<?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="2009-04-02 23:06:50"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E332051" ref_strand="+" ref_description="SGN-E332051 [cTOD-16-P24]">
      <seq>cagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttgtttatcttatctctgagtacagaaaaatattacagaagttgtatgatttgggaggaagaagagtattagtgacaggtactggaccaataggttgtgtgccagcagaattagcacagaggagtagaagtggggaatgttcagtagaattgcagcgtgcagctgctttattcaaccctcaattgactcaaatgttggctgatctcaattcacaaattggtgctaatgtatttattgctgctaacacatatactatgaacatggnatttgtatctaatcctncagcttatggatttgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3051" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2751" g_stop="2665" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="87" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="88" r_stop="215" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="216" r_stop="458" r_length="243" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="250" g_stop="1" g_length="250"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="708" r_length="250" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E332051" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>708</cumulative_length_of_scored_exons>
        <coverage percentage="0.985" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E332051" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2751" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="1"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATTAGCACAGAGGAGTAGAAGTGGGGAATGTTCAGTAGAATTGCAGCGTGCAGCTGCTTTATTCAACCCTCAATTGACTCAAATGTTGGCTGATCTCAATTCACAAATTGGTGCTAATGTATTTATTGCTGCTAACACATATACTATGAACATGGATTTTGTATCTAATCCTCAAGCTT</genome_strand>
        <mrna_strand>CAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATTAGCACAGAGGAGTAGAAGTGGGGAATGTTCAGTAGAATTGCAGCGTGCAGCTGCTTTATTCAACCCTCAATTGACTCAAATGTTGGCTGATCTCAATTCACAAATTGGTGCTAATGTATTTATTGCTGCTAACACATATACTATGAACATGGNATTTGTATCTAATCCTNCAGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E332119" ref_strand="+" ref_description="SGN-E332119 [cTOD-16-M20]">
      <seq>cagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttgtttatcttatctctgagtacagaaaaatattacagaagttgtatgatttgggaggaagaagagtattagtgacaggtactggaccaataggttgtgtgccagcagaattagcacagaggagtagaagtggggaatgttcagtagaattgcagcgtgcagctgctttattcaaccctcaattgactcaaatgttggctgatctcaattcacaaattggtgctaatgtatttattgctgctaacacatatactatgaacatggattttgtatctaatcctcaagcttatggatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3051" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2751" g_stop="2665" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="87" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="88" r_stop="215" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="216" r_stop="458" r_length="243" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="250" g_stop="1" g_length="250"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="708" r_length="250" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E332119" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>708</cumulative_length_of_scored_exons>
        <coverage percentage="0.990" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E332119" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2751" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="1"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATTAGCACAGAGGAGTAGAAGTGGGGAATGTTCAGTAGAATTGCAGCGTGCAGCTGCTTTATTCAACCCTCAATTGACTCAAATGTTGGCTGATCTCAATTCACAAATTGGTGCTAATGTATTTATTGCTGCTAACACATATACTATGAACATGGATTTTGTATCTAATCCTCAAGCTT</genome_strand>
        <mrna_strand>CAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATTAGCACAGAGGAGTAGAAGTGGGGAATGTTCAGTAGAATTGCAGCGTGCAGCTGCTTTATTCAACCCTCAATTGACTCAAATGTTGGCTGATCTCAATTCACAAATTGGTGCTAATGTATTTATTGCTGCTAACACATATACTATGAACATGGATTTTGTATCTAATCCTCAAGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E342478" ref_strand="+" ref_description="SGN-E342478 [cTOF-8-F3]">
      <seq>gttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagctaggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttgtttatcttatctctgagtacagaaaaatattacagaagttgtatgatttgggaggaagaagagtattagtgacaggtactggaccaaaggttgtgtgccagcagaattagcacagaggagtagaagtggggaatgttcagtagaattggcagcgtgcagctgctttattcaaccctcaattgactcanatgnntggctgatctcaattcacaaattggtgcctaatgtatttatttgttgctaacacatat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3067" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2767" g_stop="2665" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="103" r_length="103" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="104" r_stop="231" r_length="128" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="232" r_stop="475" r_length="244" r_score="0.992"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="250" g_stop="38" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="476" r_stop="691" r_length="216" r_score="0.944"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E342478" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>687</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342478" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2767" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="38"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAG-AATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATTAGCACAGAGGAGTAGAAGTGGGGAATGTTCAGTAGAATT-GCAGCGTGCAGCTGCTTTATTCAACCCTCAATTGACTCAAATG-TTGGCTGATCTCAATTCACAAATTGGTG-CTAATGTATTTA-TTGCTGCTAACACATAT</genome_strand>
        <mrna_strand>GTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGCTAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAA-AGGTTGTGTGCCAGCAGAATTAGCACAGAGGAGTAGAAGTGGGGAATGTTCAGTAGAATTGGCAGCGTGCAGCTGCTTTATTCAACCCTCAATTGACTCANATGNNTGGCTGATCTCAATTCACAAATTGGTGCCTAATGTATTTATTTGTTGCTAACACATAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E323586" ref_strand="+" ref_description="SGN-E323586 [cTOC-2-L17]">
      <seq>acaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttgtttatcttatctctgagtacagaaaaatattacagaagttgtatgatttgggaggaagaagagtattagtgacaggtactggaccaataggttgtgtgccagcagaattagcacagaggagtagaagtggggaatgttcagtagaattgcagcgtgcagctgctttattcaaccctcaattgactcaaatgttggctgatctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3007" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2707" g_stop="2665" g_length="43"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="43" r_length="43" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="44" r_stop="171" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="172" r_stop="414" r_length="243" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="250" g_stop="83" g_length="168"/>
