<?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="2009-07-24 23:14:35"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/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-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E353288" ref_strand="+" ref_description="SGN-E353288 [cTOS-14-P22]">
      <seq>aagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagctatatagtaagtatttgattggttttaacaattttgagtaaacagggaactcctgtacaaatgcaacaacttcaaagggtgaaattatatatatagtaaaaagattaagagccgatgttgggtttgcttagctacgctcttttttataacctgttgataacnatattcttgatgacttgaactactatatcttttctttgtttgattaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46159" stop="41330"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45859" g_stop="45616" 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="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="393" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41630" g_length="397"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="790" r_length="397" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="791" polyA_stop="804"/>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E353288" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>790</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E353288" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45859" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41630"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGCTTAGCTACGCTCTTTTTTATAACCTGTTGATAACAATATTCTTGATGACTTGAACTACTATATCTTTTCTTTGTTTGATTACCAA</genome_strand>
        <mrna_strand>AAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGCTTAGCTACGCTCTTTTTTATAACCTGTTGATAACNATATTCTTGATGACTTGAACTACTATATCTTTTCTTTGTTTGATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E349532" ref_strand="+" ref_description="SGN-E349532 [cTOS-1-G16]">
      <seq>aagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagctatatagtaagtatttgattggttttaacaattttgagtaaacagggaactcctgtacaaatgcaacaacttcaaagggtgaaattatatatatagtaaaaagattaagagccgatgttgggtttgcttagctacgctcttttttataacctggtgataacaatattcttgatgacttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46159" stop="41363"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45859" g_stop="45616" 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="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="393" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41663" g_length="364"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="757" r_length="364" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E349532" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>757</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E349532" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45859" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41663"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGCTTAGCTACGCTCTTTTTTATAACCTGTTGATAACAATATTCTTGATGACTTG</genome_strand>
        <mrna_strand>AAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGCTTAGCTACGCTCTTTTTTATAACCTGGTGATAACAATATTCTTGATGACTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E298564" ref_strand="+" ref_description="SGN-E298564 [cLET-41-P1]">
      <seq>gtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagctatatagtaagtatttgattggttttaacaattttgagtaaacagggaactcctgtacaaatgcaacaacttcaaagggtgaaattatatatatagtaaaaagattaagagccgatgttgggtttgcttagctacgctcttttttataacctgttgataaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="45972" stop="41377"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45672" g_stop="45616" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="206" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41680" g_length="347"/>
          <reference_exon_boundary r_type="cDNA" r_start="207" r_stop="553" r_length="347" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E298564" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>553</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298564" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45672" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41680"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGCTTAGCTACGCTCTTTTTTATAACCTGTTGATAACA</genome_strand>
        <mrna_strand>GTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGCTTAGCTACGCTCTTTTTTATAACCTGTTGATAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E552493" ref_strand="+" ref_description="SGN-E552493 [cTSB-4-B22]">
      <seq>agcggtcccaccacccctacccatagcagccacctatcccctcttcgttttcgtgagtctctgttttttcgttgatcaaatactcatactaatgcgatattaatcgccatatccaattgtttcttcttcaagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagctatatagtaagtatttgattggttttaacaattttgagtaaacagggaactcctgtacaaatgcaacaacttcaaagggtgaaattatatatatagtaaaaagattaagagccgatgttgggtttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46288" stop="41415"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45988" g_stop="45616" g_length="373"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="373" r_length="373" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="374" r_stop="522" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41715" g_length="312"/>
          <reference_exon_boundary r_type="cDNA" r_start="523" r_stop="834" r_length="312" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E552493" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>834</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E552493" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45988" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41715"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCGGTCCCACCACCCCTACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTGTTTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGC</genome_strand>
