<?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 21:48:56"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C07SLf0095A17-E66x2/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C07SLf0095A17-E66x2/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" 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-C07SLf0095A17-E66x2/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8992-2" ref_strand="+" ref_description="SGN-M8992-2 C2_At5g48300-2 [cosii_markers]">
      <seq>ctgtaattcaagtgcaatcacactctaccacacactctctagtagagagatcagttgataacaagctttgttaacaatggcggcttccattggagccttaaaatcttcaccttcttctaacaattgcatcaatgagagaagaaatgattctacacgtgcagtatccagcagaaatctctcattttcgtcttctcatctcgccggagacaagttgatgcctgtatcgtccttacgttcccaaggagtccgattcaatgtgagaagaagtccattgattgtgtcgcctaaggctgtttctgattcgcagaattcacagacatgtctagacccagatgctagccggagtgttttgggaattattcttggaggtggagctgggacccgactttatcctctaactaaaaaaagagcaaaaccagccgttccacttggagcaaattatcgtctgattgacattcccgtaagcaattgcttgaacagtaacatatccaagatctatgttctcacacaattcaactctgcctccctgaatcgccacctttcacgggcatatgctagcaatatgggaggatacaaaaacgagggctttgtggaagttcttgcggctcaacaaagtccagagaaccccgattggttccagggcacggctgatgctgtcagacaatatctgtggttgtttgaggagcatactgttcttgaataccttatacttgctggagatcatctgtatcgaatggattatgaaaagtttattcaagcccacagagaaacagatgctgatattaccgttgccgcactgccaatggacgagaagcgtgccactgcatttggtctcatgaagattgacgaagaaggacgcattattgaatttgcagagaaaccgcaaggagagcaattgcaagcaatgaaagtggatactaccattttaggtcttgatgacaagagagctaaagaaatgcctttcattgccagtatgggtatatatgtcattagcaaagacgtgatgttaaacctacttcgtgacaagttccctggggccaatgattttggtagtgaagttattcctggtgcaacttcacttgggatgagagtgcaagcttatttatatgatgggtactgggaagatattggtaccattgaagctttctacaatgccaatttgggcattacaaaaaagccggtgccagattttagcttttacgaccgatcagccccaatctacacccaacctcgatatctaccaccatcaaaaatgcttgatgctgatgtcacagatagtgtcattggtgaaggttgtgtgatcaagaactgtaagattcaccattccgtggttgggctcagatcatgcatatcagagggagcaattatagaagactcacttttgatgggggcagattactatgagactgatgctgacaggaagctgctggctgcaaagggcagtgtcccaattggcatcggcaagaattgtcacattaaaagagccattatcgacaagaatgcccgtataggggacaatgtgaagatcattaacaaagacaacgttcaagaagcggctagggaaacagatggatacttcatcaagagtgggattgtcaccgtcatcaaggatgctttgattccaagtggaatcgtcatctgaaggaatgcgttttaacttggttgtcctcctagattttggctaaacagccatgaggtagaaacgtgccgaacttttattttcctgtgctgtagaaatctagtgtacatcttgcttttatgatacttctcattacccctacaagagaagactggatgctgtaaaaattattcgtctagaataaaaaataaactacccaaaaatctgctttgatctcacttttgcttttaagtttactcatgttttttatctctgtatggttatagtgaaaaggaattatttgttattaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLf0095A17-E66x2/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C07SLf0095A17.1" temp_strand="-" temp_description="C07SLf0095A17.1  AC236769.1 htgs_phase:2 submitted_to_sgn_as:gi|238909046|gb|AC236769.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLf0095A17, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="20214" stop="14992"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="19914" g_stop="19574" g_length="341"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="343" r_length="343" r_score="0.941"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="19573" i_stop="18721" i_length="853">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="18720" g_stop="18424" g_length="297"/>
          <reference_exon_boundary r_type="cDNA" r_start="344" r_stop="640" r_length="297" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="18423" i_stop="18139" i_length="285">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.989" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="18138" g_stop="17869" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="641" r_stop="910" r_length="270" r_score="0.974"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="17868" i_stop="17776" i_length="93">
            <donor d_prob="0.894" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="17775" g_stop="17596" g_length="180"/>
          <reference_exon_boundary r_type="cDNA" r_start="911" r_stop="1090" r_length="180" r_score="0.978"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="17595" i_stop="17200" i_length="396">