          <reference_exon_boundary r_type="cDNA" r_start="415" r_stop="582" r_length="168" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E323586" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>582</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E323586" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2707" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="83"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATTAGCACAGAGGAGTAGAAGTGGGGAATGTTCAGTAGAATTGCAGCGTGCAGCTGCTTTATTCAACCCTCAATTGACTCAAATGTTGGCTGATCTC</genome_strand>
        <mrna_strand>ACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATTAGCACAGAGGAGTAGAAGTGGGGAATGTTCAGTAGAATTGCAGCGTGCAGCTGCTTTATTCAACCCTCAATTGACTCAAATGTTGGCTGATCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E329111" ref_strand="+" ref_description="SGN-E329111 [cTOC-24-H16]">
      <seq>ttaatttctgttacatgatgaattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttgtttatcttatctctgagtacagaaaaatattacagaagttgtatgatttgggaggaagaagagtattagtgacaggtactggaccaataggttgtgtgccagcagaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3225" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2925" g_stop="2665" 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="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="389" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="390" r_stop="632" r_length="243" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="250" g_stop="177" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="633" r_stop="706" r_length="74" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E329111" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>706</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E329111" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2925" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="177"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATT</genome_strand>
        <mrna_strand>TTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E327471" ref_strand="+" ref_description="SGN-E327471 [cTOC-19-P3]">
      <seq>ttgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttgtttatcttatctctgagtacagaaaaatattacagaagttgtatgatttgggaggaagaagagtattagtgacaggtactggaccaatangttgtgtgccagcagat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3203" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2903" g_stop="2665" g_length="239"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="239" r_length="239" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="240" r_stop="367" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="368" r_stop="610" r_length="243" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="250" g_stop="179" g_length="72"/>
          <reference_exon_boundary r_type="cDNA" r_start="611" r_stop="682" r_length="72" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E327471" ref_strand="+">
        <total_alignment_score>0.997</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="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327471" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2903" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="179"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAA</genome_strand>
        <mrna_strand>TTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATANGTTGTGTGCCAGCAGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E347363" ref_strand="+" ref_description="SGN-E347363 [cTOF-33-P1]">
      <seq>aattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactntgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttgnttatcttatctctgagtacagaaaaatattcagaagttgtatgatttgggaggaagaagagtattagtgacaggtactggaccaatagggttgtgtgccagcag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3205" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2905" g_stop="2665" g_length="241"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="241" r_length="241" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="242" r_stop="369" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="370" r_stop="611" r_length="242" r_score="0.988"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="0.96"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="250" g_stop="181" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="612" r_stop="682" r_length="71" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E347363" ref_strand="+">
        <total_alignment_score>0.993</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="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347363" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2905" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="181"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATA-GGTTGTGTGCCAGCAG</genome_strand>
        <mrna_strand>AATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTNTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGNTTATCTTATCTCTGAGTACAGAAAAATATT-CAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGGTTGTGTGCCAGCAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E328083" ref_strand="+" ref_description="SGN-E328083 [cTOC-22-F9]">
      <seq>atgaattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgncagatctcgacaattttctctacctggatatgtttgttatcttatctctgagtacagaaaaatattacagaagttgtatgatttgggagga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3208" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2908" g_stop="2665" g_length="244"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="244" r_length="244" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="372" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="373" r_stop="615" r_length="243" r_score="0.975"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="0.92"/>
            <acceptor a_prob="0.961" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="250" g_stop="230" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="616" r_stop="636" r_length="21" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E328083" ref_strand="+">
        <total_alignment_score>0.990</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="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328083" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2908" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="230"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGAGGA</genome_strand>
        <mrna_strand>ATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGNCAGATCTCGACAATTTTCTCTACCTGGATATGTTTGTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGAGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E279507" ref_strand="+" ref_description="SGN-E279507 [cLER-5-C12]">
