<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-12-01 06:04:48"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C00HBa0207A03-LmqE2/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C00HBa0207A03-LmqE2/gth_cdna_fileCXGN::TomatoGenome::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-C00HBa0207A03-LmqE2/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At4g13430" ref_strand="+" ref_description="C2_At4g13430">
      <seq>gttggagcccttagtggctaagcctcattctcctgataatcgtgctttggcaagagaatgcaaagatgtcaaaatcgacagagtatatattggatcttgtactggtggaaagacagaggacttcatggctgctgcaaaagtttttctagcttccggaaagaaggtaaaggttcccactttccttgttcctgctacccaaaaggtatggatggatgtatatagcctcccagttccaggatcaggtgggaaaacatgttcccagatttttgaggaggcaggttgcgatacacctgcaagtcctagttgtggtgcttgtttgggtggccctaaagacacttatgcacgcatgaatgaagctcaggtctgtgtatcaaccacgaataggaacttccctggtcgaatgggacacaaggaaggccaaatttatcttgcatccccgtacacagctgcagcatcagcattgaccggttatgtcactgatccccgagagtttttgcaatgaagttcctcgttttaggagtttggattatgttgtacactaacagatgagtgaatcttaagcttttagtgcttgtttattcctgaaaagggcaatgaatgctcttctgcaataaaatgagaactcctaatttctgtcttaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0207A03-LmqE2/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C00HBa0207A03.2" temp_strand="+" temp_description="C00HBa0207A03.2  CU468268.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0207A03 upload_account_name:france">
        <position start="4514" stop="8745"/>
      </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="4814" g_stop="4835" g_length="22"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="22" r_length="22" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="4836" i_stop="5106" i_length="271">
            <donor d_prob="0.856" d_score="0.00"/>
            <acceptor a_prob="0.976" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="5107" g_stop="5238" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="23" r_stop="154" r_length="132" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="5239" i_stop="6435" i_length="1197">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.830" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6436" g_stop="6483" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="155" r_stop="202" r_length="48" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="6484" i_stop="6582" i_length="99">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="6583" g_stop="6741" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="203" r_stop="361" r_length="159" r_score="0.994"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="6742" i_stop="8129" i_length="1388">