        <mrna_strand>AGCGGTCCCACCACCCCTACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTGTTTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E718809" ref_strand="+" ref_description="SGN-E718809 [FC05DE07]">
      <seq>aatcggccgaattggatcaaatactcatactaatgcgatattaatcgccatatccaattgtttcttcttcaagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagctatatagtaagtatttgattggttttaacaattttgagtaaacagggaactcctgtacaaatgcaacaacttcaaagggtgaaattatatatatagtaaaaagattaagagccgatgttgggtttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46217" stop="41415"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45915" g_stop="45616" g_length="300"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="314" r_length="300" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="315" r_stop="463" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41715" g_length="312"/>
          <reference_exon_boundary r_type="cDNA" r_start="464" r_stop="775" r_length="312" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E718809" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>761</cumulative_length_of_scored_exons>
        <coverage percentage="0.982" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E718809" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45915" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41715"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGC</genome_strand>
        <mrna_strand>GATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E713546" ref_strand="+" ref_description="SGN-E713546 [FB08DG03]">
      <seq>ctcatactaatgcgatattaatcgccatatccaattgtttcttcttcaagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagccgtatagtaagtatttgattggttttaacaattttgagtaaacagggaactcctgtacaaatgcaacaacttcaaagggtgaaattatatatatagtaaaaagattaagagccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46206" stop="41428"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45906" g_stop="45616" g_length="291"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="291" r_length="291" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="292" r_stop="440" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41728" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="441" r_stop="739" r_length="299" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E713546" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>739</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E713546" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45906" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41728"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCG</genome_strand>
        <mrna_strand>CTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCCGTATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E309653" ref_strand="+" ref_description="SGN-E309653 [cLEY-26-J8]">
      <seq>acacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagctatatagtaagtatttgattggttttaacaattttgagtaaacagggaactcctgtacaaatgcaacaacttcaaagggtgaaattatatatatagtaaaaagattaagagccgaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="42273" stop="41427"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41973" g_stop="41728" g_length="246"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="246" r_length="246" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="247" polyA_stop="257"/>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E309653" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>246</cumulative_length_of_scored_exons>
        <coverage percentage="0.957" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E309653" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41973" e_stop="41728"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCG</genome_strand>
        <mrna_strand>ACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E555191" ref_strand="+" ref_description="SGN-E555191 [cTSC-6-L14]">
      <seq>agcggtcccaccacccctacccatagcagccacctatcccctcttcgttttcgtgagtctctgttttttcgttgatcaaatactcatactaatgcgatattaatcgccatatccaattgtttcttcttcaagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagctatatagtaagtatttgattggttttaacaattttgagtaaacagggaactcctgtacaaatgcaacaacttcaaagggtgaaattatatatatagtaaaaagat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46288" stop="41437"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45988" g_stop="45616" g_length="373"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="373" r_length="373" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="374" r_stop="522" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41737" g_length="290"/>
          <reference_exon_boundary r_type="cDNA" r_start="523" r_stop="812" r_length="290" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E555191" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>812</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E555191" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45988" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41737"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCGGTCCCACCACCCCTACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTGTTTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGAT</genome_strand>
        <mrna_strand>AGCGGTCCCACCACCCCTACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTGTTTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E343641" ref_strand="+" ref_description="SGN-E343641 [cTOF-20-F10]">