      <seq>tggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttggttatcttatctctgagtacagaaaaatattacagaagttgtatgatttgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="2054" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1754" g_stop="1718" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="37" r_length="37" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="280" r_length="243" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="0.98"/>
            <acceptor a_prob="0.961" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="250" g_stop="232" g_length="19"/>
          <reference_exon_boundary r_type="cDNA" r_start="281" r_stop="299" r_length="19" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E279507" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>299</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279507" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1754" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="232"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGAG</genome_strand>
        <mrna_strand>TGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGGTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E345453" ref_strand="+" ref_description="SGN-E345453 [cTOF-13-P9]">
      <seq>ttcatttattcacatagcaagttaatttctgttacatgatgaattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactntgttaataactattatttggtccctttctctgcaagatctcgacaattntctctacctgattatgttgnttatcttatctctgagtacagaaaaatattacagaagttgtatgatttggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3246" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2946" g_stop="2665" g_length="282"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="282" r_length="282" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="283" r_stop="410" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="411" r_stop="653" r_length="243" r_score="0.988"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="0.98"/>
            <acceptor a_prob="0.961" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="250" g_stop="233" g_length="18"/>
          <reference_exon_boundary r_type="cDNA" r_start="654" r_stop="671" r_length="18" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E345453" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>671</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345453" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2946" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATTTATTCACATAGCAAGTTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGGGA</genome_strand>
        <mrna_strand>TTCATTTATTCACATAGCAAGTTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTNTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTNTCTCTACCTGATTATGTTGNTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E324095" ref_strand="+" ref_description="SGN-E324095 [cTOC-3-B15]">
      <seq>caacgttaccatatttggcgtccacaactcacaggagataggcttcttgttggagcaaactttgcttatgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttgtttatcttatctctgagtacagaaaaatattacagaagttgtatgatttgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="2124" stop="1"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1824" g_stop="1718" g_length="107"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="108" r_length="108" r_score="0.972"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="109" r_stop="351" r_length="243" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="250" g_stop="235" g_length="16"/>
          <reference_exon_boundary r_type="cDNA" r_start="352" r_stop="367" r_length="16" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E324095" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>366</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324095" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1824" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
          <exon e_start="250" e_stop="235"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAACGTTACCATATTTGGC-TCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAGGTAATCCCTCTTCATTTATGAAAGCAAATCGATTTTTTATTTTTTTTGTTAATTAACTGAGCTACGAAAATTTTAAAAAGTCAATATAGTAGGGACATATACATAGTTATATGATGAATGCTTTGGTTGGTTGGTGCGACAAACTTGCTTATCACCACATGGTCATTAAGACCCCTTATCTGAAAATGTGCATTTATTTGAAACAAATTATGCACCACCTACCCACAACAAGGTCCCCTACATAAGAGGAAATTTTCTATTAGCGGTGGAGCCAGAGTTTTTATTGAGCGGTTAAAAAAAATATGCTAATTAGTGCTATCAAATAAACAGTAAACATTTGAAAAAATGTTGTTAGTCAGTTTTGAACGCACAAGCTTACTAGTTTCTCTGAACCCCATTAGCACCTTACTTGTGTTGAGGGGGTTTAAAAATTAAATGCGTAGACATAGAATATAGATTTGATCTTCTATATACAGTGTAGTATAAATTTTTGATTCAGGACAAACAAAGGTTAAAATTTATTTTTAGAATATGAACAAATAAAAGTAAACAGAAAGAGTGAGATATCGCAGATATAAGTAATATAAGACGGAGAAGTTGTGTAATTGGTATGGTTTTTGAGTTTTGCAGAAGTTGTATGATTTGG</genome_strand>
        <mrna_strand>CAACGTTACCATATTTGGCGTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTATGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTTGTATGATTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E345735" ref_strand="+" ref_description="SGN-E345735 [cTOF-18-J10]">
      <seq>ttaatttctgttacatgatgaattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctgattatgttgnttatcttatctctgagtacagaaaaatattacagaagttgtatgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3225" stop="581"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2925" g_stop="2665" 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="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="389" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="390" r_stop="632" r_length="243" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E345735" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>632</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345735" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2925" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG</genome_strand>
        <mrna_strand>TTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGNTTATCTTATCTCTGAGTACAGAAAAATATTACAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E327717" ref_strand="+" ref_description="SGN-E327717 [cTOC-20-A6]">
      <seq>tgaattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagtaaacagtgcacttatcctcatcactcttggtggaaatgactttgttaataactattatttggtccctttctctgcaagatctcgacaattttctctacctggatatgttgtttatcttatctctgagtacagaaaaatattacagaagttgtatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3207" stop="581"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2907" g_stop="2665" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="243" r_length="243" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="244" r_stop="371" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="881" g_length="243"/>
          <reference_exon_boundary r_type="cDNA" r_start="372" r_stop="614" r_length="243" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E327717" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>614</cumulative_length_of_scored_exons>
