<?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="2008-11-21 22:54:30"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/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-C07SLe0071O22-V7dN2/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E258745" ref_strand="+" ref_description="SGN-E258745 [cLEG-50-K7]">
      <seq>tttgctatatcccttgcaacttttgcaatattgttcttgcggtgagtgttccatgcagtagcctatttgatattgtgactgttcgttgtggacattgcacaaatttatggtccgttaatatggcagctgcatttcagtcctcttcttctgcttcgtggcaaaatcatcaggttccaaactacactgctcctgagtataggatggattttggttcatcaaccaaatgcaacatgaacaggatgtcaatgagaactccaatcacaaacaatgttcacgaggagaggattgtcaatcgacctcccgagaagaggcagagagtaccttctgcatataatcagttcataaaagaagaaattcagaggattaaagctaataatccagatatcagtcacagggaagcatttagtactgctgccaaaaattgggcacacttccctcatattcactttggactcatgttggagagcaacaatcaagccaaacttgcttgtgggagcagaaaactataaattactttgcaagacaaataaaagatcttcatttcatgaagctgtgtgtgaacttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C07SLe0071O22.1" temp_strand="+" temp_description="C07SLe0071O22.1  AC232631.1 htgs_phase:3 submitted_to_sgn_as:gi|205277508|gb|AC232631.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLe0071O22, complete sequence">
        <position start="1" stop="3217"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="263" g_stop="391" g_length="129"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="170" r_length="129" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="392" i_stop="1588" i_length="1197">
            <donor d_prob="0.957" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="1589" g_stop="1715" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="297" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1716" i_stop="1848" i_length="133">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1849" g_stop="1897" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="298" r_stop="346" r_length="49" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="1898" i_stop="1999" i_length="102">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="2000" g_stop="2075" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="347" r_stop="422" r_length="76" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="2076" i_stop="2349" i_length="274">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="2350" g_stop="2419" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="423" r_stop="492" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="2420" i_stop="2844" i_length="425">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="2845" g_stop="2917" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="565" r_length="73" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C07SLe0071O22.1" gen_strand="+" ref_id="SGN-E258745" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>524</cumulative_length_of_scored_exons>
        <coverage percentage="0.927" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLe0071O22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E258745" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="263" e_stop="391"/>
          <exon e_start="1589" e_stop="1715"/>
          <exon e_start="1849" e_stop="1897"/>
          <exon e_start="2000" e_stop="2075"/>
          <exon e_start="2350" e_stop="2419"/>
          <exon e_start="2845" e_stop="2917"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGAGTGTTCCATGCAGTAGCCTATTTGATATTGTGACTGTTCGTTGTGGACATTGCACAAATTTATGGTCCGTTAATATGGCAGCTGCATTTCAGTCCTCTTCTTCTGCTTCGTGGCAAAATCATCAGGTTCGGTCCAACTGAGAAAAAAAAATTTTAAAAAAAAATAAAAAAAATTGAACTTTTTTTTAAAATTTTTTGCAGCTCAAATTGTGGGGGTTTTGTTTTTCTCTTTGTATCATAATTAATCACAGGTTTCTGAATTCTAGGGTTTTTTTTGTTTTTTATTTTGTATTCTTTTGAGGGAATAAATATGCACAGACATATTAATACTCAGATTGATTTTTTTTTTAAAAAAATGAAAATATTTAAGTATATATAGCCGCCATAAGTAAAAAAAATAATAATTAAATTAAATATATACATATTTATTTTCTATTTGAGGCTTGCAGCTTTTATAAATCTAAGGTATTTTTCTAGGGTATACTTTTTTATACATATAGGAAGAACAATATTGCTATGATTTGATAGTTTGATTTTATTATTTTTTTAAAAAAAAAAAAAAATTCTATCAGGTTTTGTCTTCTACTGTGGAAACAAAGCCTAAAAACTAGGAATTTTTTTTATTCATTTTATTTAATTTTATTTTGTATTTATAATCCCTAACTGATTCAGTCACTTCAATGCTGTTATGATCTATCTTCTCTTCTTTTTACATAAAACATCACTTCAGACTTTTTGGTCAAACCATAAAGAAAACCCTCTTAGACCTACCCACCCCCCTCCCTCACCCACACACATATTAGTGTAGTGTCGGAGTTTCGACAGGATATATAATATACGTAGATCTTATCAGTATCATTAACAAATAGATATGAAGTTGTTTTTGATAATCGTCGATTAAAAACAAAAAAAAAAAGAAGTAAAAATACAATAGTTATGAAAACCTAAGCAAAAATAGGTAGTTGCATTACATTTTTCTTGTTTCTACTTTTATAAGAATTTGGATCTTGAAATAAATAAATCATGCTCTATATAATAGTTATTGATATTAATTTTGGTATTATATAAACCCATAAATATCGTGGATTTATAATATCAAGATATCCTTATTTGGAACCACACGATTCTAAATGATACTGTGTTCGTCCATTTTACTTGTTCAGTATTGATATTTTAATGTATCAGATAAGTAAAAGTGGACAGAAAGCTAATACCAGTCAATATAAATGTATAAACTTGTATCAAACTATATTATATATCTCTTTATAACTATATTATATATCTCTTTATTTCAATACTTATGAAATTTATTTATTTATTTAGGTTCCAAACTACACTGCTCCTGAGTATAGGATGGATTTTGGTTCATCAACCAAATGCAACATGAACAGGATGTCAATGAGAACTCCAATCACAAACAATGTTCACGAGGAGAGGATTGTCAATCGACGTAATTATATTTATATATATAGAATTATTTTTTTAAAAAAAAATATACAATGTTCAACATAAAATATTACGTCACGTACCTCAAATGTTTTTATTTGGTTATTAATGTTTAGTGTAATTTTCTTTTTTTTCAGCTCCCGAGAAGAGGCAGAGAGTACCTTCTGCATATAATCAGTTCATAAAGTATATATGTATCTTTATTAAAGTCTTTTTTTTTTCTATAAATATTTATTTATTTTGTAAAAAATATTATTTTTTTTTGACACAAAATGCCTAAATGTGCAGAGAAGAAATTCAGAGGATTAAAGCTAATAATCCAGATATCAGTCACAGGGAAGCATTTAGTACTGCTGCCAAAAATGTAACTACTTTTTTCTTACATTCTTCAAACCCTTTTTTTTTCATTTTTATTTTCTCCACATATATTTTAAAAAAAATCTTTTTGATAAATATTGATAATATAAGAAATGTTTACATTATCAATATGTTTTAACGTGTTATAGCAGATAGTCTGACTAATTTTTTAAGTTATTAATCTCGTTTTTTTTTGTAAGAATAATTATATTTTAGATAATAGTGTAAAAATACTTTAGTCTGTCGATCGATCTATAATGTTTTATCTTTGTGTGGTGTAGTGGGCACACTTCCCTCATATTCACTTTGGACTCATGTTGGAGAGCAACAATCAAGCCAAACTTGCTTGTGGTAATGTATTTATAACTCAAATAAATAAATAAATATATATACATATATATATATATATATTATTCTGATAATTCTATTTACTATCCCTTCATTCCCTCTTTTAATACTTTTATTATCTACATCCTAGAGGATTAAACAAAAAAAAAAAACTACTAAGTAAAGTCTTACAAGTCATGTGGTACGATAGGTATGTACACATATTTTATCCGTATTTTTGTAGAATAGAAAGCTGATTTTCGATAGACAAGATTATTGTGCCTTATATATCATTAGAGGCATTAAAAGAAAAAAATTTTCCAAAGCAACTTAGAGTAAGTTGTAGTTTTTAGTGATGTCTGAAATTTATTGACTACTACTTTTTTTTTTAATGTTATTAAACTAATGTATATAAATAATATTCTTTTATTATTTACATTAATTTTCAGGGAGCAGAAAACTATAAATTACTTTGCAAGACAAATAAAAGATCTTCATTTCATGAAGCTGTGTGTGAACTTG</genome_strand>
        <mrna_strand>GTGAGTGTTCCATGCAGTAGCCTATTTGATATTGTGACTGTTCGTTGTGGACATTGCACAAATTTATGGTCCGTTAATATGGCAGCTGCATTTCAGTCCTCTTCTTCTGCTTCGTGGCAAAATCATCAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTCCAAACTACACTGCTCCTGAGTATAGGATGGATTTTGGTTCATCAACCAAATGCAACATGAACAGGATGTCAATGAGAACTCCAATCACAAACAATGTTCACGAGGAGAGGATTGTCAATCGAC.....................................................................................................................................CTCCCGAGAAGAGGCAGAGAGTACCTTCTGCATATAATCAGTTCATAAA......................................................................................................AGAAGAAATTCAGAGGATTAAAGCTAATAATCCAGATATCAGTCACAGGGAAGCATTTAGTACTGCTGCCAAAAAT..................................................................................................................................................................................................................................................................................TGGGCACACTTCCCTCATATTCACTTTGGACTCATGTTGGAGAGCAACAATCAAGCCAAACTTGCTTGTG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GGAGCAGAAAACTATAAATTACTTTGCAAGACAAATAAAAGATCTTCATTTCATGAAGCTGTGTGTGAACTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E311561" ref_strand="+" ref_description="SGN-E311561 [cTOA-6-E11]">
      <seq>ccacacacatattagtgtagtgtcggagtttcgacaggatatataatatacgtagatcttatcagtatcattaacaaatagatatgaagttgtttttgataatcgtcgattaaaaacaaaaaaaaaagaagtgaaaatacaatagttatgaaaacctaagcaaaaataggtagttgcattacatttttcttgtttctacttttataagaatttggatcttgaaataaataaatcatgctctatataatagttattgatattaattttggtattatataaacccataaatatcgtggatttataatatcaagatatccttatttggaaccacacgattctaaatgatactgtgttcgtccattttacttgttcagtattgatattttaatgtatcagataagtaaaagtggacagaaagctaataccagtcaatataaatgtataaacttgtatcaaactatattatatatctctntataactatattatatatctctttatttcaatacttatgaaatttatttatttat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C07SLe0071O22.1" temp_strand="+" temp_description="C07SLe0071O22.1  AC232631.1 htgs_phase:3 submitted_to_sgn_as:gi|205277508|gb|AC232631.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLe0071O22, complete sequence">