      <seq>atactaatgcgatattaatcgccatatccaattgtttcttcttcaagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatacctggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcnatgaagtacttcattcaatttgaatttttagttccaactttactctcagctatatagtaagtatttgattgggtttaacattntgagtaacagggaactcctgtacaaatgcacaactcaaagggtgaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46203" stop="41457"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45903" g_stop="45616" g_length="288"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="288" r_length="288" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="289" r_stop="437" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41757" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="438" r_stop="704" r_length="267" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E343641" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>707</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343641" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45903" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41757"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATA-CTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAAT</genome_strand>
        <mrna_strand>ATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACCTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCNATGAAGTACTTCATTCAATTTGAATTTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGGTTTAAC-ATTNTGAGT-AACAGGGAACTCCTGTACAAATGC-ACAAC-TCAAAGGGTGAAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E354746" ref_strand="+" ref_description="SGN-E354746 [cTOS-19-A3]">
      <seq>aagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaagttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagctatatagtaagtatttgattgggtttaacnattttgagtaaacagggaactcctgtacaaatgcaacaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46159" stop="41472"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45859" g_stop="45616" 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="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="393" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41772" g_length="255"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="648" r_length="255" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E354746" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>648</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E354746" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45859" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41772"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAAC</genome_strand>
        <mrna_strand>AAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAAGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGGTTTAACNATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E352628" ref_strand="+" ref_description="SGN-E352628 [cTOS-11-C5]">
      <seq>aagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctcagctatatagtaagtatttgattggnttttaacattttgagtaaacagggaactcctgtacaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46159" stop="41480"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45859" g_stop="45616" 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="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="393" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41780" g_length="247"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="640" r_length="247" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E352628" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>640</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E352628" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45859" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41780"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAAT</genome_strand>
        <mrna_strand>AAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGNTTTTAACATTTTGAGTAAACAGGGAACTCCTGTACAAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E556002" ref_strand="+" ref_description="SGN-E556002 [cTSD-2-B22]">
      <seq>agcggtcccaccacccctacccatagcagccacctatcccctcttcgttttcgtgagtctctgttttttcgttgatcaaatactcatactaatgcgatattaatcgccatatccaattgtttcttcttcaagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaattttagttccaactttactctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46288" stop="41545"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45988" g_stop="45616" g_length="373"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="373" r_length="373" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="374" r_stop="522" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41845" g_length="182"/>
          <reference_exon_boundary r_type="cDNA" r_start="523" r_stop="704" r_length="182" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E556002" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>704</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E556002" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45988" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41845"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCGGTCCCACCACCCCTACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTGTTTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTC</genome_strand>
        <mrna_strand>AGCGGTCCCACCACCCCTACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTGTTTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E721340" ref_strand="+" ref_description="SGN-E721340 [FC13CB08]">
      <seq>tccaattgtttcttcttcaagttttgtattgataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctaaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaagtacttcattcaatttgaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46177" stop="41566"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45877" g_stop="45616" g_length="262"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="262" r_length="262" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="263" r_stop="411" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41866" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="412" r_stop="572" r_length="161" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E721340" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>572</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E721340" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45877" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41866"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAAT</genome_strand>