        <coverage percentage="0.982" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327717" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2907" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="881"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG</genome_strand>
        <mrna_strand>TGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGGATATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E328349" ref_strand="+" ref_description="SGN-E328349 [cTOC-21-O1]">
      <seq>atgaattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattggagcagcacaaacagagcagctagntaacagtgcacttatcctcatcactcttggtggaaatgactttgtttataactatta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3208" stop="669"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2908" g_stop="2665" g_length="244"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="244" r_length="244" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="372" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="969" g_length="155"/>
          <reference_exon_boundary r_type="cDNA" r_start="373" r_stop="527" r_length="155" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E328349" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>527</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328349" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2908" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="969"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTA</genome_strand>
        <mrna_strand>ATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGNTAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTTATAACTATTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E327459" ref_strand="+" ref_description="SGN-E327459 [cTOC-19-L3]">
      <seq>attgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatcaaaggagggtaagtggtttaattgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3204" stop="750"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2904" g_stop="2665" g_length="240"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="240" r_length="240" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="241" r_stop="368" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="1050" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="369" r_stop="442" r_length="74" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E327459" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>442</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327459" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2904" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="1050"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGG</genome_strand>
        <mrna_strand>ATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E325363" ref_strand="+" ref_description="SGN-E325363 [cTOC-1-C23]">
      <seq>ctttcttatcgnattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaattggagtactttgaacaatatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3192" stop="775"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2892" g_stop="2665" g_length="228"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="228" r_length="228" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="229" r_stop="356" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="1075" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="357" r_stop="405" r_length="49" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E325363" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>405</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E325363" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2892" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="1075"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATC</genome_strand>
        <mrna_strand>CTTTCTTATCGNATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E320840" ref_strand="+" ref_description="SGN-E320840 [cTOB-27-H1]">
      <seq>tctgttacatgatgaattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttnctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaanncattggagtactttgaacaata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3219" stop="777"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2919" g_stop="2665" g_length="255"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="255" r_length="255" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="256" r_stop="384" r_length="129" r_score="0.984"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.710" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="1077" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="385" r_stop="431" r_length="47" r_score="0.936"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E320840" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>430</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E320840" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2919" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="1077"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTT-CTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATA</genome_strand>
        <mrna_strand>TCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTNCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAANNCATTGGAGTACTTTGAACAATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E304475" ref_strand="+" ref_description="SGN-E304475 [cLEX-12-J10]">
      <seq>actactcaagcccttactactatataatatccaccaaacgcatattcatttattcacatagcaagttaatttctgttacatgatgaattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcctgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcgtccaattttttaatataataagaattgggaaacaattggagtact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3290" stop="787"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2990" g_stop="2665" g_length="326"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="326" r_length="326" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="327" r_stop="454" r_length="128" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.710" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="1087" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="455" r_stop="491" r_length="37" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E304475" ref_strand="+">
        <total_alignment_score>0.996</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="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E304475" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2990" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="1087"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTACTCAAGCCCTTACTACTATATAATATCCACCAAACGCATATTCATTTATTCACATAGCAAGTTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAATTGGAGTACT</genome_strand>