            <donor d_prob="0.996" d_score="0.98"/>
            <acceptor a_prob="0.969" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="17199" g_stop="17096" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="1091" r_stop="1194" r_length="104" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="17095" i_stop="16991" i_length="105">
            <donor d_prob="0.880" d_score="1.00"/>
            <acceptor a_prob="0.649" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="16990" g_stop="16879" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="1195" r_stop="1306" r_length="112" r_score="0.964"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="16878" i_stop="16271" i_length="608">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.948" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="16270" g_stop="16172" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="1307" r_stop="1405" r_length="99" r_score="0.990"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="16171" i_stop="15943" i_length="229">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="15942" g_stop="15823" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="1406" r_stop="1525" r_length="120" r_score="0.983"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="15822" i_stop="15690" i_length="133">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="15689" g_stop="15288" g_length="402"/>
          <reference_exon_boundary r_type="cDNA" r_start="1526" r_stop="1937" r_length="412" r_score="0.826"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C07SLf0095A17.1" gen_strand="-" ref_id="SGN-M8992-2" ref_strand="+">
        <total_alignment_score>0.941</total_alignment_score>
        <cumulative_length_of_scored_exons>1925</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLf0095A17.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8992-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="19914" e_stop="19574"/>
          <exon e_start="18720" e_stop="18424"/>
          <exon e_start="18138" e_stop="17869"/>
          <exon e_start="17775" e_stop="17596"/>
          <exon e_start="17199" e_stop="17096"/>
          <exon e_start="16990" e_stop="16879"/>
          <exon e_start="16270" e_stop="16172"/>
          <exon e_start="15942" e_stop="15823"/>
          <exon e_start="15689" e_stop="15288"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTAATT-AAGTGCAATCACACTCTACCACACACTCTCTA-TAGTATCTATAGTTGAGAGCAAGCTTTGTTAACAATGGCGGCTTCCATTGGAGCCTTAAAATCTTCACCTTCTTCCCACAATTGCATCAATGAGAGAAGAAATGATTCTACACGTGCAATATCCAGCAGAAATCTCTCATTTTCGTCTTCTCATCTCGCCGGAGACAAGTTGATGCCTGTATCGTCCTTACGTTCCCAAGGAGTACGATTCAATGTGAGAAGAAGTCCATTGATTGTGTCTCCTAAGGCTGTTTCTGATTCGCAGAATTCACAGACATGTCTGGACCCAGATGCTAGCAGGGTAAGTAAATTTCAGTCAATTTTATCATAAGATGCATTAGTATATAATCATTAGATAAAAATGTAGAACTTTTTTCTCTGATTAATTGAGGTGATTATTGGATTGTGACGGTTTGGAGAAGTAGATCCTCTTGTAAAAAAAATGGAGTGGGTTGCTTCAGAGTGAAGTATTTTGACTGGGTAGTTCTAGATCCGAGATCCTCTCACCTATTTTCCCTCTTTCTGATACAAAAATCACGTGCCTGTTTGAAAATGTGCTTGGATTACTTCATTTTGTTTAATATTTAACAAAATTCTTTGCCAACATTCTTCAAAGATTCATTATGCACGTGATAGGCATTATTGATGATATGACTTGGAAAAGCTGTTAAAACTAGTAATATGTTCTGGAAAATGTAGTCATTGGATCTGACTATCTGAGCATGAGCAAAACATCGCTGCACCAGCGTGTCGGATCCTTAAAAAATACACTACTTTTGGAGTACCAGACACGCACCCAAAGACAACTTCAAAGAGTCCAAATAACGTTTTCAGGCATAGCTAGTAGTGTGTGTCTCACCTTCTAATCCTTAGACTGAACACTTTTTATTTGTTAGTATTAGTAATAATGGGCAGATTGCCATTTCAATATGTCAACCTTTTTATATTTTCATAAAAAGTATATCAATCTAGTTATATTGTAGTATTAAGTTAATTGTATTCACAAAACCTTATTTGGTAATAGCTTGACAATGATTCACGTGTTCTTAGAAGTAAGTATTATGATAACTTGTTTTTTGATATGGAAACTTTAAGAAGCTGAATTTCTCTAAGTAAATACGGTGATCTGAACTTGAATTGTTTATGCAATGTAGAGTGTTTTGGGAATTATTCTTGGAGGTGGAGCTGGGACCCGACTTTATCCTCTAACTAAAAAAAGAGCAAAACCTGCGGTTCCACTTGGAGCAAATTATCGTCTGATTGACATTCCCGTAAGCAATTGCTTGAACAGTAACATATCCAAGATCTATGTTCTCACACAATTCAACTCTGCCTCTCTAAATCGCCACCTTTCACGGGCATATGCTAGCAATATGGGAGGATACAAAAACGAGGGCTTTGTGGAAGTTCTTGCTGCTCAACAAAGTCCGGAGAACCCCGATTGGTTCCAGGTAAATTCTCATTCCCGCTGCATAGAGTTCACTTAAAACTACTGTTATTGTTATTATACGAGGATACAAATATCAACTCAATTACTATGAAGCATACAATTAGCACTTAAACTACCTATATCTTTGTATATTCTGAAGAGCTGTTTAGAAATGCATTATTTGAGTTGTAACTCGGGTGTCATTCGTGCATGACACCTTAAATTAAACTTCTATTTATGCTTTATTGCTGCTCTGAACTAGTTTACTTCACAAACTGGCATAACAAGTGTTGATGCTTGTCTGTAGGGCACTGCGGACGCTGTCAGACAATATCTGTGGTTGTTTGAGGAGCATAATGTTCTTGAATACCTTATACTTGCTGGAGATCATCTGTATCGAATGGATTATGAAAAGTTTATTCAAGCCCACAGGGAAACAGATGCTGATATTACCGTTGCCGCACTGCCAATGGACGAGAAGCGTGCCACTGCATTCGGTCTCATGAAGATTGATGAAGAAGGACGCATTATTGAATTTGCAGAGAAACCGCAAGGAGAGCAATTGCAAGCAATGAAAGTATGACTATCATAGTCCTAATGCTTTTCAATTCAGAACTACTCAAGAAAGAATTTATTAGCATGTGTTAATTCTTGTTTTGATGTATTTCAGGTGGATACTACCATTTTAGGTCTTGATGACAAGAGAGCTAAAGAAATGCCTTTTATCGCCAGTATGGGTATATATGTCATTAGCAAAGACGTGATGTTAAACCTACTTCGTGACAAGTTTCCTGGGGCCAATGATTTTGGTAGTGAAGTTATTCCTGGTGCAACTTCATTTGGGATGAGAGTATGTACTTTCTCTAGAACCTACACTTCATGTTACTTTTACTTATCATGAAAGTTGGAATATGAAATATACACTTTTTGCTGTGTTCAATGCATAAAAAAAGTTGCATCTTCTGACCTTTACTCTAGAGCAATAGGGCCTTACTGTCTCAAGTTCTTGAACTCTCTTCCAAATATGGTTATGGTTATGAAATGAGCTCTCTTTTGTCTTCTGCTTTCGTGTGTTGCCCTTCTCAAGTTTTTCTTTATTTTTTTTCTTCTCTTTGTTGCTTTGCTTGTTCTGGTCATCAATGTGGAAACTCAAAAAAGAATGATGCATCGCGCTCAATTTCTTTTTAAGATAATGGTCACTTTGGTTAGTGTTGTTTCTAGAAGTCTTATGTATCTGTGTTCTCAGGTGCAAGCTTATTTATATGATGGGTACTGGGAAGATATTGGTACCATTGAAGCTTTCTACAATGCCAATTTGGGCATTACAAAAAAGCCGGTGCCAGATTTTAGGTAATTTTGCTGATCTCAAGGAGATGGTTCTCTATAGTTACCTTGCGCTGTTATCCACTCACTTTGATTTGACACTAATATTGTTGTCTTCAATATTTACTGAAGCTTTTACGACCGATCAGCCCCAATCTACACCCAACCTCGATATTTGCCACCTTCAAAAATGCTTGATGCCGATGTCACAGATAGTGTCATTGGTGAAGGTTGTGTGATCAAGGTAACTAGTTATTGTTTCAAGGCTCCTATATTTCTAAGTTGCAGTCTTGATAGCAAATATGTGAGGCATATCTCTGACATGTTCAATATTTTCTGTGACCTCATCCATCTTTCTCAAAAATAATAAAGAAGATAAAGTAAAGTATATTGGACTCTCTTCTCTCTGAGGCATGCTTGCCTTGCATTTTCTTCTCAGTTTGATTTTCCATCATGGTTGGAGAGGGCTAAATATTGTTGATATTATAGATCTTGACTTATTAGAGACAATTGGTCTGAAATATAACATCTAAAAGTTGGCTCTTTGATTAAGTTGAGGCGCACAAAATTTAAAACTCACTTACTAATATTGGAGAATCGAAGTAGTCTTGGAACAACGTTAAAGTTGTCTCTTGTGTGTGTAGAGGGTAACAGGTCCGAGACGTGGAATCAACCTTTAATGCTTTGGGTAGGTTGTCTACATTATACCCTGGGTTTGGACCTTTTCTGGACCCTAAGTGAATGCAATATGCTTTTCACCATTTTTTTTCATTTTTCATCATACAGTGCTCCAGAAAATGCAGAAAAATAGTATAGCACTACATAGTTATTAATCAATATTTCTGTTTGCAGAACTGTAAGATTCACCATTCCGTGGTTGGGCTCAGATCATGCATATCAGAGGGAGCAATTATAGAAGACTCACTTTTGATGGGGGCAGATTACTACGAGGTAATGCTAATAATTCTTTGATTACCAGAAAACATTTCTAAAACTAATATACACGCGAACATGAATTTAACATTCTTCGCTTATTACACTTGCTGTGTATATGGTTTACTGCGGAGCAACTTGCCTTAAGAGTCGAACTACACATGATAAAGAAAATACTGAGCTTGTGGTTTCCTTACTCTATTCACTTATTATAACGGACTCGCTTTCTGACCCATTATTGGTTCAGACTGATGCTGACAGGAAGCTGCTGGCTGCAAAGGGCAGTGTCCCAATTGGCATCGGCAAGAATTGTCACATCAAAAGAGCCATTATCGACAAGAATGCTCGTATAGGGGACAATGTGAAGGTTAAATTCCTTAAACTTTTACACTTCTGACTTAGTGTCATTTGAACATGCAATTGATGTGTAATGTTTTTTCTCGATATCATGTATCCATATTCATAGCATGAGTTCCTAATAATAAATTTTCTTTTGTCAGATCATTAACAAAGACAATGTTCAAGAAGCGGCTAGGGAAACAGATGGATACTTCATCAAGAGTGGGATTGTCACTGTCATCAAGGATGCTTTGATTCCAAGTGGAATCGTCATTTAAAGGAACGCGTTATAACTTGGTTGCCCTCCAAGATTTTGGCTAAACAGCCATGAGGTACAAACGTGCCGAAGTTTTATTTTCCTATGCTGTAGAAATCTAGTGTACATCTTGCTTTTATGATACTTCTCATTA--CCT------G--G--T---TGCTGTAAAAATTATTCGTCTAAAATAAAAATAAATCTACCATTACACCAGATCTGCTTTGATCTCACTTTTGC-TTTATGTTTACTTGTGTTTCATCATCTCTGTATGTTTATAGTGAAAAAGAATTATTTGTTCTTCATCAATTTT</genome_strand>
        <mrna_strand>CTGTAATTCAAGTGCAATCACACTCTACCACACACTCTCTAGTAGAGAGATCAGTTGATAACAAGCTTTGTTAACAATGGCGGCTTCCATTGGAGCCTTAAAATCTTCACCTTCTTCTAACAATTGCATCAATGAGAGAAGAAATGATTCTACACGTGCAGTATCCAGCAGAAATCTCTCATTTTCGTCTTCTCATCTCGCCGGAGACAAGTTGATGCCTGTATCGTCCTTACGTTCCCAAGGAGTCCGATTCAATGTGAGAAGAAGTCCATTGATTGTGTCGCCTAAGGCTGTTTCTGATTCGCAGAATTCACAGACATGTCTAGACCCAGATGCTAGCCGG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGTGTTTTGGGAATTATTCTTGGAGGTGGAGCTGGGACCCGACTTTATCCTCTAACTAAAAAAAGAGCAAAACCAGCCGTTCCACTTGGAGCAAATTATCGTCTGATTGACATTCCCGTAAGCAATTGCTTGAACAGTAACATATCCAAGATCTATGTTCTCACACAATTCAACTCTGCCTCCCTGAATCGCCACCTTTCACGGGCATATGCTAGCAATATGGGAGGATACAAAAACGAGGGCTTTGTGGAAGTTCTTGCGGCTCAACAAAGTCCAGAGAACCCCGATTGGTTCCAG.............................................................................................................................................................................................