        <mrna_strand>TCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTAAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E365099" ref_strand="+" ref_description="SGN-E365099 [cLPP-17-O13]">
      <seq>cacccctacccatagcagccacctatcccctcttcgttttcgtgagtctctgtttttcgttgatcaaatactcatactaatgcgatattaatcgccatatccaattgtttcttcttcaagttttgtattgatatttttttcgattgggttgaaagtattgttcgatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaaccagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttcaacacattcgcagttttcatacttgtggttgctaaatttcccaacatgcacaaggttcgaatatttgggatcaatgcagatcaatgaactacttca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46277" stop="41579"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45977" g_stop="45616" g_length="362"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="360" r_length="360" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="361" r_stop="509" r_length="149" r_score="0.993"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="0.98"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41879" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="510" r_stop="657" r_length="148" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E365099" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>659</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E365099" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45977" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41879"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACCCCTACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTGTTTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCA</genome_strand>
        <mrna_strand>CACCCCTACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTG-TTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGAT-ATTTTTTTCGATTGGGTTGAAAGTATTGTTCGATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAACCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTCAACACATTCGCAGTTTTCATACTTGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAACTACTTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E287441" ref_strand="+" ref_description="SGN-E287441 [cLES-15-J21]">
      <seq>ttttgtataacttttttcgattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttgaacacattcgcagttttcatactggtggttgctaaatttcccaacatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46151" stop="41627"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45851" g_stop="45616" g_length="236"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="237" r_length="237" r_score="0.987"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="238" r_stop="386" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41927" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="387" r_stop="486" r_length="100" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E287441" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>485</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E287441" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45851" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41927"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATTG-ATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATG</genome_strand>
        <mrna_strand>TTTTGTATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E362468" ref_strand="+" ref_description="SGN-E362468 [cLPP-1-H21]">
      <seq>acccatagcagccacctatcccctcttcgttttcgtgagtctctgtttttcgttgatcaaatactcatactaatgcgatattaatcgccatatccaattgtttcttcttcaagttttgtattgatatttttttcgattgggttgaaagtattgttcgatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtttggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcatccggcatggcatggactattgtcaatctcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaaccagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttcaacacattcgcagttttcatac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46270" stop="41653"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45970" g_stop="45616" g_length="355"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="353" r_length="353" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="354" r_stop="502" r_length="149" r_score="0.993"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="0.98"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41953" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="503" r_stop="576" r_length="74" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E362468" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>578</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E362468" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45970" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41953"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTGTTTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATAC</genome_strand>
        <mrna_strand>ACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTG-TTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGAT-ATTTTTTTCGATTGGGTTGAAAGTATTGTTCGATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAACCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTCAACACATTCGCAGTTTTCATAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E319277" ref_strand="+" ref_description="SGN-E319277 [cTOB-16-I16]">