        <mrna_strand>ACTACTCAAGCCCTTACTACTATATAATATCCACCAAACGCATATTCATTTATTCACATAGCAAGTTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCCTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCGTCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAATTGGAGTACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E324143" ref_strand="+" ref_description="SGN-E324143 [cTOC-4-I7]">
      <seq>ttaatttctgttacatgatgaattgctcattgtctttcttatcgtattatatagtacttttagtgcttgcattttgtgatcttccgtttagagctgaaggtcgagccttcttcgtgtttggtgattcactagtagataacgggaacaataattacttagttactagtgccagggcagattctcccccctatggcattgactatcctactcatcgtgccacaggtcgattttccaatggactcaacatacctgatattataagtgagcaattgggcatggagccaacgttaccatatttggctccacaactcacaggagataggcttcttgttggagcaaactttgcttctgctggagttggaatcctaaatgacactggcatccaattttttaatataataagaattgggaaacaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="-" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="3225" stop="796"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2925" g_stop="2665" 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="2664" i_stop="1846" i_length="819">
            <donor d_prob="0.986" 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="1845" g_stop="1718" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="389" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.710" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1123" g_stop="1096" g_length="28"/>
          <reference_exon_boundary r_type="cDNA" r_start="390" r_stop="417" r_length="28" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="-" ref_id="SGN-E324143" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>417</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324143" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2925" e_stop="2665"/>
          <exon e_start="1845" e_stop="1718"/>
          <exon e_start="1123" e_stop="1096"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAAGTATGAACATTATGTTATAGTTATATATAACTTGATTGATTGAATTTTTCATTATTGTTATATGTTAGTATTTATATTCATTCTTTACGAAATTTTGAGAATCCGTTTGGCTATAAAAATTATTCACTTTTTTCAGAAGAATTTTTCGCTTTTATTTGAAAATTTGTGTTTGATCCTGAAAATTCTGAATCCATTTTAAAGTTGTATTTCAAATTTTGATTTTCAACATACTTTTTACTTTGAAGTTGTATAAGAGCATTCGAGCATGGATATTATTCCAATTATTTTTTTGCAAAAAAGAAAAACCATAAACAACTTTGATCCATTTGAATCTATCTTCCAACTTCAATTCCACAAATTTCAAAAAAAAAAAAGAGTGGAAAATATTTAAAATTTATGGTAAATTATTTATTAAGTTTATACACATTGATACTATGATAATTGTTAACATTATCAGACAATTTAATCTATTATAACATGTTATTTTTAAGTTTACTACGCAAGTATAATTAATTTGATAGGAAGGGTACACCCTGTTAATGGTAGGTAAGTAAGTAAACTGATGGGTAAAGATAACACAAAAGATGAATTATTTTTTTATATATATAAATTGTCACTTTGTCTGTTTCAATATGTGTAGTGATATTGGAAGCTCTTCTGATTAAAAAATTACATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATAAAATGTATAAAATGTCTCATTCTCTTTTGGAGTACTAATTAGGAAACCTATATTTATCACAGATATGCTAATGATGTGATTTATTTATTTATTTTAAGGTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTTGTATGTGAAAATTCATCTCATTAATTCTTGCCTATTTAACTCAATTAATTAATTAATTTGGAATAAACTATAATAGTATGCCTATTTTTCATTCTGATTTTCTCTTTTCTTTTTCCACTGTACTTAAAATTAATTCTGGAATATATCTTTGATTCTCTTTTAGTCTCTCAGTTGAACTACCTAACTCCAGATTACTATTGTTCTGTTGTATTAGGCATGTTATATCATTATCTAATTCTTTTAACTTGACATCAGTTGATATTTATGTTTTCGAACTTTGAACGTACACGATTAGACAGTTAAATTTATATAAAATTGATACATTTGTCTTACATGGTGTCCTAAACGACAATTTTGTCTCCTATATGACATTATATTTATTTATTTTATACAAATCTGTGTGCCTACTCAAATTTAAGAGAAATAGATATTCATTGAAATGGAAGGGTATAACATATGTCAAACTTGAATGATGGATACTTAAATTATTGGATATCATGCACATAGCACTAGAAAGATTGTGAATTAATGTCTACTATAGTAAGTGACATGCTAAGGTTTATATTGTAATTGAATTTTATGATATTTTTTCAGTTTAATATAATAAGAATTGGGAAACAAT</genome_strand>
        <mrna_strand>TTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTAATATAATAAGAATTGGGAAACAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E393076" ref_strand="+" ref_description="SGN-E393076 [TUS-37-J4]">
      <seq>taaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaataaaaacagaatttatttttttttgtgtatatagcgagatag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="+" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="22120" stop="23015"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22420" g_stop="22741" g_length="322"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="325" r_length="325" r_score="0.901"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="+" ref_id="SGN-E393076" ref_strand="+">
        <total_alignment_score>0.901</total_alignment_score>
        <cumulative_length_of_scored_exons>322</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E393076" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22420" e_stop="22741"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATGTATGTTTATTGCATAATTATAAGTTTATAGCCAAAAGATATATGT-TTT-TCTCGCTTTATACAAAAACAGAAACACAATATTTACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTACAATTATATAATTCGCAATTATATAATTCGTTGGCCTTTTTCTCTGCAATTTTTGAAGTAAAATATTTGTAAATTGTATAATTAAGTGTATAACACGAAGATATACATTTTTGCATGTGTATATACAATTTTCTCTCGCTTTATACAAAACAGAAACAGAA-TTATACACTTCTGTGTATAAAGCGAGAGAG</genome_strand>
        <mrna_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAAAAACAGAATTTATTTTTTTTTGTGTATATAGCGAGATAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E393075" ref_strand="+" ref_description="SGN-E393075 [TUS-37-J2]">
      <seq>taaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaatagaaacagaggttttttttttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="+" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="22120" stop="23015"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22420" g_stop="22710" g_length="291"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="293" r_length="293" r_score="0.924"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="+" ref_id="SGN-E393075" ref_strand="+">
        <total_alignment_score>0.924</total_alignment_score>
        <cumulative_length_of_scored_exons>291</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E393075" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22420" e_stop="22710"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATGTATGTTTATTGCATAATTATAAGTTTATAGCCAAAAGATATATGT-TTT-TCTCGCTTTATACAAAAACAGAAACACAATATTTACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTACAATTATATAATTCGCAATTATATAATTCGTTGGCCTTTTTCTCTGCAATTTTTGAAGTAAAATATTTGTAAATTGTATAATTAAGTGTATAACACGAAGATATACATTTTTGCATGTGTATATACAATTTTCTCTCGCTTTATACAAAACAGAAACAGA</genome_strand>
        <mrna_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAGAAACAGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E303634" ref_strand="+" ref_description="SGN-E303634 [cLEY-6-O13]">
