGCAGGCTATGGAACAAAAGAAGGGCAAGAAGGGAGCAAAGATACCAAAGAAAGTAAAAAAGAAACCTCAAGTGCAGAAGAAAAGCAAGAGCAAAAAATAAGATATGACTCTACATATTTCATTTCGTTTGATATGTATTCTATTTATTTTCTTTTCTTATTTTCTTTCTTTTTCTTCTGTTCTTTGTATACATATACTGATCATATTTTTTAAAAGCTAATGAAAGTAGTCTTTAGGAAGCTATATAATTGGTAGAGGCCACATAATATGTATTATTTGCAAGATTTTCTCATGATTATCCTCCATATTACCATAAAAATTCTAATGTCGATG</genome_strand>
        <mrna_strand>GAGAATGTTGATCATCAGACCAATGGGAATGTCAAAGCAAAAGCTAAGAAAGCCTCG.................................................................................GCTATGGAACAAAAGAAGGGCAAGAAGGGAGCAAAGATACCAAAGAAAGTAAAAAAGAAACCTCAAGTGCAGAAGAAAAGCAAGAGCAAAAAATAAGATATGACTCTACATATTTCATTTCGTTTGATATGTATTCTATTTATTTTCTTTTCTTATTTTCTTTCTTTTTCTTCTGTTCTTTGTATACATATACTGATCATATTTTTTAAAAGCTAATGAAAGTAGTCTTTAGGAAGCTATATAATTGGTAGAGGCCACATAATATGTATTATTTGCAAGATTTTCTCATGATTATCCTCCATATTACCATAAAAATTCTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E374358" ref_strand="+" ref_description="SGN-E374358 [TUS-33-F12](-)">
      <seq>tgagaatgttgatcatcagaccaatgggaatgtcaaagcaaaagctaagaaagcctcggctatggaacaaaagaagggcaagaagggagcaaagataccaaagaaagtaaaaaagaaacctcaagtgcagaagaaaagcaagagcaaaaaataagatatgactctacatatttcatttcgtttgatatgtattctatttattttcttttcttattttctttctttttcttctgttctttgtatacatatactgatcatattttttaaaagctaatgaaagtagtctttaggaagctatataattggtagaggccacataatatgtattatttgcaagattttctcatgattatcctccatattaccataaaaattctaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="24064" stop="23005"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23764" g_stop="23707" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="58" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23706" i_stop="23626" i_length="81">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.790" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23625" g_stop="23298" g_length="328"/>
          <reference_exon_boundary r_type="cDNA" r_start="59" r_stop="386" r_length="328" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E374358" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>386</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E374358" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23764" e_stop="23707"/>
          <exon e_start="23625" e_stop="23298"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAGAATGTTGATCATCAGACCAATGGGAATGTCAAAGCAAAAGCTAAGAAAGCCTCGGTATGCTCTGTTCTTTTTGGTTACCACTAACAGTTGCTTCACTTTCTAGATCTCAAATTGTGATCCAAGCTCGCTTTGCAGGCTATGGAACAAAAGAAGGGCAAGAAGGGAGCAAAGATACCAAAGAAAGTAAAAAAGAAACCTCAAGTGCAGAAGAAAAGCAAGAGCAAAAAATAAGATATGACTCTACATATTTCATTTCGTTTGATATGTATTCTATTTATTTTCTTTTCTTATTTTCTTTCTTTTTCTTCTGTTCTTTGTATACATATACTGATCATATTTTTTAAAAGCTAATGAAAGTAGTCTTTAGGAAGCTATATAATTGGTAGAGGCCACATAATATGTATTATTTGCAAGATTTTCTCATGATTATCCTCCATATTACCATAAAAATTCTAATGTCGAT</genome_strand>
        <mrna_strand>TGAGAATGTTGATCATCAGACCAATGGGAATGTCAAAGCAAAAGCTAAGAAAGCCTCG.................................................................................GCTATGGAACAAAAGAAGGGCAAGAAGGGAGCAAAGATACCAAAGAAAGTAAAAAAGAAACCTCAAGTGCAGAAGAAAAGCAAGAGCAAAAAATAAGATATGACTCTACATATTTCATTTCGTTTGATATGTATTCTATTTATTTTCTTTTCTTATTTTCTTTCTTTTTCTTCTGTTCTTTGTATACATATACTGATCATATTTTTTAAAAGCTAATGAAAGTAGTCTTTAGGAAGCTATATAATTGGTAGAGGCCACATAATATGTATTATTTGCAAGATTTTCTCATGATTATCCTCCATATTACCATAAAAATTCTAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E340301" ref_strand="+" ref_description="SGN-E340301 [cTOF-2-M13]">
      <seq>taaaatctgaaatcaaatggagggaaaataatttccagtatctggcctttaacgatatacatatattacatcatattttcactttaactactcacactttttttttctctctcacaggcaagggttttagtatccactgaaattattctctcaaaacttagaaaatggctgattctagagaagaatctccagattggctccgcagttttcaggcacctgctgcgataatcttgtcatccggatctgaatctcctgtaaataacaaccacctaagtgatgatgaggatagcatcaatctgagtaagctgtttcagaaggataaaacatcactttcagaggaaaaatgtagtcaggatggacatggatctcaactcaagaagacgtccgaagtaaattctccgattaaaaatgaagaagtagatcgcacacctactaggaagagaaagaatgaaaaccagagtgaaaaaaaaggaaaaggcactgacaaggctttaacgaagagaagagcattggagaagccttttacagataaagaacccagtcattcagtctgtacgttgtcatcggattctgagtctcctcatgatggcagttccatgaaagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="31090" stop="26323"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="30790" g_stop="30579" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="212" r_length="212" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="30578" i_stop="29548" i_length="1031">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.884" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="29547" g_stop="29289" g_length="259"/>
          <reference_exon_boundary r_type="cDNA" r_start="213" r_stop="471" r_length="259" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="29288" i_stop="29188" i_length="101">
            <donor d_prob="0.904" d_score="1.00"/>
            <acceptor a_prob="0.736" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="29187" g_stop="29126" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="533" r_length="62" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="29125" i_stop="26694" i_length="2432">
            <donor d_prob="0.992" 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="26693" g_stop="26623" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="534" r_stop="604" r_length="71" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E340301" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>604</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340301" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="30790" e_stop="30579"/>
          <exon e_start="29547" e_stop="29289"/>
          <exon e_start="29187" e_stop="29126"/>
          <exon e_start="26693" e_stop="26623"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATCTGAAATCAAATGGAGGGAAAATAATTTCCAGTATCTGGCCTTTAACGATATACATATATTACATCATATTTTCACTTTAACTACTCACACTTTTTTTTTCTCTCTCACAGGCAAGGGTTTTAGTATCCACTGAAATTATTCTCTCAAAACTTAGAAAATGGCTGATTCTAGAGAAGAATCTCCAGATTGGCTCCGCAGTTTTCAGGTATAACTGTTTTGATTTCATCGGAATTTTCATAAATTTGCTCGCTATGCACTTTTCAAAGTCGATTTTATGCACTGAATCTATGTTTAATTAGTTGAGCAATCATTTGATTGAGTTTTAACCGATTTTGAACATCAGTTTGATTGGTCTTTCAGCTGCGAGATTCAAACTTTGATCAATTCAATTTTTTGTTCACAGTGCTTCGTGGCGGAGGTAGATTCAAGTACATGTATATAGTTTTAGAGCACATTTGGGTTAGGGTATGCTAATTTGGGGCAATTAGTTTTGTTGAAATCATTGTTTACTGTGTATCACTTCAAGCCGAAAACAGTGGGTGGGGACTTGGAAAAATACTAGTAATGAAAATCCCTTTTTTGTGTAAATTTTTTTGAACCCTACCTTTTCTATTATTCACCTAGATAAGTTTGGATAGTTGTTGCATATAGTTACCTATTGTATTGTTTGTTTTAATGAATACAATGCTTAGATATATTGCATTATTTTCTGTCATACATAATGCCACACATCAACAATTTGAAGGACAATTCTTCATGAAAAGGTACTGGGTAGAGCTATTACAGAAAGGTAGGGTAAGGGATAAAATAAGATTATTAGATAATAAGCAAAGAAAAAATAAGGTAAAAATGCGATCATACCAAATTGGTCGTTATACAACTGAAACTTTTCGTCTTTACCTTCTGATGAATTCAACAATATGATATGTAGAATTTAAATAATCAAAACAAATATTGTATTTAAACTAACAACACAATGCAATGCTAGCAACAACCATCCAAACAAGCTGTAAATGGAAAAATTTAGATGTATAGTATAACCATTCACTATAACTTAATTGCATCCCCTTATGCTTCTTAAAGGCATTATTCAAGTATAAGTTCTGCTGTTTTTATATAAATTCGTTCTCCACACACTTTTGTTGAAAGACTGGGCATTGTTTAGTTATTATTTGTTCTGTTGTTGTTCCATGTTCCTATAACGACCAAGACAATCTGATGTTAAAACAAATGCAGGCACCTGCTGCGATAATCTTGTCATCCGGATCTGAATCTCCTGTAAATAACAACCACCTAAGTGATGATGAGGATAGCATCAATCTGAGTAAGCTGTTTCAGAAGGATAAAACATCACTTTCAGAGGAAAAATGTAGTCAGGATGGACATGGATCTCAACTCAAGAAGACGTCCGAAGTAAATTCTCCGATTAAAAATGAAGAAGTAGATCGCACACCTACTAGGAAGAGAAAGAATGAAAACCAGAGTGAAAAAAAAGGTATTAGCTAATCCATTTTACCGAATGAATCAACTGCATCAGATTGTAAGTGTGGAGTTAAAGAAGGGCCCAGTAAAGATCTTCTCTTTCCAATGATACAGGAAAAGGCACTGACAAGGCTTTAACGAAGAGAAGAGCATTGGAGAAGCCTTTTACAGATAAAGTAAGGAGTTCCCTACTATCTGTATTTATTTTTTAATGTACTGAACTATCATCAGTAAATTAATTTAGTAGTCAAAGTATGTCAAAGAAGCGACTAGATCGTTCAACTTGTACGGTACCAGTTGACCCTATGTTTTTGCTCATATGCAGCTTCAATGAGACCCTTGATCTTTGGTTTTATATTTATTTTGCCCCTATCTCTAGCGAGCTCTATACCAATCATACTTTGGAGATGTCGCAGTCAATGATTGCTCCATCGATAATCTTCAGTGAGTTGTGAATTTTGTTCAATGAAGCAATACCAAATATGCCCCTAGAAAGATCAGACCTACGCCACGAGCTGATGACAACCATGCACCACCTATATCCCTGTTCTTCAAGGCACTCCTATTTTTCAAGAGGGTTTGCAGCAATCAAGCACAAGAAAATAGTGACTTCATAAGCTGATCAGTCAACTATTTCGTCATGTTTTTTTAAATGAAGAGTAAATAGTGACTTAGGCTGGTGCGTTTCTACTTCAGAAGTCATCCATATTGTGAGGAGATTGGTGGAGAAATATAGGAAAAGGAAGAGGGACTTAAATATGGTGTTCATTGACCTTGAAGAAGCCTAAGATAGTCCTGAGGGAAGTCCTCTAGAGATTCTAGATGCTTGGAGAGTAGAGATGTGTTGGTGACTTGCATTAGGGCATTGAAGGACATGTATGATGGATCCCAGATTTGGGTTAAAATGGTGGGAGGAGACTCAACAATTTCCGGTTCAGATGGGGTAGCACCATGGATCAATACTTAGCCTATGCCTATTTTCCTTGGTGATGGATGAATTGACATGATATATTCAAGATGATGTGCTATGGTATATGTCATTTGCGGATGATCTTATATTGTTTGATGAGACATGCAATAGAATCAATGCTTGGTTGGAGTTGTGAAGTCAAACTCTAGAGTTCTCTAAACTTAAGGTAAGTTTTATAGTGTGGTGGTTAGAACGACTTTGTTGTGTAGGGCTGAATGTTGGTCAGTCAAGACCCCCCATGTTCAAAAGATGCTAATTGCGGAAATGACAATGTTGAGATAGATGTGTGAGCATATTAAGAGCAATAAAATTTGGAATGAGGATATCCAAGTCAATGTGGGAGTGACCTTTGTGGTGAACAAGATGAGAGTAGCTAGATGAGATGGTTTAAGCATGTGGAGAGGAGATGCGCAAATACCCAGTGAGGAGGCATGAGAGGTTGGATATAGTTGGTATGAGAAGAGGTAGAGGTAGGCCTAAAATGTATAGGGAAAAAAGTGAGTTTGACATGCAATTATGCAATTTTAGTTTACTGTGGACATGAACTTAGATAGGAGGGTGGAAGTCGTGGATTAAGGTAAAAGGTTAGTAGGTAGTGGAGTGTTGTCTTGCTTTTCAATGGGTTTAGGCTTGATGGTGTATGTCGTAGTATTAGCCTTATTCTTGTAGTGTCTTGCTGTTAATTTCTATCCTCATATGTTGTTTATGGTGTTTTGGTTATTCCAATTTTGTTGTTTCTAACTGCTTACTTATTAGGTATGTTTTTCTCACGGTTGTTTTCCCTTTTCATACCTACTTTGATTTGTTGTACTCAACAGAGGGTCCTCCATAAACAGCCTCTCTAGCTCCACGAGGTAGGAGTAATCAGACCCCACTTTCACTTGGTATGATGTTAAAGAGTAAATGGATAAAAGAGCCTAGACATATTAGTACTATTATAGCTTTCTGATAGAATAGTTTTTCTTCTAAATAGTTTCTTATAAGCATTCACTGTGGAAAATGTCTGTGAAATTGCCTTGAACAGTGAAACTGCACTTCTAACTTACCGTAATCAGTTTCTTGATAGTATTTCTCCTCTTATGAAGCAAAAGATGTCCACTAGCTAGCAGTTTAGTTTGGCTGGAAATAATGTTCTAGGCTTCAGGAACAGCCAAGGTAGTTAAAACCTCTTGGTATACTAGAATGATGCAATTGCTTAACGTGGTAATTTATTATATACTGAAATGGCTACTTTACCTAGAATCTGTTCTTCGACAATTTATTTCATACTTCAATTAACTCGTCCAAAATCAATCAGATTAAAACATTTTGACACATCTCTCCTTACCCAATGTAATCTGTTAGATTCATACAAACACTTTTCTCATTCTAGGTATCAGTAATGGTAATCCCACATGTTATCATTAGTTTTGGCAATTGCTACAGGTGGTGATTTTACTTTGGCCATTCTTGAAATTATCACAATATGGTGTAGGCATCTCGTTTTCTCCTTTGATCAGTTGCCTGGAGTTCACAGACATGTAGGCTTAATCCTTAGAGTCTGTGGATCTCCCATACACTTCATTGTTAACTACTATGCAAGTATTGTTGACTATAGTCATCTTAGTTTGATCTCAATCATATATTTGGTTCATACAGGAACCCAGTCATTCAGTCTGTACGTTGTCATCGGATTCTGAGTCTCCTCATGATGGCAGTTCCATGAAAGT</genome_strand>
        <mrna_strand>TAAAATCTGAAATCAAATGGAGGGAAAATAATTTCCAGTATCTGGCCTTTAACGATATACATATATTACATCATATTTTCACTTTAACTACTCACACTTTTTTTTTCTCTCTCACAGGCAAGGGTTTTAGTATCCACTGAAATTATTCTCTCAAAACTTAGAAAATGGCTGATTCTAGAGAAGAATCTCCAGATTGGCTCCGCAGTTTTCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACCTGCTGCGATAATCTTGTCATCCGGATCTGAATCTCCTGTAAATAACAACCACCTAAGTGATGATGAGGATAGCATCAATCTGAGTAAGCTGTTTCAGAAGGATAAAACATCACTTTCAGAGGAAAAATGTAGTCAGGATGGACATGGATCTCAACTCAAGAAGACGTCCGAAGTAAATTCTCCGATTAAAAATGAAGAAGTAGATCGCACACCTACTAGGAAGAGAAAGAATGAAAACCAGAGTGAAAAAAAAG.....................................................................................................GAAAAGGCACTGACAAGGCTTTAACGAAGAGAAGAGCATTGGAGAAGCCTTTTACAGATAAA................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAACCCAGTCATTCAGTCTGTACGTTGTCATCGGATTCTGAGTCTCCTCATGATGGCAGTTCCATGAAAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E299551" ref_strand="+" ref_description="SGN-E299551 [cLEW-20-E24]">
      <seq>gagaacctagtctcagttttttttttctctcacaggcaagggttttagtatccactgaaattattctctcaaaacttagaaaatggctgattctagagaagaatctccagattggctccgcagttttcaggcacctgctgcgataatcttgtcatccggatctgaatctcctgtaaataacaaccacctaagtgatgatgaggatagcatcaatctgagtaagctgtttcagaaggataaaacatcactttcagaggaaaaatgtagtcaggatggacatggatctcaactcaagaagacgtccgaagtaaattctccgattaaaaatgaagaagtagatcgcacacctactaggaagagaaagaatgaaaaccagagtgaaaaaaaaggaaaaggcactgacaaggctttaacgaagagaagagcattggagaagccttttacagataaagaacccagtcattcagtctgtacgttgtcatcggattctgagtctcctcatgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="31005" stop="26340"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="30709" g_stop="30579" g_length="131"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="130" r_length="130" r_score="0.931"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="30578" i_stop="29548" i_length="1031">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.884" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="29547" g_stop="29289" g_length="259"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="389" r_length="259" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="29288" i_stop="29188" i_length="101">
            <donor d_prob="0.904" d_score="1.00"/>
            <acceptor a_prob="0.736" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="29187" g_stop="29126" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="390" r_stop="451" r_length="62" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="29125" i_stop="26694" i_length="2432">
            <donor d_prob="0.992" 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="26693" g_stop="26640" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="452" r_stop="505" r_length="54" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E299551" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>506</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299551" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="30709" e_stop="30579"/>
          <exon e_start="29547" e_stop="29289"/>
          <exon e_start="29187" e_stop="29126"/>
          <exon e_start="26693" e_stop="26640"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTAACTACTCACACTTTTTTTTTCTCTCTCACAGGCAAGGGTTTTAGTATCCACTGAAATTATTCTCTCAAAACTTAGAAAATGGCTGATTCTAGAGAAGAATCTCCAGATTGGCTCCGCAGTTTTCAGGTATAACTGTTTTGATTTCATCGGAATTTTCATAAATTTGCTCGCTATGCACTTTTCAAAGTCGATTTTATGCACTGAATCTATGTTTAATTAGTTGAGCAATCATTTGATTGAGTTTTAACCGATTTTGAACATCAGTTTGATTGGTCTTTCAGCTGCGAGATTCAAACTTTGATCAATTCAATTTTTTGTTCACAGTGCTTCGTGGCGGAGGTAGATTCAAGTACATGTATATAGTTTTAGAGCACATTTGGGTTAGGGTATGCTAATTTGGGGCAATTAGTTTTGTTGAAATCATTGTTTACTGTGTATCACTTCAAGCCGAAAACAGTGGGTGGGGACTTGGAAAAATACTAGTAATGAAAATCCCTTTTTTGTGTAAATTTTTTTGAACCCTACCTTTTCTATTATTCACCTAGATAAGTTTGGATAGTTGTTGCATATAGTTACCTATTGTATTGTTTGTTTTAATGAATACAATGCTTAGATATATTGCATTATTTTCTGTCATACATAATGCCACACATCAACAATTTGAAGGACAATTCTTCATGAAAAGGTACTGGGTAGAGCTATTACAGAAAGGTAGGGTAAGGGATAAAATAAGATTATTAGATAATAAGCAAAGAAAAAATAAGGTAAAAATGCGATCATACCAAATTGGTCGTTATACAACTGAAACTTTTCGTCTTTACCTTCTGATGAATTCAACAATATGATATGTAGAATTTAAATAATCAAAACAAATATTGTATTTAAACTAACAACACAATGCAATGCTAGCAACAACCATCCAAACAAGCTGTAAATGGAAAAATTTAGATGTATAGTATAACCATTCACTATAACTTAATTGCATCCCCTTATGCTTCTTAAAGGCATTATTCAAGTATAAGTTCTGCTGTTTTTATATAAATTCGTTCTCCACACACTTTTGTTGAAAGACTGGGCATTGTTTAGTTATTATTTGTTCTGTTGTTGTTCCATGTTCCTATAACGACCAAGACAATCTGATGTTAAAACAAATGCAGGCACCTGCTGCGATAATCTTGTCATCCGGATCTGAATCTCCTGTAAATAACAACCACCTAAGTGATGATGAGGATAGCATCAATCTGAGTAAGCTGTTTCAGAAGGATAAAACATCACTTTCAGAGGAAAAATGTAGTCAGGATGGACATGGATCTCAACTCAAGAAGACGTCCGAAGTAAATTCTCCGATTAAAAATGAAGAAGTAGATCGCACACCTACTAGGAAGAGAAAGAATGAAAACCAGAGTGAAAAAAAAGGTATTAGCTAATCCATTTTACCGAATGAATCAACTGCATCAGATTGTAAGTGTGGAGTTAAAGAAGGGCCCAGTAAAGATCTTCTCTTTCCAATGATACAGGAAAAGGCACTGACAAGGCTTTAACGAAGAGAAGAGCATTGGAGAAGCCTTTTACAGATAAAGTAAGGAGTTCCCTACTATCTGTATTTATTTTTTAATGTACTGAACTATCATCAGTAAATTAATTTAGTAGTCAAAGTATGTCAAAGAAGCGACTAGATCGTTCAACTTGTACGGTACCAGTTGACCCTATGTTTTTGCTCATATGCAGCTTCAATGAGACCCTTGATCTTTGGTTTTATATTTATTTTGCCCCTATCTCTAGCGAGCTCTATACCAATCATACTTTGGAGATGTCGCAGTCAATGATTGCTCCATCGATAATCTTCAGTGAGTTGTGAATTTTGTTCAATGAAGCAATACCAAATATGCCCCTAGAAAGATCAGACCTACGCCACGAGCTGATGACAACCATGCACCACCTATATCCCTGTTCTTCAAGGCACTCCTATTTTTCAAGAGGGTTTGCAGCAATCAAGCACAAGAAAATAGTGACTTCATAAGCTGATCAGTCAACTATTTCGTCATGTTTTTTTAAATGAAGAGTAAATAGTGACTTAGGCTGGTGCGTTTCTACTTCAGAAGTCATCCATATTGTGAGGAGATTGGTGGAGAAATATAGGAAAAGGAAGAGGGACTTAAATATGGTGTTCATTGACCTTGAAGAAGCCTAAGATAGTCCTGAGGGAAGTCCTCTAGAGATTCTAGATGCTTGGAGAGTAGAGATGTGTTGGTGACTTGCATTAGGGCATTGAAGGACATGTATGATGGATCCCAGATTTGGGTTAAAATGGTGGGAGGAGACTCAACAATTTCCGGTTCAGATGGGGTAGCACCATGGATCAATACTTAGCCTATGCCTATTTTCCTTGGTGATGGATGAATTGACATGATATATTCAAGATGATGTGCTATGGTATATGTCATTTGCGGATGATCTTATATTGTTTGATGAGACATGCAATAGAATCAATGCTTGGTTGGAGTTGTGAAGTCAAACTCTAGAGTTCTCTAAACTTAAGGTAAGTTTTATAGTGTGGTGGTTAGAACGACTTTGTTGTGTAGGGCTGAATGTTGGTCAGTCAAGACCCCCCATGTTCAAAAGATGCTAATTGCGGAAATGACAATGTTGAGATAGATGTGTGAGCATATTAAGAGCAATAAAATTTGGAATGAGGATATCCAAGTCAATGTGGGAGTGACCTTTGTGGTGAACAAGATGAGAGTAGCTAGATGAGATGGTTTAAGCATGTGGAGAGGAGATGCGCAAATACCCAGTGAGGAGGCATGAGAGGTTGGATATAGTTGGTATGAGAAGAGGTAGAGGTAGGCCTAAAATGTATAGGGAAAAAAGTGAGTTTGACATGCAATTATGCAATTTTAGTTTACTGTGGACATGAACTTAGATAGGAGGGTGGAAGTCGTGGATTAAGGTAAAAGGTTAGTAGGTAGTGGAGTGTTGTCTTGCTTTTCAATGGGTTTAGGCTTGATGGTGTATGTCGTAGTATTAGCCTTATTCTTGTAGTGTCTTGCTGTTAATTTCTATCCTCATATGTTGTTTATGGTGTTTTGGTTATTCCAATTTTGTTGTTTCTAACTGCTTACTTATTAGGTATGTTTTTCTCACGGTTGTTTTCCCTTTTCATACCTACTTTGATTTGTTGTACTCAACAGAGGGTCCTCCATAAACAGCCTCTCTAGCTCCACGAGGTAGGAGTAATCAGACCCCACTTTCACTTGGTATGATGTTAAAGAGTAAATGGATAAAAGAGCCTAGACATATTAGTACTATTATAGCTTTCTGATAGAATAGTTTTTCTTCTAAATAGTTTCTTATAAGCATTCACTGTGGAAAATGTCTGTGAAATTGCCTTGAACAGTGAAACTGCACTTCTAACTTACCGTAATCAGTTTCTTGATAGTATTTCTCCTCTTATGAAGCAAAAGATGTCCACTAGCTAGCAGTTTAGTTTGGCTGGAAATAATGTTCTAGGCTTCAGGAACAGCCAAGGTAGTTAAAACCTCTTGGTATACTAGAATGATGCAATTGCTTAACGTGGTAATTTATTATATACTGAAATGGCTACTTTACCTAGAATCTGTTCTTCGACAATTTATTTCATACTTCAATTAACTCGTCCAAAATCAATCAGATTAAAACATTTTGACACATCTCTCCTTACCCAATGTAATCTGTTAGATTCATACAAACACTTTTCTCATTCTAGGTATCAGTAATGGTAATCCCACATGTTATCATTAGTTTTGGCAATTGCTACAGGTGGTGATTTTACTTTGGCCATTCTTGAAATTATCACAATATGGTGTAGGCATCTCGTTTTCTCCTTTGATCAGTTGCCTGGAGTTCACAGACATGTAGGCTTAATCCTTAGAGTCTGTGGATCTCCCATACACTTCATTGTTAACTACTATGCAAGTATTGTTGACTATAGTCATCTTAGTTTGATCTCAATCATATATTTGGTTCATACAGGAACCCAGTCATTCAGTCTGTACGTTGTCATCGGATTCTGAGTCTCCTCATGAT</genome_strand>
        <mrna_strand>GAGAACCTAGTCTCAGTTTTTTTTT-TCTCTCACAGGCAAGGGTTTTAGTATCCACTGAAATTATTCTCTCAAAACTTAGAAAATGGCTGATTCTAGAGAAGAATCTCCAGATTGGCTCCGCAGTTTTCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACCTGCTGCGATAATCTTGTCATCCGGATCTGAATCTCCTGTAAATAACAACCACCTAAGTGATGATGAGGATAGCATCAATCTGAGTAAGCTGTTTCAGAAGGATAAAACATCACTTTCAGAGGAAAAATGTAGTCAGGATGGACATGGATCTCAACTCAAGAAGACGTCCGAAGTAAATTCTCCGATTAAAAATGAAGAAGTAGATCGCACACCTACTAGGAAGAGAAAGAATGAAAACCAGAGTGAAAAAAAAG.....................................................................................................GAAAAGGCACTGACAAGGCTTTAACGAAGAGAAGAGCATTGGAGAAGCCTTTTACAGATAAA................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAACCCAGTCATTCAGTCTGTACGTTGTCATCGGATTCTGAGTCTCCTCATGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E299602" ref_strand="+" ref_description="SGN-E299602 [cLEW-20-O17]">
      <seq>acccctgctcacaagccttttcccatgttaaaatctgaaatcaagatggagggaaaataatttccagtatctggcctttaacgatatacatatattacatcatattttcactttaactactcacactttttttttctctctcacaggcaagggttttagtatccactgaaattattctctcaaaacttagaaaatggctgattctagagaagaatctccagattggctccgcagttttcaggtataactgttttgatttcatcggaattttcataaatttgctcgctatgcacttttcaaagtcgattttatgcactgaatctatgtttaattagttgagcaatcatttgattgagttttaaccgattttgaacatcagtttgattggtctttcagctgcgagattcaaactttgatcaattcaattttttgttcacagtgcttcgtggcggaagtagattcaagtacatgtatatagttttagagcacatttgggttagggtatgctaatttggggcaattagttttgttgaaatcattgtttactgtgtatcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="31118" stop="29964"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="30818" g_stop="30264" g_length="555"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="556" r_length="556" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E299602" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>555</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299602" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="30818" e_stop="30264"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCCCTGCTCACAAGCCTTTTCCCATGTTAAAATCTGAAATCAA-ATGGAGGGAAAATAATTTCCAGTATCTGGCCTTTAACGATATACATATATTACATCATATTTTCACTTTAACTACTCACACTTTTTTTTTCTCTCTCACAGGCAAGGGTTTTAGTATCCACTGAAATTATTCTCTCAAAACTTAGAAAATGGCTGATTCTAGAGAAGAATCTCCAGATTGGCTCCGCAGTTTTCAGGTATAACTGTTTTGATTTCATCGGAATTTTCATAAATTTGCTCGCTATGCACTTTTCAAAGTCGATTTTATGCACTGAATCTATGTTTAATTAGTTGAGCAATCATTTGATTGAGTTTTAACCGATTTTGAACATCAGTTTGATTGGTCTTTCAGCTGCGAGATTCAAACTTTGATCAATTCAATTTTTTGTTCACAGTGCTTCGTGGCGGAGGTAGATTCAAGTACATGTATATAGTTTTAGAGCACATTTGGGTTAGGGTATGCTAATTTGGGGCAATTAGTTTTGTTGAAATCATTGTTTACTGTGTATCAC</genome_strand>
        <mrna_strand>ACCCCTGCTCACAAGCCTTTTCCCATGTTAAAATCTGAAATCAAGATGGAGGGAAAATAATTTCCAGTATCTGGCCTTTAACGATATACATATATTACATCATATTTTCACTTTAACTACTCACACTTTTTTTTTCTCTCTCACAGGCAAGGGTTTTAGTATCCACTGAAATTATTCTCTCAAAACTTAGAAAATGGCTGATTCTAGAGAAGAATCTCCAGATTGGCTCCGCAGTTTTCAGGTATAACTGTTTTGATTTCATCGGAATTTTCATAAATTTGCTCGCTATGCACTTTTCAAAGTCGATTTTATGCACTGAATCTATGTTTAATTAGTTGAGCAATCATTTGATTGAGTTTTAACCGATTTTGAACATCAGTTTGATTGGTCTTTCAGCTGCGAGATTCAAACTTTGATCAATTCAATTTTTTGTTCACAGTGCTTCGTGGCGGAAGTAGATTCAAGTACATGTATATAGTTTTAGAGCACATTTGGGTTAGGGTATGCTAATTTGGGGCAATTAGTTTTGTTGAAATCATTGTTTACTGTGTATCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E731488" ref_strand="+" ref_description="SGN-E731488 [LA27BB09]">
      <seq>cgcccaactccccgaaaaaccccttttctccatttgcatacaccaaactttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagcctttggcctgcaaaattatgaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34336" stop="38332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34636" g_stop="35037" g_length="402"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="402" r_length="402" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="403" r_stop="518" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="519" r_stop="645" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38032" g_length="94"/>
          <reference_exon_boundary r_type="cDNA" r_start="646" r_stop="740" r_length="95" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E731488" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>739</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731488" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34636" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38032"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACCCAACTCCCCGAAAAACCCCTTTTCTCCATTTGCATACACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCC-TTGGCCTGCAAAATTATGAAA</genome_strand>
        <mrna_strand>CGCCCAACTCCCCGAAAAACCCCTTTTCTCCATTTGCATACACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTTGGCCTGCAAAATTATGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E722339" ref_strand="+" ref_description="SGN-E722339 [FC16DH08]">
      <seq>gggcgattggcggccaatcggccgaattgcacccaactccccgaaaaaccccttttctccatttgcatacaccaaactttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcaaaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34334" stop="38357"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34639" g_stop="35037" g_length="399"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="431" r_length="399" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="432" r_stop="547" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="548" r_stop="674" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38057" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="675" r_stop="793" r_length="119" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E722339" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>761</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E722339" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34639" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38057"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAACTCCCCGAAAAACCCCTTTTCTCCATTTGCATACACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGAC</genome_strand>
        <mrna_strand>CCAACTCCCCGAAAAACCCCTTTTCTCCATTTGCATACACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAAAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E723053" ref_strand="+" ref_description="SGN-E723053 [FC19AH01]">
      <seq>tccccgaaaaaccccttttctccatttgcatcccctaaaatttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34344" stop="38531"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34644" g_stop="35037" g_length="394"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="394" r_length="394" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="395" r_stop="510" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="511" r_stop="637" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="638" r_stop="786" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="38177" g_stop="38231" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="787" r_stop="841" r_length="55" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E723053" ref_strand="+">
        <total_alignment_score>0.995</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="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E723053" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34644" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38231"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCCCGAAAAACCCCTTTTCTCCATTTGCATACACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCAT</genome_strand>
        <mrna_strand>TCCCCGAAAAACCCCTTTTCTCCATTTGCATCCCCTAAAATTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E407491" ref_strand="+" ref_description="SGN-E407491 [PPI-7-B21]">
      <seq>aaaaccccctttctccatttgcataccaaactttcatttcaaacggagagaaaaaggggctgtgtgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccgaatagcagcaatcagaatccaatagctcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtcgtcacagcaactagtggactacagggtgctgctattggtggatttatgggaacacttacacaggatgtgtcttcctctatgcctactcctcctgctggtgctaatctcaatccccaagccatggcctcttttcaacaagctcaggctcttgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgtcttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgccttcggttctggagcattgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaagggggactgtttgagcttgnccgggaagttttcgcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34351" stop="38341"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34651" g_stop="35037" g_length="387"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="386" r_length="386" r_score="0.959"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.992" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="387" r_stop="502" r_length="116" r_score="0.983"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="503" r_stop="629" r_length="127" r_score="0.969"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="0.98"/>
            <acceptor a_prob="0.887" a_score="0.88"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38041" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="630" r_stop="733" r_length="104" r_score="0.942"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E407491" ref_strand="+">
        <total_alignment_score>0.962</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="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E407491" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34651" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACCCCTTTTCTCCATTTGCATACACCAAACTTTCATTTCAAACGGAGAGAAAAA-GGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGC-GGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCA</genome_strand>
        <mrna_strand>AAAACCCCCTTTCTCCATTTGCAT--ACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGGCTGTGTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCGAATAGCAGCAATCAGAATCCAATAGCTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTCGTCACAGCAACTAGTGGACTACAGGGTGCTGCTATTGGTGGATTTATGGGAACACTTACACAGGATGTGTCTTCCTCTATGCCTACTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCCATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTTGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTCTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTCGGTTCTGGAGCATTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGGGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGNCCGGGAAGTTTTCGCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E321135" ref_strand="+" ref_description="SGN-E321135 [cTOB-13-M14]">
      <seq>gaggcttttctccatttgcataccaccaaactttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgaccagcaactagtggacctacagggggctgctattggtggatttatgggaacccttaccaccaggatgtgtcttcctctatgcctattcctcctgctggtgcctaatctcaatccccaagctatggcctcttttcaaccaagctcaggctctcgcaggaggtcccttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34358" stop="36651"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34654" g_stop="35037" g_length="384"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="391" r_length="391" r_score="0.951"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.992" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="392" r_stop="507" r_length="116" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="508" r_stop="634" r_length="127" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E321135" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>627</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E321135" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34654" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCCCTTTTCTCCATTTGCATA-CACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGA-CAGCAACTAGTGGA-CTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTA-CA-CAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTG-CTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAA-CAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG</genome_strand>
        <mrna_strand>GAGGCTTTTCTCCATTTGCATACCACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACCAGCAACTAGTGGACCTACAGGGGGCTGCTATTGGTGGATTTATGGGAACCCTTACCACCAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACCAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCCTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E343296" ref_strand="+" ref_description="SGN-E343296 [cTOF-17-P11]">
      <seq>tttgcatacaccaaactttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaagggttgttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34368" stop="38357"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34668" g_stop="35037" g_length="370"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="370" r_length="370" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="371" r_stop="486" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="487" r_stop="613" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38057" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="614" r_stop="731" r_length="118" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E343296" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>732</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E343296" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34668" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38057"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGCATACACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGAC</genome_strand>
        <mrna_strand>TTTGCATACACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTC-AAAAAGGGTTGTTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E729974" ref_strand="+" ref_description="SGN-E729974 [LA22CF10]">
      <seq>caaactttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttaaagatgtgaggatccctcctggggccaaacttcttattcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34379" stop="38526"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34679" g_stop="35037" g_length="359"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="359" r_length="359" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="360" r_stop="475" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="476" r_stop="602" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="603" r_stop="751" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="38177" g_stop="38226" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="752" r_stop="801" r_length="50" r_score="0.920"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E729974" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>801</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E729974" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34679" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38226"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTG</genome_strand>
        <mrna_strand>CAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAAAGATGTGAGGATCCCTCCTGGGGCCAAACTTCTTATTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E723028" ref_strand="+" ref_description="SGN-E723028 [FC19AE07]">
      <seq>ggcgattggcggccaatcggccgaattgacaaactttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34371" stop="38507"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34679" g_stop="35037" g_length="359"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="388" r_length="359" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="389" r_stop="504" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="505" r_stop="631" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="632" r_stop="780" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="38177" g_stop="38207" g_length="31"/>
          <reference_exon_boundary r_type="cDNA" r_start="781" r_stop="811" r_length="31" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E723028" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>782</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E723028" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34679" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38207"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGG</genome_strand>
        <mrna_strand>CAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E725669" ref_strand="+" ref_description="SGN-E725669 [LA05AG05]">
      <seq>aaactttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctctttttaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaatagaggcaggaagatgtgcagtcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34380" stop="35810"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34680" g_stop="35037" g_length="358"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="358" r_length="358" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="35396" g_stop="35510" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="359" r_stop="471" r_length="113" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E725669" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725669" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34680" e_stop="35037"/>
          <exon e_start="35396" e_stop="35510"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCA</genome_strand>
        <mrna_strand>AAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTTAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAA-TAGAGGC-AGGAAGATGTGCAGTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E269553" ref_strand="+" ref_description="SGN-E269553 [cLEM-2-O19]">
      <seq>aaactttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34380" stop="35804"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34680" g_stop="35037" g_length="358"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="358" r_length="358" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35504" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="359" r_stop="467" r_length="109" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E269553" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E269553" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34680" e_stop="35037"/>
          <exon e_start="35396" e_stop="35504"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGC</genome_strand>
        <mrna_strand>AAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E728654" ref_strand="+" ref_description="SGN-E728654 [LA18CA12]">
      <seq>ctttcatttcaaacggagagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccaatttgcctttactca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34383" stop="38380"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34683" g_stop="35037" g_length="355"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="355" r_length="355" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="356" r_stop="471" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="598" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38080" g_length="142"/>
          <reference_exon_boundary r_type="cDNA" r_start="599" r_stop="740" r_length="142" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E728654" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>740</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728654" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34683" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38080"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCA</genome_strand>
        <mrna_strand>CTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCAATTTGCCTTTACTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E569621" ref_strand="+" ref_description="SGN-E569621 [14084]">
      <seq>tttcaaacggagagaaaaaggggctgcgtgcggctgaaatcttctcaattccaatgggtgaaggaaagcagggagctatggtggttgaaatgccgaatagcagcaatcagaatccaatagctcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaaccagtggactacagggtgctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctgctcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctcttgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgtcttgaaaagaattagaggcaaggaacgatgtgcagtccagtatggcagctggctttggttctggagcattgttttcactagttagcggcatgggtgggccaaatccagtacccaatgctttgacatctgggattttctttggccttgttcaaggtggactgtttgagcttgggcggaagttttcgcaaacaactgttgaagatacgcattatgtcagaacgagatcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34389" stop="38299"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34689" g_stop="35037" g_length="349"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="350" r_length="350" r_score="0.966"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <donor d_prob="1.000" 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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="351" r_stop="467" r_length="117" r_score="0.966"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" d_score="0.94"/>
            <acceptor a_prob="0.999" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="468" r_stop="594" r_length="127" r_score="0.961"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="0.98"/>
            <acceptor a_prob="0.887" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="37999" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="595" r_stop="655" r_length="61" r_score="0.918"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E569621" ref_strand="+">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>653</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E569621" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34689" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="37999"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCAAACGGAGAGAAAAA-GGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAA-GATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCAC</genome_strand>
        <mrna_strand>TTTCAAACGGAGAGAAAAAGGGGCTGCGTGCGGCTGAAATCTTCTCAATTCCAATGGGTGAAGGAAAGCAGGGAGCTATGGTGGTTGAAATGCCGAATAGCAGCAATCAGAATCCAATAGCTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACCAGTGGACTACAGGGTGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTGCTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTTGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTCTTGAAAAGAATTAGAGGCAAGGAACGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGGCTTTGGTTCTGGAGCATTGTTTTCACTAGTTAGCGGCATGGGTGGGCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGGCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGGCGGAAGTTTTCGCAAACAACTGTTGAAGATACGCATTATGTCAGAACGAGATCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E406677" ref_strand="+" ref_description="SGN-E406677 [PPI-4-H21]">
      <seq>ttcaaacggagagaaaaaggggcctgcgtgccggctgaaatcttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccgaatagcagcaatcagaatccaatagctcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaaccagtggactacagggtgctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctgctcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctcttgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgtcttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagcattgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgaccatctgggattttctttgcccttgttcaaggtggactgtttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34390" stop="36647"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34690" g_stop="35037" g_length="348"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="351" r_length="351" r_score="0.957"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <donor d_prob="1.000" 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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="352" r_stop="467" r_length="116" r_score="0.983"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="36223" g_stop="36347" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="468" r_stop="593" r_length="126" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E406677" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>589</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E406677" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34690" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36347"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAAACGGAGAGAAAAA-GGG-CTACCTG-CGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGA-CATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTG</genome_strand>
        <mrna_strand>TTCAAACGGAGAGAAAAAGGGGCCTGCGTGCCGGCTGAAATCTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCGAATAGCAGCAATCAGAATCCAATAGCTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACCAGTGGACTACAGGGTGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTGCTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTTGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTCTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCATTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACCATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E416981" ref_strand="+" ref_description="SGN-E416981 [STM-24-A16]">
      <seq>acggagagaaaaaggggcggtgtgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccgaatagcagcaatcagaatccaatagctcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtcgtcacagcaactagtggactacagggtgctgctattggtggatttatgggaacacttacacaggatgtgtcttcctctatgcctactcctcctgctggtgctaatctcaatccccaagccatggcctcttttcaacaagctcaggctcttgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgtcttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagcattgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaagggggactgtttgagcttgggcggaagttttcgcaaccacctgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34416" stop="36651"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34695" g_stop="35037" g_length="343"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="344" r_length="344" r_score="0.959"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.992" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="345" r_stop="460" r_length="116" r_score="0.983"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="461" r_stop="587" r_length="127" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E416981" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>586</cumulative_length_of_scored_exons>
        <coverage percentage="0.947" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E416981" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34695" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACGGAGAGAAAAA-GGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG</genome_strand>