................................................................................................GGCACGGCTGATGCTGTCAGACAATATCTGTGGTTGTTTGAGGAGCATACTGTTCTTGAATACCTTATACTTGCTGGAGATCATCTGTATCGAATGGATTATGAAAAGTTTATTCAAGCCCACAGAGAAACAGATGCTGATATTACCGTTGCCGCACTGCCAATGGACGAGAAGCGTGCCACTGCATTTGGTCTCATGAAGATTGACGAAGAAGGACGCATTATTGAATTTGCAGAGAAACCGCAAGGAGAGCAATTGCAAGCAATGAAA.............................................................................................GTGGATACTACCATTTTAGGTCTTGATGACAAGAGAGCTAAAGAAATGCCTTTCATTGCCAGTATGGGTATATATGTCATTAGCAAAGACGTGATGTTAAACCTACTTCGTGACAAGTTCCCTGGGGCCAATGATTTTGGTAGTGAAGTTATTCCTGGTGCAACTTCACTTGGGATGAGA............................................................................................................................................................................................................................................................................................................................................................................................................GTGCAAGCTTATTTATATGATGGGTACTGGGAAGATATTGGTACCATTGAAGCTTTCTACAATGCCAATTTGGGCATTACAAAAAAGCCGGTGCCAGATTTTAG.........................................................................................................CTTTTACGACCGATCAGCCCCAATCTACACCCAACCTCGATATCTACCACCATCAAAAATGCTTGATGCTGATGTCACAGATAGTGTCATTGGTGAAGGTTGTGTGATCAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACTGTAAGATTCACCATTCCGTGGTTGGGCTCAGATCATGCATATCAGAGGGAGCAATTATAGAAGACTCACTTTTGATGGGGGCAGATTACTATGAG.....................................................................................................................................................................................................................................ACTGATGCTGACAGGAAGCTGCTGGCTGCAAAGGGCAGTGTCCCAATTGGCATCGGCAAGAATTGTCACATTAAAAGAGCCATTATCGACAAGAATGCCCGTATAGGGGACAATGTGAAG.....................................................................................................................................ATCATTAACAAAGACAACGTTCAAGAAGCGGCTAGGGAAACAGATGGATACTTCATCAAGAGTGGGATTGTCACCGTCATCAAGGATGCTTTGATTCCAAGTGGAATCGTCATCTGAAGGAATGCGTTTTAACTTGGTTGTCCTCCTAGATTTTGGCTAAACAGCCATGAGGTAGAAACGTGCCGAACTTTTATTTTCCTGTGCTGTAGAAATCTAGTGTACATCTTGCTTTTATGATACTTCTCATTACCCCTACAAGAGAAGACTGGATGCTGTAAAAATTATTCGTCTAGAATAAAAAATAAACTACC----CA-AAAATCTGCTTTGATCTCACTTTTGCTTTTAAGTTTACTCATGTTT-TTTATCTCTGTATGGTTATAGTGAAAAGGAATTATTTGTTATTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C07SLf0095A17-E66x2/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M2248" ref_strand="+" ref_description="SGN-M2248 T1756 [cos_markers]">
      <seq>ctaactaaaaaaatagcaaaacctgcggctccacttggatcaaattatcggctgattgacattcccgtaagcaattgcttgaacagtaacatatccaacatctatgtttttacacaattcaactctgcctctataaatcgccacctttcacgggcatatgctaacaatatgggaggatacaaaaacgagggctttgtggaagttcttgctgctcaacaaagtccggagaaccacgattggttccaaggcactgcggacgctgtcagacaatatctgtagttgtttgaggagcataatgtgcatgaataccttatacttgctggagatcatctgtatcgaatggattatgaaaagtgtattcaagcccacagggaaacagatgctgatattaccgttgccgcactgacaatggacgagaagcgtgccactgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLf0095A17-E66x2/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C07SLf0095A17.1" temp_strand="-" temp_description="C07SLf0095A17.1  AC236769.1 htgs_phase:2 submitted_to_sgn_as:gi|238909046|gb|AC236769.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLf0095A17, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces">
        <position start="18969" stop="17653"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="18669" g_stop="18424" g_length="246"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="246" r_length="246" r_score="0.955"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="18423" i_stop="18139" i_length="285">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.989" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="18138" g_stop="17953" g_length="186"/>