        <position start="754" stop="1884"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1054" g_stop="1584" g_length="531"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="530" r_length="530" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C07SLe0071O22.1" gen_strand="+" ref_id="SGN-E311561" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>531</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLe0071O22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E311561" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1054" e_stop="1584"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCACACACATATTAGTGTAGTGTCGGAGTTTCGACAGGATATATAATATACGTAGATCTTATCAGTATCATTAACAAATAGATATGAAGTTGTTTTTGATAATCGTCGATTAAAAACAAAAAAAAAAAGAAGTAAAAATACAATAGTTATGAAAACCTAAGCAAAAATAGGTAGTTGCATTACATTTTTCTTGTTTCTACTTTTATAAGAATTTGGATCTTGAAATAAATAAATCATGCTCTATATAATAGTTATTGATATTAATTTTGGTATTATATAAACCCATAAATATCGTGGATTTATAATATCAAGATATCCTTATTTGGAACCACACGATTCTAAATGATACTGTGTTCGTCCATTTTACTTGTTCAGTATTGATATTTTAATGTATCAGATAAGTAAAAGTGGACAGAAAGCTAATACCAGTCAATATAAATGTATAAACTTGTATCAAACTATATTATATATCTCTTTATAACTATATTATATATCTCTTTATTTCAATACTTATGAAATTTATTTATTTAT</genome_strand>
        <mrna_strand>CCACACACATATTAGTGTAGTGTCGGAGTTTCGACAGGATATATAATATACGTAGATCTTATCAGTATCATTAACAAATAGATATGAAGTTGTTTTTGATAATCGTCGATTAAAAAC-AAAAAAAAAAGAAGTGAAAATACAATAGTTATGAAAACCTAAGCAAAAATAGGTAGTTGCATTACATTTTTCTTGTTTCTACTTTTATAAGAATTTGGATCTTGAAATAAATAAATCATGCTCTATATAATAGTTATTGATATTAATTTTGGTATTATATAAACCCATAAATATCGTGGATTTATAATATCAAGATATCCTTATTTGGAACCACACGATTCTAAATGATACTGTGTTCGTCCATTTTACTTGTTCAGTATTGATATTTTAATGTATCAGATAAGTAAAAGTGGACAGAAAGCTAATACCAGTCAATATAAATGTATAAACTTGTATCAAACTATATTATATATCTCTNTATAACTATATTATATATCTCTTTATTTCAATACTTATGAAATTTATTTATTTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E251465" ref_strand="+" ref_description="SGN-E251465 [cLEG-9-J21]">
      <seq>tggattttggttcatcaaccaaatgcaacatgaacaggatgtcaatgagaactccaatcacaaacaatgttcacgaggagaggattgtcaatcgacctcccgagaagaggcagagagtaccttctgcatataatcagttcataaaagaagaaattcagaggattaaagctaataatccagatatcagtcacagggaagcatttagtactgctgccaaaaattgggcacacttccctcatattcactttggactcatgttggagagcaacaatcaagccaaacttgcttgtgggagcagaaaactataaattactttgcaagacaaataaaagatcttcatttcatgaagctgtgtgtgaacttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C07SLe0071O22.1" temp_strand="+" temp_description="C07SLe0071O22.1  AC232631.1 htgs_phase:3 submitted_to_sgn_as:gi|205277508|gb|AC232631.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLe0071O22, complete sequence">
        <position start="1320" stop="3217"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1620" g_stop="1715" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="96" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1716" i_stop="1848" i_length="133">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="1849" g_stop="1897" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="97" r_stop="145" r_length="49" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1898" i_stop="1999" i_length="102">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="2000" g_stop="2075" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="146" r_stop="221" r_length="76" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="2076" i_stop="2349" i_length="274">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="2350" g_stop="2419" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="222" r_stop="291" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="2420" i_stop="2844" i_length="425">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="2845" g_stop="2917" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="292" r_stop="364" r_length="73" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C07SLe0071O22.1" gen_strand="+" ref_id="SGN-E251465" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>364</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLe0071O22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E251465" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1620" e_stop="1715"/>
          <exon e_start="1849" e_stop="1897"/>
          <exon e_start="2000" e_stop="2075"/>
          <exon e_start="2350" e_stop="2419"/>