      <seq>tctcattctaatgcgatattaatcgccatatccaattgtttcttcttgaagttttggcttgataacttttttggattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtggttcacctatcctggagtatggactatttacatattcattctgctcttctcatggctcgttgtgctctctgtttttgggtcctcattcggcatggcatggactattgtcaatatcgctcatttccttgtcacatatcactgttttcactggaagaagggaacaccatttgctgaagaccagggtatctacaacagattgacatggtgggagcaaatggataatggcaagcagcttactcccaataggaagtttctgacagttgttcctgtggtgctgtacttgatagcttcccatacaactgactatcaacacccaatgctgttcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46206" stop="41675"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45907" g_stop="45616" g_length="292"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="292" r_length="292" r_score="0.969"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="0.96"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44572" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="441" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545">
            <donor d_prob="0.912" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="42026" g_stop="41975" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="442" r_stop="493" r_length="52" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E319277" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>493</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319277" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45907" e_stop="45616"/>
          <exon e_start="44720" e_stop="44572"/>
          <exon e_start="42026" e_stop="41975"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCTGTAAGTATTCATTTCATTGTGTAAATCATTGGTTGCAGCTTTCAGCTGTGATGTCAGCAATAGTTTTGTGCTTGCGATGATAAGAATCCACGTGTTATCATTCATGGTATAACAATCTATGCATTATAGTTCCTCATGACAATCCCAAATTATAATCTCTGTATAAGTAATCAAAGAAGTAAGCAATTCCTTAATGTCGTGGAGTTAATAATGGGGTACTTATTTACAATCCTAGTGAACTAAGCGTATATTATTGAAAATATGTGTATGGAGGTTGTAGCAAAATGGACTTATGAGTGTCAACTAGAATAAAAGTTTTTCTAACACAAAATTGGTAATATGGCACCTCACAAGATTGAAGCCTGCTGTAAACCAATTTTGGTATCTAAGTGAGAAGAGTAGAAAGACAAGACAATTATCCACCAAGTACTTTCTAAATTCTGTTTTTTTTGTAGTTAATTAAGCCTGGATCCCTTGTAAACTTTTTGGTACCTTCTTGTACGATTTTGAAAATAAAGTACTCAGTCTTATCCATGGAAAACCCATTATTAACCGAGTATTGAAGTAGGAAACAATGGCTTTCTCAGTCATTGGAAAAGTTAGTTAGTCTTTGAGTTAAATAAGTGAACTTATTGACATTGGTTTAGCTGTATGAGAGACTGGGTTGCTTTTTTTTTTTAAATTGATTTCATACTCTTAGTTCCAGAAAAATTTGAGGTCTTTGGTGCCTTAATTTTGATGTTGACCTATATGTAAGTCAGATGTTCTAAAAAAAAGGATTTTCCAATAATATAAGCACAAAGGAGTTATATGTAAAGCTTCGACTATTGTGACACAGCGAGACTAATCAATAATGAGAGAGGATTGAATGCTGTGAAACAGCATAATGTCTGATGGCTAGTTTCTGTAGAGACAAGCAGTGAGTTCTACTGTAAAAGGAAGGAAGTGAAAAATGAAACAACATTGGATATTCATTGACATCTGCTTAAAAGGGGAAAAAAGAAGGAACCTAGAAAATCTGCAATAATGGACTGTAAGGGAAAATATTTTGGACCGTGATTGTGTTGGTTTCTATGATAACATTTTCCTGCTAAAGTTGAGATCACCTTAGACCTTTTAACACAAGCATTTTTGATCTAGGACTGGATAATATTGAACTAGAAAGGTACTAGCAAACCAAAAGTTTGGGACTGAGGCATAGTTGTTGTTGGTTAAACTATCAGTCCAACTGGTTCTATATGAATTGCCGGACTTGTTATCAAAGGTGAAAAGCGCAAAAAAGCTCTAAGGTCCTTTGGGGCTTTAAGCGTAAACTGCAAATAAATTGTGGACATTAATGAAAAAAGGTGCAAAGGGAGAAAAAAAGCAAATATATATGTTTAGTCCAAACCTTATTTTCTAAACATGAATGATAAATATATTAAGAAAGAAATTTGAAAAAAGATTAAGATAAAGTGAAATATTAATTGATTAGTGTCTTCTCTTCAGAAGAGGCTCATTGACATGGAAAATTATGCCGTAGAACCTTGATGACGGCACTGAAGCACACATAAAGCGAGGCGAAGTGCTCAATATGTTTTGAGCCTCGCTTCAAGGCTTAATCGCGCCTTTGACAACACCGTTACAGGAAAAAATGATGAGAAACTAGTAATTTTGTATATCTTCGTTGTAACACTCAAAAAGTGTATGCAATATAATTGTGCTGAAAGCATTTTTACAATAGATTCCTAGTAGTTTCTCCAACAATATTACCTTAATCTGGGGTAAATGGTAATCTTCGAGAGCTAATGCTATAAACATTTTTTGGTGGAAGCCGTATTAGAAACCATAATATTAAATTAAGTAATCCGATAAACTATCAGTTTAAAGAATGTATTTTGATTTGGTTGTTATGAGATCTTTTTAGCTTGATCTTTTATGACTTCAACACATTATCTATGTTAAAACAAGTGGTTTGTTCGATTTATGTACATGTTAGGAAACATAAATGTTGGTTCCAATCAACTTTATTATGTGGTGAATGTCAAAGTATAACATTTTAGCGAAGTGTTCTTGGCACATTATTGGACAAAACATGCTCTACTATCTTTATGTTCATCAATAATAACACACTCCTACGTTCAAATGTAGAAGTGCAATATGTTTCGGATTCAGATCTACTTATGCCTACACGAGTGTGGAATGGACTGGATTTCTAAATAGTGCTCATAATGTGTTTGCGTATTACTGATCTATGAGAAGAAAAAGAGCTTCATCATATTGCTTACTGGTTGTGCATGAAACTTTTTACCCGTCTTTACAATGAACTGGAGCTCTCGTGTGATAGCTTGTTCTCTGATAAAGTTAATATAGTTCTAATGGTGTTGATAGGAGATGATCGTTTGCCATTTGTCTTGTCTCTGCCAACAGATACATCACACTCCCTCTTTTTCTCATTTTCTGGAGAAAAGAGATGGAGTACTTCAATTTAAATGATTCGTGCTTGTTTAAGACGATTTCATCTTTTGCCTTTACAAATATGTTCTAAACTTGCTTCATTGAATAGGTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTG</genome_strand>
        <mrna_strand>TCTCATTCTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTGAAGTTTTGGCTTGATAACTTTTTTGGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTATGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATTCGGCATGGCATGGACTATTGTCAATATCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E319276" ref_strand="+" ref_description="SGN-E319276 [cTOB-16-I6]">
      <seq>actcatactaatgcgatattaatcgccatatccaattgtttcttcttgaagttgtgtcttgataacttttttggattgggttgaaagtattgttcaatccatttggatggcgaatttgtatgtgagggctgctccaaccacggatctgaatcggaatactgagtgggtcacctatcctggagtatggactatttacctatacattctgctcttctcatggatcgttgtgctctctgtttttgggttctcatacggcatggcatggactattgtcaatatcgctcatttccttggcacatatcactgttttcactggaagaagggaacaccatttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="46207" stop="44375"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45907" g_stop="45616" g_length="292"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="292" r_length="292" r_score="0.959"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895">
            <donor d_prob="0.995" d_score="0.94"/>
            <acceptor a_prob="0.992" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44720" g_stop="44675" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="338" r_length="46" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E319276" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>338</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319276" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45907" e_stop="45616"/>