          <reference_exon_boundary r_type="cDNA" r_start="247" r_stop="432" r_length="186" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C07SLf0095A17.1" gen_strand="-" ref_id="SGN-M2248" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>432</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLf0095A17.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M2248" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="18669" e_stop="18424"/>
          <exon e_start="18138" e_stop="17953"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAACTAAAAAAAGAGCAAAACCTGCGGTTCCACTTGGAGCAAATTATCGTCTGATTGACATTCCCGTAAGCAATTGCTTGAACAGTAACATATCCAAGATCTATGTTCTCACACAATTCAACTCTGCCTCTCTAAATCGCCACCTTTCACGGGCATATGCTAGCAATATGGGAGGATACAAAAACGAGGGCTTTGTGGAAGTTCTTGCTGCTCAACAAAGTCCGGAGAACCCCGATTGGTTCCAGGTAAATTCTCATTCCCGCTGCATAGAGTTCACTTAAAACTACTGTTATTGTTATTATACGAGGATACAAATATCAACTCAATTACTATGAAGCATACAATTAGCACTTAAACTACCTATATCTTTGTATATTCTGAAGAGCTGTTTAGAAATGCATTATTTGAGTTGTAACTCGGGTGTCATTCGTGCATGACACCTTAAATTAAACTTCTATTTATGCTTTATTGCTGCTCTGAACTAGTTTACTTCACAAACTGGCATAACAAGTGTTGATGCTTGTCTGTAGGGCACTGCGGACGCTGTCAGACAATATCTGTGGTTGTTTGAGGAGCATAATGTTCTTGAATACCTTATACTTGCTGGAGATCATCTGTATCGAATGGATTATGAAAAGTTTATTCAAGCCCACAGGGAAACAGATGCTGATATTACCGTTGCCGCACTGCCAATGGACGAGAAGCGTGCCACTGCA</genome_strand>
        <mrna_strand>CTAACTAAAAAAATAGCAAAACCTGCGGCTCCACTTGGATCAAATTATCGGCTGATTGACATTCCCGTAAGCAATTGCTTGAACAGTAACATATCCAACATCTATGTTTTTACACAATTCAACTCTGCCTCTATAAATCGCCACCTTTCACGGGCATATGCTAACAATATGGGAGGATACAAAAACGAGGGCTTTGTGGAAGTTCTTGCTGCTCAACAAAGTCCGGAGAACCACGATTGGTTCCAA.............................................................................................................................................................................................................................................................................................GGCACTGCGGACGCTGTCAGACAATATCTGTAGTTGTTTGAGGAGCATAATGTGCATGAATACCTTATACTTGCTGGAGATCATCTGTATCGAATGGATTATGAAAAGTGTATTCAAGCCCACAGGGAAACAGATGCTGATATTACCGTTGCCGCACTGACAATGGACGAGAAGCGTGCCACTGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>2</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="19914" PGL_stop="15288"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="19914" e_stop="19574"/>
            <exon e_start="18720" e_stop="18424"/>
            <exon e_start="18138" e_stop="17869"/>
            <exon e_start="17775" e_stop="17596"/>
            <exon e_start="17199" e_stop="17096"/>
            <exon e_start="16990" e_stop="16879"/>
            <exon e_start="16270" e_stop="16172"/>
            <exon e_start="15942" e_stop="15823"/>
            <exon e_start="15689" e_stop="15288"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.994" e_score="0.941"/>
          <exon-intron don_prob="1.000" acc_prob="0.989" e_score="0.980"/>
          <exon-intron don_prob="0.894" acc_prob="1.000" e_score="0.974"/>
          <exon-intron don_prob="0.996" acc_prob="0.969" e_score="0.978"/>
          <exon-intron don_prob="0.880" acc_prob="0.649" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.948" e_score="0.964"/>
          <exon-intron don_prob="0.999" acc_prob="0.992" e_score="0.990"/>
          <exon-intron don_prob="0.999" acc_prob="0.997" e_score="0.983"/>
          <exon-only e_score="0.826"/>
        </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="0.941">
            <gDNA_exon_boundary e_start="19914" e_stop="19574" e_length="341"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.994">
            <gDNA_intron_boundary i_start="19573" i_stop="18721" i_length="853"/>
          </intron>
          <exon e_serial="2" e_score="0.980">
            <gDNA_exon_boundary e_start="18720" e_stop="18424" e_length="297"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.989">
            <gDNA_intron_boundary i_start="18423" i_stop="18139" i_length="285"/>
          </intron>
          <exon e_serial="3" e_score="0.974">
            <gDNA_exon_boundary e_start="18138" e_stop="17869" e_length="270"/>
          </exon>
          <intron i_serial="3" don_prob="0.894" acc_prob="1.000">