          <exon e_start="2845" e_stop="2917"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGATTTTGGTTCATCAACCAAATGCAACATGAACAGGATGTCAATGAGAACTCCAATCACAAACAATGTTCACGAGGAGAGGATTGTCAATCGACGTAATTATATTTATATATATAGAATTATTTTTTTAAAAAAAAATATACAATGTTCAACATAAAATATTACGTCACGTACCTCAAATGTTTTTATTTGGTTATTAATGTTTAGTGTAATTTTCTTTTTTTTCAGCTCCCGAGAAGAGGCAGAGAGTACCTTCTGCATATAATCAGTTCATAAAGTATATATGTATCTTTATTAAAGTCTTTTTTTTTTCTATAAATATTTATTTATTTTGTAAAAAATATTATTTTTTTTTGACACAAAATGCCTAAATGTGCAGAGAAGAAATTCAGAGGATTAAAGCTAATAATCCAGATATCAGTCACAGGGAAGCATTTAGTACTGCTGCCAAAAATGTAACTACTTTTTTCTTACATTCTTCAAACCCTTTTTTTTTCATTTTTATTTTCTCCACATATATTTTAAAAAAAATCTTTTTGATAAATATTGATAATATAAGAAATGTTTACATTATCAATATGTTTTAACGTGTTATAGCAGATAGTCTGACTAATTTTTTAAGTTATTAATCTCGTTTTTTTTTGTAAGAATAATTATATTTTAGATAATAGTGTAAAAATACTTTAGTCTGTCGATCGATCTATAATGTTTTATCTTTGTGTGGTGTAGTGGGCACACTTCCCTCATATTCACTTTGGACTCATGTTGGAGAGCAACAATCAAGCCAAACTTGCTTGTGGTAATGTATTTATAACTCAAATAAATAAATAAATATATATACATATATATATATATATATTATTCTGATAATTCTATTTACTATCCCTTCATTCCCTCTTTTAATACTTTTATTATCTACATCCTAGAGGATTAAACAAAAAAAAAAAACTACTAAGTAAAGTCTTACAAGTCATGTGGTACGATAGGTATGTACACATATTTTATCCGTATTTTTGTAGAATAGAAAGCTGATTTTCGATAGACAAGATTATTGTGCCTTATATATCATTAGAGGCATTAAAAGAAAAAAATTTTCCAAAGCAACTTAGAGTAAGTTGTAGTTTTTAGTGATGTCTGAAATTTATTGACTACTACTTTTTTTTTTAATGTTATTAAACTAATGTATATAAATAATATTCTTTTATTATTTACATTAATTTTCAGGGAGCAGAAAACTATAAATTACTTTGCAAGACAAATAAAAGATCTTCATTTCATGAAGCTGTGTGTGAACTTG</genome_strand>
        <mrna_strand>TGGATTTTGGTTCATCAACCAAATGCAACATGAACAGGATGTCAATGAGAACTCCAATCACAAACAATGTTCACGAGGAGAGGATTGTCAATCGAC.....................................................................................................................................CTCCCGAGAAGAGGCAGAGAGTACCTTCTGCATATAATCAGTTCATAAA......................................................................................................AGAAGAAATTCAGAGGATTAAAGCTAATAATCCAGATATCAGTCACAGGGAAGCATTTAGTACTGCTGCCAAAAAT..................................................................................................................................................................................................................................................................................TGGGCACACTTCCCTCATATTCACTTTGGACTCATGTTGGAGAGCAACAATCAAGCCAAACTTGCTTGTG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GGAGCAGAAAACTATAAATTACTTTGCAAGACAAATAAAAGATCTTCATTTCATGAAGCTGTGTGTGAACTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E715037" ref_strand="+" ref_description="SGN-E715037 [FB13AF02]">
      <seq>aatgagaactccaatcacaaacaatgttcacgaggagaggattgtcaatcgacctcccgagaagaggcagtaccttctgcatataatcagttcataaaagaagaaattcagaggattaaagctaataatccagatatcagtcacagggaagcatttagtactgctgccaaaaattgggcacacttccctcatattcactttggactcatgttggagagcaacaatcaagccaaacttgcttgtgggagcagaaaactataaattactttgcaagacaaataaaagatcttcatttcatgaagctgtgtgtgaacttgaagacaagagtgtgacattcaagatgttctatggagtgtggacattataaactatatattataattatgtctcttttttttttttcaaattaatttgttgaatttcaacttatatattgttgaaaaaactaagtttctttaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C07SLe0071O22.1" temp_strand="+" temp_description="C07SLe0071O22.1  AC232631.1 htgs_phase:3 submitted_to_sgn_as:gi|205277508|gb|AC232631.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLe0071O22, complete sequence">
        <position start="1363" stop="3359"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1663" g_stop="1715" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1716" i_stop="1848" i_length="133">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="1849" g_stop="1897" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="98" r_length="45" r_score="0.918"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1898" i_stop="1999" i_length="102">
            <donor d_prob="0.995" d_score="0.92"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="2000" g_stop="2075" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="99" r_stop="174" r_length="76" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="2076" i_stop="2349" i_length="274">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="2350" g_stop="2419" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="175" r_stop="244" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="2420" i_stop="2844" i_length="425">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="2845" g_stop="3058" g_length="214"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="458" r_length="214" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="459" polyA_stop="471"/>
      <MATCH_line gen_id="C07SLe0071O22.1" gen_strand="+" ref_id="SGN-E715037" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>462</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLe0071O22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E715037" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1663" e_stop="1715"/>