          <exon e_start="44720" e_stop="44675"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTTGTACGTATTCATTTTTCTTTTTTTGAAAGGATTTTTAGGTATTGATCTGGTTATGGAATATGCGATTTATGATTAATTGACTGTGTTATGGTTTTTGAGATCTGGGATATTGGGAGGCAATGGATCTTAGACTGGTTTTCTGTTGGAAGAGGTGTATGATAATATTGATAAACCTATATATGGCTACTTAAAGCCTGGATGTTTGTTTTCTGCTTCCAATTTGATTGAGTTATACTTCATTTTGGTAAAGTTGAGTTTGAGTTTCGAAGACAACATTTTATTTGTAAATGCAGGGTAAGACAGCGTATCATAGATTCTTTGTGGTCGTCTTTTTCCATGGACTTTGTATATAGCGGGAGCTTAGTACACCAGGCTGCCCCTTTATAGGTCATTCTGGGACATGTATACAGGAAATTAGTGAACGAGGCTGTCCTCATTATGGTACATGCATATGGTCCTTGTGATTTCTCAAATTTTACCAGTCTTGTGGTATGAGGAGTATATAGTGAATCAGTACCTTTATTATAGGGAATATTTTTCAAAAGAGATAATTTTTTTGGATAAATTAAAACTTCATCAGTGTATGAAATGTATCATCATCCATTATGGCATTAGTACCTTTCCCTTATTGTGGTTAAGCTTTTCTTGCTTCGCTTTTGTTAGGAATAGATTTCACTTCTGTACTCTGCTATATTCTTCTGGAAAATATTGAGATACTTAATACATAAGAAATGTAGTAGGCACTCATTTAATTTTCCTTTAAGATGTTAAATTTTGATATTTCTGTAAAATCCTGAAAACTACCAGATGACATAGCAGAGTTGGGAAGCTTGTTGTGCACCTAACAGGCTTTTCTATCTCATTTGTGCATAACTTCTCGTCTGTTTATCTTCAGGTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTG</genome_strand>
        <mrna_strand>ACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTGAAGTTGTGTCTTGATAACTTTTTTGGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGGTCACCTATCCTGGAGTATGGACTATTTACCTATACATTCTGCTCTTCTCATGGATCGTTGTGCTCTCTGTTTTTGGGTTCTCATACGGCATGGCATGGACTATTGTCAATATCGCTCATTTCCTT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E315256" ref_strand="+" ref_description="SGN-E315256 [cTOA-24-C2]">
      <seq>tcttccttcgttccctttagctttgtcactgcctccaatatgttccttgctagttgatacggacaccatcttaatctgtcaggctagtaatttaaacaggattgctccccagttcaacacctatggaacttgtcaaaactcaaaaatggaatcatactgctttcatctagacaaacatttggatctcctacatgctgaaaataagattgataaacttgcgttagacagtatttggtgttctataatctcagtggtccttagctttgaacttaagccgtttgtgtgtcaagcgtattcaacttcgtttaaatcgtagtggattaaggcataagaaaaagaaacaagcaatcacacaatcctctagaaggtacatccttcttcaggagttgcttctgaaaattctattattttactttttcctaagatgatatttttgtagtagcactatacctctatatacttgagacaatttggatacaaagaaaagtagattacccttttttcttgaaactgagaaagaagagtagattattggaggggatagggcagtagtttagtcaattactatact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0040O03-kixkX/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C12HBa0040O03.2" temp_strand="-" temp_description="C12HBa0040O03.2  AC235491.2 htgs_phase:2 submitted_to_sgn_as:gi|238550291|gb|AC235491.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-40O3, WORKING DRAFT SEQUENCE, 3 ordered pieces">
        <position start="49261" stop="48091"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48961" g_stop="48391" g_length="571"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="571" r_length="571" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0040O03.2" gen_strand="-" ref_id="SGN-E315256" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>571</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0040O03.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E315256" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48961" e_stop="48391"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCCTTCGTTCCCTTTAGCTTTGTCACTGCCTCCAATATGTTCCTTGCTAGTTGATACGGACACCATCTTAATCTGTCAGGCTAGTAATTTAAACAGGATTGCTCCCCAGTTCAACACCTATGGAACTTGTCAAAACTCAAAAATGGAATCATACTGCTTTCATCTAGACAAACATTTGGATCTCCTACATGCTGAAAATAAGATTGATAAACTTGCGTTAGACAGTATTTGGTGTTCTATAATCTCAGTGGTCCTTAGCTTTGAACTTAAGCCGTTTGTGTGTCAAGCGTATTCAACTTCGTTTAAATCGTAGTGGATTAAGGCATAAGAAAAAGAAACAAGCAATCACACAATCCTCTAGAAGGTACATCCTTCTTCAGGAGTTGCTTCTGAAAATTCTATTATTTTACTTTTTCCTAAGATGATATTTTTGTAGTAGCACTATACCTCTATATACTTGAGACAATTTGGATACAAAGAAAAGTAGATTACCCTTTTTTCTTGAAACTGAGAAAGAAGAGTAGATTATT-GAGGGGATAAGGGCAGTAGTTTAGTCAATTACTATACT</genome_strand>
        <mrna_strand>TCTTCCTTCGTTCCCTTTAGCTTTGTCACTGCCTCCAATATGTTCCTTGCTAGTTGATACGGACACCATCTTAATCTGTCAGGCTAGTAATTTAAACAGGATTGCTCCCCAGTTCAACACCTATGGAACTTGTCAAAACTCAAAAATGGAATCATACTGCTTTCATCTAGACAAACATTTGGATCTCCTACATGCTGAAAATAAGATTGATAAACTTGCGTTAGACAGTATTTGGTGTTCTATAATCTCAGTGGTCCTTAGCTTTGAACTTAAGCCGTTTGTGTGTCAAGCGTATTCAACTTCGTTTAAATCGTAGTGGATTAAGGCATAAGAAAAAGAAACAAGCAATCACACAATCCTCTAGAAGGTACATCCTTCTTCAGGAGTTGCTTCTGAAAATTCTATTATTTTACTTTTTCCTAAGATGATATTTTTGTAGTAGCACTATACCTCTATATACTTGAGACAATTTGGATACAAAGAAAAGTAGATTACCCTTTTTTCTTGAAACTGAGAAAGAAGAGTAGATTATTGGAGGGGAT-AGGGCAGTAGTTTAGTCAATTACTATACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>19</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="45988" PGL_stop="41630"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="45988" e_stop="45616"/>
            <exon e_start="44720" e_stop="44572"/>
            <exon e_start="42026" e_stop="41630"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.995" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="0.912" acc_prob="0.993" e_score="1.000"/>
          <exon-only e_score="0.992"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="45988" e_stop="45616" e_length="373"/>
          </exon>
          <intron i_serial="1" don_prob="0.995" acc_prob="0.992">
            <gDNA_intron_boundary i_start="45615" i_stop="44721" i_length="895"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="44720" e_stop="44572" e_length="149"/>
          </exon>
          <intron i_serial="2" don_prob="0.912" acc_prob="0.993">
            <gDNA_intron_boundary i_start="44571" i_stop="42027" i_length="2545"/>
          </intron>
          <exon e_serial="3" e_score="0.992">
            <gDNA_exon_boundary e_start="42026" e_stop="41630" e_length="397"/>