        <mrna_strand>ACGGAGAGAAAAAGGGGCGGTGTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCGAATAGCAGCAATCAGAATCCAATAGCTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTCGTCACAGCAACTAGTGGACTACAGGGTGCTGCTATTGGTGGATTTATGGGAACACTTACACAGGATGTGTCTTCCTCTATGCCTACTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCCATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTTGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTCTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCATTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGGGGACTGTTTGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E440000" ref_strand="+" ref_description="SGN-E440000 [cSTA-14-J5]">
      <seq>acggagagaataaggggcggtgtgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccgaatagcagcaatcagaatccaatagctcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtcgtcacagcaactagtggactacagggtgctgctattggtggatttatgggaacacttacacaggatgtgtcttcctctatgcctactcctcctgctggtgctaatctcaatccccaagccatggcctcttttcaacaagctcaagctcttgcaggaggtccgttggttcaagctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgtcttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34416" stop="35777"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34695" g_stop="35037" g_length="343"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="344" r_length="344" r_score="0.953"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.992" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="35396" g_stop="35477" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="345" r_stop="426" r_length="82" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E440000" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>425</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E440000" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34695" e_stop="35037"/>
          <exon e_start="35396" e_stop="35477"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACGGAGAGAA-AAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGA</genome_strand>
        <mrna_strand>ACGGAGAGAATAAGGGGCGGTGTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCGAATAGCAGCAATCAGAATCCAATAGCTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTCGTCACAGCAACTAGTGGACTACAGGGTGCTGCTATTGGTGGATTTATGGGAACACTTACACAGGATGTGTCTTCCTCTATGCCTACTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCCATGGCCTCTTTTCAACAAGCTCAA......................................................................................................................................................................................................................................................................................................................................................................GCTCTTGCAGGAGGTCCGTTGGTTCAAGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTCTTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E699463" ref_strand="+" ref_description="SGN-E699463 [FA10AH06]">
      <seq>cgcctttaaaagggctacctgcggctgaaattttctcaattccaactgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatctccaagctatggcctcttttcaacaagctcaggctctcgcatgaggtccgttggtccaggctcggaattttgctgttatgactggtgttaatgctggcatatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34404" stop="35767"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34697" g_stop="35037" g_length="341"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="342" r_length="342" r_score="0.974"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.992" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="35396" g_stop="35467" g_length="72"/>
          <reference_exon_boundary r_type="cDNA" r_start="343" r_stop="414" r_length="72" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E699463" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>413</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E699463" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34697" e_stop="35037"/>
          <exon e_start="35396" e_stop="35467"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAA-TGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCT</genome_strand>
        <mrna_strand>CGCCTTTAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAACTGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCTCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCATGAGGTCCGTTGGTCCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E705711" ref_strand="+" ref_description="SGN-E705711 [FA27DG03]">
      <seq>gagaaaaagggctacctgcggctgaaattttctcaattccaatgggtgaaggaaagcaaggagctatggtggttgaaatgccaaatagcagcaatcagaatccaatagttcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaactcagaaagaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34400" stop="38727"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34700" g_stop="35037" g_length="338"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="338" r_length="338" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="339" r_stop="454" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="455" r_stop="581" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="582" r_stop="730" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="731" r_stop="793" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="38342" g_stop="38427" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="794" r_stop="879" r_length="86" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E705711" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>879</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E705711" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34700" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38427"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTG</genome_strand>
        <mrna_strand>GAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E407880" ref_strand="+" ref_description="SGN-E407880 [PPI-8-J4]">
      <seq>cagcaatcagaatccaatagctcagttgcagaacaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaaccagtggactacagggtgctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctgctcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctcttgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgtcttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagcattgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagcttgggcggaagttttcgcaaccacctgctgaaatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaagaaaggggttgttgacagacaccactttgcctttactcaccgatagcgctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34488" stop="38389"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34788" g_stop="35037" g_length="250"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="250" r_length="250" r_score="0.980"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <donor d_prob="1.000" 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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="251" r_stop="366" r_length="116" r_score="0.983"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="367" r_stop="493" r_length="127" r_score="0.984"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="494" r_stop="642" r_length="149" r_score="0.953"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="0.92"/>
            <acceptor a_prob="0.999" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="38177" g_stop="38181" g_length="5"/>
          <reference_exon_boundary r_type="cDNA" r_start="643" r_stop="647" r_length="5" r_score="0.800"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E407880" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>647</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E407880" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34788" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38181"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAA-AAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTC</genome_strand>
        <mrna_strand>CAGCAATCAGAATCCAATAGCTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACCAGTGGACTACAGGGTGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTGCTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTTGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTCTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCATTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGGCGGAAGTTTTCGCAACCACCTGCTGAA-ATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAGAAAGGGGTTGTTGACAGACACCACTTTGCCTTTACTCACCGATAG.........................................................................................CGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E698669" ref_strand="+" ref_description="SGN-E698669 [FA07AH05]">
      <seq>ccggttcaagtttaaggaattggaaatcggcttcaaagggtggttatcgaagcagtcaattccagttgaagctgctgtggtgacagcaactagtggactacagggggctgctattggtggatttatgggaacgcttacacaggatgtgtcttcctctatgcctattcctcctgctggtgctaatctcaatccccaagctatggcctcttttcaacaagctcaggctctcgcaggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaactccagaaagaaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="34516" stop="38752"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34815" g_stop="35037" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="223" r_length="223" r_score="0.982"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358">
            <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="35396" g_stop="35511" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="224" r_stop="339" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="340" r_stop="466" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="467" r_stop="615" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="616" r_stop="678" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="38342" g_stop="38452" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="679" r_stop="791" r_length="113" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E698669" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>789</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E698669" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34815" e_stop="35037"/>
          <exon e_start="35396" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38452"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAGGTACTTTTCTTATTAGTACTATAGTTTTGTTTATTCTAAAGCATTGCTCAAAGTTATTGTTGAGAGTCATTCTCTATTTTCGTATCAGTAGGTTTTTTTCCCTAGAATTTAGGAGCTTATCATATGCTTATTTATTGTGTTTTTCCCGGATTTTCTATCGTTCTCTGTAGTCATGTATATAATCTCTGAACTATCAGGACAGATCATAAAGCTTAAATCTTTTTTATCTATTTCTTTTGTCTTTTAAAATGCATGTTGTTAGTCAACGTTTAGTACTTCAAGGTGGAATATTTAAGATTTGACAAGGCTAACTTATGAATTATGATGGATAAGCAACGTAATTGAAATTTTGGTTCAGGCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACT-CAGAAAG-AAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTAT</genome_strand>
        <mrna_strand>CCGGTTCAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG......................................................................................................................................................................................................................................................................................................................................................................GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCCAGAAAGAAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E347963" ref_strand="+" ref_description="SGN-E347963 [cTOF-31-P9]">
      <seq>caggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaactcagaaagaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttatgtttttatgatgttccagtgaactaggttattatggaacttctttgagtgtaagttcttgccatcagataacaaggcagacatgctatttatcgagtttgagctagaaacatcagattttgtccactaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="35103" stop="38879"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35403" g_stop="35511" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="109" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="236" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="237" r_stop="385" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" 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="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="386" r_stop="448" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" 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="38342" g_stop="38597" g_length="256"/>
          <reference_exon_boundary r_type="cDNA" r_start="449" r_stop="705" r_length="257" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E347963" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>704</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E347963" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35403" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38597"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACATCAGA-TTTGTCCACTATTTTAAAGAAAAAGAAAA</genome_strand>
        <mrna_strand>CAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACATCAGATTTTGTCCACTAAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E343727" ref_strand="+" ref_description="SGN-E343727 [cTOF-20-D4]">
      <seq>caggaggtccgttggttcaggctcggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaactcagaaagaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttatgtttttatgatgttccagtgaactaggttattatggaacttctttgagtgtaagttcttgccatcagataacaaggcagacatgctatttatcgagtttgagctagaaacatcagatttgtccactaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="35103" stop="38879"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35403" g_stop="35511" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="109" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="236" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="237" r_stop="385" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" 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="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="386" r_stop="448" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" 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="38342" g_stop="38580" g_length="239"/>
          <reference_exon_boundary r_type="cDNA" r_start="449" r_stop="687" r_length="239" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E343727" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>687</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E343727" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35403" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38580"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACATCAGATTTGTCCACTAT</genome_strand>
        <mrna_strand>CAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACATCAGATTTGTCCACTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E266602" ref_strand="+" ref_description="SGN-E266602 [cLEI-5-A3]">
      <seq>cggaattttgctgttatgactggtgttaatgctggcatatcttgtgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="35126" stop="38389"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35426" g_stop="35511" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="86" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="87" r_stop="213" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="214" r_stop="362" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="38177" g_stop="38181" g_length="5"/>
          <reference_exon_boundary r_type="cDNA" r_start="363" r_stop="367" r_length="5" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E266602" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>367</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E266602" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35426" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38181"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTC</genome_strand>
        <mrna_strand>CGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E573159" ref_strand="-" ref_description="SGN-E573159 [32426]">
      <seq>gctgttatgactggtgttaatgctggcatatcttgtgtcttgaaaagaattagaggccaaggaagatgtgcagtccagtatggcagctgcctttggttctggagcattgttttcactagttagcggcatgggtggcccaaatccaatacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagcttgggcggaagttttcgcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaagaaagggttgttgacagacaccactttgcctttactcaccgatagtgctcttagagatgtgaggatccctcctgggccaaggcttcttattcttgatcatatacaaagggatccggaactcagaaagaagcgaggatgaactcactacaaaaaatgaagttttcctttgagggaaagacctgttctgtaatttgagaagtagtgacagtttcatgttatgtttttataatgttccgatgaactaggctattatggaacttcttttgagtgtaagatcttgccatcagataagaaggcagacatgctatttatcgagtttttgagctagaaacatcagatttgtacactatttggaagaaaaagaaaaattagtgtcattttgccctcgtgccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="35135" stop="38905"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35435" g_stop="35511" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="78" r_length="78" r_score="0.961"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" d_score="0.94"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="79" r_stop="205" r_length="127" r_score="0.976"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="206" r_stop="354" r_length="149" r_score="0.973"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="355" r_stop="417" r_length="63" r_score="0.984"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="38342" g_stop="38605" g_length="264"/>
          <reference_exon_boundary r_type="cDNA" r_start="418" r_stop="684" r_length="267" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E573159" ref_strand="-">
        <total_alignment_score>0.951</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="0.969" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E573159" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="35435" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38605"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGG-CAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTC-TTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAG--TTTGAGCTAGAAACATCAGATTTGTCCACTATTTTAAAGAAAAAGAAAAATTAGAGT</genome_strand>
        <mrna_strand>GCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTCTTGAAAAGAATTAGAGGCCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCATTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAATACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGGGCGGAAGTTTTCGCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAGAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACCGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGGCTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAGCGAGGATGAACTCACTACAAAAAATGAAGTTTTCCTTTGAGGGAAAGACCTGTTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATAATGTTCCGATGAACTAGGCTATTATGGAACTTCTTTTGAGTGTAAGATCTTGCCATCAGATAAGAAGGCAGACATGCTATTTATCGAGTTTTTGAGCTAGAAACATCAGATTTGTACACTATTTGGAAGAAAAAGAAAAATTAGTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E370975" ref_strand="+" ref_description="SGN-E370975 [TUS-29-D15](-)">
      <seq>tgttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaactcagaaagaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttatgtttttatgatgttccagtgaactaggttattatggaacttctttgagtgtaagttcttgccatcagataacaaggcagacatgctatttatcgagtttgagctagaaacaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="35170" stop="38868"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35470" g_stop="35511" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="169" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="318" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" 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="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="319" r_stop="381" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" 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="38342" g_stop="38571" g_length="230"/>
          <reference_exon_boundary r_type="cDNA" r_start="382" r_stop="611" r_length="230" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E370975" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>611</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E370975" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35470" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38571"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACATCAGATTT</genome_strand>
        <mrna_strand>TGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E370976" ref_strand="+" ref_description="SGN-E370976 [TUS-29-D15]">
      <seq>gttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaactcagaaagaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttatgtttttatgatgttccagtgaactaggttattatggaacttctttgagtgtaagttcttgccatcagataacaaggcagacatgctatttatcgagtttgagctagaaacaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="35171" stop="38868"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35471" g_stop="35511" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="41" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="168" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="317" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" 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="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="318" r_stop="380" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" 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="38342" g_stop="38562" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="381" r_stop="601" r_length="221" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="602" polyA_stop="611"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E370976" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>601</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E370976" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35471" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38562"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAAC</genome_strand>
        <mrna_strand>GTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E280272" ref_strand="+" ref_description="SGN-E280272 [cLER-1-C21]">
      <seq>gttttgaaaagaattagaggcaaggaagatgtgcagtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggattttctttgcccttgttcaaggtggactgtttgagctcgggcggaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaactcagaaagaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="35171" stop="38752"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35471" g_stop="35511" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="41" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711">
            <donor d_prob="0.872" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="168" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="1.00"/>
            <acceptor a_prob="0.887" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="317" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" 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="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="318" r_stop="380" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" 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="38342" g_stop="38452" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="381" r_stop="491" r_length="111" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E280272" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E280272" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35471" e_stop="35511"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38452"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAGGTAAGCCTGTTTTTACTGGATTCCTGATGGACAAAATTTGCCAGTCAGGTTGATAATCAGGCGTATTAACTACGTAAAGCGTCTTAAGTAGTTAGTTGACCATTTCGATCTTTAGTCATTGATTTTGCTCAAGTTCTTGTTTATACTCTTCGAAGTTTCCTACTTGTTTGGGATTGGGACATATTCTTGTCTACACATTTTTGTATCCTCTATAGATTAGACATTCAGAAGCCAATCCACGCCTGCTATAGTTGTATAAATATGATTAAGAACATGGAAACAGCCTTTCACTCTCCAGAAAGAGGACATGCTTTTCAAATTTGGTTCTCACTTAAGTATTACAGTAGCCTTGCTCTTGTTAAAGTTCTTGCATCCATTTCCAATTGCACATTTAGCTTTCCTTCTTGACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTAT</genome_strand>
        <mrna_strand>GTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E280273" ref_strand="+" ref_description="SGN-E280273 [cLER-1-C21](-)">
      <seq>agtccagtatggcagctgcctttggttctggagctctgttttcactagttagcggcatgggtggcccaaatccagtacccaatgctttgacatctgggatcttctttgcccttgttcaaggtggcctgtttgagctcgggcgcaagttttctcaaccacctgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaattctcaaaaaagggttgttgacagacaccactctgcctttactcactgatagtgctcttacacatgtgaggatccctcctgggccaagacttcttattcttgatcatacccaaagggttccggaactcagaaagaaacgaggatgaactcactgcaaaagattaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttatgtttctatgatgttccagtgaactaggttattatggaacttctttgagtgtaagttcttgccatcagatatcaaggcagacatgctatttatcgagtttcagctagaaccaaacaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="35918" stop="38863"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35918" g_stop="35923" g_length="6"/>
          <reference_exon_boundary r_type="cDNA" r_start="2" r_stop="7" r_length="6" r_score="0.667"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35924" i_stop="36222" i_length="299">
            <donor d_prob="0.728" 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="36223" g_stop="36349" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="8" r_stop="134" r_length="127" r_score="0.984"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589">
            <donor d_prob="0.674" d_score="0.96"/>
            <acceptor a_prob="0.887" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="37939" g_stop="38087" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="135" r_stop="284" r_length="150" r_score="0.973"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="0.94"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="285" r_stop="347" r_length="63" r_score="0.937"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="38342" g_stop="38562" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="348" r_stop="568" r_length="221" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="569" polyA_stop="579"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E280273" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>566</cumulative_length_of_scored_exons>
        <coverage percentage="0.978" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E280273" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35918" e_stop="35923"/>
          <exon e_start="36223" e_stop="36349"/>
          <exon e_start="37939" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38562"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACTAGGTAAAGCAAACCTGGTTTCAATTTATGCCATTCACTGGAACCTACAAAGTTCTTTACTGCAGACACCTCTATGTTTATAACTTCTTCATTTTAAAACACATAGCAGAGTGGATGTCCTCGATTTAACACTTCAATGATAACAAATATATCCCAAATGGACATTCTGTTTTCTTTTTGAACCTTAAACTTTCTTTTTCCTTTTTGATCCACTTCCTTCACCATCCACTCTTTCACAACCTCGTTGAGTTCACATTTGTTGTATCCTGTAGCTGTTGGAGATTAATAATTTCTTTTTGCAGTATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAGGTAATATTGAAGTAAAATGGTATACAATGACGCACTCAAGCCCCCCTCCTCCACCCCACCCCCCGAGAGGCAGAAACTTCCATTTCTGGTGAACGGCCAGTTTATTTCTAATAACGTGATGATATGAACGTGTTTACCTATGTATAGAAAATTATTTGCATGCAACCCCTGGTTTGTGTTGTTTTGAGTTCCTTTTGTTTTTCACCTTTTATTTTCTGTTGTAGTTTGGTTCGATCCAGTGCTCTCTATTCTCATACTGTTAAACTTGTCTGTCTGATATTACCTTTTATTTTCTGTTGTAGTTTGGTTAAATCCACTACTCTCTATTCTCATACCATTCAACTTGTCTGTCTAATATTATGTCAATTCCATAGTCACATTGTCTTGTTGTTTGTCATCCGTCTCAAATTTTGACTTGGTTTCTTATTTATTCCAATAATAAACATATTCATTTTGTTTTTTTTCAGAATATTTCTACGTAAATTTATGTGTTAAATTAGGTCTTAGACCTAACTCACACCCCAAGAGTTATCTCAAAGGGAGGAGGATTGTTCAAGCCTTATAAGGAGTCCACCCATGTTATTAACTACCGATGTGGGACTTTTTTGTCATTCTTTAACACCCCACCTCACGCTCAGTTCTTTAACATCCGGTGCGTGGGCAATTTTGATTTTGTACTCCTTTGTCTCATATGACTTTTCCACATTACTAAAAAAATCTGTTTCAAATTACTTGTCAATTTACAAAACCAAGATATAATTAATTTTTTTCCCATTTTGCACTTGAATTATTCCTTTTTGAAAGTATAATATAGTTAAGTTCCAAAAATTTCCTCAACTTTTAGTATTGGTATTGATGGTTAAGGCACATAAATATAGAGTGTATTAAAAAGAGTTGAAGCAAAGAGTTGAAGCATAAATTAGTAAAAGTACCTTTCTTATTTATGATTTCTTAAAGGTCATGTAAAGGGGTAAGTAGACAAGTAATATGGGACAGAGGGAGTACATCAGAACTGAGAACCAAAATTTGTGATTTCAATGTTTTCTTTGAACACAGTGGAATTGGATTCCTAAAATGTGCGATACGAATACGTATTTCTTCTTTTTTGATGATTAAACTGGTCTGTTCAGCAATATCGGAATATTTTCAGTTGTCTCTGTGTTATGTCTCTCCCCCCTCCCGCTTTTAAAGGTAGAGTTATGGGAAGTTAACAGTTGTTTTAAAGGTAGAGTAATATGGAAAGTTAACAGTTGGCGGGTGTATTAAAGTAGAAACTGTTTTTGAATGAGTACTTCAAATAAAAGCTCCAGTTAAACCCGATCAGGCCTAGGGTATTTAAGTCCTCAATAGAGTTTAGGGACCAATCAGACATGTATAACCACTGTGTTACTTTATTGTTGCTTTGATGTCCATCAGCTTTGAAGATTGATTGAGAATTCTGATATGAAGAAACTTTTCAGGACGGAGGATAGGAAAAATACCAGTTATCCTTCCCTGTTGGCACCTAGCTTTTGATTGATGTTGAATAGTGAATTTCCAACATCGATATGTCATGGTCGTTAAAAGCTTCTCTTGTTGTGTTCATGCAGCTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATT-TCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAAC</genome_strand>
        <mrna_strand>GTCCAG...........................................................................................................................................................................................................................................................................................................TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATCTTCTTTGCCCTTGTTCAAGGTGGCCTGTTTGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCGGGCGCAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTCTCAAAAAAGGGTTGTTGACAGACACCACTCTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTACACATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATACCCAAAG......................................................................................................GGTTCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATTAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTCTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATATCAAGGCAGACATGCTATTTATCGAGTTTCAGCTAGAACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E559934" ref_strand="-" ref_description="SGN-E559934 [19509]">
      <seq>tgctgaagatacgcattatgtcagaacgagatcactattgtcaagccttggcctgcaaaattatgaaaagaatttcaagaaagggttgttgacagacaccactttgcctttactcaccgatagtgctcttagagatgtgaggatccctcctgggccaaggcttcttattcttgatcatatacaaagggatccggaactcagaaagaagcgaggatgaactcactacaaaaaatgaagttttcctttgtgggaaagacctgttctgtaatttgagaagtagtgacagtttcatgttatgtttttataatgttccgatgaataggctattatggacttcttttgagtgtaagatcttgccatcagataagaaggcagacatgctatttatcgagtttttgagctagaaacatcagatttgtccactattttaaagaaaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="37665" stop="38893"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="37965" g_stop="38087" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="123" r_length="123" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="124" r_stop="186" r_length="63" r_score="0.984"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="38342" g_stop="38593" g_length="252"/>
          <reference_exon_boundary r_type="cDNA" r_start="187" r_stop="439" r_length="253" r_score="0.925"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E559934" ref_strand="-">
        <total_alignment_score>0.950</total_alignment_score>
        <cumulative_length_of_scored_exons>438</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E559934" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="37965" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38593"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTC-TTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAG--TTTGAGCTAGAAACATCAGATTTGTCCACTATTTTAAAGAAAAAG</genome_strand>
        <mrna_strand>TGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAGAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACCGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGGCTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAGCGAGGATGAACTCACTACAAAAAATGAAGTTTTCCTTTGTGGGAAAGACCTGTTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATAATGTTCCGATGAA-TAGGCTATTATGG-ACTTCTTTTGAGTGTAAGATCTTGCCATCAGATAAGAAGGCAGACATGCTATTTATCGAGTTTTTGAGCTAGAAACATCAGATTTGTCCACTATTTTAAAGAAAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E592719" ref_strand="+" ref_description="SGN-E592719 [35933]">
      <seq>tgggtcagaacgagatcactattgtcaagccttgggctgcaaaattatgaccagaatttcaagaaagggttgttgacagacacacagcttatgccgtttactcaccgatagtgctcttagagatgtgaggatccctacctgggccaatggacttcttattcttgatcatatacaaagggatccggaactcagaaagaagcgaggatgaactcactacaaaaaatgaagtttcctttgtgggaaagacctgttctgtaatttgagaagtagtgacagtttcatgttatgtttttataatgttccgatgaactaggctattatggaacttcttttgagtgtaagatcttgccatcagataagaaggcagacatgctatttatcgagtttttgagctagaacaaagaaacaaaactg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="37684" stop="38851"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="37981" g_stop="38087" g_length="107"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="111" r_length="111" r_score="0.860"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="0.78"/>
            <acceptor a_prob="0.999" a_score="0.87"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="112" r_stop="177" r_length="66" r_score="0.905"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" d_score="0.87"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="38342" g_stop="38547" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="178" r_stop="383" r_length="206" r_score="0.932"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E592719" ref_strand="+">
        <total_alignment_score>0.907</total_alignment_score>
        <cumulative_length_of_scored_exons>376</cumulative_length_of_scored_exons>
        <coverage percentage="0.908" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E592719" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="37981" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACAC-CA-CTT-TGCC-TTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCT-CCTGGGCCAA--GACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTC-TTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGA</genome_strand>
        <mrna_strand>TGGGTCAGAACGAGATCACTATTGTCAAGCCTTGGGCTGCAAAATTATGACCAGAATTTCAAGAAAGGGTTGTTGACAGACACACAGCTTATGCCGTTTACTCACCGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTACCTGGGCCAATGGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAGCGAGGATGAACTCACTACAAAAAATGAAG-TTTCCTTTGTGGGAAAGACCTGTTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATAATGTTCCGATGAACTAGGCTATTATGGAACTTCTTTTGAGTGTAAGATCTTGCCATCAGATAAGAAGGCAGACATGCTATTTATCGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E222435" ref_strand="+" ref_description="SGN-E222435 [cLEL-16-C21](-)">
      <seq>tgtcaagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaactcagaaagaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttatgtttttatgatgttccagtgaactaggttattatggaacttctttgagtgtaagttcttgccatcagataacaaggcagacatgctatttatcgagtttgagctagaaaaaaaaacaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="37703" stop="38863"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38003" g_stop="38087" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="85" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" 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="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="86" r_stop="148" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="38342" g_stop="38562" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="149" r_stop="369" r_length="221" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="370" polyA_stop="389"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E222435" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>369</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E222435" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38003" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38562"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAAC</genome_strand>
        <mrna_strand>TGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E344289" ref_strand="+" ref_description="SGN-E344289 [cTOF-16-C12]">
      <seq>aagccttggcctgcaaaattatgaaaagaatttcaaaaaagggttgttgacagacaccactttgcctttactcactgatagtgctcttagagatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaactcagaaagaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttatgtttttatgatgttccagtgaactaggttattatggaacttctttgagtgtaagttcttgccatcagataacaaggcagacatgctatttatcgagtttgagctagaaacatcagatttgtccactattttaaagaaaaagaaaaattagagtgtcgttggggaaatgaagctataaggcataagcttttcccgtagatttcagcaaatagaaacgtgttttctcagatgaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="37707" stop="38989"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38007" g_stop="38087" 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="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" 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="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="82" r_stop="144" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="38342" g_stop="38682" g_length="341"/>
          <reference_exon_boundary r_type="cDNA" r_start="145" r_stop="485" r_length="341" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="486" polyA_stop="497"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E344289" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>485</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344289" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38007" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38682"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACATCAGATTTGTCCACTATTTTAAAGAAAAAGAAAAATTAGAGTGTCGTTGGGGAAATGAAGCTATAAGGCATAAGCTTTTCCCGTAGATTTCAGCAAATAGAAACGTGTTTTCTCAGATG</genome_strand>
        <mrna_strand>AAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACATCAGATTTGTCCACTATTTTAAAGAAAAAGAAAAATTAGAGTGTCGTTGGGGAAATGAAGCTATAAGGCATAAGCTTTTCCCGTAGATTTCAGCAAATAGAAACGTGTTTTCTCAGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E222505" ref_strand="+" ref_description="SGN-E222505 [cLEL-16-C21](-)">
      <seq>tttgcctttactcactgatagtgctcttaaaaatgtgaggatccctcctgggccaagacttcttattcttgatcatatacaaagggatccggaattcagaaaaaacctaggatgaactctctgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgaaaagtagtgacagtttcatgttatgtttttatgatgttccagtgaactaggttattatggaacttctttgagtgtaagttcttgccatcagataacaaggcagacatgctcccccccgagtttgagctagaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="37767" stop="38868"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38067" g_stop="38087" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89">
            <donor d_prob="0.690" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="38177" g_stop="38239" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="84" r_length="63" r_score="0.968"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="38342" g_stop="38562" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="85" r_stop="305" r_length="221" r_score="0.941"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="306" polyA_stop="325"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E222505" ref_strand="+">
        <total_alignment_score>0.947</total_alignment_score>
        <cumulative_length_of_scored_exons>305</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E222505" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38067" e_stop="38087"/>
          <exon e_start="38177" e_stop="38239"/>
          <exon e_start="38342" e_stop="38562"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGCCTTTACTCACTGATAGGCAAGATATATGTTGCACCATCTAACTCTGTTTTTGTTATATGTTTTTCTCACAATTAGATCTCATTCCGTTCTCCTCCTGTTTTGCAGTGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAGGTGAAATAATGTTCTGCGTGAAGTAACTTTCTGTTTAATTAACTGTTCAGTGATGAAAATCCTTAAATTGCTTTTCGGGATTATAATTTTTTTTGGCTGTAGGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAAC</genome_strand>
        <mrna_strand>TTTGCCTTTACTCACTGATAG.........................................................................................TGCTCTTAAAAATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG......................................................................................................GGATCCGGAATTCAGAAAAAACCTAGGATGAACTCTCTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAAAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTCCCCCCCGAGTTTGAGCTAGAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E593601" ref_strand="+" ref_description="SGN-E593601 [36835]">
      <seq>gggatccggaactcagaaagaagcgaggatgaactcactacaaaagatgaagttttcctttgtgggaaagacctgttctgtaatttgagaagtagtgacagtttcatgttatgtttttataatgttccgatgaactaggctattatggaacttcttttgagtgtaagttcttgccatcagttaagaaggcagacatgctatttatcgagtttttgagctagaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="38041" stop="38851"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38341" g_stop="38564" g_length="224"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="227" r_length="227" r_score="0.920"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E593601" ref_strand="+">
        <total_alignment_score>0.920</total_alignment_score>
        <cumulative_length_of_scored_exons>224</cumulative_length_of_scored_exons>
        <coverage percentage="0.987" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E593601" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38341" e_stop="38564"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTC-TTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAG--TTTGAGCTAGAAACAT</genome_strand>
        <mrna_strand>GGGATCCGGAACTCAGAAAGAAGCGAGGATGAACTCACTACAAAAGATGAAGTTTTCCTTTGTGGGAAAGACCTGTTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATAATGTTCCGATGAACTAGGCTATTATGGAACTTCTTTTGAGTGTAAGTTCTTGCCATCAGTTAAGAAGGCAGACATGCTATTTATCGAGTTTTTGAGCTAGAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E297936" ref_strand="+" ref_description="SGN-E297936 [cLET-38-F1]">
      <seq>gaaagaaacgaggatgaactcactgcaaaagatgaagttttcctttgtcggaaagacctattctgtaatttgagaagtagtgacagtttcatgttatgtttttatgatgttccagtgaactaggttattatggaacttctttgagtgtaagttcttgccatcagataacaaggcagacatgctatttatcgagtttgagctcgaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="38056" stop="38868"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38356" g_stop="38562" g_length="207"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="207" r_length="207" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="208" polyA_stop="223"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E297936" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>207</cumulative_length_of_scored_exons>
        <coverage percentage="0.928" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297936" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38356" e_stop="38562"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAAC</genome_strand>
        <mrna_strand>GAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTCGAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E245412" ref_strand="+" ref_description="SGN-E245412 [cLEF-53-H20]">
      <seq>ccaagttgaagttgaaattccgaaaaaaaagtgaagtctcctattaatagaacatgtagcgtaaaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39204" stop="40555"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39504" g_stop="39897" g_length="394"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="394" r_length="394" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40255" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="395" r_stop="544" r_length="150" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E245412" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>544</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E245412" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39504" e_stop="39897"/>