          <exon e_start="1849" e_stop="1897"/>
          <exon e_start="2000" e_stop="2075"/>
          <exon e_start="2350" e_stop="2419"/>
          <exon e_start="2845" e_stop="3058"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGAGAACTCCAATCACAAACAATGTTCACGAGGAGAGGATTGTCAATCGACGTAATTATATTTATATATATAGAATTATTTTTTTAAAAAAAAATATACAATGTTCAACATAAAATATTACGTCACGTACCTCAAATGTTTTTATTTGGTTATTAATGTTTAGTGTAATTTTCTTTTTTTTCAGCTCCCGAGAAGAGGCAGAGAGTACCTTCTGCATATAATCAGTTCATAAAGTATATATGTATCTTTATTAAAGTCTTTTTTTTTTCTATAAATATTTATTTATTTTGTAAAAAATATTATTTTTTTTTGACACAAAATGCCTAAATGTGCAGAGAAGAAATTCAGAGGATTAAAGCTAATAATCCAGATATCAGTCACAGGGAAGCATTTAGTACTGCTGCCAAAAATGTAACTACTTTTTTCTTACATTCTTCAAACCCTTTTTTTTTCATTTTTATTTTCTCCACATATATTTTAAAAAAAATCTTTTTGATAAATATTGATAATATAAGAAATGTTTACATTATCAATATGTTTTAACGTGTTATAGCAGATAGTCTGACTAATTTTTTAAGTTATTAATCTCGTTTTTTTTTGTAAGAATAATTATATTTTAGATAATAGTGTAAAAATACTTTAGTCTGTCGATCGATCTATAATGTTTTATCTTTGTGTGGTGTAGTGGGCACACTTCCCTCATATTCACTTTGGACTCATGTTGGAGAGCAACAATCAAGCCAAACTTGCTTGTGGTAATGTATTTATAACTCAAATAAATAAATAAATATATATACATATATATATATATATATTATTCTGATAATTCTATTTACTATCCCTTCATTCCCTCTTTTAATACTTTTATTATCTACATCCTAGAGGATTAAACAAAAAAAAAAAACTACTAAGTAAAGTCTTACAAGTCATGTGGTACGATAGGTATGTACACATATTTTATCCGTATTTTTGTAGAATAGAAAGCTGATTTTCGATAGACAAGATTATTGTGCCTTATATATCATTAGAGGCATTAAAAGAAAAAAATTTTCCAAAGCAACTTAGAGTAAGTTGTAGTTTTTAGTGATGTCTGAAATTTATTGACTACTACTTTTTTTTTTAATGTTATTAAACTAATGTATATAAATAATATTCTTTTATTATTTACATTAATTTTCAGGGAGCAGAAAACTATAAATTACTTTGCAAGACAAATAAAAGATCTTCATTTCATGAAGCTGTGTGTGAACTTGAAGACAAGAGTGTGACATTCAAGATGTTCTATGGAGTGTGGACATTATAAACTATATATTATAATTATGTCTCTTTTTTTTTTTTCTAATTAATTTGTTGTATTTCAACTTATATATTGTTGAAAAAACTAAGTTTCTTTA</genome_strand>
        <mrna_strand>AATGAGAACTCCAATCACAAACAATGTTCACGAGGAGAGGATTGTCAATCGAC.....................................................................................................................................CTCCCGAGAAGAGGCAG----TACCTTCTGCATATAATCAGTTCATAAA......................................................................................................AGAAGAAATTCAGAGGATTAAAGCTAATAATCCAGATATCAGTCACAGGGAAGCATTTAGTACTGCTGCCAAAAAT..................................................................................................................................................................................................................................................................................TGGGCACACTTCCCTCATATTCACTTTGGACTCATGTTGGAGAGCAACAATCAAGCCAAACTTGCTTGTG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GGAGCAGAAAACTATAAATTACTTTGCAAGACAAATAAAAGATCTTCATTTCATGAAGCTGTGTGTGAACTTGAAGACAAGAGTGTGACATTCAAGATGTTCTATGGAGTGTGGACATTATAAACTATATATTATAATTATGTCTCTTTTTTTTTTTTCAAATTAATTTGTTGAATTTCAACTTATATATTGTTGAAAAAACTAAGTTTCTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E234465" ref_strand="+" ref_description="SGN-E234465 [cLEL-8-K8](-)">
      <seq>ataatccagatatcagtcacagggaagcatttagtactgctgccaaaaattgggcacactttcccccatattcactttggactcatgttggagagcaacaatcaagccaaacttgcttgtgggagcagaaaactataaattactttgcaagacaaataaaagatcttcatttcatgaagctgtgtgtgaacttgaagacaagagtgtgacattcaagatgttctatggagtgtggacattataaactatatattataattatgtctcttttttttttttctaattaatttgttgtatttcaacttatatattgttgaaaaaactaagtttctttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLe0071O22-V7dN2/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C07SLe0071O22.1" temp_strand="+" temp_description="C07SLe0071O22.1  AC232631.1 htgs_phase:3 submitted_to_sgn_as:gi|205277508|gb|AC232631.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLe0071O22, complete sequence">
        <position start="1726" stop="3359"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2026" g_stop="2075" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="50" r_length="50" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2076" i_stop="2349" i_length="274">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="2350" g_stop="2419" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="51" r_stop="121" r_length="71" r_score="0.957"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="2420" i_stop="2844" i_length="425">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="2845" g_stop="3058" g_length="214"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="335" r_length="214" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="336" polyA_stop="351"/>