          </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="45988" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41715"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E552493" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45988" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41737"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E555191" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45988" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41845"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E556002" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45977" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41879"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E365099" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45970" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41953"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E362468" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45915" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41715"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E718809" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45907" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41975"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319277" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45907" stop="45616"/>
              <exon start="44720" stop="44675"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319276" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45906" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41728"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E713546" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45903" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41757"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343641" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45877" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41866"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E721340" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45859" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41630"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E353288" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45859" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41663"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E349532" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45859" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41772"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E354746" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45859" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41780"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E352628" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45851" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41927"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E287441" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45672" stop="45616"/>
              <exon start="44720" stop="44572"/>
              <exon start="42026" stop="41680"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298564" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41973" stop="41728"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E309653" 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>AGCGGTCCCACCACCCCTACCCATAGCAGCCACCTATCCCCTCTTCGTTTTCGTGAGTCTCTGTTTTTTCGTTGATCAAATACTCATACTAATGCGATATTAATCGCCATATCCAATTGTTTCTTCTTCAAGTTTTGTATTGATAACTTTTTTCGATTGGGTTGAAAGTATTGTTCAATCCATTTGGATGGCGAATTTGTATGTGAGGGCTGCTCCAACCACGGATCTGAATCGGAATACTGAGTGGTTCACCTATCCTGGAGTTTGGACTATTTACATATTCATTCTGCTCTTCTCATGGCTCGTTGTGCTCTCTGTTTTTGGGTCCTCATCCGGCATGGCATGGACTATTGTCAATCTCGCTCATTTCCTT : GTCACATATCACTGTTTTCACTGGAAGAAGGGAACACCATTTGCTGAAGACCAGGGTATCTACAACAGATTGACATGGTGGGAGCAAATGGATAATGGCAAGCAGCTTACTCCCAATAGGAAGTTTCTGACAGTTGTTCCTGTGGTGCT : GTACTTGATAGCTTCCCATACAACTGACTATCAACACCCAATGCTGTTCTTGAACACATTCGCAGTTTTCATACTGGTGGTTGCTAAATTTCCCAACATGCACAAGGTTCGAATATTTGGGATCAATGCAGATCAATGAAGTACTTCATTCAATTTGAAATTTTAGTTCCAACTTTACTCTCAGCTATATAGTAAGTATTTGATTGGTTTTAACAATTTTGAGTAAACAGGGAACTCCTGTACAAATGCAACAACTTCAAAGGGTGAAATTATATATATAGTAAAAAGATTAAGAGCCGATGTTGGGTTTGCTTAGCTACGCTCTTTTTTATAACCTGTTGATAACAATATTCTTGATGACTTGAACTACTATATCTTTTCTTTGTTTGATTACCAA</gDNA_template>
            <first_frame> S  G  P  T  T  P  T  H  S  S  H  L  S  P  L  R  F  R  E  S  L  F  F  R  *  S  N  T  H  T  N  A  I  L  I  A  I  S  N  C  F  F  F  K  F  C  I  D  N  F  F  R  L  G  *  K  Y  C  S  I  H  L  D  G  E  F  V  C  E  G  C  S  N  H  G  S  E  S  E  Y  *  V  V  H  L  S  W  S  L  D  Y  L  H  I  H  S  A  L  L  M  A  R  C  A  L  C  F  W  V  L  I  R  H  G  M  D  Y  C  Q  S  R  S  F  P   : C  H  I  S  L  F  S  L  E  E  G  N  T  I  C  *  R  P  G  Y  L  Q  Q  I  D  M  V  G  A  N  G  *  W  Q  A  A  Y  S  Q  *  E  V  S  D  S  C  S  C  G  A  :  V  L  D  S  F  P  Y  N  *  L  S  T  P  N  A  V  L  E  H  I  R  S  F  H  T  G  G  C  *  I  S  Q  H  A  Q  G  S  N  I  W  D  Q  C  R  S  M  K  Y  F  I  Q  F  E  I  L  V  P  T  L  L  S  A  I  *  *  V  F  D  W  F  *  Q  F  *  V  N  R  E  L  L  Y  K  C  N  N  F  K  G  *  N  Y  I  Y  S  K  K  I  K  S  R  C  W  V  C  L  A  T  L  F  F  I  T  C  *  *  Q  Y  S  *  *  L  E  L  L  Y  L  F  F  V  *  L  P  </first_frame>
            <second_frame>  A  V  P  P  P  L  P  I  A  A  T  Y  P  L  F  V  F  V  S  L  C  F  F  V  D  Q  I  L  I  L  M  R  Y  *  S  P  Y  P  I  V  S  S  S  S  F  V  L  I  T  F  F  D  W  V  E  S  I  V  Q  S  I  W  M  A  N  L  Y  V  R  A  A  P  T  T  D  L  N  R  N  T  E  W  F  T  Y  P  G  V  W  T  I  Y  I  F  I  L  L  F  S  W  L  V  V  L  S  V  F  G  S  S  S  G  M  A  W  T  I  V  N  L  A  H  F  L  :  V  T  Y  H  C  F  H  W  K  K  G  T  P  F  A  E  D  Q  G  I  Y  N  R  L  T  W  W  E  Q  M  D  N  G  K  Q  L  T  P  N  R  K  F  L  T  V  V  P  V  V  L :   Y  L  I  A  S  H  T  T  D  Y  Q  H  P  M  L  F  L  N  T  F  A  V  F  I  L  V  V  A  K  F  P  N  M  H  K  V  R  I  F  G  I  N  A  D  Q  *  S  T  S  F  N  L  K  F  *  F  Q  L  Y  S  Q  L  Y  S  K  Y  L  I  G  F  N  N  F  E  *  T  G  N  S  C  T  N  A  T  T  S  K  G  E  I  I  Y  I  V  K  R  L  R  A  D  V  G  F  A  *  L  R  S  F  L  *  P  V  D  N  N  I  L  D  D  L  N  Y  Y  I  F  S  L  F  D  Y  Q </second_frame>