          <exon e_start="40106" e_stop="40255"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAAGTTGAAGTTGAAATTCCGAAAAAAAAGTGAAGTCTCCTATTAATAGAACATGTAGCGTAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGAC</genome_strand>
        <mrna_strand>CCAAGTTGAAGTTGAAATTCCGAAAAAAAAGTGAAGTCTCCTATTAATAGAACATGTAGCGTAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E391543" ref_strand="+" ref_description="SGN-E391543 [TUS-16-I11]">
      <seq>taaaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtccaatcagtccaatattcctctagttgttagggtgtctaagagaaatggacctgctttggagtttggtatcacagcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttatgaaggacctgatttcacggatttgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39265" stop="40759"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39565" g_stop="39897" g_length="333"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="333" r_length="333" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40449" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="334" r_stop="677" r_length="344" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="40531" g_stop="40539" g_length="9"/>
          <reference_exon_boundary r_type="cDNA" r_start="678" r_stop="686" r_length="9" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E391543" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>686</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E391543" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39565" e_stop="39897"/>
          <exon e_start="40106" e_stop="40449"/>
          <exon e_start="40531" e_stop="40539"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGA</genome_strand>
        <mrna_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC.................................................................................GGATTTGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E261577" ref_strand="+" ref_description="SGN-E261577 [cLEG-57-J9]">
      <seq>taaaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggtttgattttccccaattctctttttcatgtcgcagatgaattttaatactattaattaaaatcgcctaattatggattctaccactgatttgtttctgtttttaggtggattttatggaaaattcatgctgtttttagttttaatcaaaaaaatatatatgttactggattagcagattttgtactgttttttcattgtgattgcaggttgaggaggctcctganggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgancaacggtggtgaggatgatgacgaagggtccaatcagtccatattcctctagttgttagggtgtctaagagaaatgggacctgctttggagtttggtatcacagcttttgctgatgagattgctattga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39265" stop="40683"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39565" g_stop="40383" g_length="819"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="820" r_length="820" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E261577" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>819</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E261577" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39565" e_stop="40383"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGA-CAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAAT-GGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGA</genome_strand>
        <mrna_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGANGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGANCAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCC-ATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E261624" ref_strand="+" ref_description="SGN-E261624 [cLEG-57-P18]">
      <seq>taaaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggtttgattttccccaattctctttttcatgtcgcagatgaattttaatactattaattaaaatcgcctaattatggattctaccactgatttgtttctgtttttaggtggattttatggaaaattcatgctgtttttagttttaatcaaaaaaatatatatgttactggattagcagattttgtactgttttttcattgtgattgcaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtcaatcagtccaatattcctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39265" stop="40605"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39565" g_stop="40305" g_length="741"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="740" r_length="740" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E261624" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>741</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E261624" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39565" e_stop="40305"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCT</genome_strand>
        <mrna_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGT-CAATCAGTCCAATATTCCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E261437" ref_strand="+" ref_description="SGN-E261437 [cLEG-57-B22]">
      <seq>taaaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggtttgattttccccaattctctttttcatgtcgcagatgaattttaatactattaattaaaatcgcctaattatggattctaccactgatttgtttctgtttttaggtggattttatggaaaattcatgctgtttttagttttaatcaaaaaaatatatatgttactggattagcagattttgtactgttttttcattgtgattgcaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacnacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39265" stop="40542"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39565" g_stop="40242" g_length="678"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="678" r_length="678" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E261437" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>678</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E261437" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39565" e_stop="40242"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGA</genome_strand>
        <mrna_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACNACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E370017" ref_strand="+" ref_description="SGN-E370017 [TUS-26-D8]">
      <seq>taaaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccaccctttatttttattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggtttgattttccccaattctctttttcatgtcgcagatgaattttaatactattaattaaaatcgcctaattatggattctaccactgatttgtttctgtttttaggtggattttatggaaaattcatgctgtttttagttttaatcaaaaaaatatatatgttactggattagcagattttgtactgttttttcattgtgattgcaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39265" stop="40501"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39565" g_stop="40201" g_length="637"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="637" r_length="637" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E370017" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>637</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E370017" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39565" e_stop="40201"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATA</genome_strand>
        <mrna_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTTATTTTTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E258814" ref_strand="+" ref_description="SGN-E258814 [cLEG-50-F22]">
      <seq>taaaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggtttgattttccccaattctctttttcatgtcgcagatgaattttaatactattaattaaaatcgcctaattatggattctaccactgatttgtttctgtttttaggtggattttatggaaaattcatgctgtttttagttttaatcaaaaaaatatatatgttactggattagcagattttgtactgttttttcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39265" stop="40395"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39565" g_stop="40095" g_length="531"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="531" r_length="531" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E258814" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>531</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E258814" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39565" e_stop="40095"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATT</genome_strand>
        <mrna_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E259006" ref_strand="+" ref_description="SGN-E259006 [cLEG-41-C5]">
      <seq>taaaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggtttgattttccccaattctctttttcatgtcgcagatgaattttaatactattaattaaaatcgcctaattatggattctaccactgatttgtttctgtttttaggtggattttatggaaaattcatgctgtttttagttttaatcaaaaaaatatatatgttactggatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39265" stop="40369"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39565" g_stop="40069" g_length="505"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="505" r_length="505" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E259006" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>505</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E259006" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39565" e_stop="40069"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATT</genome_strand>
        <mrna_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E264223" ref_strand="+" ref_description="SGN-E264223 [cLEG-70-A4]">
      <seq>taaaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39265" stop="40076"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39565" g_stop="39776" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="212" r_length="212" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E264223" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>212</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E264223" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39565" e_stop="39776"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCG</genome_strand>
        <mrna_strand>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E273002" ref_strand="+" ref_description="SGN-E273002 [cLEM-25-D15]">
      <seq>aaccctaaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggaccaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39267" stop="40575"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39567" g_stop="39897" g_length="331"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="331" r_length="331" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40275" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="332" r_stop="502" r_length="171" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E273002" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>501</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E273002" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39567" e_stop="39897"/>
          <exon e_start="40106" e_stop="40275"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGA-CAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGA</genome_strand>
        <mrna_strand>AACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACCAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E209525" ref_strand="+" ref_description="SGN-E209525 [cLEC-54-H7]">
      <seq>taaacccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39272" stop="40500"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39572" g_stop="39897" g_length="326"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="326" r_length="326" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40200" g_length="95"/>
          <reference_exon_boundary r_type="cDNA" r_start="327" r_stop="421" r_length="95" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E209525" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>421</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E209525" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39572" e_stop="39897"/>
          <exon e_start="40106" e_stop="40200"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTAT</genome_strand>
        <mrna_strand>TAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E275656" ref_strand="+" ref_description="SGN-E275656 [cLEN-18-C18]">
      <seq>ccaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39277" stop="40575"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39577" g_stop="39897" g_length="321"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="321" r_length="321" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40275" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="322" r_stop="491" r_length="170" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E275656" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E275656" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39577" e_stop="39897"/>
          <exon e_start="40106" e_stop="40275"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGA</genome_strand>
        <mrna_strand>CCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E719613" ref_strand="+" ref_description="SGN-E719613 [FC08BE05]">
      <seq>gggcgattggcggccaatcggccgaattgaagcctcctcttctccctataccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtccaatcagtccaatattcctctagttgttagggtctctaaaagaaatggacctgctttggagtttggtatcacagcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttacgaaggacctgatttcacggatttggatgagaacctccaaaaggctttccacaagtatctggagattaggggtatcaagcccagcacaaccaacttcttgcatgagtacatggtcaacaaggatagcagagaatacaagatgtggcttaagaatctgaagaaattcatcgaggcataggttccataagttttgattgatgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39279" stop="41014"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39582" g_stop="39897" g_length="316"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="348" r_length="316" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40449" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="349" r_stop="692" r_length="344" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="40531" g_stop="40714" g_length="184"/>
          <reference_exon_boundary r_type="cDNA" r_start="693" r_stop="876" r_length="184" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E719613" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>844</cumulative_length_of_scored_exons>
        <coverage percentage="0.963" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E719613" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39582" e_stop="39897"/>
          <exon e_start="40106" e_stop="40449"/>
          <exon e_start="40531" e_stop="40714"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTT</genome_strand>
        <mrna_strand>CCTCCTCTTCTCCCTATACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTCTCTAAAAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTACGAAGGACCTGATTTCAC.................................................................................GGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E722632" ref_strand="+" ref_description="SGN-E722632 [FC17DD09]">
      <seq>agggcgattggcggccaatcggccgaattaagcctcctcttctccttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtccaatcagtccaatattcctctagttgttagggtctctaagagaaatggacctgctttggagtttggtatcacagcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttacgaaggacctgatttcacggatttggatgagaacctccaaaaggctttccacaagtatctggagattaggggtatcaagcccagcacaaccaacttcttgcatgagtacatggtcaacaaggatagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39279" stop="40939"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39582" g_stop="39897" g_length="316"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="348" r_length="316" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40449" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="349" r_stop="692" r_length="344" r_score="0.994"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="40531" g_stop="40639" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="693" r_stop="801" r_length="109" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E722632" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>769</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E722632" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39582" e_stop="39897"/>
          <exon e_start="40106" e_stop="40449"/>
          <exon e_start="40531" e_stop="40639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGC</genome_strand>
        <mrna_strand>CCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTCTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTACGAAGGACCTGATTTCAC.................................................................................GGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E618932" ref_strand="+" ref_description="SGN-E618932 [69616]">
      <seq>ctttaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaagggctgtacccttggctgctcgggtgatctgtagaacacagagctaccatcatcgatcctctgctctcttatccaccgtagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtccttcagtccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttccccttcgagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggtgaatctattaatgtcgaagttcacatgccggaccttgttaccggtgatgaagatgagaatgacaacgatcgtgaccaccctgataacgaaggggccaatcagtcccaaattcctctagttgttagggtgtctaagaagaatgggccatctttggagtttggtatcacttcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttatgaaggacctgatttcacggatttggatgagaacctccaaaaggctttccacaagtatctggagattaggggtatcaagcccagcacaagcaacttcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39299" stop="40912"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39594" g_stop="39897" g_length="304"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="291" r_length="291" r_score="0.931"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40449" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="292" r_stop="638" r_length="347" r_score="0.919"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="40531" g_stop="40612" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="639" r_stop="720" r_length="82" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E618932" ref_strand="+">
        <total_alignment_score>0.932</total_alignment_score>
        <cumulative_length_of_scored_exons>730</cumulative_length_of_scored_exons>
        <coverage percentage="1.014" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E618932" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39594" e_stop="39897"/>
          <exon e_start="40106" e_stop="40449"/>
          <exon e_start="40531" e_stop="40612"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGA---TGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTG</genome_strand>
        <mrna_strand>CTT-TACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGG---G---CT---GT---ACCCTTGGCTGCTCGGGTGATCTGTAGAACACAGAGCTACCATCATCGATCCTCTGCTCTCTTATCCACCGTAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCCTTCAGTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTTCGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGTGAATCTATTAATGTCGAAGTTCACATGCCGGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGATCGTGACCACCCTGATAACGAAGGGGCCAATCAGTCCCAAATTCCTCTAGTTGTTAGGGTGTCTAAGAAGAATGGGCCATCTTTGGAGTTTGGTATCACTTCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC.................................................................................GGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAAGCAACTTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E561879" ref_strand="+" ref_description="SGN-E561879 [19984]">
      <seq>cgctctaaactatggatcccccgggctgcaggcttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaagggctgtacccttggctgctcgggtgatctgtagaacacagagctaccatcatcgatcctctgctctcttatccaccgtagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtccttcagtccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttccccttcgagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggtgaatctattaatgtcgaagttcacatgccggaccttgttaccggtgatgaagatgagaatgacaacgatcgtgaccaccctgataacgaaggggccaatcagtcccaaattcctctagttgttagggtgtctaagaagaatgggccatctttggagtttggtatcacttcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttatgaaggacctgatttcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39294" stop="40749"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39594" g_stop="39897" g_length="304"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="324" r_length="292" r_score="0.938"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40449" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="325" r_stop="671" r_length="347" r_score="0.919"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E561879" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>648</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E561879" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39594" e_stop="39897"/>
          <exon e_start="40106" e_stop="40449"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGA---TGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC</genome_strand>
        <mrna_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGG---G-----C----TGTACCCTTGGCTGCTCGGGTGATCTGTAGAACACAGAGCTACCATCATCGATCCTCTGCTCTCTTATCCACCGTAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCCTTCAGTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTTCGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGTGAATCTATTAATGTCGAAGTTCACATGCCGGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGATCGTGACCACCCTGATAACGAAGGGGCCAATCAGTCCCAAATTCCTCTAGTTGTTAGGGTGTCTAAGAAGAATGGGCCATCTTTGGAGTTTGGTATCACTTCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E456681" ref_strand="+" ref_description="SGN-E456681 [cSTS-30-A8]">
      <seq>cttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcataagaaggactgtacccttggctgctcgggtgatctgtagaacacagagctaccatcatcgatcctctgctctcttatccaccgtagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtccttcagtccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttccccttcgagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggtgaatctattaatgtcgaagttcacatgccggaccttgttaccggtgatgaagatgagaatgacaacgatcgtgaccaccctgataacgaaggggccaatcagtcccaaattcctctagttgttagggtgtctaagaagaatgggccatctttggagttttgtatcacatcttttgctgatgagattgctattgacactttgtcaatcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39294" stop="40698"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39594" g_stop="39897" g_length="304"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="292" r_length="292" r_score="0.934"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40398" g_length="293"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="588" r_length="296" r_score="0.904"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E456681" ref_strand="+">
        <total_alignment_score>0.920</total_alignment_score>
        <cumulative_length_of_scored_exons>597</cumulative_length_of_scored_exons>
        <coverage percentage="1.015" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E456681" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39594" e_stop="39897"/>
          <exon e_start="40106" e_stop="40398"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGA---TGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAA</genome_strand>
        <mrna_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATAAGAAGGA--------C----TGTACCCTTGGCTGCTCGGGTGATCTGTAGAACACAGAGCTACCATCATCGATCCTCTGCTCTCTTATCCACCGTAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCCTTCAGTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTTCGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGTGAATCTATTAATGTCGAAGTTCACATGCCGGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGATCGTGACCACCCTGATAACGAAGGGGCCAATCAGTCCCAAATTCCTCTAGTTGTTAGGGTGTCTAAGAAGAATGGGCCATCTTTGGAGTTTTGTATCACATCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E454174" ref_strand="+" ref_description="SGN-E454174 [cSTS-22-K6]">
      <seq>cttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgtacccctggctgctcgggtgatctgtagaacacagagctaccatcatcgatcctctgctctcttatccaccgtagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactccttaaagtccttcagtccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttccccttcgagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggtgaatctattaatgtcgaagttcacatgcccgaccttgttactggtgatgaagatgagaatgacaacgatcgtgaccaccctgataacgaaggggccaatcagtcccaaattccttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39294" stop="40566"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39594" g_stop="39897" g_length="304"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="292" r_length="292" r_score="0.931"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40305" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="495" r_length="203" r_score="0.885"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E454174" ref_strand="+">
        <total_alignment_score>0.913</total_alignment_score>
        <cumulative_length_of_scored_exons>504</cumulative_length_of_scored_exons>
        <coverage percentage="1.018" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E454174" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39594" e_stop="39897"/>
          <exon e_start="40106" e_stop="40305"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGA---TGATGACGAAGGGTCCAATCAGTCCAATATTCCTCT</genome_strand>
        <mrna_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGA--------C----TGTACCCCTGGCTGCTCGGGTGATCTGTAGAACACAGAGCTACCATCATCGATCCTCTGCTCTCTTATCCACCGTAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTTAAAGTCCTTCAGTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTTCGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGTGAATCTATTAATGTCGAAGTTCACATGCCCGACCTTGTTACTGGTGATGAAGATGAGAATGACAACGATCGTGACCACCCTGATAACGAAGGGGCCAATCAGTCCCAAATTCCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E437767" ref_strand="+" ref_description="SGN-E437767 [cSTA-4-P18]">
      <seq>cttaaaccctaaattatctacctctgcgaaaatggctgtcactaacatcatcagaaggactgtacccttggctgctcgggtgatctgtagaacacagagctaccatcatcgatcctctgctctcttatccaccgtagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtccttcagtccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttccccttcgagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggtgaatctattaatgtcgaagttcacatgcccgaccttgttactggtgatgaagatgagaatgacaacgatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39294" stop="40561"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39594" g_stop="39897" g_length="304"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="292" r_length="292" r_score="0.934"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40262" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="449" r_length="157" r_score="0.936"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E437767" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>461</cumulative_length_of_scored_exons>
        <coverage percentage="1.027" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E437767" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39594" e_stop="39897"/>
          <exon e_start="40106" e_stop="40262"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTG</genome_strand>
        <mrna_strand>CTTAAACCCTAAATTATCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGA--------C----TGTACCCTTGGCTGCTCGGGTGATCTGTAGAACACAGAGCTACCATCATCGATCCTCTGCTCTCTTATCCACCGTAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCCTTCAGTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTTCGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGTGAATCTATTAATGTCGAAGTTCACATGCCCGACCTTGTTACTGGTGATGAAGATGAGAATGACAACGATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E439265" ref_strand="+" ref_description="SGN-E439265 [cSTA-11-D7]">
      <seq>cttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgtacccctggctgctccggtgatctgtataacacagagctaccatcatcgatcctctgctctcttattcaccgtagataaccgtactgctgcttctagaaacttctttcggagctcatcaccgaccacccttcatttctattctaccaagaggcccacttctgatgaatcactccttaaagtccttcactccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttccccttcgagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggcgcatctattaatgtcgaagttcacatgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39294" stop="40521"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39594" g_stop="39897" g_length="304"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="292" r_length="292" r_score="0.901"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.90"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40221" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="408" r_length="116" r_score="0.931"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E439265" ref_strand="+">
        <total_alignment_score>0.910</total_alignment_score>
        <cumulative_length_of_scored_exons>420</cumulative_length_of_scored_exons>
        <coverage percentage="1.029" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E439265" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39594" e_stop="39897"/>
          <exon e_start="40106" e_stop="40221"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCC</genome_strand>
        <mrna_strand>CTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGA--------C----TGTACCCCTGGCTGCTCCGGTGATCTGTATAACACAGAGCTACCATCATCGATCCTCTGCTCTCTTATTCACCGTAGATAACCGTACTGCTGCTTCTAGAAACTTCTTTCGGAGCTCATCACCGACCACCCTTCATTTCTATTCTACCAAGAGGCCCACTTCTGATGAATCACTCCTTAAAGTCCTTCACTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTTCGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGCGCATCTATTAATGTCGAAGTTCACATGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E560378" ref_strand="+" ref_description="SGN-E560378 [20023]">
      <seq>ttanaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgtacccctggctgctcgggtgatctgtagaacacagagctaccatcatcgatcctctgctctcttatccaccgtagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactccttaaagtccttcagtccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttccccttcgagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggtgaatctattaatgtcgaagttcacatgcccgaccttgttactggtgatgaagatgagaatgacaacgatcgtgaccaccctgataacgaaggggccaatcagtcccaaattcctttagttgttagggtgtctaagaagaatgggccatctttggagtttggtatcacatcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttatgaaggacctgatttcacggatttggatgagaacct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39295" stop="40848"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39595" g_stop="39897" g_length="303"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="291" r_length="291" r_score="0.927"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40449" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="292" r_stop="638" r_length="347" r_score="0.916"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="40531" g_stop="40548" g_length="18"/>
          <reference_exon_boundary r_type="cDNA" r_start="639" r_stop="656" r_length="18" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E560378" ref_strand="+">
        <total_alignment_score>0.921</total_alignment_score>
        <cumulative_length_of_scored_exons>665</cumulative_length_of_scored_exons>
        <coverage percentage="1.014" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E560378" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39595" e_stop="39897"/>
          <exon e_start="40106" e_stop="40449"/>
          <exon e_start="40531" e_stop="40548"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGA---TGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCT</genome_strand>
        <mrna_strand>TTANACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGA--------C----TGTACCCCTGGCTGCTCGGGTGATCTGTAGAACACAGAGCTACCATCATCGATCCTCTGCTCTCTTATCCACCGTAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTTAAAGTCCTTCAGTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTTCGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGTGAATCTATTAATGTCGAAGTTCACATGCCCGACCTTGTTACTGGTGATGAAGATGAGAATGACAACGATCGTGACCACCCTGATAACGAAGGGGCCAATCAGTCCCAAATTCCTTTAGTTGTTAGGGTGTCTAAGAAGAATGGGCCATCTTTGGAGTTTGGTATCACATCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC.................................................................................GGATTTGGATGAGAACCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E557253" ref_strand="+" ref_description="SGN-E557253 [16024]">
      <seq>ttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaagggctgtacccttggctgctcgggtgatctgtagaacacagagctaccatcatcgatcctctgctctcttatccaccgtagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtccttcagtccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttccccttcgagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggtgaatctattaatgtcgaagttcacatgccggaccttgttaccggtgatgaagatgagaatgacaacgatcgtgaccaccctgataacgaaggggccaatcagtcccaaattcctctagttgttagggtgtctaagaagaatgggccatctttgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39295" stop="40643"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39595" g_stop="39897" g_length="303"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="291" r_length="291" r_score="0.937"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40343" g_length="238"/>
          <reference_exon_boundary r_type="cDNA" r_start="292" r_stop="532" r_length="241" r_score="0.891"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E557253" ref_strand="+">
        <total_alignment_score>0.917</total_alignment_score>
        <cumulative_length_of_scored_exons>541</cumulative_length_of_scored_exons>
        <coverage percentage="1.017" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E557253" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39595" e_stop="39897"/>
          <exon e_start="40106" e_stop="40343"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGA---TGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGG</genome_strand>
        <mrna_strand>TTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGG---G-----C----TGTACCCTTGGCTGCTCGGGTGATCTGTAGAACACAGAGCTACCATCATCGATCCTCTGCTCTCTTATCCACCGTAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCCTTCAGTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTTCGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGTGAATCTATTAATGTCGAAGTTCACATGCCGGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGATCGTGACCACCCTGATAACGAAGGGGCCAATCAGTCCCAAATTCCTCTAGTTGTTAGGGTGTCTAAGAAGAATGGGCCATCTTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E299922" ref_strand="+" ref_description="SGN-E299922 [cLEW-11-A5]">
      <seq>ttaaaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggacctgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39295" stop="40554"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39595" g_stop="39897" g_length="303"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="304" r_length="304" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40254" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="305" r_stop="453" r_length="149" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E299922" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E299922" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39595" e_stop="39897"/>
          <exon e_start="40106" e_stop="40254"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGA-CTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGA</genome_strand>
        <mrna_strand>TTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACCTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E236067" ref_strand="+" ref_description="SGN-E236067 [cLED-16-B18]">
      <seq>ttaaaccctaaattctctacctgtgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccggagggctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaagcccagttctgatgaatcactcctcaaagtcattcagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39295" stop="40156"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39595" g_stop="39856" g_length="262"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="262" r_length="262" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E236067" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>262</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E236067" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39595" e_stop="39856"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGT</genome_strand>
        <mrna_strand>TTAAACCCTAAATTCTCTACCTGTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGGAGGGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAAGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E282494" ref_strand="+" ref_description="SGN-E282494 [cLER-18-G8]">
      <seq>taaaccctatattctctacctatgtgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39296" stop="40575"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39596" g_stop="39897" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="302" r_length="302" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40275" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="303" r_stop="472" r_length="170" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E282494" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>472</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282494" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39596" e_stop="39897"/>
          <exon e_start="40106" e_stop="40275"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGA</genome_strand>
        <mrna_strand>TAAACCCTATATTCTCTACCTATGTGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E284715" ref_strand="+" ref_description="SGN-E284715 [cLES-3-F12]">
      <seq>taaactctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39296" stop="40490"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39596" g_stop="39897" g_length="302"/>
          <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="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40190" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="303" r_stop="387" r_length="85" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E284715" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>387</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E284715" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39596" e_stop="39897"/>
          <exon e_start="40106" e_stop="40190"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAG</genome_strand>
        <mrna_strand>TAAACTCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E207050" ref_strand="+" ref_description="SGN-E207050 [cLEC-30-E4]">
      <seq>aaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39298" stop="40555"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39598" g_stop="39897" g_length="300"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="300" r_length="300" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40255" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="301" r_stop="450" r_length="150" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E207050" ref_strand="+">
        <total_alignment_score>1.000</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="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E207050" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39598" e_stop="39897"/>
          <exon e_start="40106" e_stop="40255"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGAC</genome_strand>
        <mrna_strand>AACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E215064" ref_strand="+" ref_description="SGN-E215064 [cLEC-78-K10]">
      <seq>aaccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39298" stop="40542"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39598" g_stop="39897" g_length="300"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="300" r_length="300" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40242" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="301" r_stop="437" r_length="137" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E215064" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>437</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E215064" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39598" e_stop="39897"/>
          <exon e_start="40106" e_stop="40242"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGA</genome_strand>
        <mrna_strand>AACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E348652" ref_strand="+" ref_description="SGN-E348652 [cTOF-30-D9]">
      <seq>ccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtccaatcagtccaatattcctctagttgttagggtgtctaagagaaatggacctgctttggagtttggtatcacagcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttatgaaggacctgatttcacggatttggatgagaacctncaaaagctttccacaagtatctggagattaggggtatcaagcccagcacaaccaacttcttgcatgagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39300" stop="40919"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39600" g_stop="39897" g_length="298"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="298" r_length="298" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40449" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="299" r_stop="642" r_length="344" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="40531" g_stop="40619" g_length="89"/>
          <reference_exon_boundary r_type="cDNA" r_start="643" r_stop="730" r_length="88" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E348652" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>731</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348652" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39600" e_stop="39897"/>
          <exon e_start="40106" e_stop="40449"/>
          <exon e_start="40531" e_stop="40619"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGT</genome_strand>
        <mrna_strand>CCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC.................................................................................GGATTTGGATGAGAACCTNCAAAA-GCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E346142" ref_strand="+" ref_description="SGN-E346142 [cTOF-34-A11]">
      <seq>ccctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtccaatcagtccaatattcctctagttgttagggtgtctaagagaaatggacctgctttggagtttggtatcacagcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39300" stop="40733"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39600" g_stop="39897" g_length="298"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="298" r_length="298" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40433" g_length="328"/>
          <reference_exon_boundary r_type="cDNA" r_start="299" r_stop="626" r_length="328" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E346142" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>626</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E346142" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39600" e_stop="39897"/>
          <exon e_start="40106" e_stop="40433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATG</genome_strand>
        <mrna_strand>CCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E703029" ref_strand="+" ref_description="SGN-E703029 [FA20BE01]">
      <seq>cctaaattctctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttacgaaggacctgatttcacggatttggatgagaacctccaaaaggctttccacaagtatctggagattaggggtatcaagcccagcacaaccaacttcttgcatgagtacatggtcaacaaggatagcagagaatacaagatgtggcttaagaatctgaagaaattcatcgaggcataggttccataagttttgattgatgttttagtaggggctagctacttcgtaatgtctgtcaatgatgtcaaaataccctgatttttagtgtttttttttatttttgctatagatgtaccatggccacttaaaatagaatgttggtgaattttatttatacataagagttagccctcgcttttatcagctagttctgtttgcacttgcagcagcaggttgttgcttgttgatgagattgcatttccattgttattgtcaagtcaaatcactttgcgcatgatattgctttcgcttaacatgatttctcaaacatgtattggcttgcatattcatttgtgtct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39301" stop="41329"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39601" g_stop="39897" g_length="297"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="297" r_length="297" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40138" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="298" r_stop="330" r_length="33" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40139" i_stop="40372" i_length="234">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="40373" g_stop="40449" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="407" r_length="77" r_score="0.987"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="40531" g_stop="41029" g_length="499"/>