      <MATCH_line gen_id="C07SLe0071O22.1" gen_strand="+" ref_id="SGN-E234465" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>334</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLe0071O22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E234465" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2026" e_stop="2075"/>
          <exon e_start="2350" e_stop="2419"/>
          <exon e_start="2845" e_stop="3058"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAATCCAGATATCAGTCACAGGGAAGCATTTAGTACTGCTGCCAAAAATGTAACTACTTTTTTCTTACATTCTTCAAACCCTTTTTTTTTCATTTTTATTTTCTCCACATATATTTTAAAAAAAATCTTTTTGATAAATATTGATAATATAAGAAATGTTTACATTATCAATATGTTTTAACGTGTTATAGCAGATAGTCTGACTAATTTTTTAAGTTATTAATCTCGTTTTTTTTTGTAAGAATAATTATATTTTAGATAATAGTGTAAAAATACTTTAGTCTGTCGATCGATCTATAATGTTTTATCTTTGTGTGGTGTAGTGGGCACAC-TTCCCTCATATTCACTTTGGACTCATGTTGGAGAGCAACAATCAAGCCAAACTTGCTTGTGGTAATGTATTTATAACTCAAATAAATAAATAAATATATATACATATATATATATATATATTATTCTGATAATTCTATTTACTATCCCTTCATTCCCTCTTTTAATACTTTTATTATCTACATCCTAGAGGATTAAACAAAAAAAAAAAACTACTAAGTAAAGTCTTACAAGTCATGTGGTACGATAGGTATGTACACATATTTTATCCGTATTTTTGTAGAATAGAAAGCTGATTTTCGATAGACAAGATTATTGTGCCTTATATATCATTAGAGGCATTAAAAGAAAAAAATTTTCCAAAGCAACTTAGAGTAAGTTGTAGTTTTTAGTGATGTCTGAAATTTATTGACTACTACTTTTTTTTTTAATGTTATTAAACTAATGTATATAAATAATATTCTTTTATTATTTACATTAATTTTCAGGGAGCAGAAAACTATAAATTACTTTGCAAGACAAATAAAAGATCTTCATTTCATGAAGCTGTGTGTGAACTTGAAGACAAGAGTGTGACATTCAAGATGTTCTATGGAGTGTGGACATTATAAACTATATATTATAATTATGTCTCTTTTTTTTTTTTCTAATTAATTTGTTGTATTTCAACTTATATATTGTTGAAAAAACTAAGTTTCTTTA</genome_strand>
        <mrna_strand>ATAATCCAGATATCAGTCACAGGGAAGCATTTAGTACTGCTGCCAAAAAT..................................................................................................................................................................................................................................................................................TGGGCACACTTTCCCCCATATTCACTTTGGACTCATGTTGGAGAGCAACAATCAAGCCAAACTTGCTTGTG.........................................................................................................................................................................................................................................................................................................................................................................................................................................GGAGCAGAAAACTATAAATTACTTTGCAAGACAAATAAAAGATCTTCATTTCATGAAGCTGTGTGTGAACTTGAAGACAAGAGTGTGACATTCAAGATGTTCTATGGAGTGTGGACATTATAAACTATATATTATAATTATGTCTCTTTTTTTTTTTTCTAATTAATTTGTTGTATTTCAACTTATATATTGTTGAAAAAACTAAGTTTCTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>5</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="263" PGL_stop="3058"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="263" e_stop="391"/>
            <exon e_start="1589" e_stop="1715"/>
            <exon e_start="1849" e_stop="1897"/>
            <exon e_start="2000" e_stop="2075"/>
            <exon e_start="2350" e_stop="2419"/>
            <exon e_start="2845" e_stop="3058"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.957" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.991" acc_prob="0.963" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="263" e_stop="391" e_length="129"/>
          </exon>
          <intron i_serial="1" don_prob="0.957" acc_prob="0.995">
            <gDNA_intron_boundary i_start="392" i_stop="1588" i_length="1197"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="1589" e_stop="1715" e_length="127"/>
          </exon>
          <intron i_serial="2" don_prob="0.994" acc_prob="1.000">
            <gDNA_intron_boundary i_start="1716" i_stop="1848" i_length="133"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="1849" e_stop="1897" e_length="49"/>
          </exon>
          <intron i_serial="3" don_prob="0.995" acc_prob="0.996">
            <gDNA_intron_boundary i_start="1898" i_stop="1999" i_length="102"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="2000" e_stop="2075" e_length="76"/>
          </exon>
          <intron i_serial="4" don_prob="1.000" acc_prob="0.994">
            <gDNA_intron_boundary i_start="2076" i_stop="2349" i_length="274"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="2350" e_stop="2419" e_length="70"/>