      <seq>aagtattagtgagtcctcatcaattcgaggataatatccacatgtcccttatgtcatactcttcatcttattgtcttttatgggattagtcccaagtgttgtatactctaaagtttagatggttcaagtagatgttgtaaagatttaaatgtttcaatgaaagtcttctgcttgtgtaatcaaacaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="+" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="104530" stop="105309"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="104830" g_stop="105009" g_length="180"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="180" r_length="180" r_score="0.900"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="182" polyA_stop="195"/>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="+" ref_id="SGN-E303634" ref_strand="+">
        <total_alignment_score>0.900</total_alignment_score>
        <cumulative_length_of_scored_exons>180</cumulative_length_of_scored_exons>
        <coverage percentage="0.923" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E303634" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="104830" e_stop="105009"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGTATTGGTGAGTCCTCATCGATTCAAGGACAATATCCACATGTCCCTTATGTTATAGTCTTTATTTTATTGTCTTGTATGAGATTAGTCCCAAGTGTTGTATACTCTAAAGTTTAGATGGTTCAAATAGATGTTGTAAAGATTTAATGATTTAAATAAAAGTCTTCCGCCTGTGTAAT</genome_strand>
        <mrna_strand>AAGTATTAGTGAGTCCTCATCAATTCGAGGATAATATCCACATGTCCCTTATGTCATACTCTTCATCTTATTGTCTTTTATGGGATTAGTCCCAAGTGTTGTATACTCTAAAGTTTAGATGGTTCAAGTAGATGTTGTAAAGATTTAAATGTTTCAATGAAAGTCTTCTGCTTGTGTAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E251036" ref_strand="+" ref_description="SGN-E251036 [cLEG-17-J15]">
      <seq>tggtttgcctcacatccggtcaatgtctccgtctcattctgcttcttctctccgtgctccctatatccaactccctagagcaatgaatttctttcaaacttcacacatttcgaggctaatttgcctcagatctattgtggtaagtgtttctccaactaatctctctgattgtccttgtttctgagcaattcttcctgtatttttatacaatcttcacatgcatatgtacaaatagatacttcaatgcgtgcttgctctctaatggtgtttcgcttcagacaattagcagcgaacctatttcgactaggcgaatccaaggtgttcgatgaaatgcctaaataagccaactatttggcaagaattttcattgtttctttttttgctattagccgggaaattagggttgcattgatgtaattagatatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0103J09-sWI4h/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00HBa0103J09.2" temp_strand="+" temp_description="C00HBa0103J09.2  CU915740.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0103J09 sequenced_by:sanger upload_account_name:uk">
        <position start="132802" stop="133827"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="133102" g_stop="133527" g_length="426"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="426" r_length="426" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0103J09.2" gen_strand="+" ref_id="SGN-E251036" ref_strand="+">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>426</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0103J09.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E251036" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="133102" e_stop="133527"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTTTTGCCTCACATCGGGTCAATGTTTCCGTCTCATTCTGCTTCTTCTCTTCGTCTTCCCTATATCCAAGTTTCTAGAGCAATGAATTTCTTTCAAACTTCACACATTTTGTGGCTAATTTGCCTCAGATCTATTGTGGTAAGTGTTTCTCCAACTAATTTCTCTGATTGTCCTTGTTTCTGAGCAATTTTTCCTGTATTTTTATACAATCTTCACATGCATATGTACAAATAGATACTTCAATGCGTGCTTGTTCTCTAATGGTGTTTCGCTTCAGACAATTAGCAGTGAACCTATTTCGAATAGGTGAATCCAAGGTGTTCGATGAAATGCCTAAATAAGCCAACTATTTGGCAAGAATTTTCATTGTTTCTTTTTTTGCTATTAGCCGGGAAATTAGGGTTGCATTGATGTAATTAGATATT</genome_strand>
        <mrna_strand>TGGTTTGCCTCACATCCGGTCAATGTCTCCGTCTCATTCTGCTTCTTCTCTCCGTGCTCCCTATATCCAACTCCCTAGAGCAATGAATTTCTTTCAAACTTCACACATTTCGAGGCTAATTTGCCTCAGATCTATTGTGGTAAGTGTTTCTCCAACTAATCTCTCTGATTGTCCTTGTTTCTGAGCAATTCTTCCTGTATTTTTATACAATCTTCACATGCATATGTACAAATAGATACTTCAATGCGTGCTTGCTCTCTAATGGTGTTTCGCTTCAGACAATTAGCAGCGAACCTATTTCGACTAGGCGAATCCAAGGTGTTCGATGAAATGCCTAAATAAGCCAACTATTTGGCAAGAATTTTCATTGTTTCTTTTTTTGCTATTAGCCGGGAAATTAGGGTTGCATTGATGTAATTAGATATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>23</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="2990" PGL_stop="1"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="2990" e_stop="2665"/>
            <exon e_start="1845" e_stop="1718"/>
            <exon e_start="1123" e_stop="881"/>
            <exon e_start="250" e_stop="1"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.986" acc_prob="0.998" e_score="0.997"/>
          <exon-intron don_prob="0.999" acc_prob="0.710" e_score="1.000"/>
          <exon-intron don_prob="0.973" acc_prob="0.961" e_score="1.000"/>
          <exon-only e_score="0.984"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.997">
            <gDNA_exon_boundary e_start="2990" e_stop="2665" e_length="326"/>
          </exon>
          <intron i_serial="1" don_prob="0.986" acc_prob="0.998">
            <gDNA_intron_boundary i_start="2664" i_stop="1846" i_length="819"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="1845" e_stop="1718" e_length="128"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.710">
            <gDNA_intron_boundary i_start="1717" i_stop="1124" i_length="594"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="1123" e_stop="881" e_length="243"/>
          </exon>
          <intron i_serial="3" don_prob="0.973" acc_prob="0.961">
            <gDNA_intron_boundary i_start="880" i_stop="251" i_length="630"/>
          </intron>
          <exon e_serial="4" e_score="0.984">
            <gDNA_exon_boundary e_start="250" e_stop="1" e_length="250"/>
          </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="2990" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="1087"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E304475" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2946" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="233"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E345453" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2925" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="177"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E329111" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2925" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E345735" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2925" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="1096"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2919" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="1077"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320840" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2908" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="230"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328083" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2908" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="969"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328349" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2907" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327717" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2905" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="181"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347363" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2904" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="1050"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327459" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2903" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="179"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327471" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2892" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="1075"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E325363" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2767" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="38"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342478" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2751" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="1"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E332051" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2751" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="1"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E332119" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2707" stop="2665"/>
              <exon start="1845" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="83"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323586" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1824" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="235"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324095" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1754" stop="1718"/>
              <exon start="1123" stop="881"/>
              <exon start="250" stop="232"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279507" 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>ACTACTCAAGCCCTTACTACTATATAATATCCACCAAACGCATATTCATTTATTCACATAGCAAGTTAATTTCTGTTACATGATGAATTGCTCATTGTCTTTCTTATCGTATTATATAGTACTTTTAGTGCTTGCATTTTGTGATCTTCCGTTTAGAGCTGAAGGTCGAGCCTTCTTCGTGTTTGGTGATTCACTAGTAGATAACGGGAACAATAATTACTTAGTTACTAGTGCCAGGGCAGATTCTCCCCCCTATGGCATTGACTATCCTACTCATCGTGCCACAGGTCGATTTTCCAATGGACTCAACATACCTGATATTATAA : GTGAGCAATTGGGCATGGAGCCAACGTTACCATATTTGGCTCCACAACTCACAGGAGATAGGCTTCTTGTTGGAGCAAACTTTGCTTCTGCTGGAGTTGGAATCCTAAATGACACTGGCATCCAATTT : TTTAATATAATAAGAATTGGGAAACAATTGGAGTACTTTGAACAATATCAAAGGAGGGTAAGTGGTTTAATTGGAGCAGCACAAACAGAGCAGCTAGTAAACAGTGCACTTATCCTCATCACTCTTGGTGGAAATGACTTTGTTAATAACTATTATTTGGTCCCTTTCTCTGCAAGATCTCGACAATTTTCTCTACCTGATTATGTTGTTTATCTTATCTCTGAGTACAGAAAAATATTACAG : AAGTTGTATGATTTGGGAGGAAGAAGAGTATTAGTGACAGGTACTGGACCAATAGGTTGTGTGCCAGCAGAATTAGCACAGAGGAGTAGAAGTGGGGAATGTTCAGTAGAATTGCAGCGTGCAGCTGCTTTATTCAACCCTCAATTGACTCAAATGTTGGCTGATCTCAATTCACAAATTGGTGCTAATGTATTTATTGCTGCTAACACATATACTATGAACATGGATTTTGTATCTAATCCTCAAGCTT</gDNA_template>
            <first_frame> T  T  Q  A  L  T  T  I  *  Y  P  P  N  A  Y  S  F  I  H  I  A  S  *  F  L  L  H  D  E  L  L  I  V  F  L  I  V  L  Y  S  T  F  S  A  C  I  L  *  S  S  V  *  S  *  R  S  S  L  L  R  V  W  *  F  T  S  R  *  R  E  Q  *  L  L  S  Y  *  C  Q  G  R  F  S  P  L  W  H  *  L  S  Y  S  S  C  H  R  S  I  F  Q  W  T  Q  H  T  *  Y  Y  K :   *  A  I  G  H  G  A  N  V  T  I  F  G  S  T  T  H  R  R  *  A  S  C  W  S  K  L  C  F  C  W  S  W  N  P  K  *  H  W  H  P  I   : F  *  Y  N  K  N  W  E  T  I  G  V  L  *  T  I  S  K  E  G  K  W  F  N  W  S  S  T  N  R  A  A  S  K  Q  C  T  Y  P  H  H  S  W  W  K  *  L  C  *  *  L  L  F  G  P  F  L  C  K  I  S  T  I  F  S  T  *  L  C  C  L  S  Y  L  *  V  Q  K  N  I  T   : E  V  V  *  F  G  R  K  K  S  I  S  D  R  Y  W  T  N  R  L  C  A  S  R  I  S  T  E  E  *  K  W  G  M  F  S  R  I  A  A  C  S  C  F  I  Q  P  S  I  D  S  N  V  G  *  S  Q  F  T  N  W  C  *  C  I  Y  C  C  *  H  I  Y  Y  E  H  G  F  C  I  *  S  S  S   </first_frame>
            <second_frame>  L  L  K  P  L  L  L  Y  N  I  H  Q  T  H  I  H  L  F  T  *  Q  V  N  F  C  Y  M  M  N  C  S  L  S  F  L  S  Y  Y  I  V  L  L  V  L  A  F  C  D  L  P  F  R  A  E  G  R  A  F  F  V  F  G  D  S  L  V  D  N  G  N  N  N  Y  L  V  T  S  A  R  A  D  S  P  P  Y  G  I  D  Y  P  T  H  R  A  T  G  R  F  S  N  G  L  N  I  P  D  I  I   : S  E  Q  L  G  M  E  P  T  L  P  Y  L  A  P  Q  L  T  G  D  R  L  L  V  G  A  N  F  A  S  A  G  V  G  I  L  N  D  T  G  I  Q  F  :  F  N  I  I  R  I  G  K  Q  L  E  Y  F  E  Q  Y  Q  R  R  V  S  G  L  I  G  A  A  Q  T  E  Q  L  V  N  S  A  L  I  L  I  T  L  G  G  N  D  F  V  N  N  Y  Y  L  V  P  F  S  A  R  S  R  Q  F  S  L  P  D  Y  V  V  Y  L  I  S  E  Y  R  K  I  L  Q  :  K  L  Y  D  L  G  G  R  R  V  L  V  T  G  T  G  P  I  G  C  V  P  A  E  L  A  Q  R  S  R  S  G  E  C  S  V  E  L  Q  R  A  A  A  L  F  N  P  Q  L  T  Q  M  L  A  D  L  N  S  Q  I  G  A  N  V  F  I  A  A  N  T  Y  T  M  N  M  D  F  V  S  N  P  Q  A  </second_frame>
            <third_frame>   Y  S  S  P  Y  Y  Y  I  I  S  T  K  R  I  F  I  Y  S  H  S  K  L  I  S  V  T  *  *  I  A  H  C  L  S  Y  R  I  I  *  Y  F  *  C  L  H  F  V  I  F  R  L  E  L  K  V  E  P  S  S  C  L  V  I  H  *  *  I  T  G  T  I  I  T  *  L  L  V  P  G  Q  I  L  P  P  M  A  L  T  I  L  L  I  V  P  Q  V  D  F  P  M  D  S  T  Y  L  I  L  *  :  V  S  N  W  A  W  S  Q  R  Y  H  I  W  L  H  N  S  Q  E  I  G  F  L  L  E  Q  T  L  L  L  L  E  L  E  S  *  M  T  L  A  S  N  F :   L  I  *  *  E  L  G  N  N  W  S  T  L  N  N  I  K  G  G  *  V  V  *  L  E  Q  H  K  Q  S  S  *  *  T  V  H  L  S  S  S  L  L  V  E  M  T  L  L  I  T  I  I  W  S  L  S  L  Q  D  L  D  N  F  L  Y  L  I  M  L  F  I  L  S  L  S  T  E  K  Y  Y  R :   S  C  M  I  W  E  E  E  E  Y  *  *  Q  V  L  D  Q  *  V  V  C  Q  Q  N  *  H  R  G  V  E  V  G  N  V  Q  *  N  C  S  V  Q  L  L  Y  S  T  L  N  *  L  K  C  W  L  I  S  I  H  K  L  V  L  M  Y  L  L  L  L  T  H  I  L  *  T  W  I  L  Y  L  I  L  K  L </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0103J09.2" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="2929" stop="2665"/>
                    <exon start="1845" stop="1718"/>
                    <exon start="1123" stop="881"/>
                    <exon start="250" stop="2"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>885</number_coding_nucleotides>
                  <number_encoded_amino_acids>295</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QVNFCYMMNCSLSFLSYYIVLLVLAFCDLPFRAEGRAFFVFGDSLVDNGNNNYLVTSARADSPPYGIDYPTHRATGRFSNGLNIPDIISEQLGMEPTLPYLAPQLTGDRLLVGANFASAGVGILNDTGIQFFNIIRIGKQLEYFEQYQRRVSGLIGAAQTEQLVNSALILITLGGNDFVNNYYLVPFSARSRQFSLPDYVVYLISEYRKILQKLYDLGGRRVLVTGTGPIGCVPAELAQRSRSGECSVELQRAAALFNPQLTQMLADLNSQIGANVFIAANTYTMNMDFVSNPQA</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="22420" PGL_stop="22741"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="22420" e_stop="22741"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.901"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.901">