          <reference_exon_boundary r_type="cDNA" r_start="408" r_stop="905" r_length="498" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E703029" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>906</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E703029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39601" e_stop="39897"/>
          <exon e_start="40106" e_stop="40138"/>
          <exon e_start="40373" e_stop="40449"/>
          <exon e_start="40531" e_stop="41029"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTTTGCTATAGATGTACCATGGCCACTTAAAATAGAATGTTGGTGAATTTTATTTATACATAAGAGTTAGCCCTCGCTTTTATCAGCTAGTTCTGTTTGCACTTGCAGCAGCAGGTTGTTGCTTGTTGATGAGATTGCATTTCCATTGTTATTGTCAAGTCAAATCACTTTGCGCATGATATTGCTTTCGCTTAACAATGATTTCTCAAACATGTATTGGCTTGCATATTCATTTGTGTCT</genome_strand>
        <mrna_strand>CCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAG..........................................................................................................................................................................................................................................ATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTACGAAGGACCTGATTTCAC.................................................................................GGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCCTGATTTTTAGTGTTTTTTTTTATTTTTGCTATAGATGTACCATGGCCACTTAAAATAGAATGTTGGTGAATTTTATTTATACATAAGAGTTAGCCCTCGCTTTTATCAGCTAGTTCTGTTTGCACTTGCAGCAGCAGGTTGTTGCTTGTTGATGAGATTGCATTTCCATTGTTATTGTCAAGTCAAATCACTTTGCGCATGATATTGCTTTCGCTTAAC-ATGATTTCTCAAACATGTATTGGCTTGCATATTCATTTGTGTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E621965" ref_strand="+" ref_description="SGN-E621965 [72327]">
      <seq>aaattatctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcggatgatctgtagaacacagagttaccataatcgatcctctgctctcttatccaccgtagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggccgagttctgatgaatcactcctcaaagtccttcagtccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttcccctcggagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggtgaatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39304" stop="40498"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39604" g_stop="39897" g_length="294"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="294" r_length="294" r_score="0.966"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40198" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="295" r_stop="387" r_length="93" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E621965" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>387</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E621965" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39604" e_stop="39897"/>
          <exon e_start="40106" e_stop="40198"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCT</genome_strand>
        <mrna_strand>AAATTATCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGATGATCTGTAGAACACAGAGTTACCATAATCGATCCTCTGCTCTCTTATCCACCGTAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCGAGTTCTGATGAATCACTCCTCAAAGTCCTTCAGTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTCGGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGTGAATCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E270412" ref_strand="+" ref_description="SGN-E270412 [cLEM-1-G5]">
      <seq>tctacctctgcgaaaatggctgtcactaacatcatcagaaggactgcttctcaagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39310" stop="40576"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39610" g_stop="39897" g_length="288"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="288" r_length="288" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40276" g_length="171"/>
          <reference_exon_boundary r_type="cDNA" r_start="289" r_stop="459" r_length="171" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E270412" 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="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E270412" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39610" e_stop="39897"/>
          <exon e_start="40106" e_stop="40276"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGAC</genome_strand>
        <mrna_strand>TCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E568238" ref_strand="+" ref_description="SGN-E568238 [12489]">
      <seq>gcgaaaatggctgtcactaacatcatcagaaggactgtaccctggctgctcgggtgatctgtagaacacagagctaccatcatcgatcctctgctctcttatccaccgtagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccagccttcatttctattctaccaagaggcccagttctgatgaatcactccttaaagtccttcagtccgaaatccaatgtgttgaggaatccgacgtacaagacgaggttgacgaggctcctgagggtttccccttcgagattgaagatcatcctggacaacaaactataacattgacaagagagtatcaaggtgaatctattaatgtcgaagttcacatgcccgaccttgttactggtgatgaagatgagaatgacaacgatcgtgacccaccctgataacgaacgggccaatcagtcccaaattcctttagttgttagggtgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39319" stop="40620"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39619" g_stop="39897" g_length="279"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="266" r_length="266" r_score="0.921"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40320" g_length="215"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="485" r_length="219" r_score="0.879"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E568238" ref_strand="+">
        <total_alignment_score>0.903</total_alignment_score>
        <cumulative_length_of_scored_exons>494</cumulative_length_of_scored_exons>
        <coverage percentage="1.019" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E568238" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39619" e_stop="39897"/>
          <exon e_start="40106" e_stop="40320"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGA-GGA---TGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTC</genome_strand>
        <mrna_strand>GCGAAAATGGCTGTCACTAACATCATCAGAAGGA------CT---G---TACCC-TGGCTGCTCGGGTGATCTGTAGAACACAGAGCTACCATCATCGATCCTCTGCTCTCTTATCCACCGTAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCAGCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTTAAAGTCCTTCAGTCCGAAATCCAATGTGTTGAGGAATCCGACGTACAAGACGAG................................................................................................................................................................................................................GTTGACGAGGCTCCTGAGGGTTTCCCCTTCGAGATTGAAGATCATCCTGGACAACAAACTATAACATTGACAAGAGAGTATCAAGGTGAATCTATTAATGTCGAAGTTCACATGCCCGACCTTGTTACTGGTGATGAAGATGAGAATGACAACGATCGTGACCCACCCTGATAACGAACGGGCCAATCAGTCCCAAATTCCTTTAGTTGTTAGGGTGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E272471" ref_strand="+" ref_description="SGN-E272471 [cLEM-19-D12]">
      <seq>aagttgtacccttggctgctcgggtgatctttagaacacagagttaccatcatggatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtccaatcagtccaatattcctctagttgttagggtgtctaagagaaatggacctgctttggagtttggtatcacagcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39362" stop="40715"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39662" g_stop="39897" g_length="236"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="236" r_length="236" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40415" g_length="310"/>
          <reference_exon_boundary r_type="cDNA" r_start="237" r_stop="546" r_length="310" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E272471" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>546</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E272471" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39662" e_stop="39897"/>
          <exon e_start="40106" e_stop="40415"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTG</genome_strand>
        <mrna_strand>AAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATGGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E214969" ref_strand="+" ref_description="SGN-E214969 [cLEC-78-F14]">
      <seq>tgtacccttggctgctcgggtgatctttagaacacagagttaccatcatcgatcctctgctctcttatccaccatagttaaccgtagtgctgcttctagaaacttctttcggagctcagcaccgtccacccttcatttctattctaccaagaggcccagttctgatgaatcactcctcaaagtcattcagtccgaaatccaatgtgccgaggaatccgacgaacaagacgaggttgaggaggctcctgagggtttccccttcaagattgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtccaatcagtccaatattcctctagttgttagggtgtctaagagaaatggacctgctttggagtttggtatcacagcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttatgaaggacctgatttcacggatttggatgagaacctccaaaaggctttcccacagtatctggagattagggtatcaagcccagcacaaccaacttcttgcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39366" stop="40916"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39666" g_stop="39897" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="232" r_length="232" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40106" g_stop="40449" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="233" r_stop="576" r_length="344" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="40531" g_stop="40616" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="577" r_stop="661" r_length="85" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E214969" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>662</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E214969" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39666" e_stop="39897"/>
          <exon e_start="40106" e_stop="40449"/>
          <exon e_start="40531" e_stop="40616"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATG</genome_strand>
        <mrna_strand>TGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG................................................................................................................................................................................................................GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC.................................................................................GGATTTGGATGAGAACCTCCAAAAGGCTTTCCCACAGTATCTGGAGATTA-GGGTATCAAGCCCAGCACAACCAACTTCTTGCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E311783" ref_strand="+" ref_description="SGN-E311783 [cLEZ-9-O24]">
      <seq>ttgaagatcatcctggacaacaaactattacattgacaagagaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtccaatcagtccaatattcctctagttgttagggtgtctaagagaaatggacctgctttggagtttggtatcacagcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttatgaaggacctgatttcacgtgagtcttgatgtttaatttaacaaatttcttatctgtttttcattaattactaatatagaatatatatataatcatcagggatttggatgagaacctccaaaaggctttccacaagtatctggagattaggggtatcaagcccagcacaaccaacttcttgcatgagtacatggtcaacaaggatagcagagaatacaagatgtggcttaagaatctgaagaaattcatcgaggcataggttccataagttttgattgatgttttagtaagggctagctacttcgtaatgtctgtcaatgatgtcaaaataccgtgatttttagtgtttttttttatttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39840" stop="41091"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40140" g_stop="40791" g_length="652"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="652" r_length="652" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E311783" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>652</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E311783" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40140" e_stop="40791"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTT</genome_strand>
        <mrna_strand>TTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAAGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E283626" ref_strand="+" ref_description="SGN-E283626 [cLES-1-M15]">
      <seq>agaatatcaaggtgaatctataaatgtggaagttcacatgcctgaccttgttaccggtgatgaagatgagaatgacaacggtggtgaggatgatgacgaagggtccaatcagtccaatattcctctagttgttagggtgtctaagagaaatggacctgctttggagtttggtatcacagcttttgctgatgagattgctattgacactttgtcaatcaaagatcctaatgttgctgaggatcagattgcttatgaaggacctgatttcacggatttggatgagaacctccaaaaggctttccacaagtatctggagattaggggtatcaagcccagcacaaccaacttcttgcatgagtacatggtcaacaaggatagcagagaatacaagatgtggcttaagaatctgaagaaattcatcgaggcataggttccataagttttgattgatgttttagtaagggctagcttcttcgtaatgtctgtcaatgatgtcaaaataccgtgatttttagtgtttttttttattttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="39880" stop="41092"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40180" g_stop="40449" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="270" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="40531" g_stop="40792" g_length="262"/>
          <reference_exon_boundary r_type="cDNA" r_start="271" r_stop="532" r_length="262" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E283626" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>532</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E283626" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40180" e_stop="40449"/>
          <exon e_start="40531" e_stop="40792"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTTT</genome_strand>
        <mrna_strand>AGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC.................................................................................GGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAAGGGCTAGCTTCTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E370016" ref_strand="+" ref_description="SGN-E370016 [TUS-26-D8](-)">
      <seq>ttgcatgagtacatggtcaacaaggatagcagagaatacaagatgtggcttaagaatctgaagaaattcatcgaggcataggttccataagttttgattgatgttttagtaggggctagctacttcgtaatgtctgtcaatgatgtcaaaataccgtgatttttagtgtttttttttatttttgctatagatgtaccatggccacttaaaatagaatgttggtgaattttatttatacataagagttagccctcaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="40310" stop="41163"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40610" g_stop="40863" g_length="254"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="254" r_length="254" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="255" polyA_stop="275"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E370016" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>254</cumulative_length_of_scored_exons>
        <coverage percentage="0.924" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E370016" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40610" e_stop="40863"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTTTGCTATAGATGTACCATGGCCACTTAAAATAGAATGTTGGTGAATTTTATTTATACATAAGAGTTAGCCCTC</genome_strand>
        <mrna_strand>TTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTTTGCTATAGATGTACCATGGCCACTTAAAATAGAATGTTGGTGAATTTTATTTATACATAAGAGTTAGCCCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E746979" ref_strand="+" ref_description="SGN-E746979 [GI|47104303]">
      <seq>caaacacctaaattacaccccacttcactcttctctctctttcccttcttctgaaattcaaatctgtaaactgtatatttcacaatccaagaatctcttcatagatgaattctacagattcgattaagacccttttggctactactggcggtgacactgttaagctttttgacctcactttggaaccccgtgatccctgcattcttagctatactccttcccctggattccaagtcaattccgtcaagtggaatcacactaatttggtggtggcaagcgctggagatgacaagaagatatctttgtggaggaaaaatggacagagtttggggactgtaccactggccggcactgatagtgctgacaatatcgaggagtctatttcaacagttaactttagcagcaaagcatcccgatacatatgttctggaggtagtggccaagttatacgaatatgggatttgcagcggaagcgttgcatcaaatggttgaaaggtcataccaatactattagtggtgcaatgtacaattgtaaagatgagcacttagcttctatcagtcttaatgggaatcttatacttcacaaccttgcttctggtgcaaaggctgctgaactcaaggatccaaatgcgcaggttttgagagtgcttgattattctaagattagcaggcatttattggtgacagctggtgatgatggatctatccacctgtgggatacaactggtcgcagccccaaggtttcttggctaaagcagcattctgcaccaacttctggcattagtttctcaccaacaaacgacaagattgttgctagtgttggtatggataagaagttgtacacttttgactcagggtcaagaaggccgacattttgcattccttacgaggcacctttttcttcactggcatttactgatgacggattcactctggcagctggaacaagtagtggccgggtagtattctatgacgttcgtggaaaaccacaacccttgactgttttacgtgcttatggaaattctgaggctgtgacaagtctatgctggcaaagagcaaaacctgtaattgtcaatgaaaacaattgcactacagaaatggctctcctgggcagtgctgtggaggattcaattttgatgcctgacccacttcctgctatgatgtcatcaagcctagcaacttctatgacaacatcaggttcgagaaccactgttcgttcaggttctgtggactcattttcttttccagcaggcattacaggatctacatctgggacaacaggtttatctccatccgaggaaacacccatacgaagtagtttatggaaaggtggatctttggcaagattacatgctcctcgtaacttcaaggatgatatggaagttttttctcctcttgttgaagttcagccaattacaccttcacttgataagttgtgggatgatcaggaaggtttcaaaaaggattttgataagaagtcatctttgctatttccttcttctctaaggtttccccttccagttgagggtggcaatgagaatcgccccatatttgattggaaatcaagttccttacccaaacaggaggatgcttcttttgcacagttgtcttccactccaacatcttctcgtggtgatgattcttcctccataactcctccagaagcttggggtggtgagagattatcggatagattatctcatcttcggcagtcaggaaatatgccttcccgttttgcaatctcgacatctggtcctcttgcaccaggatctatgttatctggattacaggataattttcctgcaactcagagtatcggctctttgactagttctactctaagtttggctaatttgcgcataaaagaaaatccaaatgaagaaactattctaggatcttcagaacatgcgagttccacatccttttcagttggaacaaaaggcattactgggcagggtactcttgatactcttggttcaactgtatccctcccacgaagattttccagttatgctgagagaataagcactacaccatccttcagtgatggaaccctttctgttggttctccaaaaactaagaaaactggagctgaaacaagggaagagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctggtgctttccaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagactagctaaaagtcttgtcattacgtattcttttagttttagccatgtacgcaatgctgttttaggagatttgtactgacagttgtgtagtgagtagcgagtgcggaagtgttattgtgtgtttatctaattgtgggcgaatttgggggtttattttaccctaatatagtaaaggagtgtgtgatggctgatcaataacagttaagagtgctgttatggttgtgtacagaaagttggctaggccaatttcagaaatttaatgtacagaactacagatcatctaattcactttgatttaaaaaacatccttccaagttggaggaggttattcaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="49255" stop="41233"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48955" g_stop="48695" g_length="261"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="261" r_length="261" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="48694" i_stop="48626" i_length="69">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48625" g_stop="48513" g_length="113"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="374" r_length="113" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="48512" i_stop="46665" i_length="1848">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.878" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46664" g_stop="46404" g_length="261"/>
          <reference_exon_boundary r_type="cDNA" r_start="375" r_stop="635" r_length="261" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="46403" i_stop="46277" i_length="127">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.406" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="46276" g_stop="46172" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="636" r_stop="740" r_length="105" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="46171" i_stop="45313" i_length="859">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.921" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="45312" g_stop="45247" g_length="66"/>
          <reference_exon_boundary r_type="cDNA" r_start="741" r_stop="806" r_length="66" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="45246" i_stop="45120" i_length="127">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="45119" g_stop="44898" g_length="222"/>
          <reference_exon_boundary r_type="cDNA" r_start="807" r_stop="1028" r_length="222" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="44897" i_stop="43936" i_length="962">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="43935" g_stop="43381" g_length="555"/>
          <reference_exon_boundary r_type="cDNA" r_start="1029" r_stop="1583" r_length="555" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="43380" i_stop="43032" i_length="349">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.655" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="43031" g_stop="42435" g_length="597"/>
          <reference_exon_boundary r_type="cDNA" r_start="1584" r_stop="2180" r_length="597" r_score="1.000"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="2181" r_stop="2357" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="9">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="10">
          <gDNA_exon_boundary g_start="41979" g_stop="41544" g_length="436"/>
          <reference_exon_boundary r_type="cDNA" r_start="2358" r_stop="2793" r_length="436" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="2801" polyA_stop="2817"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E746979" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>2793</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E746979" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48955" e_stop="48695"/>
          <exon e_start="48625" e_stop="48513"/>
          <exon e_start="46664" e_stop="46404"/>
          <exon e_start="46276" e_stop="46172"/>
          <exon e_start="45312" e_stop="45247"/>
          <exon e_start="45119" e_stop="44898"/>
          <exon e_start="43935" e_stop="43381"/>
          <exon e_start="43031" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41544"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAACACCTAAATTACACCCCACTTCACTCTTCTCTCTCTTTCCCTTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTAGTTAGTTTCCCCTTTCTATCATGAATTTACATTCTTTTTGCAAATTCGATTTAACTTTGGGTGTTGCAGATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAGGTACTTTTGTTTACCTTTTTACTTTTTTCGCTGCAAATCTAAGATAGTTACTTTGTTGTCCTGTTATCGAAATGTAATAATTCCTTAATTTCCAATTTTTTCAATGGATTTTGGCACAGATTTCTTTGAAAATGGTGAATTTTGAGAGGTTAAAGATATGTTGTAGTTTTGACCAACTTCATTTTTACCTCTATTTGCTGCTAAAGTTACAGGAAAATTTGTGCTTTCATATGATAGTTTTTCATTTAGAATGCACTGGGCAGGCCTCAATGATGTTCTCACATATTAGAGAGATTTCTTAAATATTATAGCGTACTGAATAGCACATTTCAAAAAGAGACATTGTAGCACTCTGAAACTATTGTACACATGAGTAGGCTGCTTTTGCCATATACATTTTATCCAAGTTGCTCGGACTCTTCACTTTCGATGCCGCACTAGTGTCGACACAATGTTGGTGTGGTGTGGGATCCGTACGTGATTTGGTCAACCGGTTTCGGGTATTTTGACCCAATTAGAGGGAGAAATTCTGGAAAGGTTTCATGATTTATGTATTCAAAACAAAAGATAAGGTGACATTGAAGAAGATGGAATACCTCGTATATATAAATTTATATTTACTCCCTTTCCTTTTATATCCTGCCATGATTCTCCTTTGGATCAATAGTTTTCTAAAGTTCACCACATAATATCTCATAATTAGGTTTAGTAACTCTAATTTAGATACATCAATTATTTTTAGCTGAATCTCCGCAGTTGTATCCATACATCGATCCGTATCCCTGATCTTAAAATTTAGATCATAGAGGATCTAACCTCTAGATCCGCACCCACATTGGACACCTGCATCTGAGTCCGGCAACTTAGCATTTTATGCAACATGGATACTTCTGGTTGTTCTCATAATACAAAAAAAAAATGGTAGGCTGAAGGGGGGAAATATTTGAGCTGTTTTTATTTATAGTAGTAGCTTCAAAAATTTATTTTTCCCTAATACAGTAATTTCAAATAATGATCATGTTAAATTGCCCTGGGGCATTGATCTAGTGGTAAGATATCAACACATGATGTTTGGGTTAGGTGCACGTCATGGGTTCGAACCCGGTAACAGATAGAAACCTAGTGTTTAACTTTAAAAGGATAGATGGCGGGCCCATTCTCTACCGAGTTTTGAACCATTTGTAGTGGACCTATATATGGGGGATAAAAAGAATTATTATGATAGATTACTCATGTATCATCTAGTACTGTTCTTCTATAGGGGTTCCCCTATTTTCAGATGTTGTACGGTAAGTTCTCAAATACTGTCCTCAGTGTTAAAGCACCAAATGAAAAGTAGACATCAACATGACATTGTTTGAACCATAATAATTTTGTTAAGAGGAAGCCAAACCGATGTCATTTTTGCTAAATTAGAAAAGCGTGTTTGCGAGTGGCTTATAAGAATTCCATAATTTGCTATATTTACTGATCATAAAAGAATACCGTACTTTACAGCTTTTTATGTTGAATGCATTTGCCTGAGATTTTGTGTTCGCCTCTGGGTTTGAATGGGAGAAAGATAGGGTTTGGTCAGGCATAGAATGAATCCTGATTGTTCGATTATCCTATGGCATATATGTTTATGAAAGAAGGATGCTGCATAAATGTGTGCTCTATTGCTATCCTGTGGCAAAAGGTGACGATGATAAGAAGATTGGTTGGAATAAAGTTGGCTTTCTATCCCATCCCCCATTACCTAACATGGGTCTTCGGTATAGGCTGTCAACATTTTTTTGAAGCCCAACTTGTGAAGTGGGCTGTCAATCAATTAATTATCTACAAGTAGTTCATTTCTATCACTTGCAGGAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAACTCAAGGATCCAAATGCGCAGGTTAATTCATTCTTTCCAAGTCCCACTTTGCTGTATAGCATCTTATAGCTGCAATTTGCTTTTGGTTTTTGGAATGATGCTTTCTTTTCTGATGCCATTGTTCTTTGTCTGATTATCACAAGATCAGGTTTTGAGAGTGCTTGATTATTCTAAGATTAGCAGGCATTTATTGGTGACAGCTGGTGATGATGGATCTATCCACCTGTGGGATACAACTGGTCGCAGCCCCAAGGTTTGTTGACATTCTGGTGTTCTGAGATGATAAAAATTGATTTCATTACATATTGTGTTGTGCCTAGATCTGTATTATTTAAAAGGTTTATAACTGGAGATTAATAGGGAATCCCATTTCTTTCTCCTCGCAATCTGTATTTGCAAGTCAGATCTCATCCACTTATTTGGTATAGGCTAGCTATTGGCTATGACATAGAACATTCTGAAAGAAGAATCACCAATCCATTTGCAACTTACAACTGTTGCTTTTCAGAGGGCTTGACGGTCTTTTACTCATAAAAAGACATTTAGCACTACTCTTTGAGGGTTTGGTAGTCAAAACTCACAGAAAGAATCATTATTACTGCAATATATGCTGTGCTGTTAGAAGCGCTATACGTTATAGTTTGTGGACTTCAAAGTTGGAGTCTGAGCTTGATATGCGACGCTTAAAACACTGAATAATGGTTATGAAGTTTCCAGAGAGTTAATTCGAAACCTCCCAGTCCCTGTCTCAGTACATATTTTGCCTCCCTACCTGCTGACATTCAGAACAATTCATGGTCCTTCTACCTAGGAAAAGAACATGTCATGGTCCTTCCCCGATGCTCTTCTTTTTCCTACTCTTCCTTCTCTCTTTTTTCTTTGAAAGATGAGACCCTCTCTGCAATTCTTTCCACTTCCCATCCTCGGGCATGCTTTCATAGCCATAATGGTTAAATTTGCCAAGTGCAATGGTATCTTACTCTGCATTTTATGTTAATCTTTATAATACCCTGGTATAGTGGTACTCTGGGTTGATGTCTCTCAAGTGTACCTGTCTTGCTTGCTGTGCATCGTTTTATTGGATAACTGATAATTGTTTTTACCTTTAAAAGGTTTCTTGGCTAAAGCAGCATTCTGCACCAACTTCTGGCATTAGTTTCTCACCAACAAACGACAAGGTTTTTTCTCTATTATACTCATCAACTGGTAGACATATTGTGTACCTGTACTGGAAGAACTGTAAATCAATCCTCTTGCCAAATGATGGAATCATTTACCGGTGTGGTTTTACTGTTATGATTGCAGATTGTTGCTAGTGTTGGTATGGATAAGAAGTTGTACACTTTTGACTCAGGGTCAAGAAGGCCGACATTTTGCATTCCTTACGAGGCACCTTTTTCTTCACTGGCATTTACTGATGACGGATTCACTCTGGCAGCTGGAACAAGTAGTGGCCGGGTAGTATTCTATGACGTTCGTGGAAAACCACAACCCTTGACTGTTTTACGTGCTTATGGAAATTCTGAGGTATTTGATTCTTCTTTTCTTAATAAAGTGTTTTGTGTTAAATAGCAGTTTGTCCTTGACTATGTACTTCTATTATGTCGTTTCATTACCTTGGTTGGCAAAACATGAGAAAGGAAATGAAAAGGAGAGAAAAGATTCAGTTCTTATTAACAAGGATGGAGATATGCGACTGTATAATAAGCCCATATGGAGTTGGTATGCATTTATTCTTAAGTCCACTTGTTGTCTTTAAATTGTTTCATCCGTGATGATAGAGGTGGATATGCATGAAATTGGTAATTGTGCAAGAATGGATGAGGAGATTAGGCGGACAAGTAGGTGACCACGGTTCTTCCAATATGGCATGTAGATTTTGAGAGGTTAGAGATAGCCAGCATTTGCTTCGGGGGAGGGGAGGTAGTCCCACAAGCTATTGACCATCTATGATATGCTCAGGGTGCAGGAATTGGGTACAAAAGTGGCACATCACTTTGTCAGGCATGCCAACCAAATTTCTGGTTGGTCAAATGTGGATAGAATTGAACACATTTCTCAATTTCCTAAAATCAAAGACATTGTTAAGATTCCTTGTTTCTTCCTTGGCTAAATGTTTCTTTGTGGCATTTGTGTATCAATAGTAGACCAATGTCATAATCTGATTATGAGTTGGAAGATGGTATAATGTTGCCTCTTGGCTTGGGCAAGGGAGCTGGTCTGAGAAGCTCTTCCTCTTATTCTCTCTCTCTCTCTCTATCGCTCAGCAAAATTAAACAGCATGGTGTTTCTGTATCTATTTGCATATCAGTATAAATCTACCAATGGAATCCGTGCCGATATTCTGCATCTTTTAGTATGTACTGGCTGACCTTCATATATTTTGTTTATCAGCTTGTTAACTTTAGTTTTGTTCCTCAGTACTGACAGTACCTTTTTTACTACTCTGATTTACTTCCTCTTACTAGAAAAGTATGATGAATTTACAGGCTGTGACAAGTCTATGCTGGCAAAGAGCAAAACCTGTAATTGTCAATGAAAACAATTGCACTACAGAAATGGCTCTCCTGGGCAGTGCTGTGGAGGATTCAATTTTGATGCCTGACCCACTTCCTGCTATGATGTCATCAAGCCTAGCAACTTCTATGACAACATCAGGTTCGAGAACCACTGTTCGTTCAGGTTCTGTGGACTCATTTTCTTTTCCAGCAGGCATTACAGGATCTACATCTGGGACAACAGGTTTATCTCCATCCGAGGAAACACCCATACGAAGTAGTTTATGGAAAGGTGGATCTTTGGCAAGATTACATGCTCCTCGTAACTTCAAGGATGATATGGAAGTTTTTTCTCCTCTTGTTGAAGTTCAGCCAATTACACCTTCACTTGATAAGTTGTGGGATGATCAGGAAGGTTTCAAAAAGGATTTTGATAAGAAGTCATCTTTGCTATTTCCTTCTTCTCTAAGGTTTCCCCTTCCAGTTGAGGGTGGCAATGAGAATCGCCCCATATTTGATTGGAAATCAAGTTCCTTACCCAAACAGGTTTGTATCTTGTCTGGTTCATGTGCCTACATTTATATTCTTTTGCAAAACAAATTATTTCCTTGGTTGCAGGAAATATGGTGAAAATGTGAGTTGCTCTTCTATATACAAAAATGATTACTTGTTTGTAATTTCCTATGTTGTTGGATGCAAAATGATGCTGTTGATATCTAGTTGAAGTAACTAATTTCTTAAATCCTTCATTCTTGGTTGCTATATAATTTGTGAAGTCAGTTCAAAAAGTGGTGTCAGTATTCTGAAGCTGAAATCAATGACTGGGTTTAGCATTAAAATGCATGAGTTGTTATCTTTCCTTGACAAGTATTTCATATCTTTGATATTCCAGCAGGAGGATGCTTCTTTTGCACAGTTGTCTTCCACTCCAACATCTTCTCGTGGTGATGATTCTTCCTCCATAACTCCTCCAGAAGCTTGGGGTGGTGAGAGATTATCGGATAGATTATCTCATCTTCGGCAGTCAGGAAATATGCCTTCCCGTTTTGCAATCTCGACATCTGGTCCTCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</genome_strand>
        <mrna_strand>CAAACACCTAAATTACACCCCACTTCACTCTTCTCTCTCTTTCCCTTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTA.....................................................................ATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAACTCAAGGATCCAAATGCGCAG...............................................................................................................................GTTTTGAGAGTGCTTGATTATTCTAAGATTAGCAGGCATTTATTGGTGACAGCTGGTGATGATGGATCTATCCACCTGTGGGATACAACTGGTCGCAGCCCCAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCTTGGCTAAAGCAGCATTCTGCACCAACTTCTGGCATTAGTTTCTCACCAACAAACGACAAG...............................................................................................................................ATTGTTGCTAGTGTTGGTATGGATAAGAAGTTGTACACTTTTGACTCAGGGTCAAGAAGGCCGACATTTTGCATTCCTTACGAGGCACCTTTTTCTTCACTGGCATTTACTGATGACGGATTCACTCTGGCAGCTGGAACAAGTAGTGGCCGGGTAGTATTCTATGACGTTCGTGGAAAACCACAACCCTTGACTGTTTTACGTGCTTATGGAAATTCTGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGTGACAAGTCTATGCTGGCAAAGAGCAAAACCTGTAATTGTCAATGAAAACAATTGCACTACAGAAATGGCTCTCCTGGGCAGTGCTGTGGAGGATTCAATTTTGATGCCTGACCCACTTCCTGCTATGATGTCATCAAGCCTAGCAACTTCTATGACAACATCAGGTTCGAGAACCACTGTTCGTTCAGGTTCTGTGGACTCATTTTCTTTTCCAGCAGGCATTACAGGATCTACATCTGGGACAACAGGTTTATCTCCATCCGAGGAAACACCCATACGAAGTAGTTTATGGAAAGGTGGATCTTTGGCAAGATTACATGCTCCTCGTAACTTCAAGGATGATATGGAAGTTTTTTCTCCTCTTGTTGAAGTTCAGCCAATTACACCTTCACTTGATAAGTTGTGGGATGATCAGGAAGGTTTCAAAAAGGATTTTGATAAGAAGTCATCTTTGCTATTTCCTTCTTCTCTAAGGTTTCCCCTTCCAGTTGAGGGTGGCAATGAGAATCGCCCCATATTTGATTGGAAATCAAGTTCCTTACCCAAACAG.............................................................................................................................................................................................................................................................................................................................................................GAGGATGCTTCTTTTGCACAGTTGTCTTCCACTCCAACATCTTCTCGTGGTGATGATTCTTCCTCCATAACTCCTCCAGAAGCTTGGGGTGGTGAGAGATTATCGGATAGATTATCTCATCTTCGGCAGTCAGGAAATATGCCTTCCCGTTTTGCAATCTCGACATCTGGTCCTCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E716768" ref_strand="+" ref_description="SGN-E716768 [FB17DH08]">
      <seq>cggtcgtctgctacagcagctggtgctttccaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagactagctaaaagtcttgtcattacgtattcttttagttttagccatgtacgcaatgctgttttaggagatttgtactgacagttgtgtagtgagtagcgagtgcggaagtgttattgtgtgtttatctaattgtgggcgaatttgggggtttattttaccctaatatagtaaaggagtgtgtgatggctgatcaataacagttaagagtgctgttatggttgtgtacagaaagttggctaggccaatttcagaaatttaatgtacagaactacagatcatctaattcactttgatttaaaaaacatccttccaagttggaggaggtttattcaaaaannaanaanaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42774" stop="41233"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42476" g_stop="42435" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="0.952"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" d_score="0.95"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="219" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41544" g_length="436"/>
          <reference_exon_boundary r_type="cDNA" r_start="220" r_stop="655" r_length="436" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E716768" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>655</cumulative_length_of_scored_exons>
        <coverage percentage="0.956" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E716768" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42476" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41544"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</genome_strand>
        <mrna_strand>CGGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E541711" ref_strand="+" ref_description="SGN-E541711 [TUS-62-K9](-)">
      <seq>gctacagcagctggtgctttccaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagactagctaaaagtcttgtcattacgtattcttttagttttagccatgtacgcaatgctgttttaggagatttgtactgacagttgtgtagtgagtagcgagtgcggaagtgttattgtgtgtttatctaattgtgggcgaatttgggggtttattttaccctaatatagtaaaggagtgtgtgatggctgatcaataacagttaagagtgctgttatggttgtgtacagaaagttggctaggccaatttcagaaatttaatgtacagaactacagatcatctaattcactttgatttaaaaaacatccttccaagttggaggaggtttattcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42767" stop="41233"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42467" g_stop="42435" 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="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" 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="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="210" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41544" g_length="436"/>
          <reference_exon_boundary r_type="cDNA" r_start="211" r_stop="646" r_length="436" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="655" polyA_stop="664"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E541711" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>646</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E541711" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42467" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41544"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</genome_strand>
        <mrna_strand>GCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E299783" ref_strand="+" ref_description="SGN-E299783 [cLEW-1-C7](-)">
      <seq>ctctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagactagctaaaagtcttgtcattacgtattcttttagttttagccatgtacgcaatgctgttttaggagatttgtactgacagttgtgtagtgagtagcgagtgcggaagtgttattgtgtgtttatctaattgtgggcgaatttgggggtttattttaccctaatatagtaaaggagtgtgtgatggctgatcaataacagttaagagtgctgttatggttgtgtacagaaagttggctaggccaatttcagaaatttaatgtacagaactacagatcatctaattcacattgatttaaaaaacatccttccaagttggaggaggtttattcaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42437" stop="41233"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42137" g_stop="42055" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="83" r_length="83" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="41979" g_stop="41544" g_length="436"/>
          <reference_exon_boundary r_type="cDNA" r_start="84" r_stop="519" r_length="436" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="528" polyA_stop="541"/>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E299783" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>519</cumulative_length_of_scored_exons>
        <coverage percentage="0.959" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299783" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42137" e_stop="42055"/>
          <exon e_start="41979" e_stop="41544"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</genome_strand>
        <mrna_strand>CTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACATTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E391331" ref_strand="+" ref_description="SGN-E391331 [TUS-47-D14](-)">
      <seq>agaataagcactacaccatccttcagtgatggaaccctttctgttggttctccaaaaactaagaaaactggagctgaaacaagggaagagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctggtgctttccaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagactagctaaaagtcttgtcattacgtattcttttagttttagccatgtacgcaatgctgttttaggagatttgtactgacagttgtgtagtgagtagcgagtgcggaagtgttattgtgtgtttatctaattgtgggcgaatttgggggtttattttaccctaatatagtaaaggagtgtgtgatggctgatcaataacagttaagagtgctgttatggttgtgtacagaaagttggctaggccaatttcagaaatttaatgtacagaactacagatcatctaattcactttgatttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42896" stop="41263"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42596" g_stop="42435" g_length="162"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="162" r_length="162" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" 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="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="339" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41561" g_length="419"/>
          <reference_exon_boundary r_type="cDNA" r_start="340" r_stop="758" r_length="419" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E391331" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>758</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E391331" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42596" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41561"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATC</genome_strand>
        <mrna_strand>AGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E375388" ref_strand="+" ref_description="SGN-E375388 [TUS-15-H6](-)">
      <seq>ggtgctttccaaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagactagctaaaagtcttgtcattacgtattcttttagttttagccatgtacgcaatgctgttttaggagatttgtactgacagttgtgtagtgagtagcgagtgcggaagtgttattgtgtgtttatctaattgtgggcgaatttgggggtttattttaccctaatatagtaaaggagtgtgtgatggctgatcaataacagttaagagtgctgttatggttgtgtacagaaagttggctaggccaatttcagaaatttaatgtacagaactacagatcatctaattcactttgatttaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42533" stop="41263"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42455" g_stop="42435" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="22" r_length="22" r_score="0.905"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" 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="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="23" r_stop="199" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41562" g_length="418"/>
          <reference_exon_boundary r_type="cDNA" r_start="200" r_stop="617" r_length="418" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E375388" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>616</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E375388" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42455" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41562"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTGCTTTCC-AAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACAT</genome_strand>
        <mrna_strand>GGTGCTTTCCAAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E427820" ref_strand="-" ref_description="SGN-E427820 [STM-49-K19]">
      <seq>gggcagggtactcttgattctcttggttcaactatgtccctcccacgaagattttctagttatgctgagagaataagcaccacgcatccccttagtgatggaaccctttctgttgttctccaaaaactaagaaaactggagctgaaacaagggaggagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctggtgctttccaagcaatgaatggtgaaattaagcaatcacaaaagtccacactgcccgaattgcagcagggaagttcctttacactccagctgtttcaacgtacacaagaagagactctttcttcccttcaaaaatccattcatgaggatatgaggaatcttcacttagatattttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaatcaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagagtagctagagatcttgtcattacgtattcctttagttttagccatgtacccaatgctgttttaggagatttgtactgacagttgtgtagagtgactagcgagtgcggaagtgttattgtgtgcttatctaaatgtgggcgaatttgggggtttattttattttaccctaatatagtaaatgagtgtgtgatggctgatcaatacttgacagttaaagagtgctgttatggttgtgtacagaaagttggctaggccaatttcagaggtataatgtacagaactacagaattggatgttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42965" stop="41292"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42665" g_stop="42435" g_length="231"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="230" r_length="230" r_score="0.939"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" d_score="0.98"/>
            <acceptor a_prob="0.998" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="231" r_stop="407" r_length="177" r_score="0.966"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="0.98"/>
            <acceptor a_prob="0.990" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41593" g_length="387"/>
          <reference_exon_boundary r_type="cDNA" r_start="408" r_stop="806" r_length="399" r_score="0.902"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E427820" ref_strand="-">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>795</cumulative_length_of_scored_exons>
        <coverage percentage="0.972" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E427820" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="42665" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41593"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGT--AGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGG-----TTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATA----ACAGTT-AAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAG</genome_strand>
        <mrna_strand>GGGCAGGGTACTCTTGATTCTCTTGGTTCAACTATGTCCCTCCCACGAAGATTTTCTAGTTATGCTGAGAGAATAAGCACCACGCATCCCCTTAGTGATGGAACCCTTTCTGTT-GTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAGGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATGAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCACAAAAGTCCACACTGCCCGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTTCAACGTACACAAGAAGAGACTCTTTCTTCCCTTCAAAAATCCATTCATGAGGATATGAGGAATCTTCACTTAGATATTTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAATCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGAGTAGCTAGAGATCTTGTCATTACGTATTCCTTTAGTTTTAGCCATGTACCCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGAGTGACTAGCGAGTGCGGAAGTGTTATTGTGTGCTTATCTAAATGTGGGCGAATTTGGGGGTTTATTTTATTTTACCCTAATATAGTAAATGAGTGTGTGATGGCTGATCAATACTTGACAGTTAAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAGGTATAATGTACAGAACTACAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E709089" ref_strand="+" ref_description="SGN-E709089 [FA42CF09]">
      <seq>cgcttgcaccaggatctatgttatctggattacaggataattttcctgcaactcagagtatcggctctttgactagttctactctaagtttggctaatttgcgcataaaagaaaatccaaatgaagaaactattctaggatcttcagaacatgcgagttccacatccttttcagttggaacaaaaggcattactgggcagggtactcttgatactcttggttcaactgtatccctcccacgaagattttccagttatgctgagagaataagcactacaccatccttcagtgatggaaccctttctgttggttctccaaaaactaagaaaactggagctgaaacaagggaagagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctggtgctttccaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagactagctaaaagtcttgtcattacgtattcttttagttttagccatgtacgcaatgctgttttaggagatttgtactgacagttgtgtagtgagtaacgagtgcggaagtgttattgtgtgtttatctaattgtgggcgaatttggggggtttattttaccctaatatataaaaggagtgtgtgatggctgatcaataaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="43159" stop="41368"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42859" g_stop="42435" g_length="425"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="425" r_length="425" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" 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="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="426" r_stop="602" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41668" g_length="312"/>
          <reference_exon_boundary r_type="cDNA" r_start="603" r_stop="915" r_length="313" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E709089" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>914</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E709089" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42859" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41668"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTT-GGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACA</genome_strand>
        <mrna_strand>CGCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAACGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGGTTTATTTTACCCTAATATATAAAAGGAGTGTGTGATGGCTGATCAATAACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E391142" ref_strand="+" ref_description="SGN-E391142 [TUS-47-D14]">