          </exon>
          <intron i_serial="5" don_prob="0.991" acc_prob="0.963">
            <gDNA_intron_boundary i_start="2420" i_stop="2844" i_length="425"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="2845" e_stop="3058" e_length="214"/>
          </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="263" stop="391"/>
              <exon start="1589" stop="1715"/>
              <exon start="1849" stop="1897"/>
              <exon start="2000" stop="2075"/>
              <exon start="2350" stop="2419"/>
              <exon start="2845" stop="2917"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E258745" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1620" stop="1715"/>
              <exon start="1849" stop="1897"/>
              <exon start="2000" stop="2075"/>
              <exon start="2350" stop="2419"/>
              <exon start="2845" stop="2917"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E251465" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1663" stop="1715"/>
              <exon start="1849" stop="1897"/>
              <exon start="2000" stop="2075"/>
              <exon start="2350" stop="2419"/>
              <exon start="2845" stop="3058"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E715037" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2026" stop="2075"/>
              <exon start="2350" stop="2419"/>
              <exon start="2845" stop="3058"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234465" 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>GTGAGTGTTCCATGCAGTAGCCTATTTGATATTGTGACTGTTCGTTGTGGACATTGCACAAATTTATGGTCCGTTAATATGGCAGCTGCATTTCAGTCCTCTTCTTCTGCTTCGTGGCAAAATCATCAG : GTTCCAAACTACACTGCTCCTGAGTATAGGATGGATTTTGGTTCATCAACCAAATGCAACATGAACAGGATGTCAATGAGAACTCCAATCACAAACAATGTTCACGAGGAGAGGATTGTCAATCGAC : CTCCCGAGAAGAGGCAGAGAGTACCTTCTGCATATAATCAGTTCATAAA : AGAAGAAATTCAGAGGATTAAAGCTAATAATCCAGATATCAGTCACAGGGAAGCATTTAGTACTGCTGCCAAAAAT : TGGGCACACTTCCCTCATATTCACTTTGGACTCATGTTGGAGAGCAACAATCAAGCCAAACTTGCTTGTG : GGAGCAGAAAACTATAAATTACTTTGCAAGACAAATAAAAGATCTTCATTTCATGAAGCTGTGTGTGAACTTGAAGACAAGAGTGTGACATTCAAGATGTTCTATGGAGTGTGGACATTATAAACTATATATTATAATTATGTCTCTTTTTTTTTTTTCTAATTAATTTGTTGTATTTCAACTTATATATTGTTGAAAAAACTAAGTTTCTTTA</gDNA_template>
            <first_frame> V  S  V  P  C  S  S  L  F  D  I  V  T  V  R  C  G  H  C  T  N  L  W  S  V  N  M  A  A  A  F  Q  S  S  S  S  A  S  W  Q  N  H  Q  :  V  P  N  Y  T  A  P  E  Y  R  M  D  F  G  S  S  T  K  C  N  M  N  R  M  S  M  R  T  P  I  T  N  N  V  H  E  E  R  I  V  N  R   : P  P  E  K  R  Q  R  V  P  S  A  Y  N  Q  F  I  K :   E  E  I  Q  R  I  K  A  N  N  P  D  I  S  H  R  E  A  F  S  T  A  A  K  N  :  W  A  H  F  P  H  I  H  F  G  L  M  L  E  S  N  N  Q  A  K  L  A  C   : G  S  R  K  L  *  I  T  L  Q  D  K  *  K  I  F  I  S  *  S  C  V  *  T  *  R  Q  E  C  D  I  Q  D  V  L  W  S  V  D  I  I  N  Y  I  L  *  L  C  L  F  F  F  F  L  I  N  L  L  Y  F  N  L  Y  I  V  E  K  T  K  F  L   </first_frame>
            <second_frame>  *  V  F  H  A  V  A  Y  L  I  L  *  L  F  V  V  D  I  A  Q  I  Y  G  P  L  I  W  Q  L  H  F  S  P  L  L  L  L  R  G  K  I  I  R :   F  Q  T  T  L  L  L  S  I  G  W  I  L  V  H  Q  P  N  A  T  *  T  G  C  Q  *  E  L  Q  S  Q  T  M  F  T  R  R  G  L  S  I  D  :  L  P  R  R  G  R  E  Y  L  L  H  I  I  S  S  *   : K  K  K  F  R  G  L  K  L  I  I  Q  I  S  V  T  G  K  H  L  V  L  L  P  K  I :   G  H  T  S  L  I  F  T  L  D  S  C  W  R  A  T  I  K  P  N  L  L  V  :  G  A  E  N  Y  K  L  L  C  K  T  N  K  R  S  S  F  H  E  A  V  C  E  L  E  D  K  S  V  T  F  K  M  F  Y  G  V  W  T  L  *  T  I  Y  Y  N  Y  V  S  F  F  F  F  *  L  I  C  C  I  S  T  Y  I  L  L  K  K  L  S  F  F  </second_frame>
            <third_frame>   E  C  S  M  Q  *  P  I  *  Y  C  D  C  S  L  W  T  L  H  K  F  M  V  R  *  Y  G  S  C  I  S  V  L  F  F  C  F  V  A  K  S  S   : G  S  K  L  H  C  S  *  V  *  D  G  F  W  F  I  N  Q  M  Q  H  E  Q  D  V  N  E  N  S  N  H  K  Q  C  S  R  G  E  D  C  Q  S  T :   S  R  E  E  A  E  S  T  F  C  I  *  S  V  H  K  :  R  R  N  S  E  D  *  S  *  *  S  R  Y  Q  S  Q  G  S  I  *  Y  C  C  Q  K   : L  G  T  L  P  S  Y  S  L  W  T  H  V  G  E  Q  Q  S  S  Q  T  C  L  W :   E  Q  K  T  I  N  Y  F  A  R  Q  I  K  D  L  H  F  M  K  L  C  V  N  L  K  T  R  V  *  H  S  R  C  S  M  E  C  G  H  Y  K  L  Y  I  I  I  M  S  L  F  F  F  S  N  *  F  V  V  F  Q  L  I  Y  C  *  K  N  *  V  S  L </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C07SLe0071O22.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="263" stop="391"/>