            <third_frame>   R  S  H  H  P  Y  P  *  Q  P  P  I  P  S  S  F  S  *  V  S  V  F  S  L  I  K  Y  S  Y  *  C  D  I  N  R  H  I  Q  L  F  L  L  Q  V  L  Y  *  *  L  F  S  I  G  L  K  V  L  F  N  P  F  G  W  R  I  C  M  *  G  L  L  Q  P  R  I  *  I  G  I  L  S  G  S  P  I  L  E  F  G  L  F  T  Y  S  F  C  S  S  H  G  S  L  C  S  L  F  L  G  P  H  P  A  W  H  G  L  L  S  I  S  L  I  S  L :   S  H  I  T  V  F  T  G  R  R  E  H  H  L  L  K  T  R  V  S  T  T  D  *  H  G  G  S  K  W  I  M  A  S  S  L  L  P  I  G  S  F  *  Q  L  F  L  W  C   : C  T  *  *  L  P  I  Q  L  T  I  N  T  Q  C  C  S  *  T  H  S  Q  F  S  Y  W  W  L  L  N  F  P  T  C  T  R  F  E  Y  L  G  S  M  Q  I  N  E  V  L  H  S  I  *  N  F  S  S  N  F  T  L  S  Y  I  V  S  I  *  L  V  L  T  I  L  S  K  Q  G  T  P  V  Q  M  Q  Q  L  Q  R  V  K  L  Y  I  *  *  K  D  *  E  P  M  L  G  L  L  S  Y  A  L  F  Y  N  L  L  I  T  I  F  L  M  T  *  T  T  I  S  F  L  C  L  I  T   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0040O03.2" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45885" stop="45616"/>
                    <exon start="44720" stop="44572"/>
                    <exon start="42026" stop="41888"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>555</number_coding_nucleotides>
                  <number_encoded_amino_acids>185</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SPYPIVSSSSFVLITFFDWVESIVQSIWMANLYVRAAPTTDLNRNTEWFTYPGVWTIYIFILLFSWLVVLSVFGSSSGMAWTIVNLAHFLVTYHCFHWKKGTPFAEDQGIYNRLTWWEQMDNGKQLTPNRKFLTVVPVVLYLIASHTTDYQHPMLFLNTFAVFILVVAKFPNMHKVRIFGINADQ*</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="48961" PGL_stop="48391"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="48961" e_stop="48391"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.995"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.995">
            <gDNA_exon_boundary e_start="48961" e_stop="48391" e_length="571"/>
          </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="48961" stop="48391"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E315256" 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>TCTTCCTTCGTTCCCTTTAGCTTTGTCACTGCCTCCAATATGTTCCTTGCTAGTTGATACGGACACCATCTTAATCTGTCAGGCTAGTAATTTAAACAGGATTGCTCCCCAGTTCAACACCTATGGAACTTGTCAAAACTCAAAAATGGAATCATACTGCTTTCATCTAGACAAACATTTGGATCTCCTACATGCTGAAAATAAGATTGATAAACTTGCGTTAGACAGTATTTGGTGTTCTATAATCTCAGTGGTCCTTAGCTTTGAACTTAAGCCGTTTGTGTGTCAAGCGTATTCAACTTCGTTTAAATCGTAGTGGATTAAGGCATAAGAAAAAGAAACAAGCAATCACACAATCCTCTAGAAGGTACATCCTTCTTCAGGAGTTGCTTCTGAAAATTCTATTATTTTACTTTTTCCTAAGATGATATTTTTGTAGTAGCACTATACCTCTATATACTTGAGACAATTTGGATACAAAGAAAAGTAGATTACCCTTTTTTCTTGAAACTGAGAAAGAAGAGTAGATTATTGAGGGGATAAGGGCAGTAGTTTAGTCAATTACTATACT</gDNA_template>
            <first_frame> S  S  F  V  P  F  S  F  V  T  A  S  N  M  F  L  A  S  *  Y  G  H  H  L  N  L  S  G  *  *  F  K  Q  D  C  S  P  V  Q  H  L  W  N  L  S  K  L  K  N  G  I  I  L  L  S  S  R  Q  T  F  G  S  P  T  C  *  K  *  D  *  *  T  C  V  R  Q  Y  L  V  F  Y  N  L  S  G  P  *  L  *  T  *  A  V  C  V  S  S  V  F  N  F  V  *  I  V  V  D  *  G  I  R  K  R  N  K  Q  S  H  N  P  L  E  G  T  S  F  F  R  S  C  F  *  K  F  Y  Y  F  T  F  S  *  D  D  I  F  V  V  A  L  Y  L  Y  I  L  E  T  I  W  I  Q  R  K  V  D  Y  P  F  F  L  K  L  R  K  K  S  R  L  L  R  G  *  G  Q  *  F  S  Q  L  L  Y  </first_frame>
            <second_frame>  L  P  S  F  P  L  A  L  S  L  P  P  I  C  S  L  L  V  D  T  D  T  I  L  I  C  Q  A  S  N  L  N  R  I  A  P  Q  F  N  T  Y  G  T  C  Q  N  S  K  M  E  S  Y  C  F  H  L  D  K  H  L  D  L  L  H  A  E  N  K  I  D  K  L  A  L  D  S  I  W  C  S  I  I  S  V  V  L  S  F  E  L  K  P  F  V  C  Q  A  Y  S  T  S  F  K  S  *  W  I  K  A  *  E  K  E  T  S  N  H  T  I  L  *  K  V  H  P  S  S  G  V  A  S  E  N  S  I  I  L  L  F  P  K  M  I  F  L  *  *  H  Y  T  S  I  Y  L  R  Q  F  G  Y  K  E  K  *  I  T  L  F  S  *  N  *  E  R  R  V  D  Y  *  G  D  K  G  S  S  L  V  N  Y  Y  T </second_frame>
            <third_frame>   F  L  R  S  L  *  L  C  H  C  L  Q  Y  V  P  C  *  L  I  R  T  P  S  *  S  V  R  L  V  I  *  T  G  L  L  P  S  S  T  P  M  E  L  V  K  T  Q  K  W  N  H  T  A  F  I  *  T  N  I  W  I  S  Y  M  L  K  I  R  L  I  N  L  R  *  T  V  F  G  V  L  *  S  Q  W  S  L  A  L  N  L  S  R  L  C  V  K  R  I  Q  L  R  L  N  R  S  G  L  R  H  K  K  K  K  Q  A  I  T  Q  S  S  R  R  Y  I  L  L  Q  E  L  L  L  K  I  L  L  F  Y  F  F  L  R  *  Y  F  C  S  S  T  I  P  L  Y  T  *  D  N  L  D  T  K  K  S  R  L  P  F  F  L  E  T  E  K  E  E  *  I  I  E  G  I  R  A  V  V  *  S  I  T  I   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0040O03.2" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="48960" stop="48646"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>312</number_coding_nucleotides>
                  <number_encoded_amino_acids>104</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LPSFPLALSLPPICSLLVDTDTILICQASNLNRIAPQFNTYGTCQNSKMESYCFHLDKHLDLLHAENKIDKLALDSIWCSIISVVLSFELKPFVCQAYSTSFKS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 42 chains have been computed
$ 
$ memory statistics:
$ 40792 bytes spliced alignments in total
$ 19 spliced alignments have been stored
$ 2146 bytes was the average size of a spliced alignment
$ 6896 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3448 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 51 backtrace matrices have been allocated
$ 
$ date finished: 2009-07-24 23:15:38
-->