      <seq>agaaaatccaaatgaagaaactattctaggatcttcagaacatgcgagttccacatccttttcagttggaacaaaaggcattactgggcagggtactcttgatactcttggttcaactgtatccctcccacgaagattttccagttatgctgagagaataagcactacaccatccttcagtgatggaaccctttctgttggttctccaaaaactaagaaaactggagctgaaacaagggaagagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctggtgctttccaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagactagctaaaagtcttgtcattacgtattcttttagttttagccatgtacgcaatgctgttttaggagatttgtactgacagttgtgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="43050" stop="41480"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42750" g_stop="42435" g_length="316"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="316" r_length="316" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" 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="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="317" r_stop="493" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41780" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="494" r_stop="693" r_length="200" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E391142" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>693</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E391142" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42750" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41780"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGT</genome_strand>
        <mrna_strand>AGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E204171" ref_strand="+" ref_description="SGN-E204171 [cLEC-13-O1]">
      <seq>gaaaatccaaatgaagaaactattctaggatcttcagaacatgcgagttccacatccttttcagttggaacaaaaggcattactgggcagggtactcttgatactcttggttcaactgtatccctcccacgaagattttccagttatgctgagagaataagcactacaccatccttcagtgatggaaccctttctgttggttctccaaaaactaataaaactggagctgaaacaagggaagagcttctgaatagcttgttatctaggtcggacacgtggtctgctacagcagctggtgctttccaagcaataaatggtgaaattaagcgatctcaaaagtccacactgcctgaattgcagcatggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagttattatgaccagactagctaaaagtcttgtcattacgtattctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="43049" stop="41536"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42749" g_stop="42435" g_length="315"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="315" r_length="315" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" d_score="0.98"/>
            <acceptor a_prob="0.998" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="492" r_length="177" r_score="0.989"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41836" g_length="144"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="636" r_length="144" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E204171" ref_strand="+">
        <total_alignment_score>0.994</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="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E204171" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42749" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41836"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTT</genome_strand>
        <mrna_strand>GAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAATAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTGGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCGATCTCAAAAGTCCACACTGCCTGAATTGCAGCATGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E375389" ref_strand="+" ref_description="SGN-E375389 [TUS-15-H6]">
      <seq>gaaaatccaaatgaagaaactattctaggatcttcagaacatgcgagttccacatccttttcagttggaacaaaaggcattactgggcagggtactcttgatactcttggttcaactgtatccctcccacgaagattttccagttatgctgagagaataagcactacaccatccttcagtgatggaaccctttctgttggttctccaaaaactaagaaaactggagctgaaacaagggaagagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctggtgctttccaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagcagcttcgacagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="43049" stop="41580"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42749" g_stop="42435" g_length="315"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="315" r_length="315" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" 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="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="492" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41880" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="592" r_length="100" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E375389" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>592</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E375389" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42749" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41880"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGT</genome_strand>
        <mrna_strand>GAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E703450" ref_strand="+" ref_description="SGN-E703450 [FA21CB06]">
      <seq>caagttccttacccaaacagcaggaggatgcttcttttgcacagttgtcttccactccaacatcttctcgtggtgatgattcttcctccataactcctccagaagcttggggtggtgagagattatcggatagattatctcatcttcggcagtcaggaaatatgccttcccgttttgcaatctcgacatctggtcctcttgcaccaggatctatgttatctggattacaggataattttcctgcaactcagagtatcggctctttgactagttctactctaagtttggctaatttgcgcataaaagaaaatccaaatgaagaaactattctaggatcttcagaacatgcgagttccacatccttttcagttggaacaaaaggcattactgggcagggtactcttgatactcttggttcaactgtatccctcccacgaagattttccagttatgctgagagaataagcactacaccatccttcagtgatggaaccctttctgttggttctccaaaaactaagaaaactggagctgaaacaagggaagagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctggtgctttccaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaaaccaagcagagctgatgaaagaggttcaattacttcgaagggaaacacagca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="43700" stop="41591"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43400" g_stop="43381" g_length="20"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="20" r_length="20" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="43380" i_stop="43035" i_length="346">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.370" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="43034" g_stop="42435" g_length="600"/>
          <reference_exon_boundary r_type="cDNA" r_start="21" r_stop="620" r_length="600" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" 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="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="621" r_stop="797" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41979" g_stop="41891" g_length="89"/>
          <reference_exon_boundary r_type="cDNA" r_start="798" r_stop="886" r_length="89" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E703450" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>886</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E703450" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43400" e_stop="43381"/>
          <exon e_start="43034" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41891"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGTTCCTTACCCAAACAGGTTTGTATCTTGTCTGGTTCATGTGCCTACATTTATATTCTTTTGCAAAACAAATTATTTCCTTGGTTGCAGGAAATATGGTGAAAATGTGAGTTGCTCTTCTATATACAAAAATGATTACTTGTTTGTAATTTCCTATGTTGTTGGATGCAAAATGATGCTGTTGATATCTAGTTGAAGTAACTAATTTCTTAAATCCTTCATTCTTGGTTGCTATATAATTTGTGAAGTCAGTTCAAAAAGTGGTGTCAGTATTCTGAAGCTGAAATCAATGACTGGGTTTAGCATTAAAATGCATGAGTTGTTATCTTTCCTTGACAAGTATTTCATATCTTTGATATTCCAGCAGGAGGATGCTTCTTTTGCACAGTTGTCTTCCACTCCAACATCTTCTCGTGGTGATGATTCTTCCTCCATAACTCCTCCAGAAGCTTGGGGTGGTGAGAGATTATCGGATAGATTATCTCATCTTCGGCAGTCAGGAAATATGCCTTCCCGTTTTGCAATCTCGACATCTGGTCCTCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCA</genome_strand>
        <mrna_strand>CAAGTTCCTTACCCAAACAG..........................................................................................................................................................................................................................................................................................................................................................CAGGAGGATGCTTCTTTTGCACAGTTGTCTTCCACTCCAACATCTTCTCGTGGTGATGATTCTTCCTCCATAACTCCTCCAGAAGCTTGGGGTGGTGAGAGATTATCGGATAGATTATCTCATCTTCGGCAGTCAGGAAATATGCCTTCCCGTTTTGCAATCTCGACATCTGGTCCTCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E331027" ref_strand="+" ref_description="SGN-E331027 [cTOD-6-G23]">
      <seq>ataattttcctgcaactcagagtatcggctctttgactagttctactctaagtttggctaatttgcgcataaaagaaaatccaaatgaagaaactattctaggatcttcagaacatgcgagttccacatccttttcagttggaacaaaaggcattactgggcagggtactcttgatactcttggttcaactgtatccctcccacgaagattttccagttatgctgagagaataagcactacaccatccttcagtgatggaaccctttctgttggttctccaaaaactaagaaaactggagctgaaacaagggaagagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctggtgctttccaagcaataaatggtgaaattaagcaatctcaaaagtccacactgcctgaattgcagcagggaagttcctttacactccagctgttccaacgtacacaagaagaaactctttcttcccttcaaaaatccattcacgaggatatgaggaatcttcacttagatatcttaagacaatttcatatgcaagagatggaaacttctagtgctatgaaattgatactggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="43123" stop="41643"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42823" g_stop="42435" g_length="389"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="389" r_length="389" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203">
            <donor d_prob="0.978" 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="42231" g_stop="42055" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="390" r_stop="566" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41979" g_stop="41943" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="567" r_stop="603" r_length="37" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E331027" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>603</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E331027" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42823" e_stop="42435"/>
          <exon e_start="42231" e_stop="42055"/>
          <exon e_start="41979" e_stop="41943"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAATGTATGAATCAGGAAAACTTGGTAGTTCCTATCTTTGGCATCATTTGTTATGCGTCATCATCATGGATGTTTTCATCTTTTGTGTTTCTCGAAGAGAATCTTGGAAGCATGAGCTGGTGGAAAGATCCTTAATGATGAATCATTCCAAATGACAGAATTATCTTTTTAGTAGAAAGTTGTCATTTGACCTATGATTTTTTTCAGGGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAGGTACATTTGTTAACTTTGCACTTTCCTAGTTCTTCTATTGGATCAGTATCTCTTAGATTTGCAAACATTGTGCAGATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAA</genome_strand>
        <mrna_strand>ATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT...........................................................................................................................................................................................................GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG...........................................................................ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E597494" ref_strand="+" ref_description="SGN-E597494 [40999]">
      <seq>gatcttcagaacacgtgagttccacatccttttcagttggaacaaaaggcattacggggcaggggtactcttgattctcttggttcaactatgtccctcccacgaagattttctagttatgctgagagaataagcaccacgccatcctttagtgatggaaccctttctgttggttctccaaaaactaagaaaactggagctgaaacaagggaggagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctaggtgctttccaagcaatgaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="43021" stop="42136"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42721" g_stop="42436" g_length="286"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="288" r_length="288" r_score="0.944"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E597494" ref_strand="+">
        <total_alignment_score>0.944</total_alignment_score>
        <cumulative_length_of_scored_exons>286</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E597494" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42721" e_stop="42436"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCA-GGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCT-GGTGCTTTCCAAGCAATAAA</genome_strand>
        <mrna_strand>GATCTTCAGAACACGTGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACGGGGCAGGGGTACTCTTGATTCTCTTGGTTCAACTATGTCCCTCCCACGAAGATTTTCTAGTTATGCTGAGAGAATAAGCACCACGCCATCCTTTAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAGGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTAGGTGCTTTCCAAGCAATGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E275166" ref_strand="+" ref_description="SGN-E275166 [cLEN-9-F2]">
      <seq>ggatgcttcttttgcacagttgtcttccactccaacatcttctcgtggtgatgattcttcctccataactcctccagaagcttggggtggtgagagattatcggatagattatctcatcttcggcagtcaggaaatatgccttcccgttttgcaatctcgacatctggtcctcttgcaccaggatctatgttatctggattacaggataattttcctgcaactcagagtatcggctctttgactagttctactctaagtttggctaatttgcgcataaaagaaaatccaaatgaagaaactattctaggatcttcagaacatgcgagttccacatccttttcagttggaacaaaaggcattactgggcagggtactcttgatactcttggttcaactgtatccctcccacgaagattttccagttatgctgagagaataagcactacaccatccttcagtgatggaaccctttctgttggttctccaaaaactaagaaaactggagctgaaacaagggaagagcttctgaatagcttgttatctaggtcggacacgtcgtctgctacagcagctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="43329" stop="42155"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43029" g_stop="42455" g_length="575"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="575" r_length="575" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E275166" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>575</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E275166" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43029" e_stop="42455"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATGCTTCTTTTGCACAGTTGTCTTCCACTCCAACATCTTCTCGTGGTGATGATTCTTCCTCCATAACTCCTCCAGAAGCTTGGGGTGGTGAGAGATTATCGGATAGATTATCTCATCTTCGGCAGTCAGGAAATATGCCTTCCCGTTTTGCAATCTCGACATCTGGTCCTCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTG</genome_strand>
        <mrna_strand>GGATGCTTCTTTTGCACAGTTGTCTTCCACTCCAACATCTTCTCGTGGTGATGATTCTTCCTCCATAACTCCTCCAGAAGCTTGGGGTGGTGAGAGATTATCGGATAGATTATCTCATCTTCGGCAGTCAGGAAATATGCCTTCCCGTTTTGCAATCTCGACATCTGGTCCTCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E245656" ref_strand="+" ref_description="SGN-E245656 [cLEF-43-L12]">
      <seq>agtattctatgacgttcgtggaaaaccacaacccttgactgttttacgtgcttatggaaattctgaggctgtgacaagtctatgctggcaaagagcaaaacctgtaattgtcaatgaaaacaattgcactacagaaatggctctcctgggcagtgctgtggaggattcaattttgatgcctgacccacttcctgctatgatgtcatcaagcctagcaacttctatgacaacatcaggttcgagaaccactgttcgttcaggttctgtggactcattttcttttccagcaggcattacaggatctacatctgggacaacaggtttatctccatccgaggaaacacccatacgaagtagtttatggaaaggtggatctttggcaagattacatgctcctcgtaacttcaaggatgatatggaagttttttctcctcttgttgaagttcagccaattacaccttcacttgataagttgtgggatgatcaggaaggtttcaaaaaggattttgataagaagtcatctttgctatttccttcttctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="45264" stop="43161"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="44964" g_stop="44898" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="67" r_length="67" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="44897" i_stop="43936" i_length="962">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="43935" g_stop="43461" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="68" r_stop="542" r_length="475" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E245656" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>542</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E245656" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="44964" e_stop="44898"/>
          <exon e_start="43935" e_stop="43461"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTATTCTATGACGTTCGTGGAAAACCACAACCCTTGACTGTTTTACGTGCTTATGGAAATTCTGAGGTATTTGATTCTTCTTTTCTTAATAAAGTGTTTTGTGTTAAATAGCAGTTTGTCCTTGACTATGTACTTCTATTATGTCGTTTCATTACCTTGGTTGGCAAAACATGAGAAAGGAAATGAAAAGGAGAGAAAAGATTCAGTTCTTATTAACAAGGATGGAGATATGCGACTGTATAATAAGCCCATATGGAGTTGGTATGCATTTATTCTTAAGTCCACTTGTTGTCTTTAAATTGTTTCATCCGTGATGATAGAGGTGGATATGCATGAAATTGGTAATTGTGCAAGAATGGATGAGGAGATTAGGCGGACAAGTAGGTGACCACGGTTCTTCCAATATGGCATGTAGATTTTGAGAGGTTAGAGATAGCCAGCATTTGCTTCGGGGGAGGGGAGGTAGTCCCACAAGCTATTGACCATCTATGATATGCTCAGGGTGCAGGAATTGGGTACAAAAGTGGCACATCACTTTGTCAGGCATGCCAACCAAATTTCTGGTTGGTCAAATGTGGATAGAATTGAACACATTTCTCAATTTCCTAAAATCAAAGACATTGTTAAGATTCCTTGTTTCTTCCTTGGCTAAATGTTTCTTTGTGGCATTTGTGTATCAATAGTAGACCAATGTCATAATCTGATTATGAGTTGGAAGATGGTATAATGTTGCCTCTTGGCTTGGGCAAGGGAGCTGGTCTGAGAAGCTCTTCCTCTTATTCTCTCTCTCTCTCTCTATCGCTCAGCAAAATTAAACAGCATGGTGTTTCTGTATCTATTTGCATATCAGTATAAATCTACCAATGGAATCCGTGCCGATATTCTGCATCTTTTAGTATGTACTGGCTGACCTTCATATATTTTGTTTATCAGCTTGTTAACTTTAGTTTTGTTCCTCAGTACTGACAGTACCTTTTTTACTACTCTGATTTACTTCCTCTTACTAGAAAAGTATGATGAATTTACAGGCTGTGACAAGTCTATGCTGGCAAAGAGCAAAACCTGTAATTGTCAATGAAAACAATTGCACTACAGAAATGGCTCTCCTGGGCAGTGCTGTGGAGGATTCAATTTTGATGCCTGACCCACTTCCTGCTATGATGTCATCAAGCCTAGCAACTTCTATGACAACATCAGGTTCGAGAACCACTGTTCGTTCAGGTTCTGTGGACTCATTTTCTTTTCCAGCAGGCATTACAGGATCTACATCTGGGACAACAGGTTTATCTCCATCCGAGGAAACACCCATACGAAGTAGTTTATGGAAAGGTGGATCTTTGGCAAGATTACATGCTCCTCGTAACTTCAAGGATGATATGGAAGTTTTTTCTCCTCTTGTTGAAGTTCAGCCAATTACACCTTCACTTGATAAGTTGTGGGATGATCAGGAAGGTTTCAAAAAGGATTTTGATAAGAAGTCATCTTTGCTATTTCCTTCTTCTC</genome_strand>
        <mrna_strand>AGTATTCTATGACGTTCGTGGAAAACCACAACCCTTGACTGTTTTACGTGCTTATGGAAATTCTGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGTGACAAGTCTATGCTGGCAAAGAGCAAAACCTGTAATTGTCAATGAAAACAATTGCACTACAGAAATGGCTCTCCTGGGCAGTGCTGTGGAGGATTCAATTTTGATGCCTGACCCACTTCCTGCTATGATGTCATCAAGCCTAGCAACTTCTATGACAACATCAGGTTCGAGAACCACTGTTCGTTCAGGTTCTGTGGACTCATTTTCTTTTCCAGCAGGCATTACAGGATCTACATCTGGGACAACAGGTTTATCTCCATCCGAGGAAACACCCATACGAAGTAGTTTATGGAAAGGTGGATCTTTGGCAAGATTACATGCTCCTCGTAACTTCAAGGATGATATGGAAGTTTTTTCTCCTCTTGTTGAAGTTCAGCCAATTACACCTTCACTTGATAAGTTGTGGGATGATCAGGAAGGTTTCAAAAAGGATTTTGATAAGAAGTCATCTTTGCTATTTCCTTCTTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E427819" ref_strand="+" ref_description="SGN-E427819 [STM-49-K19]">
      <seq>atttgcaatccccttctctctccggtagggtttcaaatcaaacacctaaattacacccacttcactcttctctctctttcccatcttctgaaaattcaaatctgtaaattgtacatttcacaatccaagaatctattcatagatgaattctacagattcgataaaaacccttttggctactactggcggtgacactgttaagctttttgacctcactttggagtcccgtgatccctgcattcttagttatactccttcccctggattccaagtcaattccgtcaagtggaatcacactaatttggtggtggcaagcgctggagatgacaagaagatatctttgtggaggaaaaatggacagagtttggggactgtaccactggccggcactgatggtgctgacaatatcgaggagtctatttcaacaattaactttagcagcaaagcgtccagatacatttgttctggaggcagtggccaagttgtacgaatatgggatttgcagcggaagcgttgcatcaaatggttgaaaggtcatactgatactattagcggtgcaatgtacaattgtaaagatgagcacttagcttctatcagtcttaatgggaatcttatacttcacaaccttgcttctggtgcaaaggctgctgaactcaaggatccaaatgcgcaggttttgagagtgcttgattattctaagattagcaggcacctattggtgacagctggntgatgatggatctatccacctgtgggatacaactggtcgcagccccaaggtttcttggctaaagcagcattctgcaccaacttctggcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="49294" stop="44971"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48994" g_stop="48695" g_length="300"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="299" r_length="299" r_score="0.957"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="48694" i_stop="48626" i_length="69">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48625" g_stop="48513" g_length="113"/>
          <reference_exon_boundary r_type="cDNA" r_start="300" r_stop="412" r_length="113" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="48512" i_stop="46665" i_length="1848">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.878" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46664" g_stop="46404" g_length="261"/>
          <reference_exon_boundary r_type="cDNA" r_start="413" r_stop="673" r_length="261" r_score="0.966"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="46403" i_stop="46277" i_length="127">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.406" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="46276" g_stop="46172" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="674" r_stop="779" r_length="106" r_score="0.962"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="46171" i_stop="45313" i_length="859">
            <donor d_prob="0.996" d_score="0.96"/>
            <acceptor a_prob="0.921" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="45312" g_stop="45271" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="780" r_stop="821" r_length="42" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E427819" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>821</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E427819" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48994" e_stop="48695"/>
          <exon e_start="48625" e_stop="48513"/>
          <exon e_start="46664" e_stop="46404"/>
          <exon e_start="46276" e_stop="46172"/>
          <exon e_start="45312" e_stop="45271"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTGCAATCCCCTCTCTCTCTCCGGTAGGGTTTCAAATCAAACACCTAAATTACACCCCACTTCACTCTTCTCTCTCTTTCCCTTCTTCTG-AAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTAGTTAGTTTCCCCTTTCTATCATGAATTTACATTCTTTTTGCAAATTCGATTTAACTTTGGGTGTTGCAGATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAGGTACTTTTGTTTACCTTTTTACTTTTTTCGCTGCAAATCTAAGATAGTTACTTTGTTGTCCTGTTATCGAAATGTAATAATTCCTTAATTTCCAATTTTTTCAATGGATTTTGGCACAGATTTCTTTGAAAATGGTGAATTTTGAGAGGTTAAAGATATGTTGTAGTTTTGACCAACTTCATTTTTACCTCTATTTGCTGCTAAAGTTACAGGAAAATTTGTGCTTTCATATGATAGTTTTTCATTTAGAATGCACTGGGCAGGCCTCAATGATGTTCTCACATATTAGAGAGATTTCTTAAATATTATAGCGTACTGAATAGCACATTTCAAAAAGAGACATTGTAGCACTCTGAAACTATTGTACACATGAGTAGGCTGCTTTTGCCATATACATTTTATCCAAGTTGCTCGGACTCTTCACTTTCGATGCCGCACTAGTGTCGACACAATGTTGGTGTGGTGTGGGATCCGTACGTGATTTGGTCAACCGGTTTCGGGTATTTTGACCCAATTAGAGGGAGAAATTCTGGAAAGGTTTCATGATTTATGTATTCAAAACAAAAGATAAGGTGACATTGAAGAAGATGGAATACCTCGTATATATAAATTTATATTTACTCCCTTTCCTTTTATATCCTGCCATGATTCTCCTTTGGATCAATAGTTTTCTAAAGTTCACCACATAATATCTCATAATTAGGTTTAGTAACTCTAATTTAGATACATCAATTATTTTTAGCTGAATCTCCGCAGTTGTATCCATACATCGATCCGTATCCCTGATCTTAAAATTTAGATCATAGAGGATCTAACCTCTAGATCCGCACCCACATTGGACACCTGCATCTGAGTCCGGCAACTTAGCATTTTATGCAACATGGATACTTCTGGTTGTTCTCATAATACAAAAAAAAAATGGTAGGCTGAAGGGGGGAAATATTTGAGCTGTTTTTATTTATAGTAGTAGCTTCAAAAATTTATTTTTCCCTAATACAGTAATTTCAAATAATGATCATGTTAAATTGCCCTGGGGCATTGATCTAGTGGTAAGATATCAACACATGATGTTTGGGTTAGGTGCACGTCATGGGTTCGAACCCGGTAACAGATAGAAACCTAGTGTTTAACTTTAAAAGGATAGATGGCGGGCCCATTCTCTACCGAGTTTTGAACCATTTGTAGTGGACCTATATATGGGGGATAAAAAGAATTATTATGATAGATTACTCATGTATCATCTAGTACTGTTCTTCTATAGGGGTTCCCCTATTTTCAGATGTTGTACGGTAAGTTCTCAAATACTGTCCTCAGTGTTAAAGCACCAAATGAAAAGTAGACATCAACATGACATTGTTTGAACCATAATAATTTTGTTAAGAGGAAGCCAAACCGATGTCATTTTTGCTAAATTAGAAAAGCGTGTTTGCGAGTGGCTTATAAGAATTCCATAATTTGCTATATTTACTGATCATAAAAGAATACCGTACTTTACAGCTTTTTATGTTGAATGCATTTGCCTGAGATTTTGTGTTCGCCTCTGGGTTTGAATGGGAGAAAGATAGGGTTTGGTCAGGCATAGAATGAATCCTGATTGTTCGATTATCCTATGGCATATATGTTTATGAAAGAAGGATGCTGCATAAATGTGTGCTCTATTGCTATCCTGTGGCAAAAGGTGACGATGATAAGAAGATTGGTTGGAATAAAGTTGGCTTTCTATCCCATCCCCCATTACCTAACATGGGTCTTCGGTATAGGCTGTCAACATTTTTTTGAAGCCCAACTTGTGAAGTGGGCTGTCAATCAATTAATTATCTACAAGTAGTTCATTTCTATCACTTGCAGGAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAACTCAAGGATCCAAATGCGCAGGTTAATTCATTCTTTCCAAGTCCCACTTTGCTGTATAGCATCTTATAGCTGCAATTTGCTTTTGGTTTTTGGAATGATGCTTTCTTTTCTGATGCCATTGTTCTTTGTCTGATTATCACAAGATCAGGTTTTGAGAGTGCTTGATTATTCTAAGATTAGCAGGCATTTATTGGTGACAGCTGG-TGATGATGGATCTATCCACCTGTGGGATACAACTGGTCGCAGCCCCAAGGTTTGTTGACATTCTGGTGTTCTGAGATGATAAAAATTGATTTCATTACATATTGTGTTGTGCCTAGATCTGTATTATTTAAAAGGTTTATAACTGGAGATTAATAGGGAATCCCATTTCTTTCTCCTCGCAATCTGTATTTGCAAGTCAGATCTCATCCACTTATTTGGTATAGGCTAGCTATTGGCTATGACATAGAACATTCTGAAAGAAGAATCACCAATCCATTTGCAACTTACAACTGTTGCTTTTCAGAGGGCTTGACGGTCTTTTACTCATAAAAAGACATTTAGCACTACTCTTTGAGGGTTTGGTAGTCAAAACTCACAGAAAGAATCATTATTACTGCAATATATGCTGTGCTGTTAGAAGCGCTATACGTTATAGTTTGTGGACTTCAAAGTTGGAGTCTGAGCTTGATATGCGACGCTTAAAACACTGAATAATGGTTATGAAGTTTCCAGAGAGTTAATTCGAAACCTCCCAGTCCCTGTCTCAGTACATATTTTGCCTCCCTACCTGCTGACATTCAGAACAATTCATGGTCCTTCTACCTAGGAAAAGAACATGTCATGGTCCTTCCCCGATGCTCTTCTTTTTCCTACTCTTCCTTCTCTCTTTTTTCTTTGAAAGATGAGACCCTCTCTGCAATTCTTTCCACTTCCCATCCTCGGGCATGCTTTCATAGCCATAATGGTTAAATTTGCCAAGTGCAATGGTATCTTACTCTGCATTTTATGTTAATCTTTATAATACCCTGGTATAGTGGTACTCTGGGTTGATGTCTCTCAAGTGTACCTGTCTTGCTTGCTGTGCATCGTTTTATTGGATAACTGATAATTGTTTTTACCTTTAAAAGGTTTCTTGGCTAAAGCAGCATTCTGCACCAACTTCTGGCATT</genome_strand>
        <mrna_strand>ATTTGCAATCCCCT-TCTCTCTCCGGTAGGGTTTCAAATCAAACACCTAAATTACA-CCCACTTCACTCTTCTCTCTCTTTCCCATCTTCTGAAAATTCAAATCTGTAAATTGTACATTTCACAATCCAAGAATCTATTCATAGATGAATTCTACAGATTCGATAAAAACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAGTCCCGTGATCCCTGCATTCTTAGTTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTA.....................................................................ATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATGGTGCTGACAATATCGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGTCTATTTCAACAATTAACTTTAGCAGCAAAGCGTCCAGATACATTTGTTCTGGAGGCAGTGGCCAAGTTGTACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACTGATACTATTAGCGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAACTCAAGGATCCAAATGCGCAG...............................................................................................................................GTTTTGAGAGTGCTTGATTATTCTAAGATTAGCAGGCACCTATTGGTGACAGCTGGNTGATGATGGATCTATCCACCTGTGGGATACAACTGGTCGCAGCCCCAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCTTGGCTAAAGCAGCATTCTGCACCAACTTCTGGCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E541714" ref_strand="+" ref_description="SGN-E541714 [TUS-62-K9]">
      <seq>caaacacctaaattacaccccacttcactcttctctctctttcccttcttctgaaattcaaatctgtaaactgtatatttcacaatccaagaatctcttcatagatgaattctacagattcgattaagacccttttggctactactggcggtgacactgttaagctttttgacctcactttggaaccccgtgatccctgcattcttagctatactccttcccctggattccaagtcaattccgtcaagtggaatcacactaatttggtggtggcaagcgctggagatgacaagaagatatctttgtggaggaaaaatggacagagtttggggactgtaccactggccggcactgatagtgctgacaatatcgaggagtctatttcaacagttaactttagcagcaaagcatcccgatacatatgttctggaggtagtggccaagttatacgaatatgggatttgcagcggaagcgttgcatcaaatggttgaaaggtcataccaatactattagtggtgcaatgtacaattgtaaagatgagcacttagcttctatcagtcttaatgggaatcttatacttcacaaccttgcttctggtgcaaaggctgctgaactncaggatccaaatgcgcaggttttgagagtgcttgattattctaagattagcangcatttattggtgacagctggtgatgatggatctatccacctgtgggatacaactggtcgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="49255" stop="45880"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48955" g_stop="48695" g_length="261"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="261" r_length="261" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="48694" i_stop="48626" i_length="69">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48625" g_stop="48513" g_length="113"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="374" r_length="113" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="48512" i_stop="46665" i_length="1848">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.878" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46664" g_stop="46404" g_length="261"/>
          <reference_exon_boundary r_type="cDNA" r_start="375" r_stop="635" r_length="261" r_score="0.992"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="46403" i_stop="46277" i_length="127">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.406" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="46276" g_stop="46180" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="636" r_stop="732" r_length="97" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E541714" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>732</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E541714" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48955" e_stop="48695"/>
          <exon e_start="48625" e_stop="48513"/>
          <exon e_start="46664" e_stop="46404"/>
          <exon e_start="46276" e_stop="46180"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAACACCTAAATTACACCCCACTTCACTCTTCTCTCTCTTTCCCTTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTAGTTAGTTTCCCCTTTCTATCATGAATTTACATTCTTTTTGCAAATTCGATTTAACTTTGGGTGTTGCAGATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAGGTACTTTTGTTTACCTTTTTACTTTTTTCGCTGCAAATCTAAGATAGTTACTTTGTTGTCCTGTTATCGAAATGTAATAATTCCTTAATTTCCAATTTTTTCAATGGATTTTGGCACAGATTTCTTTGAAAATGGTGAATTTTGAGAGGTTAAAGATATGTTGTAGTTTTGACCAACTTCATTTTTACCTCTATTTGCTGCTAAAGTTACAGGAAAATTTGTGCTTTCATATGATAGTTTTTCATTTAGAATGCACTGGGCAGGCCTCAATGATGTTCTCACATATTAGAGAGATTTCTTAAATATTATAGCGTACTGAATAGCACATTTCAAAAAGAGACATTGTAGCACTCTGAAACTATTGTACACATGAGTAGGCTGCTTTTGCCATATACATTTTATCCAAGTTGCTCGGACTCTTCACTTTCGATGCCGCACTAGTGTCGACACAATGTTGGTGTGGTGTGGGATCCGTACGTGATTTGGTCAACCGGTTTCGGGTATTTTGACCCAATTAGAGGGAGAAATTCTGGAAAGGTTTCATGATTTATGTATTCAAAACAAAAGATAAGGTGACATTGAAGAAGATGGAATACCTCGTATATATAAATTTATATTTACTCCCTTTCCTTTTATATCCTGCCATGATTCTCCTTTGGATCAATAGTTTTCTAAAGTTCACCACATAATATCTCATAATTAGGTTTAGTAACTCTAATTTAGATACATCAATTATTTTTAGCTGAATCTCCGCAGTTGTATCCATACATCGATCCGTATCCCTGATCTTAAAATTTAGATCATAGAGGATCTAACCTCTAGATCCGCACCCACATTGGACACCTGCATCTGAGTCCGGCAACTTAGCATTTTATGCAACATGGATACTTCTGGTTGTTCTCATAATACAAAAAAAAAATGGTAGGCTGAAGGGGGGAAATATTTGAGCTGTTTTTATTTATAGTAGTAGCTTCAAAAATTTATTTTTCCCTAATACAGTAATTTCAAATAATGATCATGTTAAATTGCCCTGGGGCATTGATCTAGTGGTAAGATATCAACACATGATGTTTGGGTTAGGTGCACGTCATGGGTTCGAACCCGGTAACAGATAGAAACCTAGTGTTTAACTTTAAAAGGATAGATGGCGGGCCCATTCTCTACCGAGTTTTGAACCATTTGTAGTGGACCTATATATGGGGGATAAAAAGAATTATTATGATAGATTACTCATGTATCATCTAGTACTGTTCTTCTATAGGGGTTCCCCTATTTTCAGATGTTGTACGGTAAGTTCTCAAATACTGTCCTCAGTGTTAAAGCACCAAATGAAAAGTAGACATCAACATGACATTGTTTGAACCATAATAATTTTGTTAAGAGGAAGCCAAACCGATGTCATTTTTGCTAAATTAGAAAAGCGTGTTTGCGAGTGGCTTATAAGAATTCCATAATTTGCTATATTTACTGATCATAAAAGAATACCGTACTTTACAGCTTTTTATGTTGAATGCATTTGCCTGAGATTTTGTGTTCGCCTCTGGGTTTGAATGGGAGAAAGATAGGGTTTGGTCAGGCATAGAATGAATCCTGATTGTTCGATTATCCTATGGCATATATGTTTATGAAAGAAGGATGCTGCATAAATGTGTGCTCTATTGCTATCCTGTGGCAAAAGGTGACGATGATAAGAAGATTGGTTGGAATAAAGTTGGCTTTCTATCCCATCCCCCATTACCTAACATGGGTCTTCGGTATAGGCTGTCAACATTTTTTTGAAGCCCAACTTGTGAAGTGGGCTGTCAATCAATTAATTATCTACAAGTAGTTCATTTCTATCACTTGCAGGAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAACTCAAGGATCCAAATGCGCAGGTTAATTCATTCTTTCCAAGTCCCACTTTGCTGTATAGCATCTTATAGCTGCAATTTGCTTTTGGTTTTTGGAATGATGCTTTCTTTTCTGATGCCATTGTTCTTTGTCTGATTATCACAAGATCAGGTTTTGAGAGTGCTTGATTATTCTAAGATTAGCAGGCATTTATTGGTGACAGCTGGTGATGATGGATCTATCCACCTGTGGGATACAACTGGTCGCA</genome_strand>
        <mrna_strand>CAAACACCTAAATTACACCCCACTTCACTCTTCTCTCTCTTTCCCTTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTA.....................................................................ATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAACTNCAGGATCCAAATGCGCAG...............................................................................................................................GTTTTGAGAGTGCTTGATTATTCTAAGATTAGCANGCATTTATTGGTGACAGCTGGTGATGATGGATCTATCCACCTGTGGGATACAACTGGTCGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E332243" ref_strand="+" ref_description="SGN-E332243 [cTOD-17-C6]">
      <seq>ttcttctgaaattcaaatctgtaaactgtatatttcacaatccaagaatctcttcatagatgaattctacagattcgattaagacccttttggctactactggcggtgacactgttaagctttttgacctcactttggaaccccgtgatccctgcattcttagctatactccttcccctggattccaagtcaattccgtcaagtggaatcacactagttagtttcccctttctatcatgaatttacattctttttgcaaattcgatttaactttgggtgttgcagatttggtggtggcaagcgctggagatgacaagaagatatctttgtggaggaaaaatggacagagtttggggactgtaccactggccggcactgatagtgctgacaatatcgaggagtctatttcaacagttaactttagcagcaaagcatcccgatacatatgttctggaggtagtggccaagttatacgaatatgggatttgcagcggaagcgttgcatcaaatggttgaaaggtcataccaatactattagtggtgcaatgtacaattgtaaagatgagcacttagcttctatcagtcttaatgggaaatctatacttcacaaccttgcttctggtgcaaaggctgctgaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="49210" stop="46124"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48910" g_stop="48513" g_length="398"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="398" r_length="398" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="48512" i_stop="46665" i_length="1848">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.878" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46664" g_stop="46424" g_length="241"/>
          <reference_exon_boundary r_type="cDNA" r_start="399" r_stop="639" r_length="241" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E332243" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>639</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E332243" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48910" e_stop="48513"/>
          <exon e_start="46664" e_stop="46424"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTAGTTAGTTTCCCCTTTCTATCATGAATTTACATTCTTTTTGCAAATTCGATTTAACTTTGGGTGTTGCAGATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAGGTACTTTTGTTTACCTTTTTACTTTTTTCGCTGCAAATCTAAGATAGTTACTTTGTTGTCCTGTTATCGAAATGTAATAATTCCTTAATTTCCAATTTTTTCAATGGATTTTGGCACAGATTTCTTTGAAAATGGTGAATTTTGAGAGGTTAAAGATATGTTGTAGTTTTGACCAACTTCATTTTTACCTCTATTTGCTGCTAAAGTTACAGGAAAATTTGTGCTTTCATATGATAGTTTTTCATTTAGAATGCACTGGGCAGGCCTCAATGATGTTCTCACATATTAGAGAGATTTCTTAAATATTATAGCGTACTGAATAGCACATTTCAAAAAGAGACATTGTAGCACTCTGAAACTATTGTACACATGAGTAGGCTGCTTTTGCCATATACATTTTATCCAAGTTGCTCGGACTCTTCACTTTCGATGCCGCACTAGTGTCGACACAATGTTGGTGTGGTGTGGGATCCGTACGTGATTTGGTCAACCGGTTTCGGGTATTTTGACCCAATTAGAGGGAGAAATTCTGGAAAGGTTTCATGATTTATGTATTCAAAACAAAAGATAAGGTGACATTGAAGAAGATGGAATACCTCGTATATATAAATTTATATTTACTCCCTTTCCTTTTATATCCTGCCATGATTCTCCTTTGGATCAATAGTTTTCTAAAGTTCACCACATAATATCTCATAATTAGGTTTAGTAACTCTAATTTAGATACATCAATTATTTTTAGCTGAATCTCCGCAGTTGTATCCATACATCGATCCGTATCCCTGATCTTAAAATTTAGATCATAGAGGATCTAACCTCTAGATCCGCACCCACATTGGACACCTGCATCTGAGTCCGGCAACTTAGCATTTTATGCAACATGGATACTTCTGGTTGTTCTCATAATACAAAAAAAAAATGGTAGGCTGAAGGGGGGAAATATTTGAGCTGTTTTTATTTATAGTAGTAGCTTCAAAAATTTATTTTTCCCTAATACAGTAATTTCAAATAATGATCATGTTAAATTGCCCTGGGGCATTGATCTAGTGGTAAGATATCAACACATGATGTTTGGGTTAGGTGCACGTCATGGGTTCGAACCCGGTAACAGATAGAAACCTAGTGTTTAACTTTAAAAGGATAGATGGCGGGCCCATTCTCTACCGAGTTTTGAACCATTTGTAGTGGACCTATATATGGGGGATAAAAAGAATTATTATGATAGATTACTCATGTATCATCTAGTACTGTTCTTCTATAGGGGTTCCCCTATTTTCAGATGTTGTACGGTAAGTTCTCAAATACTGTCCTCAGTGTTAAAGCACCAAATGAAAAGTAGACATCAACATGACATTGTTTGAACCATAATAATTTTGTTAAGAGGAAGCCAAACCGATGTCATTTTTGCTAAATTAGAAAAGCGTGTTTGCGAGTGGCTTATAAGAATTCCATAATTTGCTATATTTACTGATCATAAAAGAATACCGTACTTTACAGCTTTTTATGTTGAATGCATTTGCCTGAGATTTTGTGTTCGCCTCTGGGTTTGAATGGGAGAAAGATAGGGTTTGGTCAGGCATAGAATGAATCCTGATTGTTCGATTATCCTATGGCATATATGTTTATGAAAGAAGGATGCTGCATAAATGTGTGCTCTATTGCTATCCTGTGGCAAAAGGTGACGATGATAAGAAGATTGGTTGGAATAAAGTTGGCTTTCTATCCCATCCCCCATTACCTAACATGGGTCTTCGGTATAGGCTGTCAACATTTTTTTGAAGCCCAACTTGTGAAGTGGGCTGTCAATCAATTAATTATCTACAAGTAGTTCATTTCTATCACTTGCAGGAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAAC</genome_strand>
        <mrna_strand>TTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTAGTTAGTTTCCCCTTTCTATCATGAATTTACATTCTTTTTGCAAATTCGATTTAACTTTGGGTGTTGCAGATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAAATCTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E477794" ref_strand="+" ref_description="SGN-E477794 [cSTD-1-D20]">
      <seq>atttgcaatccccttctctctccggtagggtttcaaatcaaacacctaaattacacccacttcactcttctctctctttcccatcttctgaaaattcaaatctgtaaattgtacatttcacaatccaagaatctattcatagatgaattctacagattcgataaaaacccttttggctactactggcggtgacactgttaagctttttgacctcactttggagtcccgtgatccctgcattcttagttatactccttcccctggattccaagtcaattccgtcaagtggaatcacactaatttggtggtggcaagcgctggagatgacaagaagatatctttgtggaggaaaaatggacagagtttggggactgtaccactggccggcactgatggtgctgacaatatcgaggagtctatttcaacaattaactttagcagcaaagcgtccagatacatttgttctggaggcagtggccaagttgtacgaatatgggatttgcagcggaagcgttgcatcaaatggttgaaaggtcatactgatactattagcggtgcaatgtacaattgtaaagatgagcacttagcttctatcagtcttaatgggaatcttatacttcacaaccttgcttctggtgccaaggctgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="49294" stop="46127"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48994" g_stop="48695" g_length="300"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="299" r_length="299" r_score="0.957"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="48694" i_stop="48626" i_length="69">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48625" g_stop="48513" g_length="113"/>
          <reference_exon_boundary r_type="cDNA" r_start="300" r_stop="412" r_length="113" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="48512" i_stop="46665" i_length="1848">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.878" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46664" g_stop="46427" g_length="238"/>
          <reference_exon_boundary r_type="cDNA" r_start="413" r_stop="650" r_length="238" r_score="0.958"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E477794" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>651</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E477794" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48994" e_stop="48695"/>
          <exon e_start="48625" e_stop="48513"/>
          <exon e_start="46664" e_stop="46427"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTGCAATCCCCTCTCTCTCTCCGGTAGGGTTTCAAATCAAACACCTAAATTACACCCCACTTCACTCTTCTCTCTCTTTCCCTTCTTCTG-AAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTAGTTAGTTTCCCCTTTCTATCATGAATTTACATTCTTTTTGCAAATTCGATTTAACTTTGGGTGTTGCAGATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAGGTACTTTTGTTTACCTTTTTACTTTTTTCGCTGCAAATCTAAGATAGTTACTTTGTTGTCCTGTTATCGAAATGTAATAATTCCTTAATTTCCAATTTTTTCAATGGATTTTGGCACAGATTTCTTTGAAAATGGTGAATTTTGAGAGGTTAAAGATATGTTGTAGTTTTGACCAACTTCATTTTTACCTCTATTTGCTGCTAAAGTTACAGGAAAATTTGTGCTTTCATATGATAGTTTTTCATTTAGAATGCACTGGGCAGGCCTCAATGATGTTCTCACATATTAGAGAGATTTCTTAAATATTATAGCGTACTGAATAGCACATTTCAAAAAGAGACATTGTAGCACTCTGAAACTATTGTACACATGAGTAGGCTGCTTTTGCCATATACATTTTATCCAAGTTGCTCGGACTCTTCACTTTCGATGCCGCACTAGTGTCGACACAATGTTGGTGTGGTGTGGGATCCGTACGTGATTTGGTCAACCGGTTTCGGGTATTTTGACCCAATTAGAGGGAGAAATTCTGGAAAGGTTTCATGATTTATGTATTCAAAACAAAAGATAAGGTGACATTGAAGAAGATGGAATACCTCGTATATATAAATTTATATTTACTCCCTTTCCTTTTATATCCTGCCATGATTCTCCTTTGGATCAATAGTTTTCTAAAGTTCACCACATAATATCTCATAATTAGGTTTAGTAACTCTAATTTAGATACATCAATTATTTTTAGCTGAATCTCCGCAGTTGTATCCATACATCGATCCGTATCCCTGATCTTAAAATTTAGATCATAGAGGATCTAACCTCTAGATCCGCACCCACATTGGACACCTGCATCTGAGTCCGGCAACTTAGCATTTTATGCAACATGGATACTTCTGGTTGTTCTCATAATACAAAAAAAAAATGGTAGGCTGAAGGGGGGAAATATTTGAGCTGTTTTTATTTATAGTAGTAGCTTCAAAAATTTATTTTTCCCTAATACAGTAATTTCAAATAATGATCATGTTAAATTGCCCTGGGGCATTGATCTAGTGGTAAGATATCAACACATGATGTTTGGGTTAGGTGCACGTCATGGGTTCGAACCCGGTAACAGATAGAAACCTAGTGTTTAACTTTAAAAGGATAGATGGCGGGCCCATTCTCTACCGAGTTTTGAACCATTTGTAGTGGACCTATATATGGGGGATAAAAAGAATTATTATGATAGATTACTCATGTATCATCTAGTACTGTTCTTCTATAGGGGTTCCCCTATTTTCAGATGTTGTACGGTAAGTTCTCAAATACTGTCCTCAGTGTTAAAGCACCAAATGAAAAGTAGACATCAACATGACATTGTTTGAACCATAATAATTTTGTTAAGAGGAAGCCAAACCGATGTCATTTTTGCTAAATTAGAAAAGCGTGTTTGCGAGTGGCTTATAAGAATTCCATAATTTGCTATATTTACTGATCATAAAAGAATACCGTACTTTACAGCTTTTTATGTTGAATGCATTTGCCTGAGATTTTGTGTTCGCCTCTGGGTTTGAATGGGAGAAAGATAGGGTTTGGTCAGGCATAGAATGAATCCTGATTGTTCGATTATCCTATGGCATATATGTTTATGAAAGAAGGATGCTGCATAAATGTGTGCTCTATTGCTATCCTGTGGCAAAAGGTGACGATGATAAGAAGATTGGTTGGAATAAAGTTGGCTTTCTATCCCATCCCCCATTACCTAACATGGGTCTTCGGTATAGGCTGTCAACATTTTTTTGAAGCCCAACTTGTGAAGTGGGCTGTCAATCAATTAATTATCTACAAGTAGTTCATTTCTATCACTTGCAGGAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTG</genome_strand>
        <mrna_strand>ATTTGCAATCCCCT-TCTCTCTCCGGTAGGGTTTCAAATCAAACACCTAAATTACA-CCCACTTCACTCTTCTCTCTCTTTCCCATCTTCTGAAAATTCAAATCTGTAAATTGTACATTTCACAATCCAAGAATCTATTCATAGATGAATTCTACAGATTCGATAAAAACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAGTCCCGTGATCCCTGCATTCTTAGTTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTA.....................................................................ATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATGGTGCTGACAATATCGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGTCTATTTCAACAATTAACTTTAGCAGCAAAGCGTCCAGATACATTTGTTCTGGAGGCAGTGGCCAAGTTGTACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACTGATACTATTAGCGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCCAAGGCTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E299782" ref_strand="+" ref_description="SGN-E299782 [cLEW-1-C7]">
      <seq>aaacacctttattacacctcacttcactcttctctctctttcccttcttctgaaattcaaatctgtaaactgtatatttcacaatccaagaatctcttcatagatgaattctacagattcgattaagacccttttggctactactggcggtgacactgttaagctttttgacctcactttggaaccccgtgatccctgcattcttagctatactccttcccctggattccaagtcaattccgtcaagtggaatcacactaatttggtggtggcaagcgctggagatgacaagaagatatctttgtggaggaaaaatggacagagtttggggactgtaccactggccggcactgatagtgctgacaatatcgaggagtctatttcaacagttaactttagcagcaaagcatcccgatacatatgttctggaggtagtggccaagttatacgaatatgggatttgcagcggaagcgttgcatcaaatggttgaaaggtcataccaatactattagtggtgcaatgtacaattgtaaagatgagcacttagcttctatcagtcttaatgggaatcttatacttcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="-" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="49254" stop="46155"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48954" g_stop="48695" g_length="260"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="260" r_length="260" r_score="0.988"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="48694" i_stop="48626" i_length="69">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48625" g_stop="48513" g_length="113"/>
          <reference_exon_boundary r_type="cDNA" r_start="261" r_stop="373" r_length="113" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="48512" i_stop="46665" i_length="1848">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.878" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46664" g_stop="46455" g_length="210"/>
          <reference_exon_boundary r_type="cDNA" r_start="374" r_stop="583" r_length="210" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="-" ref_id="SGN-E299782" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>583</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299782" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48954" e_stop="48695"/>
          <exon e_start="48625" e_stop="48513"/>
          <exon e_start="46664" e_stop="46455"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACCTAAATTACACCCCACTTCACTCTTCTCTCTCTTTCCCTTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTAGTTAGTTTCCCCTTTCTATCATGAATTTACATTCTTTTTGCAAATTCGATTTAACTTTGGGTGTTGCAGATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAGGTACTTTTGTTTACCTTTTTACTTTTTTCGCTGCAAATCTAAGATAGTTACTTTGTTGTCCTGTTATCGAAATGTAATAATTCCTTAATTTCCAATTTTTTCAATGGATTTTGGCACAGATTTCTTTGAAAATGGTGAATTTTGAGAGGTTAAAGATATGTTGTAGTTTTGACCAACTTCATTTTTACCTCTATTTGCTGCTAAAGTTACAGGAAAATTTGTGCTTTCATATGATAGTTTTTCATTTAGAATGCACTGGGCAGGCCTCAATGATGTTCTCACATATTAGAGAGATTTCTTAAATATTATAGCGTACTGAATAGCACATTTCAAAAAGAGACATTGTAGCACTCTGAAACTATTGTACACATGAGTAGGCTGCTTTTGCCATATACATTTTATCCAAGTTGCTCGGACTCTTCACTTTCGATGCCGCACTAGTGTCGACACAATGTTGGTGTGGTGTGGGATCCGTACGTGATTTGGTCAACCGGTTTCGGGTATTTTGACCCAATTAGAGGGAGAAATTCTGGAAAGGTTTCATGATTTATGTATTCAAAACAAAAGATAAGGTGACATTGAAGAAGATGGAATACCTCGTATATATAAATTTATATTTACTCCCTTTCCTTTTATATCCTGCCATGATTCTCCTTTGGATCAATAGTTTTCTAAAGTTCACCACATAATATCTCATAATTAGGTTTAGTAACTCTAATTTAGATACATCAATTATTTTTAGCTGAATCTCCGCAGTTGTATCCATACATCGATCCGTATCCCTGATCTTAAAATTTAGATCATAGAGGATCTAACCTCTAGATCCGCACCCACATTGGACACCTGCATCTGAGTCCGGCAACTTAGCATTTTATGCAACATGGATACTTCTGGTTGTTCTCATAATACAAAAAAAAAATGGTAGGCTGAAGGGGGGAAATATTTGAGCTGTTTTTATTTATAGTAGTAGCTTCAAAAATTTATTTTTCCCTAATACAGTAATTTCAAATAATGATCATGTTAAATTGCCCTGGGGCATTGATCTAGTGGTAAGATATCAACACATGATGTTTGGGTTAGGTGCACGTCATGGGTTCGAACCCGGTAACAGATAGAAACCTAGTGTTTAACTTTAAAAGGATAGATGGCGGGCCCATTCTCTACCGAGTTTTGAACCATTTGTAGTGGACCTATATATGGGGGATAAAAAGAATTATTATGATAGATTACTCATGTATCATCTAGTACTGTTCTTCTATAGGGGTTCCCCTATTTTCAGATGTTGTACGGTAAGTTCTCAAATACTGTCCTCAGTGTTAAAGCACCAAATGAAAAGTAGACATCAACATGACATTGTTTGAACCATAATAATTTTGTTAAGAGGAAGCCAAACCGATGTCATTTTTGCTAAATTAGAAAAGCGTGTTTGCGAGTGGCTTATAAGAATTCCATAATTTGCTATATTTACTGATCATAAAAGAATACCGTACTTTACAGCTTTTTATGTTGAATGCATTTGCCTGAGATTTTGTGTTCGCCTCTGGGTTTGAATGGGAGAAAGATAGGGTTTGGTCAGGCATAGAATGAATCCTGATTGTTCGATTATCCTATGGCATATATGTTTATGAAAGAAGGATGCTGCATAAATGTGTGCTCTATTGCTATCCTGTGGCAAAAGGTGACGATGATAAGAAGATTGGTTGGAATAAAGTTGGCTTTCTATCCCATCCCCCATTACCTAACATGGGTCTTCGGTATAGGCTGTCAACATTTTTTTGAAGCCCAACTTGTGAAGTGGGCTGTCAATCAATTAATTATCTACAAGTAGTTCATTTCTATCACTTGCAGGAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCAC</genome_strand>