            <gDNA_intron_boundary i_start="17868" i_stop="17776" i_length="93"/>
          </intron>
          <exon e_serial="4" e_score="0.978">
            <gDNA_exon_boundary e_start="17775" e_stop="17596" e_length="180"/>
          </exon>
          <intron i_serial="4" don_prob="0.996" acc_prob="0.969">
            <gDNA_intron_boundary i_start="17595" i_stop="17200" i_length="396"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="17199" e_stop="17096" e_length="104"/>
          </exon>
          <intron i_serial="5" don_prob="0.880" acc_prob="0.649">
            <gDNA_intron_boundary i_start="17095" i_stop="16991" i_length="105"/>
          </intron>
          <exon e_serial="6" e_score="0.964">
            <gDNA_exon_boundary e_start="16990" e_stop="16879" e_length="112"/>
          </exon>
          <intron i_serial="6" don_prob="0.999" acc_prob="0.948">
            <gDNA_intron_boundary i_start="16878" i_stop="16271" i_length="608"/>
          </intron>
          <exon e_serial="7" e_score="0.990">
            <gDNA_exon_boundary e_start="16270" e_stop="16172" e_length="99"/>
          </exon>
          <intron i_serial="7" don_prob="0.999" acc_prob="0.992">
            <gDNA_intron_boundary i_start="16171" i_stop="15943" i_length="229"/>
          </intron>
          <exon e_serial="8" e_score="0.983">
            <gDNA_exon_boundary e_start="15942" e_stop="15823" e_length="120"/>
          </exon>
          <intron i_serial="8" don_prob="0.999" acc_prob="0.997">
            <gDNA_intron_boundary i_start="15822" i_stop="15690" i_length="133"/>
          </intron>
          <exon e_serial="9" e_score="0.826">
            <gDNA_exon_boundary e_start="15689" e_stop="15288" e_length="402"/>
          </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="19914" stop="19574"/>
              <exon start="18720" stop="18424"/>
              <exon start="18138" stop="17869"/>
              <exon start="17775" stop="17596"/>
              <exon start="17199" stop="17096"/>
              <exon start="16990" stop="16879"/>
              <exon start="16270" stop="16172"/>
              <exon start="15942" stop="15823"/>
              <exon start="15689" stop="15288"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8992-2" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="18669" stop="18424"/>
              <exon start="18138" stop="17953"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M2248" 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>CTGTAATTAAGTGCAATCACACTCTACCACACACTCTCTATAGTATCTATAGTTGAGAGCAAGCTTTGTTAACAATGGCGGCTTCCATTGGAGCCTTAAAATCTTCACCTTCTTCCCACAATTGCATCAATGAGAGAAGAAATGATTCTACACGTGCAATATCCAGCAGAAATCTCTCATTTTCGTCTTCTCATCTCGCCGGAGACAAGTTGATGCCTGTATCGTCCTTACGTTCCCAAGGAGTACGATTCAATGTGAGAAGAAGTCCATTGATTGTGTCTCCTAAGGCTGTTTCTGATTCGCAGAATTCACAGACATGTCTGGACCCAGATGCTAGCAGG : AGTGTTTTGGGAATTATTCTTGGAGGTGGAGCTGGGACCCGACTTTATCCTCTAACTAAAAAAAGAGCAAAACCTGCGGTTCCACTTGGAGCAAATTATCGTCTGATTGACATTCCCGTAAGCAATTGCTTGAACAGTAACATATCCAAGATCTATGTTCTCACACAATTCAACTCTGCCTCTCTAAATCGCCACCTTTCACGGGCATATGCTAGCAATATGGGAGGATACAAAAACGAGGGCTTTGTGGAAGTTCTTGCTGCTCAACAAAGTCCGGAGAACCCCGATTGGTTCCAG : GGCACTGCGGACGCTGTCAGACAATATCTGTGGTTGTTTGAGGAGCATAATGTTCTTGAATACCTTATACTTGCTGGAGATCATCTGTATCGAATGGATTATGAAAAGTTTATTCAAGCCCACAGGGAAACAGATGCTGATATTACCGTTGCCGCACTGCCAATGGACGAGAAGCGTGCCACTGCATTCGGTCTCATGAAGATTGATGAAGAAGGACGCATTATTGAATTTGCAGAGAAACCGCAAGGAGAGCAATTGCAAGCAATGAAA : GTGGATACTACCATTTTAGGTCTTGATGACAAGAGAGCTAAAGAAATGCCTTTTATCGCCAGTATGGGTATATATGTCATTAGCAAAGACGTGATGTTAAACCTACTTCGTGACAAGTTTCCTGGGGCCAATGATTTTGGTAGTGAAGTTATTCCTGGTGCAACTTCATTTGGGATGAGA : GTGCAAGCTTATTTATATGATGGGTACTGGGAAGATATTGGTACCATTGAAGCTTTCTACAATGCCAATTTGGGCATTACAAAAAAGCCGGTGCCAGATTTTAG : CTTTTACGACCGATCAGCCCCAATCTACACCCAACCTCGATATTTGCCACCTTCAAAAATGCTTGATGCCGATGTCACAGATAGTGTCATTGGTGAAGGTTGTGTGATCAAG : AACTGTAAGATTCACCATTCCGTGGTTGGGCTCAGATCATGCATATCAGAGGGAGCAATTATAGAAGACTCACTTTTGATGGGGGCAGATTACTACGAG : ACTGATGCTGACAGGAAGCTGCTGGCTGCAAAGGGCAGTGTCCCAATTGGCATCGGCAAGAATTGTCACATCAAAAGAGCCATTATCGACAAGAATGCTCGTATAGGGGACAATGTGAAG : ATCATTAACAAAGACAATGTTCAAGAAGCGGCTAGGGAAACAGATGGATACTTCATCAAGAGTGGGATTGTCACTGTCATCAAGGATGCTTTGATTCCAAGTGGAATCGTCATTTAAAGGAACGCGTTATAACTTGGTTGCCCTCCAAGATTTTGGCTAAACAGCCATGAGGTACAAACGTGCCGAAGTTTTATTTTCCTATGCTGTAGAAATCTAGTGTACATCTTGCTTTTATGATACTTCTCATTACCTGGTTGCTGTAAAAATTATTCGTCTAAAATAAAAATAAATCTACCATTACACCAGATCTGCTTTGATCTCACTTTTGCTTTATGTTTACTTGTGTTTCATCATCTCTGTATGTTTATAGTGAAAAAGAATTATTTGTTCTTCATCAATTTT</gDNA_template>