                    <exon start="1589" stop="1715"/>
                    <exon start="1849" stop="1897"/>
                    <exon start="2000" stop="2075"/>
                    <exon start="2350" stop="2419"/>
                    <exon start="2845" stop="2861"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>465</number_coding_nucleotides>
                  <number_encoded_amino_acids>155</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VSVPCSSLFDIVTVRCGHCTNLWSVNMAAAFQSSSSASWQNHQVPNYTAPEYRMDFGSSTKCNMNRMSMRTPITNNVHEERIVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLESNNQAKLACGSRKL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="1054" e_stop="1584"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.994"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.994">
            <gDNA_exon_boundary e_start="1054" e_stop="1584" e_length="531"/>
          </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="1054" stop="1584"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E311561" 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="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CCACACACATATTAGTGTAGTGTCGGAGTTTCGACAGGATATATAATATACGTAGATCTTATCAGTATCATTAACAAATAGATATGAAGTTGTTTTTGATAATCGTCGATTAAAAACAAAAAAAAAAAGAAGTAAAAATACAATAGTTATGAAAACCTAAGCAAAAATAGGTAGTTGCATTACATTTTTCTTGTTTCTACTTTTATAAGAATTTGGATCTTGAAATAAATAAATCATGCTCTATATAATAGTTATTGATATTAATTTTGGTATTATATAAACCCATAAATATCGTGGATTTATAATATCAAGATATCCTTATTTGGAACCACACGATTCTAAATGATACTGTGTTCGTCCATTTTACTTGTTCAGTATTGATATTTTAATGTATCAGATAAGTAAAAGTGGACAGAAAGCTAATACCAGTCAATATAAATGTATAAACTTGTATCAAACTATATTATATATCTCTTTATAACTATATTATATATCTCTTTATTTCAATACTTATGAAATTTATTTATTTAT</gDNA_template>
            <first_frame> P  H  T  Y  *  C  S  V  G  V  S  T  G  Y  I  I  Y  V  D  L  I  S  I  I  N  K  *  I  *  S  C  F  *  *  S  S  I  K  N  K  K  K  K  K  *  K  Y  N  S  Y  E  N  L  S  K  N  R  *  L  H  Y  I  F  L  V  S  T  F  I  R  I  W  I  L  K  *  I  N  H  A  L  Y  N  S  Y  *  Y  *  F  W  Y  Y  I  N  P  *  I  S  W  I  Y  N  I  K  I  S  L  F  G  T  T  R  F  *  M  I  L  C  S  S  I  L  L  V  Q  Y  *  Y  F  N  V  S  D  K  *  K  W  T  E  S  *  Y  Q  S  I  *  M  Y  K  L  V  S  N  Y  I  I  Y  L  F  I  T  I  L  Y  I  S  L  F  Q  Y  L  *  N  L  F  I  Y </first_frame>
            <second_frame>  H  T  H  I  S  V  V  S  E  F  R  Q  D  I  *  Y  T  *  I  L  S  V  S  L  T  N  R  Y  E  V  V  F  D  N  R  R  L  K  T  K  K  K  R  S  K  N  T  I  V  M  K  T  *  A  K  I  G  S  C  I  T  F  F  L  F  L  L  L  *  E  F  G  S  *  N  K  *  I  M  L  Y  I  I  V  I  D  I  N  F  G  I  I  *  T  H  K  Y  R  G  F  I  I  S  R  Y  P  Y  L  E  P  H  D  S  K  *  Y  C  V  R  P  F  Y  L  F  S  I  D  I  L  M  Y  Q  I  S  K  S  G  Q  K  A  N  T  S  Q  Y  K  C  I  N  L  Y  Q  T  I  L  Y  I  S  L  *  L  Y  Y  I  S  L  Y  F  N  T  Y  E  I  Y  L  F   </second_frame>
            <third_frame>   T  H  I  L  V  *  C  R  S  F  D  R  I  Y  N  I  R  R  S  Y  Q  Y  H  *  Q  I  D  M  K  L  F  L  I  I  V  D  *  K  Q  K  K  K  E  V  K  I  Q  *  L  *  K  P  K  Q  K  *  V  V  A  L  H  F  S  C  F  Y  F  Y  K  N  L  D  L  E  I  N  K  S  C  S  I  *  *  L  L  I  L  I  L  V  L  Y  K  P  I  N  I  V  D  L  *  Y  Q  D  I  L  I  W  N  H  T  I  L  N  D  T  V  F  V  H  F  T  C  S  V  L  I  F  *  C  I  R  *  V  K  V  D  R  K  L  I  P  V  N  I  N  V  *  T  C  I  K  L  Y  Y  I  S  L  Y  N  Y  I  I  Y  L  F  I  S  I  L  M  K  F  I  Y  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C07SLe0071O22.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 13 chains have been computed
$ 
$ memory statistics:
$ 9624 bytes spliced alignments in total
$ 5 spliced alignments have been stored
$ 1924 bytes was the average size of a spliced alignment
$ 5776 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5776 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 13 backtrace matrices have been allocated
$ 
$ date finished: 2008-11-21 22:55:21
-->