        <mrna_strand>AAACACCTTTATTACACCTCACTTCACTCTTCTCTCTCTTTCCCTTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTA.....................................................................ATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E202664" ref_strand="+" ref_description="SGN-E202664 [cLEC-19-J5]">
      <seq>taccctaggcataaaagggtcactgtaacgattcaaaaaaaaagaatgatataaataagaataaataggtatttaagggcataattgtcctttcacgttttaaatgaataaataaataaataagtaaataaataaaatagatttgtatttatttattttaaatgttatttgactaattcttgaattagtctcctaatccaaatagtcctctctctctcacgcttcttaactccctctctcacgtcctccatcttcctcacattatttctgacaaaacatcaacagttttcatgcttgaagaactaacaaaaattttttaagcaaaagaaaaagtaatcaaaacgtcaaggctaagagaggtttgtcgagagaggtgtacgttgaagtgaattgggagtgctttggaggagttttccgggtaacaacattaaagtttgaacatcgattaaggtatgagttttcttctctctcggtccctttccca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0034A02-lvvva/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C03HBa0034A02.1" temp_strand="+" temp_description="C03HBa0034A02.1  AC238562.1 htgs_phase:2 submitted_to_sgn_as:gi|260903613|gb|AC238562.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0034a02, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="51176" stop="52228"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="51480" g_stop="51940" g_length="461"/>
          <reference_exon_boundary r_type="cDNA" r_start="24" r_stop="484" r_length="461" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0034A02.1" gen_strand="+" ref_id="SGN-E202664" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>461</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0034A02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E202664" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="51480" e_stop="51940"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTAACGATTCAAAAAAAAAAGAATTATATAAATAAGAATAAATAGGTATTTAAGGGCATAATTGTCCTTTCATGTTTTAAATGAATAAATAAATAAATAAGTAAATAAATAAAACAGATTTGTATTTATTTATTTTAAATGTTATTTGACTAATTCTTGAATTAGTCTCCTAATCCAAATAGTCCTCTCTCTCTCACGCTTCTTAACTCCCTCTCTCACGTTCTCCATCTTCCTCACATTATTTCTGCCAAAACATCAACAGTTTTCATGCTTGAAGAACTAACAAAAA-TTTTTAAGCAAAAGAAAAAGTAATCAAAACGTCAAGGCTAAGAGAGGTTTGTCGAGAGAGGTGTACGTTGAAGTGAATTGGGAGTGGTTTGGAGGAGTTTTCCGGGCAGCAACATTAAAGTTTGAACATCGATTAAGGTATGGGTTTTCTTCTCTCTTGAATCCTTTCCCA</genome_strand>
        <mrna_strand>TGTAACGATTCAAAAAA-AAAGAATGATATAAATAAGAATAAATAGGTATTTAAGGGCATAATTGTCCTTTCACGTTTTAAATGAATAAATAAATAAATAAGTAAATAAATAAAATAGATTTGTATTTATTTATTTTAAATGTTATTTGACTAATTCTTGAATTAGTCTCCTAATCCAAATAGTCCTCTCTCTCTCACGCTTCTTAACTCCCTCTCTCACGTCCTCCATCTTCCTCACATTATTTCTGACAAAACATCAACAGTTTTCATGCTTGAAGAACTAACAAAAATTTTTTAAGCAAAAGAAAAAGTAATCAAAACGTCAAGGCTAAGAGAGGTTTGTCGAGAGAGGTGTACGTTGAAGTGAATTGGGAGTGCTTTGGAGGAGTTTTCCGGGTAACAACATTAAAGTTTGAACATCGATTAAGGTATGAGTTTTCTTCTCTCTCGGTCCCTTTCCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>116</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="13441" PGL_stop="13018"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="13441" e_stop="13018"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.932"/>
        </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="0.932">
            <gDNA_exon_boundary e_start="13441" e_stop="13018" 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="13441" stop="13018"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E380017" 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>CACCAAGATTTACGTGGAAAACCCTTTGATGTGAAGAGTAAAAAACCACGGGACCAAAAGCTCCACTATAATCACCAAGAGTTACAATATTGTTCTCCAAAATTGGCCACAAAACAAGTGTCAAACAACGAGCAACAACAAAATAAGATTGCACCAAATCTAGAGAATTAAAGGAACAAAATCACCAATTTCGCAGCTACTATTCACGACAGCAAAACTGAAGATGCAGGCCACCAAATCCAACTCTGTCAGTTCCTAATCAAAGATTGAGATGAGGATAATATGCTGTCCAAAAATCAGCTCAATCGGATAAGAAACGAAGCGGGAATCGCAATTTGAAGTTGGCTGTTATGGCTGAAATTTGACTGCGAAAATCTGCTCTTTTTCTCTCTTTTTGGCTACTAAAAAACTCTCTCTAAAAAAT</gDNA_template>
            <first_frame> H  Q  D  L  R  G  K  P  F  D  V  K  S  K  K  P  R  D  Q  K  L  H  Y  N  H  Q  E  L  Q  Y  C  S  P  K  L  A  T  K  Q  V  S  N  N  E  Q  Q  Q  N  K  I  A  P  N  L  E  N  *  R  N  K  I  T  N  F  A  A  T  I  H  D  S  K  T  E  D  A  G  H  Q  I  Q  L  C  Q  F  L  I  K  D  *  D  E  D  N  M  L  S  K  N  Q  L  N  R  I  R  N  E  A  G  I  A  I  *  S  W  L  L  W  L  K  F  D  C  E  N  L  L  F  F  S  L  F  G  Y  *  K  T  L  S  K  K  </first_frame>
            <second_frame>  T  K  I  Y  V  E  N  P  L  M  *  R  V  K  N  H  G  T  K  S  S  T  I  I  T  K  S  Y  N  I  V  L  Q  N  W  P  Q  N  K  C  Q  T  T  S  N  N  K  I  R  L  H  Q  I  *  R  I  K  G  T  K  S  P  I  S  Q  L  L  F  T  T  A  K  L  K  M  Q  A  T  K  S  N  S  V  S  S  *  S  K  I  E  M  R  I  I  C  C  P  K  I  S  S  I  G  *  E  T  K  R  E  S  Q  F  E  V  G  C  Y  G  *  N  L  T  A  K  I  C  S  F  S  L  F  L  A  T  K  K  L  S  L  K  N </second_frame>
            <third_frame>   P  R  F  T  W  K  T  L  *  C  E  E  *  K  T  T  G  P  K  A  P  L  *  S  P  R  V  T  I  L  F  S  K  I  G  H  K  T  S  V  K  Q  R  A  T  T  K  *  D  C  T  K  S  R  E  L  K  E  Q  N  H  Q  F  R  S  Y  Y  S  R  Q  Q  N  *  R  C  R  P  P  N  P  T  L  S  V  P  N  Q  R  L  R  *  G  *  Y  A  V  Q  K  S  A  Q  S  D  K  K  R  S  G  N  R  N  L  K  L  A  V  M  A  E  I  *  L  R  K  S  A  L  F  L  S  F  W  L  L  K  N  S  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/">
            <none gDNA_id="C03HBa0034A02.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="15674" PGL_stop="18431"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="15674" e_stop="15764"/>
            <exon e_start="16898" e_stop="18431"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.674" e_score="0.930"/>
          <exon-only e_score="0.948"/>
        </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="0.930">
            <gDNA_exon_boundary e_start="15674" e_stop="15764" e_length="91"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.674">
            <gDNA_intron_boundary i_start="15765" i_stop="16897" i_length="1133"/>
          </intron>
          <exon e_serial="2" e_score="0.948">
            <gDNA_exon_boundary e_start="16898" e_stop="18431" e_length="1534"/>
          </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="15674" stop="15764"/>
              <exon start="16898" stop="17545"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E452069" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15675" stop="15764"/>
              <exon start="16898" stop="17486"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E487509" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15679" stop="15764"/>
              <exon start="16898" stop="17367"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E365916" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15717" stop="15764"/>
              <exon start="16898" stop="17488"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E409602" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15717" stop="15764"/>
              <exon start="16898" stop="17486"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E408514" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15724" stop="15764"/>
              <exon start="16898" stop="17190"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E363921" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15735" stop="15764"/>
              <exon start="16898" stop="17506"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E456191" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16924" stop="17559"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E484216" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="17069" stop="17858"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E403691" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="17728" stop="18431"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E462306" 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>GCTTTGAAAAAGTCTTAGAGAGAGAAAGTGAGTGACAAGTGAGAGAAGGAGAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC : AGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATGACAGACTAGATTGTCTTGCCATTTTGTAGGAGGACTTATATTCTACATTCCTGTGGACTGTAGCTTTATAACTGTTTAGGAGTAACAATATTATGTCTGCAAACGTTGGTATGCGCCTGAGTTGATGTTACATGAAGGCTTTAACTATATATAGTGCAGCATTTTGTATAACCTTTATTTGGTTTCTGTCTAGTCACTCTATACTTGTGGTTACAGTTATACCTTTTAGGGGTTGTCAAACATCTGTATTGGCTTGCTGTACTTGTATAGTTCTCTATTAATCACTGTGATCAATTCTGGGAGGTTTATTGGAATCCAGTCAGTGGAATTATTATATACTTTGTTTCCTATCCTACAGGAACTTGCCCTATCAAAGAAAGAACACACTTTTCAGTGAGCTCACTAAAGCTCACCTACTTTTATGACTTTAACTCCCTATTTCTTTGGCAGGTTTTGGAAGAAAGCACTATTTTATTTCATACTGTTGCACTAGTCTATTCTTAAAATTCAGTTTGTATTTGCTTTTTGAATTTGTTCATGTAAAGTATCCTAAAATGGTTTTACTTTTGCAGGAACTCAAAAACATTTACAGTCAGGAGAGTTGAGATATAGTTTATATTGTTTATGTTTTATCATCTGTCTTATTTATTACCAGCAGAATCATGAGTTTCTAACTAAGTTTGTTCTTTCTTATTCAACAGATCCACGCTCTTCCACGAGGTCTAGAGTTCGAACAAATAAAAATCAGCTCTAAGCTTTGAACTCTTGAACAGGGAGAGGTCTGAGGAAGAATCTAATATCTGCCAAATCAATTGGTGTTTTGCATCCACGCTGAAGTGTGACTATCCTGCAGTAACATTGTGAGTAATACAGTCGAATTTCATGTCTGATCGTTTGAAAACAAGATCCACCTATTCTTGGAGTCAGAGATCTGGTGTTTACATC</gDNA_template>
            <first_frame> A  L  K  K  S  *  R  E  K  V  S  D  K  *  E  K  E  K  K  K  L  V  R  C  S  S  F  R  V  H   : Q  H  P  G  Q  G  E  W  G  V  D  I  F  S  E  L  K  F  F  D  *  L  N  N  G  G  T  W  K  I  Y  G  S  S  A  Y  K  C  Y  I  S  V  N  Y  S  G  P  R  W  P  K  P  C  S  Q  V  *  L  E  M  *  K  *  T  C  V  W  E  H  V  P  L  P  S  N  W  A  D  T  H  L  R  Q  K  L  *  P  A  N  I  V  *  *  P  *  L  S  L  Q  S  *  P  T  D  F  P  F  N  T  S  *  S  A  G  C  E  R  C  T  E  E  V  *  C  *  *  F  P  F  *  *  L  R  L  *  A  Q  K  G  C  T  F  P  P  I  T  I  *  E  I  F  H  C  C  *  S  H  L  Q  S  S  W  R  G  H  G  L  E  L  D  I  I  N  F  H  P  F  V  C  L  I  L  L  S  F  R  T  G  L  *  T  I  S  *  F  P  *  Q  T  R  L  S  C  H  F  V  G  G  L  I  F  Y  I  P  V  D  C  S  F  I  T  V  *  E  *  Q  Y  Y  V  C  K  R  W  Y  A  P  E  L  M  L  H  E  G  F  N  Y  I  *  C  S  I  L  Y  N  L  Y  L  V  S  V  *  S  L  Y  T  C  G  Y  S  Y  T  F  *  G  L  S  N  I  C  I  G  L  L  Y  L  Y  S  S  L  L  I  T  V  I  N  S  G  R  F  I  G  I  Q  S  V  E  L  L  Y  T  L  F  P  I  L  Q  E  L  A  L  S  K  K  E  H  T  F  Q  *  A  H  *  S  S  P  T  F  M  T  L  T  P  Y  F  F  G  R  F  W  K  K  A  L  F  Y  F  I  L  L  H  *  S  I  L  K  I  Q  F  V  F  A  F  *  I  C  S  C  K  V  S  *  N  G  F  T  F  A  G  T  Q  K  H  L  Q  S  G  E  L  R  Y  S  L  Y  C  L  C  F  I  I  C  L  I  Y  Y  Q  Q  N  H  E  F  L  T  K  F  V  L  S  Y  S  T  D  P  R  S  S  T  R  S  R  V  R  T  N  K  N  Q  L  *  A  L  N  S  *  T  G  R  G  L  R  K  N  L  I  S  A  K  S  I  G  V  L  H  P  R  *  S  V  T  I  L  Q  *  H  C  E  *  Y  S  R  I  S  C  L  I  V  *  K  Q  D  P  P  I  L  G  V  R  D  L  V  F  T   </first_frame>
            <second_frame>  L  *  K  S  L  R  E  R  K  *  V  T  S  E  R  R  R  R  K  S  L  L  G  V  L  H  F  G  F  I  :  S  I  R  G  K  A  S  G  V  W  I  S  S  Q  N  S  S  F  L  I  N  *  T  M  E  V  L  G  K  S  M  V  A  V  P  T  N  V  I  Y  L  S  T  I  L  G  Q  D  G  P  N  P  V  H  K  C  D  W  K  C  E  N  E  H  V  C  G  N  M  F  R  C  R  L  T  G  L  T  H  I  C  D  K  N  C  N  Q  R  I  L  Y  D  N  H  N  S  L  C  R  V  S  R  Q  I  F  P  L  T  Q  V  E  V  Q  A  V  K  G  V  R  R  K  F  D  A  D  S  S  P  S  D  S  C  A  F  K  R  R  R  D  A  H  F  H  P  S  P  F  E  R  S  F  T  A  V  S  P  I  C  S  Q  V  G  E  G  M  D  L  N  *  I  *  *  I  S  I  L  S  S  V  *  F  Y  F  L  F  G  L  D  Y  E  Q  F  H  N  F  H  D  R  L  D  C  L  A  I  L  *  E  D  L  Y  S  T  F  L  W  T  V  A  L  *  L  F  R  S  N  N  I  M  S  A  N  V  G  M  R  L  S  *  C  Y  M  K  A  L  T  I  Y  S  A  A  F  C  I  T  F  I  W  F  L  S  S  H  S  I  L  V  V  T  V  I  P  F  R  G  C  Q  T  S  V  L  A  C  C  T  C  I  V  L  Y  *  S  L  *  S  I  L  G  G  L  L  E  S  S  Q  W  N  Y  Y  I  L  C  F  L  S  Y  R  N  L  P  Y  Q  R  K  N  T  L  F  S  E  L  T  K  A  H  L  L  L  *  L  *  L  P  I  S  L  A  G  F  G  R  K  H  Y  F  I  S  Y  C  C  T  S  L  F  L  K  F  S  L  Y  L  L  F  E  F  V  H  V  K  Y  P  K  M  V  L  L  L  Q  E  L  K  N  I  Y  S  Q  E  S  *  D  I  V  Y  I  V  Y  V  L  S  S  V  L  F  I  T  S  R  I  M  S  F  *  L  S  L  F  F  L  I  Q  Q  I  H  A  L  P  R  G  L  E  F  E  Q  I  K  I  S  S  K  L  *  T  L  E  Q  G  E  V  *  G  R  I  *  Y  L  P  N  Q  L  V  F  C  I  H  A  E  V  *  L  S  C  S  N  I  V  S  N  T  V  E  F  H  V  *  S  F  E  N  K  I  H  L  F  L  E  S  E  I  W  C  L  H  </second_frame>
            <third_frame>   F  E  K  V  L  E  R  E  S  E  *  Q  V  R  E  G  E  E  K  A  C  *  V  F  F  I  S  G  S  S :   A  S  G  A  R  R  V  G  C  G  Y  L  L  R  T  Q  V  F  *  L  T  E  Q  W  R  Y  L  E  N  L  W  *  Q  C  L  Q  M  L  Y  I  C  Q  L  F  W  A  K  M  A  Q  T  L  F  T  S  V  I  G  N  V  K  M  N  M  C  V  G  T  C  S  A  A  V  *  L  G  *  H  T  F  A  T  K  T  V  T  S  E  Y  C  M  I  T  I  T  L  F  A  E  L  A  D  R  F  S  L  *  H  K  L  K  C  R  L  *  K  V  Y  G  G  S  L  M  L  I  V  P  L  L  I  A  A  P  L  S  A  E  G  M  H  I  S  T  H  H  H  L  R  D  L  S  L  L  L  V  P  F  A  V  K  L  E  R  A  W  T  *  T  R  Y  N  K  F  P  S  F  R  L  F  N  F  T  F  F  S  D  W  I  M  N  N  F  I  I  S  M  T  D  *  I  V  L  P  F  C  R  R  T  Y  I  L  H  S  C  G  L  *  L  Y  N  C  L  G  V  T  I  L  C  L  Q  T  L  V  C  A  *  V  D  V  T  *  R  L  *  L  Y  I  V  Q  H  F  V  *  P  L  F  G  F  C  L  V  T  L  Y  L  W  L  Q  L  Y  L  L  G  V  V  K  H  L  Y  W  L  A  V  L  V  *  F  S  I  N  H  C  D  Q  F  W  E  V  Y  W  N  P  V  S  G  I  I  I  Y  F  V  S  Y  P  T  G  T  C  P  I  K  E  R  T  H  F  S  V  S  S  L  K  L  T  Y  F  Y  D  F  N  S  L  F  L  W  Q  V  L  E  E  S  T  I  L  F  H  T  V  A  L  V  Y  S  *  N  S  V  C  I  C  F  L  N  L  F  M  *  S  I  L  K  W  F  Y  F  C  R  N  S  K  T  F  T  V  R  R  V  E  I  *  F  I  L  F  M  F  Y  H  L  S  Y  L  L  P  A  E  S  *  V  S  N  *  V  C  S  F  L  F  N  R  S  T  L  F  H  E  V  *  S  S  N  K  *  K  S  A  L  S  F  E  L  L  N  R  E  R  S  E  E  E  S  N  I  C  Q  I  N  W  C  F  A  S  T  L  K  C  D  Y  P  A  V  T  L  *  V  I  Q  S  N  F  M  S  D  R  L  K  T  R  S  T  Y  S  W  S  Q  R  S  G  V  Y  I </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="16964" stop="17404"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>438</number_coding_nucleotides>
                  <number_encoded_amino_acids>146</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TMEVLGKSMVAVPTNVIYLSTILGQDGPNPVHKCDWKCENEHVCGNMFRCRLTGLTHICDKNCNQRILYDNHNSLCRVSRQIFPLTQVEVQAVKGVRRKFDADSSPSDSCAFKRRRDAHFHPSPFERSFTAVSPICSQVGEGMDLN*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="17757" stop="17990"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>231</number_coding_nucleotides>
                  <number_encoded_amino_acids>77</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FSINHCDQFWEVYWNPVSGIIIYFVSYPTGTCPIKERTHFSVSSLKLTYFYDFNSLFLWQVLEESTILFHTVALVYS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="3"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="18040" stop="18240"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>198</number_coding_nucleotides>
                  <number_encoded_amino_acids>66</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NGFTFAGTQKHLQSGELRYSLYCLCFIICLIYYQQNHEFLTKFVLSYSTDPRSSTRSRVRTNKNQL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="15679" e_stop="15764"/>
            <exon e_start="16891" e_stop="18431"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.000" e_score="0.872"/>
          <exon-only e_score="0.948"/>
        </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="0.872">
            <gDNA_exon_boundary e_start="15679" e_stop="15764" e_length="86"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.000">
            <gDNA_intron_boundary i_start="15765" i_stop="16890" i_length="1126"/>
          </intron>
          <exon e_serial="2" e_score="0.948">
            <gDNA_exon_boundary e_start="16891" e_stop="18431" e_length="1541"/>
          </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="15679" stop="15764"/>
              <exon start="16891" stop="17297"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E477260" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15681" stop="15764"/>
              <exon start="16891" stop="17488"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E454739" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15695" stop="15764"/>
              <exon start="16891" stop="17374"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E469955" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16894" stop="17424"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E399686" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16924" stop="17559"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E484216" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="17069" stop="17858"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E403691" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="17728" stop="18431"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E462306" 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="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GAAAAAGTCTTAGAGAGAGAAAGTGAGTGACAAGTGAGAGAAGGAGAAGAAAAAGCTTGTTAGGTGTTCTTCATTTCGGGTTCATC : TCTGCAGAGCATCCGGGGCAAGGCGAGTGGGGTGTGGATATCTTCTCAGAACTCAAGTTTTTTGATTAACTGAACAATGGAGGTACTTGGAAAATCTATGGTAGCAGTGCCTACAAATGTTATATATCTGTCAACTATTCTGGGCCAAGATGGCCCAAACCCTGTTCACAAGTGTGATTGGAAATGTGAAAATGAACATGTGTGTGGGAACATGTTCCGCTGCCGTCTAACTGGGCTGACACACATTTGCGACAAAAACTGTAACCAGCGAATATTGTATGATAACCATAACTCTCTTTGCAGAGTTAGCCGACAGATTTTCCCTTTAACACAAGTTGAAGTGCAGGCTGTGAAAGGTGTACGGAGGAAGTTTGATGCTGATAGTTCCCCTTCTGATAGCTGCGCCTTTAAGCGCAGAAGGGATGCACATTTCCACCCATCACCATTTGAGAGATCTTTCACTGCTGTTAGTCCCATTTGCAGTCAAGTTGGAGAGGGCATGGACTTGAACTAGATATAATAAATTTCCATCCTTTCGTCTGTTTAATTTTACTTTCTTTTCGGACTGGATTATGAACAATTTCATAATTTCCATGACAGACTAGATTGTCTTGCCATTTTGTAGGAGGACTTATATTCTACATTCCTGTGGACTGTAGCTTTATAACTGTTTAGGAGTAACAATATTATGTCTGCAAACGTTGGTATGCGCCTGAGTTGATGTTACATGAAGGCTTTAACTATATATAGTGCAGCATTTTGTATAACCTTTATTTGGTTTCTGTCTAGTCACTCTATACTTGTGGTTACAGTTATACCTTTTAGGGGTTGTCAAACATCTGTATTGGCTTGCTGTACTTGTATAGTTCTCTATTAATCACTGTGATCAATTCTGGGAGGTTTATTGGAATCCAGTCAGTGGAATTATTATATACTTTGTTTCCTATCCTACAGGAACTTGCCCTATCAAAGAAAGAACACACTTTTCAGTGAGCTCACTAAAGCTCACCTACTTTTATGACTTTAACTCCCTATTTCTTTGGCAGGTTTTGGAAGAAAGCACTATTTTATTTCATACTGTTGCACTAGTCTATTCTTAAAATTCAGTTTGTATTTGCTTTTTGAATTTGTTCATGTAAAGTATCCTAAAATGGTTTTACTTTTGCAGGAACTCAAAAACATTTACAGTCAGGAGAGTTGAGATATAGTTTATATTGTTTATGTTTTATCATCTGTCTTATTTATTACCAGCAGAATCATGAGTTTCTAACTAAGTTTGTTCTTTCTTATTCAACAGATCCACGCTCTTCCACGAGGTCTAGAGTTCGAACAAATAAAAATCAGCTCTAAGCTTTGAACTCTTGAACAGGGAGAGGTCTGAGGAAGAATCTAATATCTGCCAAATCAATTGGTGTTTTGCATCCACGCTGAAGTGTGACTATCCTGCAGTAACATTGTGAGTAATACAGTCGAATTTCATGTCTGATCGTTTGAAAACAAGATCCACCTATTCTTGGAGTCAGAGATCTGGTGTTTACATC</gDNA_template>
            <first_frame> E  K  V  L  E  R  E  S  E  *  Q  V  R  E  G  E  E  K  A  C  *  V  F  F  I  S  G  S  S :   L  Q  S  I  R  G  K  A  S  G  V  W  I  S  S  Q  N  S  S  F  L  I  N  *  T  M  E  V  L  G  K  S  M  V  A  V  P  T  N  V  I  Y  L  S  T  I  L  G  Q  D  G  P  N  P  V  H  K  C  D  W  K  C  E  N  E  H  V  C  G  N  M  F  R  C  R  L  T  G  L  T  H  I  C  D  K  N  C  N  Q  R  I  L  Y  D  N  H  N  S  L  C  R  V  S  R  Q  I  F  P  L  T  Q  V  E  V  Q  A  V  K  G  V  R  R  K  F  D  A  D  S  S  P  S  D  S  C  A  F  K  R  R  R  D  A  H  F  H  P  S  P  F  E  R  S  F  T  A  V  S  P  I  C  S  Q  V  G  E  G  M  D  L  N  *  I  *  *  I  S  I  L  S  S  V  *  F  Y  F  L  F  G  L  D  Y  E  Q  F  H  N  F  H  D  R  L  D  C  L  A  I  L  *  E  D  L  Y  S  T  F  L  W  T  V  A  L  *  L  F  R  S  N  N  I  M  S  A  N  V  G  M  R  L  S  *  C  Y  M  K  A  L  T  I  Y  S  A  A  F  C  I  T  F  I  W  F  L  S  S  H  S  I  L  V  V  T  V  I  P  F  R  G  C  Q  T  S  V  L  A  C  C  T  C  I  V  L  Y  *  S  L  *  S  I  L  G  G  L  L  E  S  S  Q  W  N  Y  Y  I  L  C  F  L  S  Y  R  N  L  P  Y  Q  R  K  N  T  L  F  S  E  L  T  K  A  H  L  L  L  *  L  *  L  P  I  S  L  A  G  F  G  R  K  H  Y  F  I  S  Y  C  C  T  S  L  F  L  K  F  S  L  Y  L  L  F  E  F  V  H  V  K  Y  P  K  M  V  L  L  L  Q  E  L  K  N  I  Y  S  Q  E  S  *  D  I  V  Y  I  V  Y  V  L  S  S  V  L  F  I  T  S  R  I  M  S  F  *  L  S  L  F  F  L  I  Q  Q  I  H  A  L  P  R  G  L  E  F  E  Q  I  K  I  S  S  K  L  *  T  L  E  Q  G  E  V  *  G  R  I  *  Y  L  P  N  Q  L  V  F  C  I  H  A  E  V  *  L  S  C  S  N  I  V  S  N  T  V  E  F  H  V  *  S  F  E  N  K  I  H  L  F  L  E  S  E  I  W  C  L  H  </first_frame>
            <second_frame>  K  K  S  *  R  E  K  V  S  D  K  *  E  K  E  K  K  K  L  V  R  C  S  S  F  R  V  H   : L  C  R  A  S  G  A  R  R  V  G  C  G  Y  L  L  R  T  Q  V  F  *  L  T  E  Q  W  R  Y  L  E  N  L  W  *  Q  C  L  Q  M  L  Y  I  C  Q  L  F  W  A  K  M  A  Q  T  L  F  T  S  V  I  G  N  V  K  M  N  M  C  V  G  T  C  S  A  A  V  *  L  G  *  H  T  F  A  T  K  T  V  T  S  E  Y  C  M  I  T  I  T  L  F  A  E  L  A  D  R  F  S  L  *  H  K  L  K  C  R  L  *  K  V  Y  G  G  S  L  M  L  I  V  P  L  L  I  A  A  P  L  S  A  E  G  M  H  I  S  T  H  H  H  L  R  D  L  S  L  L  L  V  P  F  A  V  K  L  E  R  A  W  T  *  T  R  Y  N  K  F  P  S  F  R  L  F  N  F  T  F  F  S  D  W  I  M  N  N  F  I  I  S  M  T  D  *  I  V  L  P  F  C  R  R  T  Y  I  L  H  S  C  G  L  *  L  Y  N  C  L  G  V  T  I  L  C  L  Q  T  L  V  C  A  *  V  D  V  T  *  R  L  *  L  Y  I  V  Q  H  F  V  *  P  L  F  G  F  C  L  V  T  L  Y  L  W  L  Q  L  Y  L  L  G  V  V  K  H  L  Y  W  L  A  V  L  V  *  F  S  I  N  H  C  D  Q  F  W  E  V  Y  W  N  P  V  S  G  I  I  I  Y  F  V  S  Y  P  T  G  T  C  P  I  K  E  R  T  H  F  S  V  S  S  L  K  L  T  Y  F  Y  D  F  N  S  L  F  L  W  Q  V  L  E  E  S  T  I  L  F  H  T  V  A  L  V  Y  S  *  N  S  V  C  I  C  F  L  N  L  F  M  *  S  I  L  K  W  F  Y  F  C  R  N  S  K  T  F  T  V  R  R  V  E  I  *  F  I  L  F  M  F  Y  H  L  S  Y  L  L  P  A  E  S  *  V  S  N  *  V  C  S  F  L  F  N  R  S  T  L  F  H  E  V  *  S  S  N  K  *  K  S  A  L  S  F  E  L  L  N  R  E  R  S  E  E  E  S  N  I  C  Q  I  N  W  C  F  A  S  T  L  K  C  D  Y  P  A  V  T  L  *  V  I  Q  S  N  F  M  S  D  R  L  K  T  R  S  T  Y  S  W  S  Q  R  S  G  V  Y  I </second_frame>
            <third_frame>   K  S  L  R  E  R  K  *  V  T  S  E  R  R  R  R  K  S  L  L  G  V  L  H  F  G  F  I  :  S  A  E  H  P  G  Q  G  E  W  G  V  D  I  F  S  E  L  K  F  F  D  *  L  N  N  G  G  T  W  K  I  Y  G  S  S  A  Y  K  C  Y  I  S  V  N  Y  S  G  P  R  W  P  K  P  C  S  Q  V  *  L  E  M  *  K  *  T  C  V  W  E  H  V  P  L  P  S  N  W  A  D  T  H  L  R  Q  K  L  *  P  A  N  I  V  *  *  P  *  L  S  L  Q  S  *  P  T  D  F  P  F  N  T  S  *  S  A  G  C  E  R  C  T  E  E  V  *  C  *  *  F  P  F  *  *  L  R  L  *  A  Q  K  G  C  T  F  P  P  I  T  I  *  E  I  F  H  C  C  *  S  H  L  Q  S  S  W  R  G  H  G  L  E  L  D  I  I  N  F  H  P  F  V  C  L  I  L  L  S  F  R  T  G  L  *  T  I  S  *  F  P  *  Q  T  R  L  S  C  H  F  V  G  G  L  I  F  Y  I  P  V  D  C  S  F  I  T  V  *  E  *  Q  Y  Y  V  C  K  R  W  Y  A  P  E  L  M  L  H  E  G  F  N  Y  I  *  C  S  I  L  Y  N  L  Y  L  V  S  V  *  S  L  Y  T  C  G  Y  S  Y  T  F  *  G  L  S  N  I  C  I  G  L  L  Y  L  Y  S  S  L  L  I  T  V  I  N  S  G  R  F  I  G  I  Q  S  V  E  L  L  Y  T  L  F  P  I  L  Q  E  L  A  L  S  K  K  E  H  T  F  Q  *  A  H  *  S  S  P  T  F  M  T  L  T  P  Y  F  F  G  R  F  W  K  K  A  L  F  Y  F  I  L  L  H  *  S  I  L  K  I  Q  F  V  F  A  F  *  I  C  S  C  K  V  S  *  N  G  F  T  F  A  G  T  Q  K  H  L  Q  S  G  E  L  R  Y  S  L  Y  C  L  C  F  I  I  C  L  I  Y  Y  Q  Q  N  H  E  F  L  T  K  F  V  L  S  Y  S  T  D  P  R  S  S  T  R  S  R  V  R  T  N  K  N  Q  L  *  A  L  N  S  *  T  G  R  G  L  R  K  N  L  I  S  A  K  S  I  G  V  L  H  P  R  *  S  V  T  I  L  Q  *  H  C  E  *  Y  S  R  I  S  C  L  I  V  *  K  Q  D  P  P  I  L  G  V  R  D  L  V  F  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="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="16964" stop="17404"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>438</number_coding_nucleotides>
                  <number_encoded_amino_acids>146</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TMEVLGKSMVAVPTNVIYLSTILGQDGPNPVHKCDWKCENEHVCGNMFRCRLTGLTHICDKNCNQRILYDNHNSLCRVSRQIFPLTQVEVQAVKGVRRKFDADSSPSDSCAFKRRRDAHFHPSPFERSFTAVSPICSQVGEGMDLN*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="2" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="17757" stop="17990"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>231</number_coding_nucleotides>
                  <number_encoded_amino_acids>77</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FSINHCDQFWEVYWNPVSGIIIYFVSYPTGTCPIKERTHFSVSSLKLTYFYDFNSLFLWQVLEESTILFHTVALVYS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="2" PPS_serial="3"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="18040" stop="18240"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>198</number_coding_nucleotides>
                  <number_encoded_amino_acids>66</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NGFTFAGTQKHLQSGELRYSLYCLCFIICLIYYQQNHEFLTKFVLSYSTDPRSSTRSRVRTNKNQL*</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="23764" PGL_stop="23297"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="23764" e_stop="23707"/>
            <exon e_start="23625" e_stop="23297"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.990" acc_prob="0.790" e_score="1.000"/>
          <exon-only e_score="0.982"/>
        </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="23764" e_stop="23707" e_length="58"/>
          </exon>
          <intron i_serial="1" don_prob="0.990" acc_prob="0.790">
            <gDNA_intron_boundary i_start="23706" i_stop="23626" i_length="81"/>
          </intron>
          <exon e_serial="2" e_score="0.982">
            <gDNA_exon_boundary e_start="23625" e_stop="23297" e_length="329"/>
          </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="23764" stop="23707"/>
              <exon start="23625" stop="23298"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E374358" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23763" stop="23707"/>
              <exon start="23625" stop="23297"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300472" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23763" stop="23707"/>
              <exon start="23625" stop="23297"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E374359" 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>TGAGAATGTTGATCATCAGACCAATGGGAATGTCAAAGCAAAAGCTAAGAAAGCCTCG : GCTATGGAACAAAAGAAGGGCAAGAAGGGAGCAAAGATACCAAAGAAAGTAAAAAAGAAACCTCAAGTGCAGAAGAAAAGCAAGAGCAAAAAATAAGATATGACTCTACATATTTCATTTCGTTTGATATGTATTCTATTTATTTTCTTTTCTTATTTTCTTTCTTTTTCTTCTGTTCTTTGTATACATATACTGATCATATTTTTTAAAAGCTAATGAAAGTAGTCTTTAGGAAGCTATATAATTGGTAGAGGCCACATAATATGTATTATTTGCAAGATTTTCTCATGATTATCCTCCATATTACCATAAAAATTCTAATGTCGATG</gDNA_template>
            <first_frame> *  E  C  *  S  S  D  Q  W  E  C  Q  S  K  S  *  E  S  L   : G  Y  G  T  K  E  G  Q  E  G  S  K  D  T  K  E  S  K  K  E  T  S  S  A  E  E  K  Q  E  Q  K  I  R  Y  D  S  T  Y  F  I  S  F  D  M  Y  S  I  Y  F  L  F  L  F  S  F  F  F  F  C  S  L  Y  T  Y  T  D  H  I  F  *  K  L  M  K  V  V  F  R  K  L  Y  N  W  *  R  P  H  N  M  Y  Y  L  Q  D  F  L  M  I  I  L  H  I  T  I  K  I  L  M  S  M </first_frame>
            <second_frame>  E  N  V  D  H  Q  T  N  G  N  V  K  A  K  A  K  K  A  S  :  A  M  E  Q  K  K  G  K  K  G  A  K  I  P  K  K  V  K  K  K  P  Q  V  Q  K  K  S  K  S  K  K  *  D  M  T  L  H  I  S  F  R  L  I  C  I  L  F  I  F  F  S  Y  F  L  S  F  S  S  V  L  C  I  H  I  L  I  I  F  F  K  S  *  *  K  *  S  L  G  S  Y  I  I  G  R  G  H  I  I  C  I  I  C  K  I  F  S  *  L  S  S  I  L  P  *  K  F  *  C  R   </second_frame>
            <third_frame>   R  M  L  I  I  R  P  M  G  M  S  K  Q  K  L  R  K  P  R :   L  W  N  K  R  R  A  R  R  E  Q  R  Y  Q  R  K  *  K  R  N  L  K  C  R  R  K  A  R  A  K  N  K  I  *  L  Y  I  F  H  F  V  *  Y  V  F  Y  L  F  S  F  L  I  F  F  L  F  L  L  F  F  V  Y  I  Y  *  S  Y  F  L  K  A  N  E  S  S  L  *  E  A  I  *  L  V  E  A  T  *  Y  V  L  F  A  R  F  S  H  D  Y  P  P  Y  Y  H  K  N  S  N  V  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="C03HBa0034A02.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="23716" stop="23707"/>
                    <exon start="23625" stop="23417"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>216</number_coding_nucleotides>
                  <number_encoded_amino_acids>72</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ESLGYGTKEGQEGSKDTKESKKETSSAEEKQEQKIRYDSTYFISFDMYSIYFLFLFSFFFFCSLYTYTDHIF*</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="30818" PGL_stop="26623"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="30790" e_stop="30579"/>
            <exon e_start="29547" e_stop="29289"/>
            <exon e_start="29187" e_stop="29126"/>
            <exon e_start="26693" e_stop="26623"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.991" acc_prob="0.884" e_score="1.000"/>
          <exon-intron don_prob="0.904" acc_prob="0.736" e_score="1.000"/>
          <exon-intron don_prob="0.992" acc_prob="0.992" 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="30790" e_stop="30579" e_length="212"/>
          </exon>
          <intron i_serial="1" don_prob="0.991" acc_prob="0.884">
            <gDNA_intron_boundary i_start="30578" i_stop="29548" i_length="1031"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="29547" e_stop="29289" e_length="259"/>
          </exon>
          <intron i_serial="2" don_prob="0.904" acc_prob="0.736">
            <gDNA_intron_boundary i_start="29288" i_stop="29188" i_length="101"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="29187" e_stop="29126" e_length="62"/>
          </exon>
          <intron i_serial="3" don_prob="0.992" acc_prob="0.992">
            <gDNA_intron_boundary i_start="29125" i_stop="26694" i_length="2432"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="26693" e_stop="26623" e_length="71"/>
          </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="30790" stop="30579"/>
              <exon start="29547" stop="29289"/>
              <exon start="29187" stop="29126"/>
              <exon start="26693" stop="26623"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340301" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="30709" stop="30579"/>
              <exon start="29547" stop="29289"/>
              <exon start="29187" stop="29126"/>
              <exon start="26693" stop="26640"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299551" 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>TAAAATCTGAAATCAAATGGAGGGAAAATAATTTCCAGTATCTGGCCTTTAACGATATACATATATTACATCATATTTTCACTTTAACTACTCACACTTTTTTTTTCTCTCTCACAGGCAAGGGTTTTAGTATCCACTGAAATTATTCTCTCAAAACTTAGAAAATGGCTGATTCTAGAGAAGAATCTCCAGATTGGCTCCGCAGTTTTCAG : GCACCTGCTGCGATAATCTTGTCATCCGGATCTGAATCTCCTGTAAATAACAACCACCTAAGTGATGATGAGGATAGCATCAATCTGAGTAAGCTGTTTCAGAAGGATAAAACATCACTTTCAGAGGAAAAATGTAGTCAGGATGGACATGGATCTCAACTCAAGAAGACGTCCGAAGTAAATTCTCCGATTAAAAATGAAGAAGTAGATCGCACACCTACTAGGAAGAGAAAGAATGAAAACCAGAGTGAAAAAAAAG : GAAAAGGCACTGACAAGGCTTTAACGAAGAGAAGAGCATTGGAGAAGCCTTTTACAGATAAA : GAACCCAGTCATTCAGTCTGTACGTTGTCATCGGATTCTGAGTCTCCTCATGATGGCAGTTCCATGAAAGT</gDNA_template>
            <first_frame> *  N  L  K  S  N  G  G  K  I  I  S  S  I  W  P  L  T  I  Y  I  Y  Y  I  I  F  S  L  *  L  L  T  L  F  F  S  L  S  Q  A  R  V  L  V  S  T  E  I  I  L  S  K  L  R  K  W  L  I  L  E  K  N  L  Q  I  G  S  A  V  F  R :   H  L  L  R  *  S  C  H  P  D  L  N  L  L  *  I  T  T  T  *  V  M  M  R  I  A  S  I  *  V  S  C  F  R  R  I  K  H  H  F  Q  R  K  N  V  V  R  M  D  M  D  L  N  S  R  R  R  P  K  *  I  L  R  L  K  M  K  K  *  I  A  H  L  L  G  R  E  R  M  K  T  R  V  K  K  K  :  E  K  A  L  T  R  L  *  R  R  E  E  H  W  R  S  L  L  Q  I  K :   N  P  V  I  Q  S  V  R  C  H  R  I  L  S  L  L  M  M  A  V  P  *  K  </first_frame>
            <second_frame>  K  I  *  N  Q  M  E  G  K  *  F  P  V  S  G  L  *  R  Y  T  Y  I  T  S  Y  F  H  F  N  Y  S  H  F  F  F  L  S  H  R  Q  G  F  *  Y  P  L  K  L  F  S  Q  N  L  E  N  G  *  F  *  R  R  I  S  R  L  A  P  Q  F  S   : G  T  C  C  D  N  L  V  I  R  I  *  I  S  C  K  *  Q  P  P  K  *  *  *  G  *  H  Q  S  E  *  A  V  S  E  G  *  N  I  T  F  R  G  K  M  *  S  G  W  T  W  I  S  T  Q  E  D  V  R  S  K  F  S  D  *  K  *  R  S  R  S  H  T  Y  *  E  E  K  E  *  K  P  E  *  K  K  R :   K  R  H  *  Q  G  F  N  E  E  K  S  I  G  E  A  F  Y  R  *   : R  T  Q  S  F  S  L  Y  V  V  I  G  F  *  V  S  S  *  W  Q  F  H  E  S </second_frame>
            <third_frame>   K  S  E  I  K  W  R  E  N  N  F  Q  Y  L  A  F  N  D  I  H  I  L  H  H  I  F  T  L  T  T  H  T  F  F  F  S  L  T  G  K  G  F  S  I  H  *  N  Y  S  L  K  T  *  K  M  A  D  S  R  E  E  S  P  D  W  L  R  S  F  Q  :  A  P  A  A  I  I  L  S  S  G  S  E  S  P  V  N  N  N  H  L  S  D  D  E  D  S  I  N  L  S  K  L  F  Q  K  D  K  T  S  L  S  E  E  K  C  S  Q  D  G  H  G  S  Q  L  K  K  T  S  E  V  N  S  P  I  K  N  E  E  V  D  R  T  P  T  R  K  R  K  N  E  N  Q  S  E  K  K   : G  K  G  T  D  K  A  L  T  K  R  R  A  L  E  K  P  F  T  D  K  :  E  P  S  H  S  V  C  T  L  S  S  D  S  E  S  P  H  D  G  S  S  M  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="C03HBa0034A02.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="30629" stop="30579"/>
                    <exon start="29547" stop="29289"/>
                    <exon start="29187" stop="29126"/>
                    <exon start="26693" stop="26625"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>441</number_coding_nucleotides>
                  <number_encoded_amino_acids>147</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KMADSREESPDWLRSFQAPAAIILSSGSESPVNNNHLSDDEDSINLSKLFQKDKTSLSEEKCSQDGHGSQLKKTSEVNSPIKNEEVDRTPTRKRKNENQSEKKGKGTDKALTKRRALEKPFTDKEPSHSVCTLSSDSESPHDGSSMK</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="30818" e_stop="30264"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="0.995">
            <gDNA_exon_boundary e_start="30818" e_stop="30264" e_length="555"/>
          </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="30818" stop="30264"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299602" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ACCCCTGCTCACAAGCCTTTTCCCATGTTAAAATCTGAAATCAAATGGAGGGAAAATAATTTCCAGTATCTGGCCTTTAACGATATACATATATTACATCATATTTTCACTTTAACTACTCACACTTTTTTTTTCTCTCTCACAGGCAAGGGTTTTAGTATCCACTGAAATTATTCTCTCAAAACTTAGAAAATGGCTGATTCTAGAGAAGAATCTCCAGATTGGCTCCGCAGTTTTCAGGTATAACTGTTTTGATTTCATCGGAATTTTCATAAATTTGCTCGCTATGCACTTTTCAAAGTCGATTTTATGCACTGAATCTATGTTTAATTAGTTGAGCAATCATTTGATTGAGTTTTAACCGATTTTGAACATCAGTTTGATTGGTCTTTCAGCTGCGAGATTCAAACTTTGATCAATTCAATTTTTTGTTCACAGTGCTTCGTGGCGGAGGTAGATTCAAGTACATGTATATAGTTTTAGAGCACATTTGGGTTAGGGTATGCTAATTTGGGGCAATTAGTTTTGTTGAAATCATTGTTTACTGTGTATCAC</gDNA_template>
            <first_frame> T  P  A  H  K  P  F  P  M  L  K  S  E  I  K  W  R  E  N  N  F  Q  Y  L  A  F  N  D  I  H  I  L  H  H  I  F  T  L  T  T  H  T  F  F  F  S  L  T  G  K  G  F  S  I  H  *  N  Y  S  L  K  T  *  K  M  A  D  S  R  E  E  S  P  D  W  L  R  S  F  Q  V  *  L  F  *  F  H  R  N  F  H  K  F  A  R  Y  A  L  F  K  V  D  F  M  H  *  I  Y  V  *  L  V  E  Q  S  F  D  *  V  L  T  D  F  E  H  Q  F  D  W  S  F  S  C  E  I  Q  T  L  I  N  S  I  F  C  S  Q  C  F  V  A  E  V  D  S  S  T  C  I  *  F  *  S  T  F  G  L  G  Y  A  N  L  G  Q  L  V  L  L  K  S  L  F  T  V  Y  H </first_frame>
            <second_frame>  P  L  L  T  S  L  F  P  C  *  N  L  K  S  N  G  G  K  I  I  S  S  I  W  P  L  T  I  Y  I  Y  Y  I  I  F  S  L  *  L  L  T  L  F  F  S  L  S  Q  A  R  V  L  V  S  T  E  I  I  L  S  K  L  R  K  W  L  I  L  E  K  N  L  Q  I  G  S  A  V  F  R  Y  N  C  F  D  F  I  G  I  F  I  N  L  L  A  M  H  F  S  K  S  I  L  C  T  E  S  M  F  N  *  L  S  N  H  L  I  E  F  *  P  I  L  N  I  S  L  I  G  L  S  A  A  R  F  K  L  *  S  I  Q  F  F  V  H  S  A  S  W  R  R  *  I  Q  V  H  V  Y  S  F  R  A  H  L  G  *  G  M  L  I  W  G  N  *  F  C  *  N  H  C  L  L  C  I   </second_frame>
            <third_frame>   P  C  S  Q  A  F  S  H  V  K  I  *  N  Q  M  E  G  K  *  F  P  V  S  G  L  *  R  Y  T  Y  I  T  S  Y  F  H  F  N  Y  S  H  F  F  F  L  S  H  R  Q  G  F  *  Y  P  L  K  L  F  S  Q  N  L  E  N  G  *  F  *  R  R  I  S  R  L  A  P  Q  F  S  G  I  T  V  L  I  S  S  E  F  S  *  I  C  S  L  C  T  F  Q  S  R  F  Y  A  L  N  L  C  L  I  S  *  A  I  I  *  L  S  F  N  R  F  *  T  S  V  *  L  V  F  Q  L  R  D  S  N  F  D  Q  F  N  F  L  F  T  V  L  R  G  G  G  R  F  K  Y  M  Y  I  V  L  E  H  I  W  V  R  V  C  *  F  G  A  I  S  F  V  E  I  I  V  Y  C  V  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="C03HBa0034A02.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="30703" stop="30485"/>
                  </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>LLTLFFSLSQARVLVSTEIILSKLRKWLILEKNLQIGSAVFRYNCFDFIGIFINLLAMHFSKSILCTESMFN*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="+" PGL_start="34636" PGL_stop="38682"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="34636" e_stop="35037"/>
            <exon e_start="35396" e_stop="35511"/>
            <exon e_start="36223" e_stop="36349"/>
            <exon e_start="37939" e_stop="38087"/>
            <exon e_start="38177" e_stop="38239"/>
            <exon e_start="38342" e_stop="38682"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="0.872" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.674" acc_prob="0.887" e_score="1.000"/>
          <exon-intron don_prob="0.690" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="1.000" 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="34636" e_stop="35037" e_length="402"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.992">
            <gDNA_intron_boundary i_start="35038" i_stop="35395" i_length="358"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="35396" e_stop="35511" e_length="116"/>
          </exon>
          <intron i_serial="2" don_prob="0.872" acc_prob="0.999">
            <gDNA_intron_boundary i_start="35512" i_stop="36222" i_length="711"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="36223" e_stop="36349" e_length="127"/>
          </exon>
          <intron i_serial="3" don_prob="0.674" acc_prob="0.887">
            <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="37939" e_stop="38087" e_length="149"/>
          </exon>
          <intron i_serial="4" don_prob="0.690" acc_prob="0.999">
            <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="38177" e_stop="38239" e_length="63"/>
          </exon>
          <intron i_serial="5" don_prob="0.994" acc_prob="1.000">
            <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="38342" e_stop="38682" e_length="341"/>
          </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="34636" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38032"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731488" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34639" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38057"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E722339" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34644" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38231"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E723053" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34651" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38041"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E407491" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34654" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E321135" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34668" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38057"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343296" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34679" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38226"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E729974" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34679" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38207"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E723028" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34680" stop="35037"/>
              <exon start="35396" stop="35510"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725669" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34680" stop="35037"/>
              <exon start="35396" stop="35504"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E269553" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34683" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38080"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728654" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34689" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="37999"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E569621" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34690" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36347"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E406677" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34695" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E416981" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34695" stop="35037"/>
              <exon start="35396" stop="35477"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E440000" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34697" stop="35037"/>
              <exon start="35396" stop="35467"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E699463" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34700" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38427"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E705711" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34788" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38181"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E407880" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34815" stop="35037"/>