            <first_frame> L  *  L  S  A  I  T  L  Y  H  T  L  S  I  V  S  I  V  E  S  K  L  C  *  Q  W  R  L  P  L  E  P  *  N  L  H  L  L  P  T  I  A  S  M  R  E  E  M  I  L  H  V  Q  Y  P  A  E  I  S  H  F  R  L  L  I  S  P  E  T  S  *  C  L  Y  R  P  Y  V  P  K  E  Y  D  S  M  *  E  E  V  H  *  L  C  L  L  R  L  F  L  I  R  R  I  H  R  H  V  W  T  Q  M  L  A  G :   V  F  W  E  L  F  L  E  V  E  L  G  P  D  F  I  L  *  L  K  K  E  Q  N  L  R  F  H  L  E  Q  I  I  V  *  L  T  F  P  *  A  I  A  *  T  V  T  Y  P  R  S  M  F  S  H  N  S  T  L  P  L  *  I  A  T  F  H  G  H  M  L  A  I  W  E  D  T  K  T  R  A  L  W  K  F  L  L  L  N  K  V  R  R  T  P  I  G  S  R :   A  L  R  T  L  S  D  N  I  C  G  C  L  R  S  I  M  F  L  N  T  L  Y  L  L  E  I  I  C  I  E  W  I  M  K  S  L  F  K  P  T  G  K  Q  M  L  I  L  P  L  P  H  C  Q  W  T  R  S  V  P  L  H  S  V  S  *  R  L  M  K  K  D  A  L  L  N  L  Q  R  N  R  K  E  S  N  C  K  Q  *  K :   W  I  L  P  F  *  V  L  M  T  R  E  L  K  K  C  L  L  S  P  V  W  V  Y  M  S  L  A  K  T  *  C  *  T  Y  F  V  T  S  F  L  G  P  M  I  L  V  V  K  L  F  L  V  Q  L  H  L  G  *  E :   C  K  L  I  Y  M  M  G  T  G  K  I  L  V  P  L  K  L  S  T  M  P  I  W  A  L  Q  K  S  R  C  Q  I  L   : A  F  T  T  D  Q  P  Q  S  T  P  N  L  D  I  C  H  L  Q  K  C  L  M  P  M  S  Q  I  V  S  L  V  K  V  V  *  S  R :   T  V  R  F  T  I  P  W  L  G  S  D  H  A  Y  Q  R  E  Q  L  *  K  T  H  F  *  W  G  Q  I  T  T  R :   L  M  L  T  G  S  C  W  L  Q  R  A  V  S  Q  L  A  S  A  R  I  V  T  S  K  E  P  L  S  T  R  M  L  V  *  G  T  M  *  R :   S  L  T  K  T  M  F  K  K  R  L  G  K  Q  M  D  T  S  S  R  V  G  L  S  L  S  S  R  M  L  *  F  Q  V  E  S  S  F  K  G  T  R  Y  N  L  V  A  L  Q  D  F  G  *  T  A  M  R  Y  K  R  A  E  V  L  F  S  Y  A  V  E  I  *  C  T  S  C  F  Y  D  T  S  H  Y  L  V  A  V  K  I  I  R  L  K  *  K  *  I  Y  H  Y  T  R  S  A  L  I  S  L  L  L  Y  V  Y  L  C  F  I  I  S  V  C  L  *  *  K  R  I  I  C  S  S  S  I   </first_frame>
            <second_frame>  C  N  *  V  Q  S  H  S  T  T  H  S  L  *  Y  L  *  L  R  A  S  F  V  N  N  G  G  F  H  W  S  L  K  I  F  T  F  F  P  Q  L  H  Q  *  E  K  K  *  F  Y  T  C  N  I  Q  Q  K  S  L  I  F  V  F  S  S  R  R  R  Q  V  D  A  C  I  V  L  T  F  P  R  S  T  I  Q  C  E  K  K  S  I  D  C  V  S  *  G  C  F  *  F  A  E  F  T  D  M  S  G  P  R  C  *  Q   : E  C  F  G  N  Y  S  W  R  W  S  W  D  P  T  L  S  S  N  *  K  K  S  K  T  C  G  S  T  W  S  K  L  S  S  D  *  H  S  R  K  Q  L  L  E  Q  *  H  I  Q  D  L  C  S  H  T  I  Q  L  C  L  S  K  S  P  P  F  T  G  I  C  *  Q  Y  G  R  I  Q  K  R  G  L  C  G  S  S  C  C  S  T  K  S  G  E  P  R  L  V  P   : G  H  C  G  R  C  Q  T  I  S  V  V  V  *  G  A  *  C  S  *  I  P  Y  T  C  W  R  S  S  V  S  N  G  L  *  K  V  Y  S  S  P  Q  G  N  R  C  *  Y  Y  R  C  R  T  A  N  G  R  E  A  C  H  C  I  R  S  H  E  D  *  *  R  R  T  H  Y  *  I  C  R  E  T  A  R  R  A  I  A  S  N  E   : S  G  Y  Y  H  F  R  S  *  *  Q  E  S  *  R  N  A  F  Y  R  Q  Y  G  Y  I  C  H  *  Q  R  R  D  V  K  P  T  S  *  Q  V  S  W  G  Q  *  F  W  *  *  S  Y  S  W  C  N  F  I  W  D  E   : S  A  S  L  F  I  *  W  V  L  G  R  Y  W  Y  H  *  S  F  L  Q  C  Q  F  G  H  Y  K  K  A  G  A  R  F  *  :  L  L  R  P  I  S  P  N  L  H  P  T  S  I  F  A  T  F  K  N  A  *  C  R  C  H  R  *  C  H  W  *  R  L  C  D  Q   : E  L  *  D  S  P  F  R  G  W  A  Q  I  M  H  I  R  G  S  N  Y  R  R  L  T  F  D  G  G  R  L  L  R   : D  *  C  *  Q  E  A  A  G  C  K  G  Q  C  P  N  W  H  R  Q  E  L  S  H  Q  K  S  H  Y  R  Q  E  C  S  Y  R  G  Q  C  E   : D  H  *  Q  R  Q  C  S  R  S  G  *  G  N  R  W  I  L  H  Q  E  W  D  C  H  C  H  Q  G  C  F  D  S  K  W  N  R  H  L  K  E  R  V  I  T  W  L  P  S  K  I  L  A  K  Q  P  *  G  T  N  V  P  K  F  Y  F  P  M  L  *  K  S  S  V  H  L  A  F  M  I  L  L  I  T  W  L  L  *  K  L  F  V  *  N  K  N  K  S  T  I  T  P  D  L  L  *  S  H  F  C  F  M  F  T  C  V  S  S  S  L  Y  V  Y  S  E  K  E  L  F  V  L  H  Q  F  </second_frame>