            <gDNA_exon_boundary e_start="22420" e_stop="22741" e_length="322"/>
          </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="22420" stop="22741"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393076" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22420" stop="22710"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393075" 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>TAAAATGTATGTTTATTGCATAATTATAAGTTTATAGCCAAAAGATATATGTTTTTCTCGCTTTATACAAAAACAGAAACACAATATTTACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTACAATTATATAATTCGCAATTATATAATTCGTTGGCCTTTTTCTCTGCAATTTTTGAAGTAAAATATTTGTAAATTGTATAATTAAGTGTATAACACGAAGATATACATTTTTGCATGTGTATATACAATTTTCTCTCGCTTTATACAAAACAGAAACAGAATTATACACTTCTGTGTATAAAGCGAGAGAG</gDNA_template>
            <first_frame> *  N  V  C  L  L  H  N  Y  K  F  I  A  K  R  Y  M  F  F  S  L  Y  T  K  T  E  T  Q  Y  L  H  F  C  C  I  K  L  E  K  I  V  F  H  Y  N  Y  I  I  R  N  Y  I  I  R  W  P  F  S  L  Q  F  L  K  *  N  I  C  K  L  Y  N  *  V  Y  N  T  K  I  Y  I  F  A  C  V  Y  T  I  F  S  R  F  I  Q  N  R  N  R  I  I  H  F  C  V  *  S  E  R  </first_frame>
            <second_frame>  K  M  Y  V  Y  C  I  I  I  S  L  *  P  K  D  I  C  F  S  R  F  I  Q  K  Q  K  H  N  I  Y  T  S  V  V  *  S  *  R  K  L  Y  F  T  T  I  I  *  F  A  I  I  *  F  V  G  L  F  L  C  N  F  *  S  K  I  F  V  N  C  I  I  K  C  I  T  R  R  Y  T  F  L  H  V  Y  I  Q  F  S  L  A  L  Y  K  T  E  T  E  L  Y  T  S  V  Y  K  A  R  E </second_frame>
            <third_frame>   K  C  M  F  I  A  *  L  *  V  Y  S  Q  K  I  Y  V  F  L  A  L  Y  K  N  R  N  T  I  F  T  L  L  L  Y  K  A  R  E  N  C  I  S  L  Q  L  Y  N  S  Q  L  Y  N  S  L  A  F  F  S  A  I  F  E  V  K  Y  L  *  I  V  *  L  S  V  *  H  E  D  I  H  F  C  M  C  I  Y  N  F  L  S  L  Y  T  K  Q  K  Q  N  Y  T  L  L  C  I  K  R  E   </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="C00HBa0103J09.2"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="+" PGL_start="104830" PGL_stop="105009"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="104830" e_stop="105009"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.900"/>
        </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="0.900">
            <gDNA_exon_boundary e_start="104830" e_stop="105009" e_length="180"/>
          </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="104830" stop="105009"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E303634" 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>AAGTATTGGTGAGTCCTCATCGATTCAAGGACAATATCCACATGTCCCTTATGTTATAGTCTTTATTTTATTGTCTTGTATGAGATTAGTCCCAAGTGTTGTATACTCTAAAGTTTAGATGGTTCAAATAGATGTTGTAAAGATTTAATGATTTAAATAAAAGTCTTCCGCCTGTGTAAT</gDNA_template>
            <first_frame> K  Y  W  *  V  L  I  D  S  R  T  I  S  T  C  P  L  C  Y  S  L  Y  F  I  V  L  Y  E  I  S  P  K  C  C  I  L  *  S  L  D  G  S  N  R  C  C  K  D  L  M  I  *  I  K  V  F  R  L  C  N </first_frame>
            <second_frame>  S  I  G  E  S  S  S  I  Q  G  Q  Y  P  H  V  P  Y  V  I  V  F  I  L  L  S  C  M  R  L  V  P  S  V  V  Y  S  K  V  *  M  V  Q  I  D  V  V  K  I  *  *  F  K  *  K  S  S  A  C  V   </second_frame>
            <third_frame>   V  L  V  S  P  H  R  F  K  D  N  I  H  M  S  L  M  L  *  S  L  F  Y  C  L  V  *  D  *  S  Q  V  L  Y  T  L  K  F  R  W  F  K  *  M  L  *  R  F  N  D  L  N  K  S  L  P  P  V  *  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C00HBa0103J09.2"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="+" PGL_start="133102" PGL_stop="133527"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="133102" e_stop="133527"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.960"/>
        </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="0.960">
            <gDNA_exon_boundary e_start="133102" e_stop="133527" e_length="426"/>
          </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="133102" stop="133527"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E251036" 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>TGTTTTGCCTCACATCGGGTCAATGTTTCCGTCTCATTCTGCTTCTTCTCTTCGTCTTCCCTATATCCAAGTTTCTAGAGCAATGAATTTCTTTCAAACTTCACACATTTTGTGGCTAATTTGCCTCAGATCTATTGTGGTAAGTGTTTCTCCAACTAATTTCTCTGATTGTCCTTGTTTCTGAGCAATTTTTCCTGTATTTTTATACAATCTTCACATGCATATGTACAAATAGATACTTCAATGCGTGCTTGTTCTCTAATGGTGTTTCGCTTCAGACAATTAGCAGTGAACCTATTTCGAATAGGTGAATCCAAGGTGTTCGATGAAATGCCTAAATAAGCCAACTATTTGGCAAGAATTTTCATTGTTTCTTTTTTTGCTATTAGCCGGGAAATTAGGGTTGCATTGATGTAATTAGATATT</gDNA_template>
            <first_frame> C  F  A  S  H  R  V  N  V  S  V  S  F  C  F  F  S  S  S  S  L  Y  P  S  F  *  S  N  E  F  L  S  N  F  T  H  F  V  A  N  L  P  Q  I  Y  C  G  K  C  F  S  N  *  F  L  *  L  S  L  F  L  S  N  F  S  C  I  F  I  Q  S  S  H  A  Y  V  Q  I  D  T  S  M  R  A  C  S  L  M  V  F  R  F  R  Q  L  A  V  N  L  F  R  I  G  E  S  K  V  F  D  E  M  P  K  *  A  N  Y  L  A  R  I  F  I  V  S  F  F  A  I  S  R  E  I  R  V  A  L  M  *  L  D  I </first_frame>
            <second_frame>  V  L  P  H  I  G  S  M  F  P  S  H  S  A  S  S  L  R  L  P  Y  I  Q  V  S  R  A  M  N  F  F  Q  T  S  H  I  L  W  L  I  C  L  R  S  I  V  V  S  V  S  P  T  N  F  S  D  C  P  C  F  *  A  I  F  P  V  F  L  Y  N  L  H  M  H  M  Y  K  *  I  L  Q  C  V  L  V  L  *  W  C  F  A  S  D  N  *  Q  *  T  Y  F  E  *  V  N  P  R  C  S  M  K  C  L  N  K  P  T  I  W  Q  E  F  S  L  F  L  F  L  L  L  A  G  K  L  G  L  H  *  C  N  *  I   </second_frame>
            <third_frame>   F  C  L  T  S  G  Q  C  F  R  L  I  L  L  L  L  F  V  F  P  I  S  K  F  L  E  Q  *  I  S  F  K  L  H  T  F  C  G  *  F  A  S  D  L  L  W  *  V  F  L  Q  L  I  S  L  I  V  L  V  S  E  Q  F  F  L  Y  F  Y  T  I  F  T  C  I  C  T  N  R  Y  F  N  A  C  L  F  S  N  G  V  S  L  Q  T  I  S  S  E  P  I  S  N  R  *  I  Q  G  V  R  *  N  A  *  I  S  Q  L  F  G  K  N  F  H  C  F  F  F  C  Y  *  P  G  N  *  G  C  I  D  V  I  R  Y  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C00HBa0103J09.2"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 104 chains have been computed
$ 
$ memory statistics:
$ 46872 bytes spliced alignments in total
$ 23 spliced alignments have been stored
$ 2037 bytes was the average size of a spliced alignment
$ 9280 bytes predicted gene locations in total
$ 4 predicted gene locations have been stored
$ 2320 bytes was the average size of a predicted gene location
$ 2 megabytes was the average size of the backtrace matrix
$ 123 backtrace matrices have been allocated
$ 
$ date finished: 2009-04-02 23:09:59
-->