              <exon start="35396" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38452"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698669" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35403" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38597"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347963" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35403" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38580"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343727" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35426" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38181"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E266602" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35435" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38605"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E573159" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35470" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38571"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370975" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35471" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370976" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35471" stop="35511"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38452"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280272" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="37965" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38593"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E559934" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="37981" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E592719" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38003" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222435" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38007" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38682"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344289" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38067" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222505" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38356" stop="38562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297936" 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>CACCCAACTCCCCGAAAAACCCCTTTTCTCCATTTGCATACACCAAACTTTCATTTCAAACGGAGAGAAAAAGGGCTACCTGCGGCTGAAATTTTCTCAATTCCAATGGGTGAAGGAAAGCAAGGAGCTATGGTGGTTGAAATGCCAAATAGCAGCAATCAGAATCCAATAGTTCAGTTGCAGAACAAGTTTAAGGAATTGGAAATCGGCTTCAAAGGGTGGTTATCGAAGCAGTCAATTCCAGTTGAAGCTGCTGTGGTGACAGCAACTAGTGGACTACAGGGGGCTGCTATTGGTGGATTTATGGGAACGCTTACACAGGATGTGTCTTCCTCTATGCCTATTCCTCCTGCTGGTGCTAATCTCAATCCCCAAGCTATGGCCTCTTTTCAACAAGCTCAG : GCTCTCGCAGGAGGTCCGTTGGTTCAGGCTCGGAATTTTGCTGTTATGACTGGTGTTAATGCTGGCATATCTTGTGTTTTGAAAAGAATTAGAGGCAAGGAAGATGTGCAGTCCAG : TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG : CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG : TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG : GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACATCAGATTTGTCCACTATTTTAAAGAAAAAGAAAAATTAGAGTGTCGTTGGGGAAATGAAGCTATAAGGCATAAGCTTTTCCCGTAGATTTCAGCAAATAGAAACGTGTTTTCTCAGATG</gDNA_template>
            <first_frame> H  P  T  P  R  K  T  P  F  L  H  L  H  T  P  N  F  H  F  K  R  R  E  K  G  L  P  A  A  E  I  F  S  I  P  M  G  E  G  K  Q  G  A  M  V  V  E  M  P  N  S  S  N  Q  N  P  I  V  Q  L  Q  N  K  F  K  E  L  E  I  G  F  K  G  W  L  S  K  Q  S  I  P  V  E  A  A  V  V  T  A  T  S  G  L  Q  G  A  A  I  G  G  F  M  G  T  L  T  Q  D  V  S  S  S  M  P  I  P  P  A  G  A  N  L  N  P  Q  A  M  A  S  F  Q  Q  A  Q  :  A  L  A  G  G  P  L  V  Q  A  R  N  F  A  V  M  T  G  V  N  A  G  I  S  C  V  L  K  R  I  R  G  K  E  D  V  Q  S  S :   M  A  A  A  F  G  S  G  A  L  F  S  L  V  S  G  M  G  G  P  N  P  V  P  N  A  L  T  S  G  I  F  F  A  L  V  Q  G  G  L  F  E  :  L  G  R  K  F  S  Q  P  P  A  E  D  T  H  Y  V  R  T  R  S  L  L  S  S  L  G  L  Q  N  Y  E  K  N  F  K  K  G  L  L  T  D  T  T  L  P  L  L  T  D  S :   A  L  R  D  V  R  I  P  P  G  P  R  L  L  I  L  D  H  I  Q  R :   D  P  E  L  R  K  K  R  G  *  T  H  C  K  R  *  S  F  P  L  S  E  R  P  I  L  *  F  E  K  *  *  Q  F  H  V  M  F  L  *  C  S  S  E  L  G  Y  Y  G  T  S  L  S  V  S  S  C  H  Q  I  T  R  Q  T  C  Y  L  S  S  L  S  *  K  H  Q  I  C  P  L  F  *  R  K  R  K  I  R  V  S  L  G  K  *  S  Y  K  A  *  A  F  P  V  D  F  S  K  *  K  R  V  F  S  D  </first_frame>
            <second_frame>  T  Q  L  P  E  K  P  L  F  S  I  C  I  H  Q  T  F  I  S  N  G  E  K  K  G  Y  L  R  L  K  F  S  Q  F  Q  W  V  K  E  S  K  E  L  W  W  L  K  C  Q  I  A  A  I  R  I  Q  *  F  S  C  R  T  S  L  R  N  W  K  S  A  S  K  G  G  Y  R  S  S  Q  F  Q  L  K  L  L  W  *  Q  Q  L  V  D  Y  R  G  L  L  L  V  D  L  W  E  R  L  H  R  M  C  L  P  L  C  L  F  L  L  L  V  L  I  S  I  P  K  L  W  P  L  F  N  K  L  R :   L  S  Q  E  V  R  W  F  R  L  G  I  L  L  L  *  L  V  L  M  L  A  Y  L  V  F  *  K  E  L  E  A  R  K  M  C  S  P   : V  W  Q  L  P  L  V  L  E  L  C  F  H  *  L  A  A  W  V  A  Q  I  Q  Y  P  M  L  *  H  L  G  F  S  L  P  L  F  K  V  D  C  L  S :   S  G  G  S  F  L  N  H  L  L  K  I  R  I  M  S  E  R  D  H  Y  C  Q  A  L  A  C  K  I  M  K  R  I  S  K  K  G  C  *  Q  T  P  L  C  L  Y  S  L  I   : V  L  L  E  M  *  G  S  L  L  G  Q  D  F  L  F  L  I  I  Y  K   : G  I  R  N  S  E  R  N  E  D  E  L  T  A  K  D  E  V  F  L  C  R  K  D  L  F  C  N  L  R  S  S  D  S  F  M  L  C  F  Y  D  V  P  V  N  *  V  I  M  E  L  L  *  V  *  V  L  A  I  R  *  Q  G  R  H  A  I  Y  R  V  *  A  R  N  I  R  F  V  H  Y  F  K  E  K  E  K  L  E  C  R  W  G  N  E  A  I  R  H  K  L  F  P  *  I  S  A  N  R  N  V  F  S  Q  M </second_frame>
            <third_frame>   P  N  S  P  K  N  P  F  S  P  F  A  Y  T  K  L  S  F  Q  T  E  R  K  R  A  T  C  G  *  N  F  L  N  S  N  G  *  R  K  A  R  S  Y  G  G  *  N  A  K  *  Q  Q  S  E  S  N  S  S  V  A  E  Q  V  *  G  I  G  N  R  L  Q  R  V  V  I  E  A  V  N  S  S  *  S  C  C  G  D  S  N  *  W  T  T  G  G  C  Y  W  W  I  Y  G  N  A  Y  T  G  C  V  F  L  Y  A  Y  S  S  C  W  C  *  S  Q  S  P  S  Y  G  L  F  S  T  S  S   : G  S  R  R  R  S  V  G  S  G  S  E  F  C  C  Y  D  W  C  *  C  W  H  I  L  C  F  E  K  N  *  R  Q  G  R  C  A  V  Q  :  Y  G  S  C  L  W  F  W  S  S  V  F  T  S  *  R  H  G  W  P  K  S  S  T  Q  C  F  D  I  W  D  F  L  C  P  C  S  R  W  T  V  *   : A  R  A  E  V  F  S  T  T  C  *  R  Y  A  L  C  Q  N  E  I  T  I  V  K  P  W  P  A  K  L  *  K  E  F  Q  K  R  V  V  D  R  H  H  F  A  F  T  H  *  *  :  C  S  *  R  C  E  D  P  S  W  A  K  T  S  Y  S  *  S  Y  T  K  :  G  S  G  T  Q  K  E  T  R  M  N  S  L  Q  K  M  K  F  S  F  V  G  K  T  Y  S  V  I  *  E  V  V  T  V  S  C  Y  V  F  M  M  F  Q  *  T  R  L  L  W  N  F  F  E  C  K  F  L  P  S  D  N  K  A  D  M  L  F  I  E  F  E  L  E  T  S  D  L  S  T  I  L  K  K  K  K  N  *  S  V  V  G  E  M  K  L  *  G  I  S  F  S  R  R  F  Q  Q  I  E  T  C  F  L  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="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="34636" stop="35037"/>
                    <exon start="35396" stop="35511"/>
                    <exon start="36223" stop="36349"/>
                    <exon start="37939" stop="38087"/>
                    <exon start="38177" stop="38239"/>
                    <exon start="38342" stop="38372"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>885</number_coding_nucleotides>
                  <number_encoded_amino_acids>295</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>HPTPRKTPFLHLHTPNFHFKRREKGLPAAEIFSIPMGEGKQGAMVVEMPNSSNQNPIVQLQNKFKELEIGFKGWLSKQSIPVEAAVVTATSGLQGAAIGGFMGTLTQDVSSSMPIPPAGANLNPQAMASFQQAQALAGGPLVQARNFAVMTGVNAGISCVLKRIRGKEDVQSSMAAAFGSGALFSLVSGMGGPNPVPNALTSGIFFALVQGGLFELGRKFSQPPAEDTHYVRTRSLLSSLGLQNYEKNFKKGLLTDTTLPLLTDSALRDVRIPPGPRLLILDHIQRDPELRKKRG*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="35918" e_stop="35923"/>
            <exon e_start="36223" e_stop="36349"/>
            <exon e_start="37939" e_stop="38087"/>
            <exon e_start="38177" e_stop="38239"/>
            <exon e_start="38342" e_stop="38682"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.728" acc_prob="0.999" e_score="0.667"/>
          <exon-intron don_prob="0.674" acc_prob="0.887" e_score="0.984"/>
          <exon-intron don_prob="0.690" acc_prob="0.999" e_score="0.984"/>
          <exon-intron don_prob="0.994" acc_prob="1.000" 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="0.667">
            <gDNA_exon_boundary e_start="35918" e_stop="35923" e_length="6"/>
          </exon>
          <intron i_serial="1" don_prob="0.728" acc_prob="0.999">
            <gDNA_intron_boundary i_start="35924" i_stop="36222" i_length="299"/>
          </intron>
          <exon e_serial="2" e_score="0.984">
            <gDNA_exon_boundary e_start="36223" e_stop="36349" e_length="127"/>
          </exon>
          <intron i_serial="2" don_prob="0.674" acc_prob="0.887">
            <gDNA_intron_boundary i_start="36350" i_stop="37938" i_length="1589"/>
          </intron>
          <exon e_serial="3" e_score="0.984">
            <gDNA_exon_boundary e_start="37939" e_stop="38087" e_length="149"/>
          </exon>
          <intron i_serial="3" don_prob="0.690" acc_prob="0.999">
            <gDNA_intron_boundary i_start="38088" i_stop="38176" i_length="89"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="38177" e_stop="38239" e_length="63"/>
          </exon>
          <intron i_serial="4" don_prob="0.994" acc_prob="1.000">
            <gDNA_intron_boundary i_start="38240" i_stop="38341" i_length="102"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="38342" e_stop="38682" e_length="341"/>
          </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="35918" stop="35923"/>
              <exon start="36223" stop="36349"/>
              <exon start="37939" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280273" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="37965" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38593"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E559934" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="37981" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E592719" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38003" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222435" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38007" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38682"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344289" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38067" stop="38087"/>
              <exon start="38177" stop="38239"/>
              <exon start="38342" stop="38562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222505" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38356" stop="38562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297936" 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>GACTAG : TATGGCAGCTGCCTTTGGTTCTGGAGCTCTGTTTTCACTAGTTAGCGGCATGGGTGGCCCAAATCCAGTACCCAATGCTTTGACATCTGGGATTTTCTTTGCCCTTGTTCAAGGTGGACTGTTTGAG : CTCGGGCGGAAGTTTTCTCAACCACCTGCTGAAGATACGCATTATGTCAGAACGAGATCACTATTGTCAAGCCTTGGCCTGCAAAATTATGAAAAGAATTTCAAAAAAGGGTTGTTGACAGACACCACTTTGCCTTTACTCACTGATAG : TGCTCTTAGAGATGTGAGGATCCCTCCTGGGCCAAGACTTCTTATTCTTGATCATATACAAAG : GGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACATCAGATTTGTCCACTATTTTAAAGAAAAAGAAAAATTAGAGTGTCGTTGGGGAAATGAAGCTATAAGGCATAAGCTTTTCCCGTAGATTTCAGCAAATAGAAACGTGTTTTCTCAGATG</gDNA_template>
            <first_frame> D  *  :  Y  G  S  C  L  W  F  W  S  S  V  F  T  S  *  R  H  G  W  P  K  S  S  T  Q  C  F  D  I  W  D  F  L  C  P  C  S  R  W  T  V  *   : A  R  A  E  V  F  S  T  T  C  *  R  Y  A  L  C  Q  N  E  I  T  I  V  K  P  W  P  A  K  L  *  K  E  F  Q  K  R  V  V  D  R  H  H  F  A  F  T  H  *  *  :  C  S  *  R  C  E  D  P  S  W  A  K  T  S  Y  S  *  S  Y  T  K  :  G  S  G  T  Q  K  E  T  R  M  N  S  L  Q  K  M  K  F  S  F  V  G  K  T  Y  S  V  I  *  E  V  V  T  V  S  C  Y  V  F  M  M  F  Q  *  T  R  L  L  W  N  F  F  E  C  K  F  L  P  S  D  N  K  A  D  M  L  F  I  E  F  E  L  E  T  S  D  L  S  T  I  L  K  K  K  K  N  *  S  V  V  G  E  M  K  L  *  G  I  S  F  S  R  R  F  Q  Q  I  E  T  C  F  L  R   </first_frame>
            <second_frame>  T  S :   M  A  A  A  F  G  S  G  A  L  F  S  L  V  S  G  M  G  G  P  N  P  V  P  N  A  L  T  S  G  I  F  F  A  L  V  Q  G  G  L  F  E  :  L  G  R  K  F  S  Q  P  P  A  E  D  T  H  Y  V  R  T  R  S  L  L  S  S  L  G  L  Q  N  Y  E  K  N  F  K  K  G  L  L  T  D  T  T  L  P  L  L  T  D  S :   A  L  R  D  V  R  I  P  P  G  P  R  L  L  I  L  D  H  I  Q  R :   D  P  E  L  R  K  K  R  G  *  T  H  C  K  R  *  S  F  P  L  S  E  R  P  I  L  *  F  E  K  *  *  Q  F  H  V  M  F  L  *  C  S  S  E  L  G  Y  Y  G  T  S  L  S  V  S  S  C  H  Q  I  T  R  Q  T  C  Y  L  S  S  L  S  *  K  H  Q  I  C  P  L  F  *  R  K  R  K  I  R  V  S  L  G  K  *  S  Y  K  A  *  A  F  P  V  D  F  S  K  *  K  R  V  F  S  D  </second_frame>
            <third_frame>   L   : V  W  Q  L  P  L  V  L  E  L  C  F  H  *  L  A  A  W  V  A  Q  I  Q  Y  P  M  L  *  H  L  G  F  S  L  P  L  F  K  V  D  C  L  S :   S  G  G  S  F  L  N  H  L  L  K  I  R  I  M  S  E  R  D  H  Y  C  Q  A  L  A  C  K  I  M  K  R  I  S  K  K  G  C  *  Q  T  P  L  C  L  Y  S  L  I   : V  L  L  E  M  *  G  S  L  L  G  Q  D  F  L  F  L  I  I  Y  K   : G  I  R  N  S  E  R  N  E  D  E  L  T  A  K  D  E  V  F  L  C  R  K  D  L  F  C  N  L  R  S  S  D  S  F  M  L  C  F  Y  D  V  P  V  N  *  V  I  M  E  L  L  *  V  *  V  L  A  I  R  *  Q  G  R  H  A  I  Y  R  V  *  A  R  N  I  R  F  V  H  Y  F  K  E  K  E  K  L  E  C  R  W  G  N  E  A  I  R  H  K  L  F  P  *  I  S  A  N  R  N  V  F  S  Q  M </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="35919" stop="35923"/>
                    <exon start="36223" stop="36349"/>
                    <exon start="37939" stop="38087"/>
                    <exon start="38177" stop="38239"/>
                    <exon start="38342" stop="38372"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>372</number_coding_nucleotides>
                  <number_encoded_amino_acids>124</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TSMAAAFGSGALFSLVSGMGGPNPVPNALTSGIFFALVQGGLFELGRKFSQPPAEDTHYVRTRSLLSSLGLQNYEKNFKKGLLTDTTLPLLTDSALRDVRIPPGPRLLILDHIQRDPELRKKRG*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="38341" e_stop="38564"/>
          </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="38341" e_stop="38564" e_length="224"/>
          </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="38341" stop="38564"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E593601" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38356" stop="38562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297936" 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="3" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GGGATCCGGAACTCAGAAAGAAACGAGGATGAACTCACTGCAAAAGATGAAGTTTTCCTTTGTCGGAAAGACCTATTCTGTAATTTGAGAAGTAGTGACAGTTTCATGTTATGTTTTTATGATGTTCCAGTGAACTAGGTTATTATGGAACTTCTTTGAGTGTAAGTTCTTGCCATCAGATAACAAGGCAGACATGCTATTTATCGAGTTTGAGCTAGAAACAT</gDNA_template>
            <first_frame> G  I  R  N  S  E  R  N  E  D  E  L  T  A  K  D  E  V  F  L  C  R  K  D  L  F  C  N  L  R  S  S  D  S  F  M  L  C  F  Y  D  V  P  V  N  *  V  I  M  E  L  L  *  V  *  V  L  A  I  R  *  Q  G  R  H  A  I  Y  R  V  *  A  R  N   </first_frame>
            <second_frame>  G  S  G  T  Q  K  E  T  R  M  N  S  L  Q  K  M  K  F  S  F  V  G  K  T  Y  S  V  I  *  E  V  V  T  V  S  C  Y  V  F  M  M  F  Q  *  T  R  L  L  W  N  F  F  E  C  K  F  L  P  S  D  N  K  A  D  M  L  F  I  E  F  E  L  E  T  </second_frame>
            <third_frame>   D  P  E  L  R  K  K  R  G  *  T  H  C  K  R  *  S  F  P  L  S  E  R  P  I  L  *  F  E  K  *  *  Q  F  H  V  M  F  L  *  C  S  S  E  L  G  Y  Y  G  T  S  L  S  V  S  S  C  H  Q  I  T  R  Q  T  C  Y  L  S  S  L  S  *  K  H </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C03HBa0034A02.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="+" PGL_start="39504" PGL_stop="41029"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="39504" e_stop="39897"/>
            <exon e_start="40106" e_stop="40449"/>
            <exon e_start="40531" e_stop="40863"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.992" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.997" 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="39504" e_stop="39897" e_length="394"/>
          </exon>
          <intron i_serial="1" don_prob="0.992" acc_prob="1.000">
            <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="40106" e_stop="40449" e_length="344"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="40531" e_stop="40863" e_length="333"/>
          </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="39504" stop="39897"/>
              <exon start="40106" stop="40255"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E245412" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39565" stop="39897"/>
              <exon start="40106" stop="40449"/>
              <exon start="40531" stop="40539"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391543" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39565" stop="39776"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E264223" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39567" stop="39897"/>
              <exon start="40106" stop="40275"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E273002" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39572" stop="39897"/>
              <exon start="40106" stop="40200"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E209525" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39577" stop="39897"/>
              <exon start="40106" stop="40275"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E275656" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39582" stop="39897"/>
              <exon start="40106" stop="40449"/>
              <exon start="40531" stop="40714"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E719613" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39582" stop="39897"/>
              <exon start="40106" stop="40449"/>
              <exon start="40531" stop="40639"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E722632" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40449"/>
              <exon start="40531" stop="40612"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E618932" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40449"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E561879" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E456681" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40305"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E454174" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40262"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E437767" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40221"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E439265" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39595" stop="39897"/>
              <exon start="40106" stop="40449"/>
              <exon start="40531" stop="40548"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E560378" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39595" stop="39897"/>
              <exon start="40106" stop="40343"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E557253" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39595" stop="39897"/>
              <exon start="40106" stop="40254"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299922" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39595" stop="39856"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E236067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39596" stop="39897"/>
              <exon start="40106" stop="40275"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282494" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39596" stop="39897"/>
              <exon start="40106" stop="40190"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284715" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39598" stop="39897"/>
              <exon start="40106" stop="40255"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E207050" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39598" stop="39897"/>
              <exon start="40106" stop="40242"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E215064" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39600" stop="39897"/>
              <exon start="40106" stop="40449"/>
              <exon start="40531" stop="40619"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348652" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39600" stop="39897"/>
              <exon start="40106" stop="40433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E346142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39604" stop="39897"/>
              <exon start="40106" stop="40198"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E621965" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39610" stop="39897"/>
              <exon start="40106" stop="40276"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E270412" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39619" stop="39897"/>
              <exon start="40106" stop="40320"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E568238" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39662" stop="39897"/>
              <exon start="40106" stop="40415"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E272471" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39666" stop="39897"/>
              <exon start="40106" stop="40449"/>
              <exon start="40531" stop="40616"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E214969" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40180" stop="40449"/>
              <exon start="40531" stop="40792"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283626" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40610" stop="40863"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370016" 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>CCAAGTTGAAGTTGAAATTCCGAAAAAAAAGTGAAGTCTCCTATTAATAGAACATGTAGCGTAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG : GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC : GGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTTTGCTATAGATGTACCATGGCCACTTAAAATAGAATGTTGGTGAATTTTATTTATACATAAGAGTTAGCCCTC</gDNA_template>
            <first_frame> P  S  *  S  *  N  S  E  K  K  V  K  S  P  I  N  R  T  C  S  V  N  P  K  P  K  P  P  L  L  L  K  P  *  I  L  Y  L  C  E  N  G  C  H  *  H  H  Q  K  D  C  F  S  S  C  T  L  G  C  S  G  D  L  *  N  T  E  L  P  S  S  I  L  C  S  L  I  H  H  S  *  P  *  C  C  F  *  K  L  L  S  E  L  S  T  V  H  P  S  F  L  F  Y  Q  E  A  Q  F  *  *  I  T  P  Q  S  H  S  V  R  N  P  M  C  R  G  I  R  R  T  R  R   : G  *  G  G  S  *  G  F  P  L  Q  D  *  R  S  S  W  T  T  N  Y  Y  I  D  K  R  I  S  R  *  I  Y  K  C  G  S  S  H  A  *  P  C  Y  R  *  *  R  *  E  *  Q  R  W  *  G  *  *  R  R  V  Q  S  V  Q  Y  S  S  S  C  *  G  V  *  E  K  W  T  C  F  G  V  W  Y  H  S  F  C  *  *  D  C  Y  *  H  F  V  N  Q  R  S  *  C  C  *  G  S  D  C  L  *  R  T  *  F  H  :  G  F  G  *  E  P  P  K  G  F  P  Q  V  S  G  D  *  G  Y  Q  A  Q  H  N  Q  L  L  A  *  V  H  G  Q  Q  G  *  Q  R  I  Q  D  V  A  *  E  S  E  E  I  H  R  G  I  G  S  I  S  F  D  *  C  F  S  R  G  *  L  L  R  N  V  C  Q  *  C  Q  N  T  V  I  F  S  V  F  F  Y  F  C  Y  R  C  T  M  A  T  *  N  R  M  L  V  N  F  I  Y  T  *  E  L  A  L </first_frame>
            <second_frame>  Q  V  E  V  E  I  P  K  K  K  *  S  L  L  L  I  E  H  V  A  *  T  L  N  P  S  L  L  F  S  L  N  P  K  F  S  T  S  A  K  M  A  V  T  N  I  I  R  R  T  A  S  Q  V  V  P  L  A  A  R  V  I  F  R  T  Q  S  Y  H  H  R  S  S  A  L  L  S  T  I  V  N  R  S  A  A  S  R  N  F  F  R  S  S  A  P  S  T  L  H  F  Y  S  T  K  R  P  S  S  D  E  S  L  L  K  V  I  Q  S  E  I  Q  C  A  E  E  S  D  E  Q  D  E  :  V  E  E  A  P  E  G  F  P  F  K  I  E  D  H  P  G  Q  Q  T  I  T  L  T  R  E  Y  Q  G  E  S  I  N  V  E  V  H  M  P  D  L  V  T  G  D  E  D  E  N  D  N  G  G  E  D  D  D  E  G  S  N  Q  S  N  I  P  L  V  V  R  V  S  K  R  N  G  P  A  L  E  F  G  I  T  A  F  A  D  E  I  A  I  D  T  L  S  I  K  D  P  N  V  A  E  D  Q  I  A  Y  E  G  P  D  F  T :   D  L  D  E  N  L  Q  K  A  F  H  K  Y  L  E  I  R  G  I  K  P  S  T  T  N  F  L  H  E  Y  M  V  N  K  D  S  R  E  Y  K  M  W  L  K  N  L  K  K  F  I  E  A  *  V  P  *  V  L  I  D  V  L  V  G  A  S  Y  F  V  M  S  V  N  D  V  K  I  P  *  F  L  V  F  F  F  I  F  A  I  D  V  P  W  P  L  K  I  E  C  W  *  I  L  F  I  H  K  S  *  P   </second_frame>
            <third_frame>   K  L  K  L  K  F  R  K  K  S  E  V  S  Y  *  *  N  M  *  R  K  P  *  T  Q  A  S  S  S  P  *  T  L  N  S  L  P  L  R  K  W  L  S  L  T  S  S  E  G  L  L  L  K  L  Y  P  W  L  L  G  *  S  L  E  H  R  V  T  I  I  D  P  L  L  S  Y  P  P  *  L  T  V  V  L  L  L  E  T  S  F  G  A  Q  H  R  P  P  F  I  S  I  L  P  R  G  P  V  L  M  N  H  S  S  K  S  F  S  P  K  S  N  V  P  R  N  P  T  N  K  T  R :   L  R  R  L  L  R  V  S  P  S  R  L  K  I  I  L  D  N  K  L  L  H  *  Q  E  N  I  K  V  N  L  *  M  W  K  F  T  C  L  T  L  L  P  V  M  K  M  R  M  T  T  V  V  R  M  M  T  K  G  P  I  S  P  I  F  L  *  L  L  G  C  L  R  E  M  D  L  L  W  S  L  V  S  Q  L  L  L  M  R  L  L  L  T  L  C  Q  S  K  I  L  M  L  L  R  I  R  L  L  M  K  D  L  I  S   : R  I  W  M  R  T  S  K  R  L  S  T  S  I  W  R  L  G  V  S  S  P  A  Q  P  T  S  C  M  S  T  W  S  T  R  I  A  E  N  T  R  C  G  L  R  I  *  R  N  S  S  R  H  R  F  H  K  F  *  L  M  F  *  *  G  L  A  T  S  *  C  L  S  M  M  S  K  Y  R  D  F  *  C  F  F  L  F  L  L  *  M  Y  H  G  H  L  K  *  N  V  G  E  F  Y  L  Y  I  R  V  S  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="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="39568" stop="39897"/>
                    <exon start="40106" stop="40449"/>
                    <exon start="40531" stop="40690"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>831</number_coding_nucleotides>
                  <number_encoded_amino_acids>277</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TLNPSLLFSLNPKFSTSAKMAVTNIIRRTASQVVPLAARVIFRTQSYHHRSSALLSTIVNRSAASRNFFRSSAPSTLHFYSTKRPSSDESLLKVIQSEIQCAEESDEQDEVEEAPEGFPFKIEDHPGQQTITLTREYQGESINVEVHMPDLVTGDEDENDNGGEDDDEGSNQSNIPLVVRVSKRNGPALEFGITAFADEIAIDTLSIKDPNVAEDQIAYEGPDFTDLDENLQKAFHKYLEIRGIKPSTTNFLHEYMVNKDSREYKMWLKNLKKFIEA*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="39504" e_stop="39897"/>
            <exon e_start="40106" e_stop="40863"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.992" acc_prob="1.000" e_score="1.000"/>
          <exon-only e_score="0.998"/>
        </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="39504" e_stop="39897" e_length="394"/>
          </exon>
          <intron i_serial="1" don_prob="0.992" acc_prob="1.000">
            <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208"/>
          </intron>
          <exon e_serial="2" e_score="0.998">
            <gDNA_exon_boundary e_start="40106" e_stop="40863" e_length="758"/>
          </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="39504" stop="39897"/>
              <exon start="40106" stop="40255"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E245412" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39565" stop="39776"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E264223" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39567" stop="39897"/>
              <exon start="40106" stop="40275"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E273002" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39572" stop="39897"/>
              <exon start="40106" stop="40200"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E209525" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39577" stop="39897"/>
              <exon start="40106" stop="40275"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E275656" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40449"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E561879" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E456681" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40305"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E454174" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40262"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E437767" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39594" stop="39897"/>
              <exon start="40106" stop="40221"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E439265" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39595" stop="39897"/>
              <exon start="40106" stop="40343"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E557253" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39595" stop="39897"/>
              <exon start="40106" stop="40254"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299922" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39595" stop="39856"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E236067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39596" stop="39897"/>
              <exon start="40106" stop="40275"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282494" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39596" stop="39897"/>
              <exon start="40106" stop="40190"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284715" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39598" stop="39897"/>
              <exon start="40106" stop="40255"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E207050" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39598" stop="39897"/>
              <exon start="40106" stop="40242"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E215064" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39600" stop="39897"/>
              <exon start="40106" stop="40433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E346142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39604" stop="39897"/>
              <exon start="40106" stop="40198"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E621965" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39610" stop="39897"/>
              <exon start="40106" stop="40276"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E270412" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39619" stop="39897"/>
              <exon start="40106" stop="40320"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E568238" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39662" stop="39897"/>
              <exon start="40106" stop="40415"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E272471" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40140" stop="40791"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E311783" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40610" stop="40863"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370016" 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>CCAAGTTGAAGTTGAAATTCCGAAAAAAAAGTGAAGTCTCCTATTAATAGAACATGTAGCGTAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG : GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTTTGCTATAGATGTACCATGGCCACTTAAAATAGAATGTTGGTGAATTTTATTTATACATAAGAGTTAGCCCTC</gDNA_template>
            <first_frame> P  S  *  S  *  N  S  E  K  K  V  K  S  P  I  N  R  T  C  S  V  N  P  K  P  K  P  P  L  L  L  K  P  *  I  L  Y  L  C  E  N  G  C  H  *  H  H  Q  K  D  C  F  S  S  C  T  L  G  C  S  G  D  L  *  N  T  E  L  P  S  S  I  L  C  S  L  I  H  H  S  *  P  *  C  C  F  *  K  L  L  S  E  L  S  T  V  H  P  S  F  L  F  Y  Q  E  A  Q  F  *  *  I  T  P  Q  S  H  S  V  R  N  P  M  C  R  G  I  R  R  T  R  R   : G  *  G  G  S  *  G  F  P  L  Q  D  *  R  S  S  W  T  T  N  Y  Y  I  D  K  R  I  S  R  *  I  Y  K  C  G  S  S  H  A  *  P  C  Y  R  *  *  R  *  E  *  Q  R  W  *  G  *  *  R  R  V  Q  S  V  Q  Y  S  S  S  C  *  G  V  *  E  K  W  T  C  F  G  V  W  Y  H  S  F  C  *  *  D  C  Y  *  H  F  V  N  Q  R  S  *  C  C  *  G  S  D  C  L  *  R  T  *  F  H  V  S  L  D  V  *  F  N  K  F  L  I  C  F  S  L  I  T  N  I  E  Y  I  Y  N  H  Q  G  F  G  *  E  P  P  K  G  F  P  Q  V  S  G  D  *  G  Y  Q  A  Q  H  N  Q  L  L  A  *  V  H  G  Q  Q  G  *  Q  R  I  Q  D  V  A  *  E  S  E  E  I  H  R  G  I  G  S  I  S  F  D  *  C  F  S  R  G  *  L  L  R  N  V  C  Q  *  C  Q  N  T  V  I  F  S  V  F  F  Y  F  C  Y  R  C  T  M  A  T  *  N  R  M  L  V  N  F  I  Y  T  *  E  L  A  L </first_frame>
            <second_frame>  Q  V  E  V  E  I  P  K  K  K  *  S  L  L  L  I  E  H  V  A  *  T  L  N  P  S  L  L  F  S  L  N  P  K  F  S  T  S  A  K  M  A  V  T  N  I  I  R  R  T  A  S  Q  V  V  P  L  A  A  R  V  I  F  R  T  Q  S  Y  H  H  R  S  S  A  L  L  S  T  I  V  N  R  S  A  A  S  R  N  F  F  R  S  S  A  P  S  T  L  H  F  Y  S  T  K  R  P  S  S  D  E  S  L  L  K  V  I  Q  S  E  I  Q  C  A  E  E  S  D  E  Q  D  E  :  V  E  E  A  P  E  G  F  P  F  K  I  E  D  H  P  G  Q  Q  T  I  T  L  T  R  E  Y  Q  G  E  S  I  N  V  E  V  H  M  P  D  L  V  T  G  D  E  D  E  N  D  N  G  G  E  D  D  D  E  G  S  N  Q  S  N  I  P  L  V  V  R  V  S  K  R  N  G  P  A  L  E  F  G  I  T  A  F  A  D  E  I  A  I  D  T  L  S  I  K  D  P  N  V  A  E  D  Q  I  A  Y  E  G  P  D  F  T  *  V  L  M  F  N  L  T  N  F  L  S  V  F  H  *  L  L  I  *  N  I  Y  I  I  I  R  D  L  D  E  N  L  Q  K  A  F  H  K  Y  L  E  I  R  G  I  K  P  S  T  T  N  F  L  H  E  Y  M  V  N  K  D  S  R  E  Y  K  M  W  L  K  N  L  K  K  F  I  E  A  *  V  P  *  V  L  I  D  V  L  V  G  A  S  Y  F  V  M  S  V  N  D  V  K  I  P  *  F  L  V  F  F  F  I  F  A  I  D  V  P  W  P  L  K  I  E  C  W  *  I  L  F  I  H  K  S  *  P   </second_frame>
            <third_frame>   K  L  K  L  K  F  R  K  K  S  E  V  S  Y  *  *  N  M  *  R  K  P  *  T  Q  A  S  S  S  P  *  T  L  N  S  L  P  L  R  K  W  L  S  L  T  S  S  E  G  L  L  L  K  L  Y  P  W  L  L  G  *  S  L  E  H  R  V  T  I  I  D  P  L  L  S  Y  P  P  *  L  T  V  V  L  L  L  E  T  S  F  G  A  Q  H  R  P  P  F  I  S  I  L  P  R  G  P  V  L  M  N  H  S  S  K  S  F  S  P  K  S  N  V  P  R  N  P  T  N  K  T  R :   L  R  R  L  L  R  V  S  P  S  R  L  K  I  I  L  D  N  K  L  L  H  *  Q  E  N  I  K  V  N  L  *  M  W  K  F  T  C  L  T  L  L  P  V  M  K  M  R  M  T  T  V  V  R  M  M  T  K  G  P  I  S  P  I  F  L  *  L  L  G  C  L  R  E  M  D  L  L  W  S  L  V  S  Q  L  L  L  M  R  L  L  L  T  L  C  Q  S  K  I  L  M  L  L  R  I  R  L  L  M  K  D  L  I  S  R  E  S  *  C  L  I  *  Q  I  S  Y  L  F  F  I  N  Y  *  Y  R  I  Y  I  *  S  S  G  I  W  M  R  T  S  K  R  L  S  T  S  I  W  R  L  G  V  S  S  P  A  Q  P  T  S  C  M  S  T  W  S  T  R  I  A  E  N  T  R  C  G  L  R  I  *  R  N  S  S  R  H  R  F  H  K  F  *  L  M  F  *  *  G  L  A  T  S  *  C  L  S  M  M  S  K  Y  R  D  F  *  C  F  F  L  F  L  L  *  M  Y  H  G  H  L  K  *  N  V  G  E  F  Y  L  Y  I  R  V  S  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="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="39568" stop="39897"/>
                    <exon start="40106" stop="40453"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>675</number_coding_nucleotides>
                  <number_encoded_amino_acids>225</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TLNPSLLFSLNPKFSTSAKMAVTNIIRRTASQVVPLAARVIFRTQSYHHRSSALLSTIVNRSAASRNFFRSSAPSTLHFYSTKRPSSDESLLKVIQSEIQCAEESDEQDEVEEAPEGFPFKIEDHPGQQTITLTREYQGESINVEVHMPDLVTGDEDENDNGGEDDDEGSNQSNIPLVVRVSKRNGPALEFGITAFADEIAIDTLSIKDPNVAEDQIAYEGPDFT*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="39565" e_stop="40863"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.993"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.993">
            <gDNA_exon_boundary e_start="39565" e_stop="40863" e_length="1299"/>
          </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="39565" stop="40383"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261577" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39565" stop="40305"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261624" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39565" stop="40242"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261437" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39565" stop="40201"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370017" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39565" stop="40095"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E258814" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39565" stop="40069"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E259006" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39565" stop="39776"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E264223" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39595" stop="39856"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E236067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40140" stop="40791"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E311783" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40610" stop="40863"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370016" 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="3" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAGGTTTGATTTTCCCCAATTCTCTTTTTCATGTCGCAGATGAATTTTAATACTATTAATTAAAATCGCCTAATTATGGATTCTACCACTGATTTGTTTCTGTTTTTAGGTGGATTTTATGGAAAATTCATGCTGTTTTTAGTTTTAATCAAAAAAATATATATGTTACTGGATTAGCAGATTTTGTACTGTTTTTTCATTGTGATTGCAGGTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAGATTGAAGATCATCCTGGACAACAAACTATTACATTGACAAGAGAATATCAAGGTGAATCTATAAATGTGGAAGTTCACATGCCTGACCTTGTTACCGGTGATGAAGATGAGAATGACAACGGTGGTGAGGATGATGACGAAGGGTCCAATCAGTCCAATATTCCTCTAGTTGTTAGGGTGTCTAAGAGAAATGGACCTGCTTTGGAGTTTGGTATCACAGCTTTTGCTGATGAGATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCACGTGAGTCTTGATGTTTAATTTAACAAATTTCTTATCTGTTTTTCATTAATTACTAATATAGAATATATATATAATCATCAGGGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTTTGCTATAGATGTACCATGGCCACTTAAAATAGAATGTTGGTGAATTTTATTTATACATAAGAGTTAGCCCTC</gDNA_template>
            <first_frame> *  T  L  N  P  S  L  L  F  S  L  N  P  K  F  S  T  S  A  K  M  A  V  T  N  I  I  R  R  T  A  S  Q  V  V  P  L  A  A  R  V  I  F  R  T  Q  S  Y  H  H  R  S  S  A  L  L  S  T  I  V  N  R  S  A  A  S  R  N  F  F  R  S  S  A  P  S  T  L  H  F  Y  S  T  K  R  P  S  S  D  E  S  L  L  K  V  I  Q  S  E  I  Q  C  A  E  E  S  D  E  Q  D  E  V  *  F  S  P  I  L  F  F  M  S  Q  M  N  F  N  T  I  N  *  N  R  L  I  M  D  S  T  T  D  L  F  L  F  L  G  G  F  Y  G  K  F  M  L  F  L  V  L  I  K  K  I  Y  M  L  L  D  *  Q  I  L  Y  C  F  F  I  V  I  A  G  *  G  G  S  *  G  F  P  L  Q  D  *  R  S  S  W  T  T  N  Y  Y  I  D  K  R  I  S  R  *  I  Y  K  C  G  S  S  H  A  *  P  C  Y  R  *  *  R  *  E  *  Q  R  W  *  G  *  *  R  R  V  Q  S  V  Q  Y  S  S  S  C  *  G  V  *  E  K  W  T  C  F  G  V  W  Y  H  S  F  C  *  *  D  C  Y  *  H  F  V  N  Q  R  S  *  C  C  *  G  S  D  C  L  *  R  T  *  F  H  V  S  L  D  V  *  F  N  K  F  L  I  C  F  S  L  I  T  N  I  E  Y  I  Y  N  H  Q  G  F  G  *  E  P  P  K  G  F  P  Q  V  S  G  D  *  G  Y  Q  A  Q  H  N  Q  L  L  A  *  V  H  G  Q  Q  G  *  Q  R  I  Q  D  V  A  *  E  S  E  E  I  H  R  G  I  G  S  I  S  F  D  *  C  F  S  R  G  *  L  L  R  N  V  C  Q  *  C  Q  N  T  V  I  F  S  V  F  F  Y  F  C  Y  R  C  T  M  A  T  *  N  R  M  L  V  N  F  I  Y  T  *  E  L  A  L </first_frame>
            <second_frame>  K  P  *  T  Q  A  S  S  S  P  *  T  L  N  S  L  P  L  R  K  W  L  S  L  T  S  S  E  G  L  L  L  K  L  Y  P  W  L  L  G  *  S  L  E  H  R  V  T  I  I  D  P  L  L  S  Y  P  P  *  L  T  V  V  L  L  L  E  T  S  F  G  A  Q  H  R  P  P  F  I  S  I  L  P  R  G  P  V  L  M  N  H  S  S  K  S  F  S  P  K  S  N  V  P  R  N  P  T  N  K  T  R  F  D  F  P  Q  F  S  F  S  C  R  R  *  I  L  I  L  L  I  K  I  A  *  L  W  I  L  P  L  I  C  F  C  F  *  V  D  F  M  E  N  S  C  C  F  *  F  *  S  K  K  Y  I  C  Y  W  I  S  R  F  C  T  V  F  S  L  *  L  Q  V  E  E  A  P  E  G  F  P  F  K  I  E  D  H  P  G  Q  Q  T  I  T  L  T  R  E  Y  Q  G  E  S  I  N  V  E  V  H  M  P  D  L  V  T  G  D  E  D  E  N  D  N  G  G  E  D  D  D  E  G  S  N  Q  S  N  I  P  L  V  V  R  V  S  K  R  N  G  P  A  L  E  F  G  I  T  A  F  A  D  E  I  A  I  D  T  L  S  I  K  D  P  N  V  A  E  D  Q  I  A  Y  E  G  P  D  F  T  *  V  L  M  F  N  L  T  N  F  L  S  V  F  H  *  L  L  I  *  N  I  Y  I  I  I  R  D  L  D  E  N  L  Q  K  A  F  H  K  Y  L  E  I  R  G  I  K  P  S  T  T  N  F  L  H  E  Y  M  V  N  K  D  S  R  E  Y  K  M  W  L  K  N  L  K  K  F  I  E  A  *  V  P  *  V  L  I  D  V  L  V  G  A  S  Y  F  V  M  S  V  N  D  V  K  I  P  *  F  L  V  F  F  F  I  F  A  I  D  V  P  W  P  L  K  I  E  C  W  *  I  L  F  I  H  K  S  *  P   </second_frame>
            <third_frame>   N  P  K  P  K  P  P  L  L  L  K  P  *  I  L  Y  L  C  E  N  G  C  H  *  H  H  Q  K  D  C  F  S  S  C  T  L  G  C  S  G  D  L  *  N  T  E  L  P  S  S  I  L  C  S  L  I  H  H  S  *  P  *  C  C  F  *  K  L  L  S  E  L  S  T  V  H  P  S  F  L  F  Y  Q  E  A  Q  F  *  *  I  T  P  Q  S  H  S  V  R  N  P  M  C  R  G  I  R  R  T  R  R  G  L  I  F  P  N  S  L  F  H  V  A  D  E  F  *  Y  Y  *  L  K  S  P  N  Y  G  F  Y  H  *  F  V  S  V  F  R  W  I  L  W  K  I  H  A  V  F  S  F  N  Q  K  N  I  Y  V  T  G  L  A  D  F  V  L  F  F  H  C  D  C  R  L  R  R  L  L  R  V  S  P  S  R  L  K  I  I  L  D  N  K  L  L  H  *  Q  E  N  I  K  V  N  L  *  M  W  K  F  T  C  L  T  L  L  P  V  M  K  M  R  M  T  T  V  V  R  M  M  T  K  G  P  I  S  P  I  F  L  *  L  L  G  C  L  R  E  M  D  L  L  W  S  L  V  S  Q  L  L  L  M  R  L  L  L  T  L  C  Q  S  K  I  L  M  L  L  R  I  R  L  L  M  K  D  L  I  S  R  E  S  *  C  L  I  *  Q  I  S  Y  L  F  F  I  N  Y  *  Y  R  I  Y  I  *  S  S  G  I  W  M  R  T  S  K  R  L  S  T  S  I  W  R  L  G  V  S  S  P  A  Q  P  T  S  C  M  S  T  W  S  T  R  I  A  E  N  T  R  C  G  L  R  I  *  R  N  S  S  R  H  R  F  H  K  F  *  L  M  F  *  *  G  L  A  T  S  *  C  L  S  M  M  S  K  Y  R  D  F  *  C  F  F  L  F  L  L  *  M  Y  H  G  H  L  K  *  N  V  G  E  F  Y  L  Y  I  R  V  S  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="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="40100" stop="40453"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>351</number_coding_nucleotides>
                  <number_encoded_amino_acids>117</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LQVEEAPEGFPFKIEDHPGQQTITLTREYQGESINVEVHMPDLVTGDEDENDNGGEDDDEGSNQSNIPLVVRVSKRNGPALEFGITAFADEIAIDTLSIKDPNVAEDQIAYEGPDFT*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="3" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="39568" stop="39903"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>333</number_coding_nucleotides>
                  <number_encoded_amino_acids>111</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TLNPSLLFSLNPKFSTSAKMAVTNIIRRTASQVVPLAARVIFRTQSYHHRSSALLSTIVNRSAASRNFFRSSAPSTLHFYSTKRPSSDESLLKVIQSEIQCAEESDEQDEV*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="4">
          <exon_coordinates>
            <exon e_start="39565" e_stop="39897"/>
            <exon e_start="40106" e_stop="40138"/>
            <exon e_start="40373" e_stop="40449"/>
            <exon e_start="40531" e_stop="41029"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.992" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.997" e_score="0.987"/>