            <third_frame>   V  I  K  C  N  H  T  L  P  H  T  L  Y  S  I  Y  S  *  E  Q  A  L  L  T  M  A  A  S  I  G  A  L  K  S  S  P  S  S  H  N  C  I  N  E  R  R  N  D  S  T  R  A  I  S  S  R  N  L  S  F  S  S  S  H  L  A  G  D  K  L  M  P  V  S  S  L  R  S  Q  G  V  R  F  N  V  R  R  S  P  L  I  V  S  P  K  A  V  S  D  S  Q  N  S  Q  T  C  L  D  P  D  A  S  R  :  S  V  L  G  I  I  L  G  G  G  A  G  T  R  L  Y  P  L  T  K  K  R  A  K  P  A  V  P  L  G  A  N  Y  R  L  I  D  I  P  V  S  N  C  L  N  S  N  I  S  K  I  Y  V  L  T  Q  F  N  S  A  S  L  N  R  H  L  S  R  A  Y  A  S  N  M  G  G  Y  K  N  E  G  F  V  E  V  L  A  A  Q  Q  S  P  E  N  P  D  W  F  Q  :  G  T  A  D  A  V  R  Q  Y  L  W  L  F  E  E  H  N  V  L  E  Y  L  I  L  A  G  D  H  L  Y  R  M  D  Y  E  K  F  I  Q  A  H  R  E  T  D  A  D  I  T  V  A  A  L  P  M  D  E  K  R  A  T  A  F  G  L  M  K  I  D  E  E  G  R  I  I  E  F  A  E  K  P  Q  G  E  Q  L  Q  A  M  K  :  V  D  T  T  I  L  G  L  D  D  K  R  A  K  E  M  P  F  I  A  S  M  G  I  Y  V  I  S  K  D  V  M  L  N  L  L  R  D  K  F  P  G  A  N  D  F  G  S  E  V  I  P  G  A  T  S  F  G  M  R  :  V  Q  A  Y  L  Y  D  G  Y  W  E  D  I  G  T  I  E  A  F  Y  N  A  N  L  G  I  T  K  K  P  V  P  D  F  S :   F  Y  D  R  S  A  P  I  Y  T  Q  P  R  Y  L  P  P  S  K  M  L  D  A  D  V  T  D  S  V  I  G  E  G  C  V  I  K  :  N  C  K  I  H  H  S  V  V  G  L  R  S  C  I  S  E  G  A  I  I  E  D  S  L  L  M  G  A  D  Y  Y  E  :  T  D  A  D  R  K  L  L  A  A  K  G  S  V  P  I  G  I  G  K  N  C  H  I  K  R  A  I  I  D  K  N  A  R  I  G  D  N  V  K  :  I  I  N  K  D  N  V  Q  E  A  A  R  E  T  D  G  Y  F  I  K  S  G  I  V  T  V  I  K  D  A  L  I  P  S  G  I  V  I  *  R  N  A  L  *  L  G  C  P  P  R  F  W  L  N  S  H  E  V  Q  T  C  R  S  F  I  F  L  C  C  R  N  L  V  Y  I  L  L  L  *  Y  F  S  L  P  G  C  C  K  N  Y  S  S  K  I  K  I  N  L  P  L  H  Q  I  C  F  D  L  T  F  A  L  C  L  L  V  F  H  H  L  C  M  F  I  V  K  K  N  Y  L  F  F  I  N  F </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="C07SLf0095A17.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="19858" stop="19574"/>
                    <exon start="18720" stop="18424"/>
                    <exon start="18138" stop="17869"/>
                    <exon start="17775" stop="17596"/>
                    <exon start="17199" stop="17096"/>
                    <exon start="16990" stop="16879"/>
                    <exon start="16270" stop="16172"/>
                    <exon start="15942" stop="15823"/>
                    <exon start="15689" stop="15573"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1581</number_coding_nucleotides>
                  <number_encoded_amino_acids>527</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EQALLTMAASIGALKSSPSSHNCINERRNDSTRAISSRNLSFSSSHLAGDKLMPVSSLRSQGVRFNVRRSPLIVSPKAVSDSQNSQTCLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAYASNMGGYKNEGFVEVLAAQQSPENPDWFQGTADAVRQYLWLFEEHNVLEYLILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIPGATSFGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIVI*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 8 chains have been computed
$ 
$ memory statistics:
$ 5072 bytes spliced alignments in total
$ 2 spliced alignments have been stored
$ 2536 bytes was the average size of a spliced alignment
$ 5784 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5784 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 9 backtrace matrices have been allocated
$ 
$ date finished: 2009-07-24 21:49:02
-->