          <exon-only e_score="0.996"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="39565" e_stop="39897" e_length="333"/>
          </exon>
          <intron i_serial="1" don_prob="0.992" acc_prob="1.000">
            <gDNA_intron_boundary i_start="39898" i_stop="40105" i_length="208"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="40106" e_stop="40138" e_length="33"/>
          </exon>
          <intron i_serial="2" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="40139" i_stop="40372" i_length="234"/>
          </intron>
          <exon e_serial="3" e_score="0.987">
            <gDNA_exon_boundary e_start="40373" e_stop="40449" e_length="77"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="40450" i_stop="40530" i_length="81"/>
          </intron>
          <exon e_serial="4" e_score="0.996">
            <gDNA_exon_boundary e_start="40531" e_stop="41029" e_length="499"/>
          </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="39565" stop="39776"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E264223" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39595" stop="39856"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E236067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39601" stop="39897"/>
              <exon start="40106" stop="40138"/>
              <exon start="40373" stop="40449"/>
              <exon start="40531" stop="41029"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703029" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40610" stop="40863"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370016" 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="4" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TAAACCCTAAACCCAAGCCTCCTCTTCTCCTTAAACCCTAAATTCTCTACCTCTGCGAAAATGGCTGTCACTAACATCATCAGAAGGACTGCTTCTCAAGTTGTACCCTTGGCTGCTCGGGTGATCTTTAGAACACAGAGTTACCATCATCGATCCTCTGCTCTCTTATCCACCATAGTTAACCGTAGTGCTGCTTCTAGAAACTTCTTTCGGAGCTCAGCACCGTCCACCCTTCATTTCTATTCTACCAAGAGGCCCAGTTCTGATGAATCACTCCTCAAAGTCATTCAGTCCGAAATCCAATGTGCCGAGGAATCCGACGAACAAGACGAG : GTTGAGGAGGCTCCTGAGGGTTTCCCCTTCAAG : ATTGCTATTGACACTTTGTCAATCAAAGATCCTAATGTTGCTGAGGATCAGATTGCTTATGAAGGACCTGATTTCAC : GGATTTGGATGAGAACCTCCAAAAGGCTTTCCACAAGTATCTGGAGATTAGGGGTATCAAGCCCAGCACAACCAACTTCTTGCATGAGTACATGGTCAACAAGGATAGCAGAGAATACAAGATGTGGCTTAAGAATCTGAAGAAATTCATCGAGGCATAGGTTCCATAAGTTTTGATTGATGTTTTAGTAGGGGCTAGCTACTTCGTAATGTCTGTCAATGATGTCAAAATACCGTGATTTTTAGTGTTTTTTTTTATTTTTGCTATAGATGTACCATGGCCACTTAAAATAGAATGTTGGTGAATTTTATTTATACATAAGAGTTAGCCCTCGCTTTTATCAGCTAGTTCTGTTTGCACTTGCAGCAGCAGGTTGTTGCTTGTTGATGAGATTGCATTTCCATTGTTATTGTCAAGTCAAATCACTTTGCGCATGATATTGCTTTCGCTTAACAATGATTTCTCAAACATGTATTGGCTTGCATATTCATTTGTGTCT</gDNA_template>
            <first_frame> *  T  L  N  P  S  L  L  F  S  L  N  P  K  F  S  T  S  A  K  M  A  V  T  N  I  I  R  R  T  A  S  Q  V  V  P  L  A  A  R  V  I  F  R  T  Q  S  Y  H  H  R  S  S  A  L  L  S  T  I  V  N  R  S  A  A  S  R  N  F  F  R  S  S  A  P  S  T  L  H  F  Y  S  T  K  R  P  S  S  D  E  S  L  L  K  V  I  Q  S  E  I  Q  C  A  E  E  S  D  E  Q  D  E  :  V  E  E  A  P  E  G  F  P  F  K  :  I  A  I  D  T  L  S  I  K  D  P  N  V  A  E  D  Q  I  A  Y  E  G  P  D  F  T :   D  L  D  E  N  L  Q  K  A  F  H  K  Y  L  E  I  R  G  I  K  P  S  T  T  N  F  L  H  E  Y  M  V  N  K  D  S  R  E  Y  K  M  W  L  K  N  L  K  K  F  I  E  A  *  V  P  *  V  L  I  D  V  L  V  G  A  S  Y  F  V  M  S  V  N  D  V  K  I  P  *  F  L  V  F  F  F  I  F  A  I  D  V  P  W  P  L  K  I  E  C  W  *  I  L  F  I  H  K  S  *  P  S  L  L  S  A  S  S  V  C  T  C  S  S  R  L  L  L  V  D  E  I  A  F  P  L  L  L  S  S  Q  I  T  L  R  M  I  L  L  S  L  N  N  D  F  S  N  M  Y  W  L  A  Y  S  F  V  S </first_frame>
            <second_frame>  K  P  *  T  Q  A  S  S  S  P  *  T  L  N  S  L  P  L  R  K  W  L  S  L  T  S  S  E  G  L  L  L  K  L  Y  P  W  L  L  G  *  S  L  E  H  R  V  T  I  I  D  P  L  L  S  Y  P  P  *  L  T  V  V  L  L  L  E  T  S  F  G  A  Q  H  R  P  P  F  I  S  I  L  P  R  G  P  V  L  M  N  H  S  S  K  S  F  S  P  K  S  N  V  P  R  N  P  T  N  K  T  R :   L  R  R  L  L  R  V  S  P  S  R :   L  L  L  T  L  C  Q  S  K  I  L  M  L  L  R  I  R  L  L  M  K  D  L  I  S   : R  I  W  M  R  T  S  K  R  L  S  T  S  I  W  R  L  G  V  S  S  P  A  Q  P  T  S  C  M  S  T  W  S  T  R  I  A  E  N  T  R  C  G  L  R  I  *  R  N  S  S  R  H  R  F  H  K  F  *  L  M  F  *  *  G  L  A  T  S  *  C  L  S  M  M  S  K  Y  R  D  F  *  C  F  F  L  F  L  L  *  M  Y  H  G  H  L  K  *  N  V  G  E  F  Y  L  Y  I  R  V  S  P  R  F  Y  Q  L  V  L  F  A  L  A  A  A  G  C  C  L  L  M  R  L  H  F  H  C  Y  C  Q  V  K  S  L  C  A  *  Y  C  F  R  L  T  M  I  S  Q  T  C  I  G  L  H  I  H  L  C   </second_frame>
            <third_frame>   N  P  K  P  K  P  P  L  L  L  K  P  *  I  L  Y  L  C  E  N  G  C  H  *  H  H  Q  K  D  C  F  S  S  C  T  L  G  C  S  G  D  L  *  N  T  E  L  P  S  S  I  L  C  S  L  I  H  H  S  *  P  *  C  C  F  *  K  L  L  S  E  L  S  T  V  H  P  S  F  L  F  Y  Q  E  A  Q  F  *  *  I  T  P  Q  S  H  S  V  R  N  P  M  C  R  G  I  R  R  T  R  R   : G  *  G  G  S  *  G  F  P  L  Q   : D  C  Y  *  H  F  V  N  Q  R  S  *  C  C  *  G  S  D  C  L  *  R  T  *  F  H  :  G  F  G  *  E  P  P  K  G  F  P  Q  V  S  G  D  *  G  Y  Q  A  Q  H  N  Q  L  L  A  *  V  H  G  Q  Q  G  *  Q  R  I  Q  D  V  A  *  E  S  E  E  I  H  R  G  I  G  S  I  S  F  D  *  C  F  S  R  G  *  L  L  R  N  V  C  Q  *  C  Q  N  T  V  I  F  S  V  F  F  Y  F  C  Y  R  C  T  M  A  T  *  N  R  M  L  V  N  F  I  Y  T  *  E  L  A  L  A  F  I  S  *  F  C  L  H  L  Q  Q  Q  V  V  A  C  *  *  D  C  I  S  I  V  I  V  K  S  N  H  F  A  H  D  I  A  F  A  *  Q  *  F  L  K  H  V  L  A  C  I  F  I  C  V  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0034A02.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="4" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="39568" stop="39897"/>
                    <exon start="40106" stop="40138"/>
                    <exon start="40373" stop="40449"/>
                    <exon start="40531" stop="40690"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>597</number_coding_nucleotides>
                  <number_encoded_amino_acids>199</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TLNPSLLFSLNPKFSTSAKMAVTNIIRRTASQVVPLAARVIFRTQSYHHRSSALLSTIVNRSAASRNFFRSSAPSTLHFYSTKRPSSDESLLKVIQSEIQCAEESDEQDEVEEAPEGFPFKIAIDTLSIKDPNVAEDQIAYEGPDFTDLDENLQKAFHKYLEIRGIKPSTTNFLHEYMVNKDSREYKMWLKNLKKFIEA*</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="48994" PGL_stop="41544"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="48994" e_stop="48695"/>
            <exon e_start="48625" e_stop="48513"/>
            <exon e_start="46664" e_stop="46404"/>
            <exon e_start="46276" e_stop="46172"/>
            <exon e_start="45312" e_stop="45247"/>
            <exon e_start="45119" e_stop="44898"/>
            <exon e_start="43935" e_stop="43381"/>
            <exon e_start="43031" e_stop="42435"/>
            <exon e_start="42231" e_stop="42055"/>
            <exon e_start="41979" e_stop="41544"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.999" e_score="0.957"/>
          <exon-intron don_prob="1.000" acc_prob="0.878" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.406" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.921" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.993" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.655" e_score="1.000"/>
          <exon-intron don_prob="0.978" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.983" acc_prob="0.990" 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="0.957">
            <gDNA_exon_boundary e_start="48994" e_stop="48695" e_length="300"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.999">
            <gDNA_intron_boundary i_start="48694" i_stop="48626" i_length="69"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="48625" e_stop="48513" e_length="113"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.878">
            <gDNA_intron_boundary i_start="48512" i_stop="46665" i_length="1848"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="46664" e_stop="46404" e_length="261"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.406">
            <gDNA_intron_boundary i_start="46403" i_stop="46277" i_length="127"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="46276" e_stop="46172" e_length="105"/>
          </exon>
          <intron i_serial="4" don_prob="0.996" acc_prob="0.921">
            <gDNA_intron_boundary i_start="46171" i_stop="45313" i_length="859"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="45312" e_stop="45247" e_length="66"/>
          </exon>
          <intron i_serial="5" don_prob="0.997" acc_prob="0.993">
            <gDNA_intron_boundary i_start="45246" i_stop="45120" i_length="127"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="45119" e_stop="44898" e_length="222"/>
          </exon>
          <intron i_serial="6" don_prob="0.989" acc_prob="0.994">
            <gDNA_intron_boundary i_start="44897" i_stop="43936" i_length="962"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="43935" e_stop="43381" e_length="555"/>
          </exon>
          <intron i_serial="7" don_prob="0.994" acc_prob="0.655">
            <gDNA_intron_boundary i_start="43380" i_stop="43032" i_length="349"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="43031" e_stop="42435" e_length="597"/>
          </exon>
          <intron i_serial="8" don_prob="0.978" acc_prob="0.998">
            <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="42231" e_stop="42055" e_length="177"/>
          </exon>
          <intron i_serial="9" don_prob="0.983" acc_prob="0.990">
            <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75"/>
          </intron>
          <exon e_serial="10" e_score="1.000">
            <gDNA_exon_boundary e_start="41979" e_stop="41544" e_length="436"/>
          </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="48994" stop="48695"/>
              <exon start="48625" stop="48513"/>
              <exon start="46664" stop="46404"/>
              <exon start="46276" stop="46172"/>
              <exon start="45312" stop="45271"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E427819" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="48994" stop="48695"/>
              <exon start="48625" stop="48513"/>
              <exon start="46664" stop="46427"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E477794" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="48955" stop="48695"/>
              <exon start="48625" stop="48513"/>
              <exon start="46664" stop="46404"/>
              <exon start="46276" stop="46172"/>
              <exon start="45312" stop="45247"/>
              <exon start="45119" stop="44898"/>
              <exon start="43935" stop="43381"/>
              <exon start="43031" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E746979" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="48955" stop="48695"/>
              <exon start="48625" stop="48513"/>
              <exon start="46664" stop="46404"/>
              <exon start="46276" stop="46180"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541714" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="48954" stop="48695"/>
              <exon start="48625" stop="48513"/>
              <exon start="46664" stop="46455"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299782" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="44964" stop="44898"/>
              <exon start="43935" stop="43461"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E245656" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43029" stop="42455"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E275166" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42859" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41668"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E709089" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42823" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41943"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E331027" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42750" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41780"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42749" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41836"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E204171" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42749" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41880"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375389" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42721" stop="42436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E597494" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42665" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41593"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E427820" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42596" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41561"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391331" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42476" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E716768" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42467" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541711" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42455" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375388" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42137" stop="42055"/>
              <exon start="41979" stop="41544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299783" 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>ATTTGCAATCCCCTCTCTCTCTCCGGTAGGGTTTCAAATCAAACACCTAAATTACACCCCACTTCACTCTTCTCTCTCTTTCCCTTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTA : ATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAG : GAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAACTCAAGGATCCAAATGCGCAG : GTTTTGAGAGTGCTTGATTATTCTAAGATTAGCAGGCATTTATTGGTGACAGCTGGTGATGATGGATCTATCCACCTGTGGGATACAACTGGTCGCAGCCCCAAG : GTTTCTTGGCTAAAGCAGCATTCTGCACCAACTTCTGGCATTAGTTTCTCACCAACAAACGACAAG : ATTGTTGCTAGTGTTGGTATGGATAAGAAGTTGTACACTTTTGACTCAGGGTCAAGAAGGCCGACATTTTGCATTCCTTACGAGGCACCTTTTTCTTCACTGGCATTTACTGATGACGGATTCACTCTGGCAGCTGGAACAAGTAGTGGCCGGGTAGTATTCTATGACGTTCGTGGAAAACCACAACCCTTGACTGTTTTACGTGCTTATGGAAATTCTGAG : GCTGTGACAAGTCTATGCTGGCAAAGAGCAAAACCTGTAATTGTCAATGAAAACAATTGCACTACAGAAATGGCTCTCCTGGGCAGTGCTGTGGAGGATTCAATTTTGATGCCTGACCCACTTCCTGCTATGATGTCATCAAGCCTAGCAACTTCTATGACAACATCAGGTTCGAGAACCACTGTTCGTTCAGGTTCTGTGGACTCATTTTCTTTTCCAGCAGGCATTACAGGATCTACATCTGGGACAACAGGTTTATCTCCATCCGAGGAAACACCCATACGAAGTAGTTTATGGAAAGGTGGATCTTTGGCAAGATTACATGCTCCTCGTAACTTCAAGGATGATATGGAAGTTTTTTCTCCTCTTGTTGAAGTTCAGCCAATTACACCTTCACTTGATAAGTTGTGGGATGATCAGGAAGGTTTCAAAAAGGATTTTGATAAGAAGTCATCTTTGCTATTTCCTTCTTCTCTAAGGTTTCCCCTTCCAGTTGAGGGTGGCAATGAGAATCGCCCCATATTTGATTGGAAATCAAGTTCCTTACCCAAACAG : GAGGATGCTTCTTTTGCACAGTTGTCTTCCACTCCAACATCTTCTCGTGGTGATGATTCTTCCTCCATAACTCCTCCAGAAGCTTGGGGTGGTGAGAGATTATCGGATAGATTATCTCATCTTCGGCAGTCAGGAAATATGCCTTCCCGTTTTGCAATCTCGACATCTGGTCCTCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT : GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG : ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</gDNA_template>
            <first_frame> I  C  N  P  L  S  L  S  G  R  V  S  N  Q  T  P  K  L  H  P  T  S  L  F  S  L  F  P  F  F  *  N  S  N  L  *  T  V  Y  F  T  I  Q  E  S  L  H  R  *  I  L  Q  I  R  L  R  P  F  W  L  L  L  A  V  T  L  L  S  F  L  T  S  L  W  N  P  V  I  P  A  F  L  A  I  L  L  P  L  D  S  K  S  I  P  S  S  G  I  T  L  :  I  W  W  W  Q  A  L  E  M  T  R  R  Y  L  C  G  G  K  M  D  R  V  W  G  L  Y  H  W  P  A  L  I  V  L  T  I  S  R :   S  L  F  Q  Q  L  T  L  A  A  K  H  P  D  T  Y  V  L  E  V  V  A  K  L  Y  E  Y  G  I  C  S  G  S  V  A  S  N  G  *  K  V  I  P  I  L  L  V  V  Q  C  T  I  V  K  M  S  T  *  L  L  S  V  L  M  G  I  L  Y  F  T  T  L  L  L  V  Q  R  L  L  N  S  R  I  Q  M  R  R :   F  *  E  C  L  I  I  L  R  L  A  G  I  Y  W  *  Q  L  V  M  M  D  L  S  T  C  G  I  Q  L  V  A  A  P  R :   F  L  G  *  S  S  I  L  H  Q  L  L  A  L  V  S  H  Q  Q  T  T  R :   L  L  L  V  L  V  W  I  R  S  C  T  L  L  T  Q  G  Q  E  G  R  H  F  A  F  L  T  R  H  L  F  L  H  W  H  L  L  M  T  D  S  L  W  Q  L  E  Q  V  V  A  G  *  Y  S  M  T  F  V  E  N  H  N  P  *  L  F  Y  V  L  M  E  I  L  R :   L  *  Q  V  Y  A  G  K  E  Q  N  L  *  L  S  M  K  T  I  A  L  Q  K  W  L  S  W  A  V  L  W  R  I  Q  F  *  C  L  T  H  F  L  L  *  C  H  Q  A  *  Q  L  L  *  Q  H  Q  V  R  E  P  L  F  V  Q  V  L  W  T  H  F  L  F  Q  Q  A  L  Q  D  L  H  L  G  Q  Q  V  Y  L  H  P  R  K  H  P  Y  E  V  V  Y  G  K  V  D  L  W  Q  D  Y  M  L  L  V  T  S  R  M  I  W  K  F  F  L  L  L  L  K  F  S  Q  L  H  L  H  L  I  S  C  G  M  I  R  K  V  S  K  R  I  L  I  R  S  H  L  C  Y  F  L  L  L  *  G  F  P  F  Q  L  R  V  A  M  R  I  A  P  Y  L  I  G  N  Q  V  P  Y  P  N  R :   R  M  L  L  L  H  S  C  L  P  L  Q  H  L  L  V  V  M  I  L  P  P  *  L  L  Q  K  L  G  V  V  R  D  Y  R  I  D  Y  L  I  F  G  S  Q  E  I  C  L  P  V  L  Q  S  R  H  L  V  L  L  H  Q  D  L  C  Y  L  D  Y  R  I  I  F  L  Q  L  R  V  S  A  L  *  L  V  L  L  *  V  W  L  I  C  A  *  K  K  I  Q  M  K  K  L  F  *  D  L  Q  N  M  R  V  P  H  P  F  Q  L  E  Q  K  A  L  L  G  R  V  L  L  I  L  L  V  Q  L  Y  P  S  H  E  D  F  P  V  M  L  R  E  *  A  L  H  H  P  S  V  M  E  P  F  L  L  V  L  Q  K  L  R  K  L  E  L  K  Q  G  K  S  F  *  I  A  C  Y  L  G  R  T  R  R  L  L  Q  Q  L  V  L  S  K  Q  *  M :   V  K  L  S  N  L  K  S  P  H  C  L  N  C  S  R  E  V  P  L  H  S  S  C  S  N  V  H  K  K  K  L  F  L  P  F  K  N  P  F  T  R  I  *  G  I  F  T  *  I  S  *  D  N  F  I  C  K  R :   W  K  L  L  V  L  *  N  *  Y  W  K  T  K  Q  S  *  *  K  R  F  N  Y  F  E  G  K  H  S  S  F  D  S  Y  Y  D  Q  T  S  *  K  S  C  H  Y  V  F  F  *  F  *  P  C  T  Q  C  C  F  R  R  F  V  L  T  V  V  *  *  V  A  S  A  E  V  L  L  C  V  Y  L  I  V  G  E  F  G  G  L  F  Y  P  N  I  V  K  E  C  V  M  A  D  Q  *  Q  L  R  V  L  L  W  L  C  T  E  S  W  L  G  Q  F  Q  K  F  N  V  Q  N  Y  R  S  S  N  S  L  *  F  K  K  H  P  S  K  L  E  E </first_frame>
            <second_frame>  F  A  I  P  S  L  S  P  V  G  F  Q  I  K  H  L  N  Y  T  P  L  H  S  S  L  S  F  P  S  S  E  I  Q  I  C  K  L  Y  I  S  Q  S  K  N  L  F  I  D  E  F  Y  R  F  D  *  D  P  F  G  Y  Y  W  R  *  H  C  *  A  F  *  P  H  F  G  T  P  *  S  L  H  S  *  L  Y  S  F  P  W  I  P  S  Q  F  R  Q  V  E  S  H  * :   F  G  G  G  K  R  W  R  *  Q  E  D  I  F  V  E  E  K  W  T  E  F  G  D  C  T  T  G  R  H  *  *  C  *  Q  Y  R   : G  V  Y  F  N  S  *  L  *  Q  Q  S  I  P  I  H  M  F  W  R  *  W  P  S  Y  T  N  M  G  F  A  A  E  A  L  H  Q  M  V  E  R  S  Y  Q  Y  Y  *  W  C  N  V  Q  L  *  R  *  A  L  S  F  Y  Q  S  *  W  E  S  Y  T  S  Q  P  C  F  W  C  K  G  C  *  T  Q  G  S  K  C  A   : G  F  E  S  A  *  L  F  *  D  *  Q  A  F  I  G  D  S  W  *  *  W  I  Y  P  P  V  G  Y  N  W  S  Q  P  Q   : G  F  L  A  K  A  A  F  C  T  N  F  W  H  *  F  L  T  N  K  R  Q   : D  C  C  *  C  W  Y  G  *  E  V  V  H  F  *  L  R  V  K  K  A  D  I  L  H  S  L  R  G  T  F  F  F  T  G  I  Y  *  *  R  I  H  S  G  S  W  N  K  *  W  P  G  S  I  L  *  R  S  W  K  T  T  T  L  D  C  F  T  C  L  W  K  F  *   : G  C  D  K  S  M  L  A  K  S  K  T  C  N  C  Q  *  K  Q  L  H  Y  R  N  G  S  P  G  Q  C  C  G  G  F  N  F  D  A  *  P  T  S  C  Y  D  V  I  K  P  S  N  F  Y  D  N  I  R  F  E  N  H  C  S  F  R  F  C  G  L  I  F  F  S  S  R  H  Y  R  I  Y  I  W  D  N  R  F  I  S  I  R  G  N  T  H  T  K  *  F  M  E  R  W  I  F  G  K  I  T  C  S  S  *  L  Q  G  *  Y  G  S  F  F  S  S  C  *  S  S  A  N  Y  T  F  T  *  *  V  V  G  *  S  G  R  F  Q  K  G  F  *  *  E  V  I  F  A  I  S  F  F  S  K  V  S  P  S  S  *  G  W  Q  *  E  S  P  H  I  *  L  E  I  K  F  L  T  Q  T   : G  G  C  F  F  C  T  V  V  F  H  S  N  I  F  S  W  *  *  F  F  L  H  N  S  S  R  S  L  G  W  *  E  I  I  G  *  I  I  S  S  S  A  V  R  K  Y  A  F  P  F  C  N  L  D  I  W  S  S  C  T  R  I  Y  V  I  W  I  T  G  *  F  S  C  N  S  E  Y  R  L  F  D  *  F  Y  S  K  F  G  *  F  A  H  K  R  K  S  K  *  R  N  Y  S  R  I  F  R  T  C  E  F  H  I  L  F  S  W  N  K  R  H  Y  W  A  G  Y  S  *  Y  S  W  F  N  C  I  P  P  T  K  I  F  Q  L  C  *  E  N  K  H  Y  T  I  L  Q  *  W  N  P  F  C  W  F  S  K  N  *  E  N  W  S  *  N  K  G  R  A  S  E  *  L  V  I  *  V  G  H  V  V  C  Y  S  S  W  C  F  P  S  N  K   : W  *  N  *  A  I  S  K  V  H  T  A  *  I  A  A  G  K  F  L  Y  T  P  A  V  P  T  Y  T  R  R  N  S  F  F  P  S  K  I  H  S  R  G  Y  E  E  S  S  L  R  Y  L  K  T  I  S  Y  A  R   : D  G  N  F  *  C  Y  E  I  D  T  G  K  P  S  R  A  D  E  R  G  S  I  T  S  K  G  N  T  A  A  S  T  V  I  M  T  R  L  A  K  S  L  V  I  T  Y  S  F  S  F  S  H  V  R  N  A  V  L  G  D  L  Y  *  Q  L  C  S  E  *  R  V  R  K  C  Y  C  V  F  I  *  L  W  A  N  L  G  V  Y  F  T  L  I  *  *  R  S  V  *  W  L  I  N  N  S  *  E  C  C  Y  G  C  V  Q  K  V  G  *  A  N  F  R  N  L  M  Y  R  T  T  D  H  L  I  H  F  D  L  K  N  I  L  P  S  W  R   </second_frame>
            <third_frame>   L  Q  S  P  L  S  L  R  *  G  F  K  S  N  T  *  I  T  P  H  F  T  L  L  S  L  S  L  L  L  K  F  K  S  V  N  C  I  F  H  N  P  R  I  S  S  *  M  N  S  T  D  S  I  K  T  L  L  A  T  T  G  G  D  T  V  K  L  F  D  L  T  L  E  P  R  D  P  C  I  L  S  Y  T  P  S  P  G  F  Q  V  N  S  V  K  W  N  H  T   : N  L  V  V  A  S  A  G  D  D  K  K  I  S  L  W  R  K  N  G  Q  S  L  G  T  V  P  L  A  G  T  D  S  A  D  N  I  E  :  E  S  I  S  T  V  N  F  S  S  K  A  S  R  Y  I  C  S  G  G  S  G  Q  V  I  R  I  W  D  L  Q  R  K  R  C  I  K  W  L  K  G  H  T  N  T  I  S  G  A  M  Y  N  C  K  D  E  H  L  A  S  I  S  L  N  G  N  L  I  L  H  N  L  A  S  G  A  K  A  A  E  L  K  D  P  N  A  Q  :  V  L  R  V  L  D  Y  S  K  I  S  R  H  L  L  V  T  A  G  D  D  G  S  I  H  L  W  D  T  T  G  R  S  P  K  :  V  S  W  L  K  Q  H  S  A  P  T  S  G  I  S  F  S  P  T  N  D  K  :  I  V  A  S  V  G  M  D  K  K  L  Y  T  F  D  S  G  S  R  R  P  T  F  C  I  P  Y  E  A  P  F  S  S  L  A  F  T  D  D  G  F  T  L  A  A  G  T  S  S  G  R  V  V  F  Y  D  V  R  G  K  P  Q  P  L  T  V  L  R  A  Y  G  N  S  E  :  A  V  T  S  L  C  W  Q  R  A  K  P  V  I  V  N  E  N  N  C  T  T  E  M  A  L  L  G  S  A  V  E  D  S  I  L  M  P  D  P  L  P  A  M  M  S  S  S  L  A  T  S  M  T  T  S  G  S  R  T  T  V  R  S  G  S  V  D  S  F  S  F  P  A  G  I  T  G  S  T  S  G  T  T  G  L  S  P  S  E  E  T  P  I  R  S  S  L  W  K  G  G  S  L  A  R  L  H  A  P  R  N  F  K  D  D  M  E  V  F  S  P  L  V  E  V  Q  P  I  T  P  S  L  D  K  L  W  D  D  Q  E  G  F  K  K  D  F  D  K  K  S  S  L  L  F  P  S  S  L  R  F  P  L  P  V  E  G  G  N  E  N  R  P  I  F  D  W  K  S  S  S  L  P  K  Q  :  E  D  A  S  F  A  Q  L  S  S  T  P  T  S  S  R  G  D  D  S  S  S  I  T  P  P  E  A  W  G  G  E  R  L  S  D  R  L  S  H  L  R  Q  S  G  N  M  P  S  R  F  A  I  S  T  S  G  P  L  A  P  G  S  M  L  S  G  L  Q  D  N  F  P  A  T  Q  S  I  G  S  L  T  S  S  T  L  S  L  A  N  L  R  I  K  E  N  P  N  E  E  T  I  L  G  S  S  E  H  A  S  S  T  S  F  S  V  G  T  K  G  I  T  G  Q  G  T  L  D  T  L  G  S  T  V  S  L  P  R  R  F  S  S  Y  A  E  R  I  S  T  T  P  S  F  S  D  G  T  L  S  V  G  S  P  K  T  K  K  T  G  A  E  T  R  E  E  L  L  N  S  L  L  S  R  S  D  T  S  S  A  T  A  A  G  A  F  Q  A  I  N  :  G  E  I  K  Q  S  Q  K  S  T  L  P  E  L  Q  Q  G  S  S  F  T  L  Q  L  F  Q  R  T  Q  E  E  T  L  S  S  L  Q  K  S  I  H  E  D  M  R  N  L  H  L  D  I  L  R  Q  F  H  M  Q  E  :  M  E  T  S  S  A  M  K  L  I  L  E  N  Q  A  E  L  M  K  E  V  Q  L  L  R  R  E  T  Q  Q  L  R  Q  L  L  *  P  D  *  L  K  V  L  S  L  R  I  L  L  V  L  A  M  Y  A  M  L  F  *  E  I  C  T  D  S  C  V  V  S  S  E  C  G  S  V  I  V  C  L  S  N  C  G  R  I  W  G  F  I  L  P  *  Y  S  K  G  V  C  D  G  *  S  I  T  V  K  S  A  V  M  V  V  Y  R  K  L  A  R  P  I  S  E  I  *  C  T  E  L  Q  I  I  *  F  T  L  I  *  K  T  S  F  Q  V  G  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="C03HBa0034A02.1" strand="-"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="48851" stop="48695"/>
                    <exon start="48625" stop="48513"/>
                    <exon start="46664" stop="46404"/>
                    <exon start="46276" stop="46172"/>
                    <exon start="45312" stop="45247"/>
                    <exon start="45119" stop="44898"/>
                    <exon start="43935" stop="43381"/>
                    <exon start="43031" stop="42435"/>
                    <exon start="42231" stop="42055"/>
                    <exon start="41979" stop="41872"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>2358</number_coding_nucleotides>
                  <number_encoded_amino_acids>786</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MNSTDSIKTLLATTGGDTVKLFDLTLEPRDPCILSYTPSPGFQVNSVKWNHTNLVVASAGDDKKISLWRKNGQSLGTVPLAGTDSADNIEESISTVNFSSKASRYICSGGSGQVIRIWDLQRKRCIKWLKGHTNTISGAMYNCKDEHLASISLNGNLILHNLASGAKAAELKDPNAQVLRVLDYSKISRHLLVTAGDDGSIHLWDTTGRSPKVSWLKQHSAPTSGISFSPTNDKIVASVGMDKKLYTFDSGSRRPTFCIPYEAPFSSLAFTDDGFTLAAGTSSGRVVFYDVRGKPQPLTVLRAYGNSEAVTSLCWQRAKPVIVNENNCTTEMALLGSAVEDSILMPDPLPAMMSSSLATSMTTSGSRTTVRSGSVDSFSFPAGITGSTSGTTGLSPSEETPIRSSLWKGGSLARLHAPRNFKDDMEVFSPLVEVQPITPSLDKLWDDQEGFKKDFDKKSSLLFPSSLRFPLPVEGGNENRPIFDWKSSSLPKQEDASFAQLSSTPTSSRGDDSSSITPPEAWGGERLSDRLSHLRQSGNMPSRFAISTSGPLAPGSMLSGLQDNFPATQSIGSLTSSTLSLANLRIKENPNEETILGSSEHASSTSFSVGTKGITGQGTLDTLGSTVSLPRRFSSYAERISTTPSFSDGTLSVGSPKTKKTGAETREELLNSLLSRSDTSSATAAGAFQAINGEIKQSQKSTLPELQQGSSFTLQLFQRTQEETLSSLQKSIHEDMRNLHLDILRQFHMQEMETSSAMKLILENQAELMKEVQLLRRETQQLRQLL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="43400" e_stop="43381"/>
            <exon e_start="43034" e_stop="42435"/>
            <exon e_start="42231" e_stop="42055"/>
            <exon e_start="41979" e_stop="41544"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="0.370" e_score="1.000"/>
          <exon-intron don_prob="0.978" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.983" acc_prob="0.990" 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="43400" e_stop="43381" e_length="20"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="0.370">
            <gDNA_intron_boundary i_start="43380" i_stop="43035" i_length="346"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="43034" e_stop="42435" e_length="600"/>
          </exon>
          <intron i_serial="2" don_prob="0.978" acc_prob="0.998">
            <gDNA_intron_boundary i_start="42434" i_stop="42232" i_length="203"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="42231" e_stop="42055" e_length="177"/>
          </exon>
          <intron i_serial="3" don_prob="0.983" acc_prob="0.990">
            <gDNA_intron_boundary i_start="42054" i_stop="41980" i_length="75"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="41979" e_stop="41544" e_length="436"/>
          </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="43400" stop="43381"/>
              <exon start="43034" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41891"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703450" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43029" stop="42455"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E275166" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42859" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41668"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E709089" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42823" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41943"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E331027" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42750" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41780"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42749" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41836"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E204171" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42749" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41880"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375389" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42721" stop="42436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E597494" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42665" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41593"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E427820" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42596" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41561"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391331" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42476" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E716768" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42467" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541711" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42455" stop="42435"/>
              <exon start="42231" stop="42055"/>
              <exon start="41979" stop="41562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375388" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42137" stop="42055"/>
              <exon start="41979" stop="41544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299783" 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="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CAAGTTCCTTACCCAAACAG : CAGGAGGATGCTTCTTTTGCACAGTTGTCTTCCACTCCAACATCTTCTCGTGGTGATGATTCTTCCTCCATAACTCCTCCAGAAGCTTGGGGTGGTGAGAGATTATCGGATAGATTATCTCATCTTCGGCAGTCAGGAAATATGCCTTCCCGTTTTGCAATCTCGACATCTGGTCCTCTTGCACCAGGATCTATGTTATCTGGATTACAGGATAATTTTCCTGCAACTCAGAGTATCGGCTCTTTGACTAGTTCTACTCTAAGTTTGGCTAATTTGCGCATAAAAGAAAATCCAAATGAAGAAACTATTCTAGGATCTTCAGAACATGCGAGTTCCACATCCTTTTCAGTTGGAACAAAAGGCATTACTGGGCAGGGTACTCTTGATACTCTTGGTTCAACTGTATCCCTCCCACGAAGATTTTCCAGTTATGCTGAGAGAATAAGCACTACACCATCCTTCAGTGATGGAACCCTTTCTGTTGGTTCTCCAAAAACTAAGAAAACTGGAGCTGAAACAAGGGAAGAGCTTCTGAATAGCTTGTTATCTAGGTCGGACACGTCGTCTGCTACAGCAGCTGGTGCTTTCCAAGCAATAAAT : GGTGAAATTAAGCAATCTCAAAAGTCCACACTGCCTGAATTGCAGCAGGGAAGTTCCTTTACACTCCAGCTGTTCCAACGTACACAAGAAGAAACTCTTTCTTCCCTTCAAAAATCCATTCACGAGGATATGAGGAATCTTCACTTAGATATCTTAAGACAATTTCATATGCAAGAG : ATGGAAACTTCTAGTGCTATGAAATTGATACTGGAAAACCAAGCAGAGCTGATGAAAGAGGTTCAATTACTTCGAAGGGAAACACAGCAGCTTCGACAGTTATTATGACCAGACTAGCTAAAAGTCTTGTCATTACGTATTCTTTTAGTTTTAGCCATGTACGCAATGCTGTTTTAGGAGATTTGTACTGACAGTTGTGTAGTGAGTAGCGAGTGCGGAAGTGTTATTGTGTGTTTATCTAATTGTGGGCGAATTTGGGGGTTTATTTTACCCTAATATAGTAAAGGAGTGTGTGATGGCTGATCAATAACAGTTAAGAGTGCTGTTATGGTTGTGTACAGAAAGTTGGCTAGGCCAATTTCAGAAATTTAATGTACAGAACTACAGATCATCTAATTCACTTTGATTTAAAAAACATCCTTCCAAGTTGGAGGAG</gDNA_template>
            <first_frame> Q  V  P  Y  P  N  S :   R  R  M  L  L  L  H  S  C  L  P  L  Q  H  L  L  V  V  M  I  L  P  P  *  L  L  Q  K  L  G  V  V  R  D  Y  R  I  D  Y  L  I  F  G  S  Q  E  I  C  L  P  V  L  Q  S  R  H  L  V  L  L  H  Q  D  L  C  Y  L  D  Y  R  I  I  F  L  Q  L  R  V  S  A  L  *  L  V  L  L  *  V  W  L  I  C  A  *  K  K  I  Q  M  K  K  L  F  *  D  L  Q  N  M  R  V  P  H  P  F  Q  L  E  Q  K  A  L  L  G  R  V  L  L  I  L  L  V  Q  L  Y  P  S  H  E  D  F  P  V  M  L  R  E  *  A  L  H  H  P  S  V  M  E  P  F  L  L  V  L  Q  K  L  R  K  L  E  L  K  Q  G  K  S  F  *  I  A  C  Y  L  G  R  T  R  R  L  L  Q  Q  L  V  L  S  K  Q  *  M :   V  K  L  S  N  L  K  S  P  H  C  L  N  C  S  R  E  V  P  L  H  S  S  C  S  N  V  H  K  K  K  L  F  L  P  F  K  N  P  F  T  R  I  *  G  I  F  T  *  I  S  *  D  N  F  I  C  K  R :   W  K  L  L  V  L  *  N  *  Y  W  K  T  K  Q  S  *  *  K  R  F  N  Y  F  E  G  K  H  S  S  F  D  S  Y  Y  D  Q  T  S  *  K  S  C  H  Y  V  F  F  *  F  *  P  C  T  Q  C  C  F  R  R  F  V  L  T  V  V  *  *  V  A  S  A  E  V  L  L  C  V  Y  L  I  V  G  E  F  G  G  L  F  Y  P  N  I  V  K  E  C  V  M  A  D  Q  *  Q  L  R  V  L  L  W  L  C  T  E  S  W  L  G  Q  F  Q  K  F  N  V  Q  N  Y  R  S  S  N  S  L  *  F  K  K  H  P  S  K  L  E  E </first_frame>
            <second_frame>  K  F  L  T  Q  T   : A  G  G  C  F  F  C  T  V  V  F  H  S  N  I  F  S  W  *  *  F  F  L  H  N  S  S  R  S  L  G  W  *  E  I  I  G  *  I  I  S  S  S  A  V  R  K  Y  A  F  P  F  C  N  L  D  I  W  S  S  C  T  R  I  Y  V  I  W  I  T  G  *  F  S  C  N  S  E  Y  R  L  F  D  *  F  Y  S  K  F  G  *  F  A  H  K  R  K  S  K  *  R  N  Y  S  R  I  F  R  T  C  E  F  H  I  L  F  S  W  N  K  R  H  Y  W  A  G  Y  S  *  Y  S  W  F  N  C  I  P  P  T  K  I  F  Q  L  C  *  E  N  K  H  Y  T  I  L  Q  *  W  N  P  F  C  W  F  S  K  N  *  E  N  W  S  *  N  K  G  R  A  S  E  *  L  V  I  *  V  G  H  V  V  C  Y  S  S  W  C  F  P  S  N  K   : W  *  N  *  A  I  S  K  V  H  T  A  *  I  A  A  G  K  F  L  Y  T  P  A  V  P  T  Y  T  R  R  N  S  F  F  P  S  K  I  H  S  R  G  Y  E  E  S  S  L  R  Y  L  K  T  I  S  Y  A  R   : D  G  N  F  *  C  Y  E  I  D  T  G  K  P  S  R  A  D  E  R  G  S  I  T  S  K  G  N  T  A  A  S  T  V  I  M  T  R  L  A  K  S  L  V  I  T  Y  S  F  S  F  S  H  V  R  N  A  V  L  G  D  L  Y  *  Q  L  C  S  E  *  R  V  R  K  C  Y  C  V  F  I  *  L  W  A  N  L  G  V  Y  F  T  L  I  *  *  R  S  V  *  W  L  I  N  N  S  *  E  C  C  Y  G  C  V  Q  K  V  G  *  A  N  F  R  N  L  M  Y  R  T  T  D  H  L  I  H  F  D  L  K  N  I  L  P  S  W  R   </second_frame>
            <third_frame>   S  S  L  P  K  Q  :  Q  E  D  A  S  F  A  Q  L  S  S  T  P  T  S  S  R  G  D  D  S  S  S  I  T  P  P  E  A  W  G  G  E  R  L  S  D  R  L  S  H  L  R  Q  S  G  N  M  P  S  R  F  A  I  S  T  S  G  P  L  A  P  G  S  M  L  S  G  L  Q  D  N  F  P  A  T  Q  S  I  G  S  L  T  S  S  T  L  S  L  A  N  L  R  I  K  E  N  P  N  E  E  T  I  L  G  S  S  E  H  A  S  S  T  S  F  S  V  G  T  K  G  I  T  G  Q  G  T  L  D  T  L  G  S  T  V  S  L  P  R  R  F  S  S  Y  A  E  R  I  S  T  T  P  S  F  S  D  G  T  L  S  V  G  S  P  K  T  K  K  T  G  A  E  T  R  E  E  L  L  N  S  L  L  S  R  S  D  T  S  S  A  T  A  A  G  A  F  Q  A  I  N  :  G  E  I  K  Q  S  Q  K  S  T  L  P  E  L  Q  Q  G  S  S  F  T  L  Q  L  F  Q  R  T  Q  E  E  T  L  S  S  L  Q  K  S  I  H  E  D  M  R  N  L  H  L  D  I  L  R  Q  F  H  M  Q  E  :  M  E  T  S  S  A  M  K  L  I  L  E  N  Q  A  E  L  M  K  E  V  Q  L  L  R  R  E  T  Q  Q  L  R  Q  L  L  *  P  D  *  L  K  V  L  S  L  R  I  L  L  V  L  A  M  Y  A  M  L  F  *  E  I  C  T  D  S  C  V  V  S  S  E  C  G  S  V  I  V  C  L  S  N  C  G  R  I  W  G  F  I  L  P  *  Y  S  K  G  V  C  D  G  *  S  I  T  V  K  S  A  V  M  V  V  Y  R  K  L  A  R  P  I  S  E  I  *  C  T  E  L  Q  I  I  *  F  T  L  I  *  K  T  S  F  Q  V  G  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="C03HBa0034A02.1" strand="-"/>
                <serials PGL_serial="7" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="43398" stop="43381"/>
                    <exon start="43034" stop="42435"/>
                    <exon start="42231" stop="42055"/>
                    <exon start="41979" stop="41872"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>900</number_coding_nucleotides>
                  <number_encoded_amino_acids>300</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SSLPKQQEDASFAQLSSTPTSSRGDDSSSITPPEAWGGERLSDRLSHLRQSGNMPSRFAISTSGPLAPGSMLSGLQDNFPATQSIGSLTSSTLSLANLRIKENPNEETILGSSEHASSTSFSVGTKGITGQGTLDTLGSTVSLPRRFSSYAERISTTPSFSDGTLSVGSPKTKKTGAETREELLNSLLSRSDTSSATAAGAFQAINGEIKQSQKSTLPELQQGSSFTLQLFQRTQEETLSSLQKSIHEDMRNLHLDILRQFHMQEMETSSAMKLILENQAELMKEVQLLRRETQQLRQLL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="48910" e_stop="48513"/>
            <exon e_start="46664" e_stop="46424"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.878" 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="1.000">
            <gDNA_exon_boundary e_start="48910" e_stop="48513" e_length="398"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.878">
            <gDNA_intron_boundary i_start="48512" i_stop="46665" i_length="1848"/>
          </intron>
          <exon e_serial="2" e_score="0.988">
            <gDNA_exon_boundary e_start="46664" e_stop="46424" e_length="241"/>
          </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="48910" stop="48513"/>
              <exon start="46664" stop="46424"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E332243" 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="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTCTTCTGAAATTCAAATCTGTAAACTGTATATTTCACAATCCAAGAATCTCTTCATAGATGAATTCTACAGATTCGATTAAGACCCTTTTGGCTACTACTGGCGGTGACACTGTTAAGCTTTTTGACCTCACTTTGGAACCCCGTGATCCCTGCATTCTTAGCTATACTCCTTCCCCTGGATTCCAAGTCAATTCCGTCAAGTGGAATCACACTAGTTAGTTTCCCCTTTCTATCATGAATTTACATTCTTTTTGCAAATTCGATTTAACTTTGGGTGTTGCAGATTTGGTGGTGGCAAGCGCTGGAGATGACAAGAAGATATCTTTGTGGAGGAAAAATGGACAGAGTTTGGGGACTGTACCACTGGCCGGCACTGATAGTGCTGACAATATCGAG : GAGTCTATTTCAACAGTTAACTTTAGCAGCAAAGCATCCCGATACATATGTTCTGGAGGTAGTGGCCAAGTTATACGAATATGGGATTTGCAGCGGAAGCGTTGCATCAAATGGTTGAAAGGTCATACCAATACTATTAGTGGTGCAATGTACAATTGTAAAGATGAGCACTTAGCTTCTATCAGTCTTAATGGGAATCTTATACTTCACAACCTTGCTTCTGGTGCAAAGGCTGCTGAAC</gDNA_template>
            <first_frame> F  F  *  N  S  N  L  *  T  V  Y  F  T  I  Q  E  S  L  H  R  *  I  L  Q  I  R  L  R  P  F  W  L  L  L  A  V  T  L  L  S  F  L  T  S  L  W  N  P  V  I  P  A  F  L  A  I  L  L  P  L  D  S  K  S  I  P  S  S  G  I  T  L  V  S  F  P  F  L  S  *  I  Y  I  L  F  A  N  S  I  *  L  W  V  L  Q  I  W  W  W  Q  A  L  E  M  T  R  R  Y  L  C  G  G  K  M  D  R  V  W  G  L  Y  H  W  P  A  L  I  V  L  T  I  S  R :   S  L  F  Q  Q  L  T  L  A  A  K  H  P  D  T  Y  V  L  E  V  V  A  K  L  Y  E  Y  G  I  C  S  G  S  V  A  S  N  G  *  K  V  I  P  I  L  L  V  V  Q  C  T  I  V  K  M  S  T  *  L  L  S  V  L  M  G  I  L  Y  F  T  T  L  L  L  V  Q  R  L  L  N </first_frame>
            <second_frame>  S  S  E  I  Q  I  C  K  L  Y  I  S  Q  S  K  N  L  F  I  D  E  F  Y  R  F  D  *  D  P  F  G  Y  Y  W  R  *  H  C  *  A  F  *  P  H  F  G  T  P  *  S  L  H  S  *  L  Y  S  F  P  W  I  P  S  Q  F  R  Q  V  E  S  H  *  L  V  S  P  F  Y  H  E  F  T  F  F  L  Q  I  R  F  N  F  G  C  C  R  F  G  G  G  K  R  W  R  *  Q  E  D  I  F  V  E  E  K  W  T  E  F  G  D  C  T  T  G  R  H  *  *  C  *  Q  Y  R   : G  V  Y  F  N  S  *  L  *  Q  Q  S  I  P  I  H  M  F  W  R  *  W  P  S  Y  T  N  M  G  F  A  A  E  A  L  H  Q  M  V  E  R  S  Y  Q  Y  Y  *  W  C  N  V  Q  L  *  R  *  A  L  S  F  Y  Q  S  *  W  E  S  Y  T  S  Q  P  C  F  W  C  K  G  C  *   </second_frame>
            <third_frame>   L  L  K  F  K  S  V  N  C  I  F  H  N  P  R  I  S  S  *  M  N  S  T  D  S  I  K  T  L  L  A  T  T  G  G  D  T  V  K  L  F  D  L  T  L  E  P  R  D  P  C  I  L  S  Y  T  P  S  P  G  F  Q  V  N  S  V  K  W  N  H  T  S  *  F  P  L  S  I  M  N  L  H  S  F  C  K  F  D  L  T  L  G  V  A  D  L  V  V  A  S  A  G  D  D  K  K  I  S  L  W  R  K  N  G  Q  S  L  G  T  V  P  L  A  G  T  D  S  A  D  N  I  E  :  E  S  I  S  T  V  N  F  S  S  K  A  S  R  Y  I  C  S  G  G  S  G  Q  V  I  R  I  W  D  L  Q  R  K  R  C  I  K  W  L  K  G  H  T  N  T  I  S  G  A  M  Y  N  C  K  D  E  H  L  A  S  I  S  L  N  G  N  L  I  L  H  N  L  A  S  G  A  K  A  A  E  </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="C03HBa0034A02.1" strand="-"/>
                <serials PGL_serial="7" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="48689" stop="48513"/>
                    <exon start="46664" stop="46425"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>417</number_coding_nucleotides>
                  <number_encoded_amino_acids>139</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FPLSIMNLHSFCKFDLTLGVADLVVASAGDDKKISLWRKNGQSLGTVPLAGTDSADNIEESISTVNFSSKASRYICSGGSGQVIRIWDLQRKRCIKWLKGHTNTISGAMYNCKDEHLASISLNGNLILHNLASGAKAAE</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="8" PGL_strand="+" PGL_start="51480" PGL_stop="51940"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="51480" e_stop="51940"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.965"/>
        </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="0.965">
            <gDNA_exon_boundary e_start="51480" e_stop="51940" e_length="461"/>
          </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="51480" stop="51940"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E202664" 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>TGTAACGATTCAAAAAAAAAAGAATTATATAAATAAGAATAAATAGGTATTTAAGGGCATAATTGTCCTTTCATGTTTTAAATGAATAAATAAATAAATAAGTAAATAAATAAAACAGATTTGTATTTATTTATTTTAAATGTTATTTGACTAATTCTTGAATTAGTCTCCTAATCCAAATAGTCCTCTCTCTCTCACGCTTCTTAACTCCCTCTCTCACGTTCTCCATCTTCCTCACATTATTTCTGCCAAAACATCAACAGTTTTCATGCTTGAAGAACTAACAAAAATTTTTAAGCAAAAGAAAAAGTAATCAAAACGTCAAGGCTAAGAGAGGTTTGTCGAGAGAGGTGTACGTTGAAGTGAATTGGGAGTGGTTTGGAGGAGTTTTCCGGGCAGCAACATTAAAGTTTGAACATCGATTAAGGTATGGGTTTTCTTCTCTCTTGAATCCTTTCCCA</gDNA_template>
            <first_frame> C  N  D  S  K  K  K  E  L  Y  K  *  E  *  I  G  I  *  G  H  N  C  P  F  M  F  *  M  N  K  *  I  N  K  *  I  N  K  T  D  L  Y  L  F  I  L  N  V  I  *  L  I  L  E  L  V  S  *  S  K  *  S  S  L  S  H  A  S  *  L  P  L  S  R  S  P  S  S  S  H  Y  F  C  Q  N  I  N  S  F  H  A  *  R  T  N  K  N  F  *  A  K  E  K  V  I  K  T  S  R  L  R  E  V  C  R  E  R  C  T  L  K  *  I  G  S  G  L  E  E  F  S  G  Q  Q  H  *  S  L  N  I  D  *  G  M  G  F  L  L  S  *  I  L  S   </first_frame>
            <second_frame>  V  T  I  Q  K  K  K  N  Y  I  N  K  N  K  *  V  F  K  G  I  I  V  L  S  C  F  K  *  I  N  K  *  I  S  K  *  I  K  Q  I  C  I  Y  L  F  *  M  L  F  D  *  F  L  N  *  S  P  N  P  N  S  P  L  S  L  T  L  L  N  S  L  S  H  V  L  H  L  P  H  I  I  S  A  K  T  S  T  V  F  M  L  E  E  L  T  K  I  F  K  Q  K  K  K  *  S  K  R  Q  G  *  E  R  F  V  E  R  G  V  R  *  S  E  L  G  V  V  W  R  S  F  P  G  S  N  I  K  V  *  T  S  I  K  V  W  V  F  F  S  L  E  S  F  P  </second_frame>
            <third_frame>   *  R  F  K  K  K  R  I  I  *  I  R  I  N  R  Y  L  R  A  *  L  S  F  H  V  L  N  E  *  I  N  K  *  V  N  K  *  N  R  F  V  F  I  Y  F  K  C  Y  L  T  N  S  *  I  S  L  L  I  Q  I  V  L  S  L  S  R  F  L  T  P  S  L  T  F  S  I  F  L  T  L  F  L  P  K  H  Q  Q  F  S  C  L  K  N  *  Q  K  F  L  S  K  R  K  S  N  Q  N  V  K  A  K  R  G  L  S  R  E  V  Y  V  E  V  N  W  E  W  F  G  G  V  F  R  A  A  T  L  K  F  E  H  R  L  R  Y  G  F  S  S  L  L  N  P  F  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/">
            <none gDNA_id="C03HBa0034A02.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 217 chains have been computed
$ 
$ memory statistics:
$ 251504 bytes spliced alignments in total
$ 116 spliced alignments have been stored
$ 2168 bytes was the average size of a spliced alignment
$ 16984 bytes predicted gene locations in total
$ 8 predicted gene locations have been stored
$ 2123 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 263 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 01:43:46
-->