            <donor d_prob="0.663" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="8130" g_stop="8368" g_length="239"/>
          <reference_exon_boundary r_type="cDNA" r_start="362" r_stop="590" r_length="229" r_score="0.921"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="8369" i_stop="8733" i_length="365">
            <donor d_prob="0.000" d_score="0.88"/>
            <acceptor a_prob="0.959" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="8734" g_stop="8745" g_length="12"/>
          <reference_exon_boundary r_type="cDNA" r_start="591" r_stop="602" r_length="12" r_score="0.667"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="640" polyA_stop="670"/>
      <MATCH_line gen_id="C00HBa0207A03.2" gen_strand="+" ref_id="C2_At4g13430" ref_strand="+">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>612</cumulative_length_of_scored_exons>
        <coverage percentage="0.913" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0207A03.2" gen_strand="+"/>
        <rDNA rDNA_id="C2_At4g13430" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="4814" e_stop="4835"/>
          <exon e_start="5107" e_stop="5238"/>
          <exon e_start="6436" e_stop="6483"/>
          <exon e_start="6583" e_stop="6741"/>
          <exon e_start="8130" e_stop="8368"/>
          <exon e_start="8734" e_stop="8745"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGGAGCCCTTAGTGGCTAAGGTTGGTTATGTTTTAGCTTTCTTTCTTTGGGGATTCATCAATGGTATTAACAGTGTTTTAGTTGTGTGTGTGTAACTCATACGGCAGAAAAAATTGAACTTAAAATTTTATATTATCAAACAATCAAGAATGCTAGTGCAACTGTCGTTGCAGATATTTAAGATATTCTGTATTGTTTAATATTCTGGTTTTATTTTCTCTGGAGATGGATTTCTACTCATTCTAAATACTACCCGTTCCAAATGTTCTAAACCTCCTGTGCCTCCTGCAGCCTCATTCTCCTGATAATCGTGCTTTGGCAAGAGAATGCAAAGATGTCAAAATCGATAGAGTATATATTGGATCTTGTACTGGTGGAAAGACAGAGGACTTCATGGCTGCTGCAAAAGTTTTTCTAGCTTCCGTAAGATTACTCCAATAAACCAATAATTACTCATTTTTACGATTTTTATATCAGTTTAGACTACATCGGTGTTATGTGGACTTTGCTATGAGTGTGGGATGCAATTTCTTTTGACAGGGGGATGTTTAGTTTCTAAAATTTAATCCTGAAGGAACCGTATGTAGTAGCCATATCCTTGTTATGCTCATTTGATGAGTACATCAAGGCGGTTGAAAGGTCTTCACAATGTGGAATTTATAGCCATTAACAAAAATGTTTCTTAAAATAGAATTCACAATTAATGGCCTAAACTGCTTCTAGATGACTGCAGTATGCTATAAATTATGACCAACAGTCTTGAATAATGGTTTGCTTCCATTTGGGAGAAACTGGAAACTTATATCGATGCATGTTGTAATCAGTCAATTGTTTAGTAATATCTCACAGTTTTACCTGTTTTCTCTATGAGCTATGATCTCTCTCAATCAATGTTGACTTAACTAAGAACAAAATACAGTAGGTCAATGTAGCCAATATCAACTAGGCATGATTAAGACTTAAATGCTATTGTATTTAAATTAGGTTTTCTGTTTGTGAGGAGTCCTTTTTTCTTGGTTAGACTTTTTTATGGCCATGTAGGCATAAATGGTTAAGACAACTTTTTATTGCTTGAATGAAATTGGCTTGAATAGAGTGGAACAAATATGGAGGATTAATATAACCAATTGCATCTAGTTTGGAATCGATGCTTAGATATTCGATTGATTTGACTTTACACCCTCACCATTTATCCACTTTGTCGTCTGCATTGACTCAATAGTTGAGGTGCATGATGTAATGCCGATTTCCACATTAGGCCACTTGTCTTTTCTGCAAGTCTATGTTCTCTTCTGTAGATTTGTTCTTGTCCTATATTGGCTGATTACTATATATGTAACATTAGGCCACTTGTCTTTTCTGCAAGTCTATGTTCTCTTCTGTAGATTTGTTCTTGTCCTATATTGGCTGATTACTATATATGTGTGCAGTGATGCTCCACTATGTTTCACAATTATCTCACACTATTATGCTTAATTTCTCACTTTTTATGGCAATTTTTCCTTGTTCATTTTTGCTCCCACACCTGCAGGGAGAGGAAATACTTGCTCATTTTTCATGATTAAAGTCTTCCAGATGTTAGATATTTCAGGTTTAAACGAATGACCATGTCTTATGCAGGGAAAGAAGGTAAAGGTTCCCACTTTCCTTGTTCCTGCTACCCAAAAGGTTCGTAATCTTATTTTTTATCCTAGGACTTTGTTGGTATCTTAGCTGCGATATCATTGCAGAAGTAACCATATGATGTAAATATTGAAACTGTTTCAGGTATGGATGGATGTATATAGCCTCCCAGTTCCAGGATCAGGTGGCAAAACATGTTCCCAGATTTTTGAGGAGGCAGGTTGCGATACACCTGCAAGTCCTAGTTGTGGTGCTTGTTTGGGTGGCCCTAAAGACACTTATGCACGCATGAATGAAGCTCAGGCAAGTTGTTGGTTGTTTCATATGAGTTGTTAAGTTGCCATTAATATGCTAGGGACATTTGGCTTTGACTATACATCATTGGGTTGTTTGTGACAAACAGGATATTTCATAGCGAAATTTTCCTTGAGCAGGAATAACTTAGTTCAATCTTATACCACGTAGTTGAATATTTATTTGGTTCACCACACATTGGACACCTCACAAGCTGGAAAGCATTGCTAGTTTATAGTGGTGACATCGTTTAACATGGCATTAATTCAGACTATTTATTGCTTTACCCTCCTTCCAGATTATTGACCTGGTTTTAGTGAAGGACTTGCATATCTAAGTTAAATTAGCATCCGTAACCGGTAGTGTACAATGCTGATCCTTAGATCTGTTAGGTGCGTTGTTGGTTGATTATTCTTTACGCGTTTTAGTCATTGTTGGGAGGTTGTTGGCGGGTTAGTAAATTTTTGAAGCGTTTTCCATGTTTCTTCTTTTTGTTTTTTGTTTCCTTTTCCATTCTCGGTTTCTTACTGAATGCTTAAGCCTTAACATCCACACAATTCTTATAGATATTTGCTTGCTATTTTCATTCTCCTTTGGCGCGGGCTCTAGAACCTAGGTTCTCTAGATGCAAAACCTTTCAGTCCACGATGATTTGTTTTTACTTGAGAGCTTTTTTCAAAACCGATATAGTGAACAGATATCATCATTTCAGTTTGGTTTTTCTGGTTTTGGAGAGCCATAAAATAGATTCTCGACGTGAATCCAACTTTTCTGTCCAAGACAATTTTTTCACTGGAGGTTTTCTTTAATCTAAATATAGTGGGCAAATGTTATCACGTCACTTTTACCTTTCTGGTTTGGGTCTTATAAATTCGAATACCAGGATGACCTCCTGTTGTTTTGAGTTAATGGTAAAAGCACACCTAAGCTATCATTTTTTTGCAATTTTTACTTTTCCAACTATCCGTTGTTTCTTTTACCCACCTAAACTATCACTCCCTTGTATTAGAACACTCCTCAATAGTGACTTGGCCAAATATTGTTCCCACTCAACAGCAGGCTCGTGTAGGCCAACTCAGCATTGAGGTGTGTTTTTAATTCAAAAAGAGTGATAGTTTAGACGAAGGTAAATGGAACAATGGATAGTTGAGGTATAAAACCTCATGAACATGTGATAGTTTAGGTGTGTTTTCGAGAGAATTCAACCTTGAAATTAACATAATCGTAAAGGGAATAGGGGACGGTCTCAGAACAAGAAACATACCAGCATTATCTGAATTTTGCATAAACTGCCTTTCTATTTTCCGAGTTCAGGCAGCCCTAAAATTGTTGGAAGGAGTCAAACTTGTCATGGCAATGTAGGTCGTTACCTAACTCTATGAATGATTGTCTTGCAGGTCTGTGTATCAACCACGAATAGGAACTTCCCTGGTCGAATGGGACACAAGGAAGGCCAGATTTATCTTGCATCTCCGTATACAGCTGCAGCATCAGCATTGACCGGTTATGTCACTGATCCCCGAGAGTTTTTGCAGTGAAGTTCCTCGATGACCTCGTTTTAGGAGTTTGGATTATGTTGTACACTAACAGATGAGTGAATCTTGAGCTTTTGATGCTTATATATTCCTGAGAAAGGTCGCGCTCGATGTGTTTCTCTTTTTTCTCTTTACTCCCAAGAAATGAATGCTCTTCTGCATTAAAATGAGAACTCCTTGATTCCTAATTTCTGTCTTCTTTGTTGTATTCTTGGAGTCTTATTGTTAAAAGCATTGAAATAAGAATTTGTTTCTGGAAATAATTACTCCTTTTTTTGTTTTTCTTCCTTGAAGTAGTAATAGCAAGACAAGTTTCAGATTCCGCGGGTGAAACTCTATGATAATATTCTAGAATTTCACCGTTCGTACTTGAAAAAAGACTATTTTTCAATTACAGGCGCTGAAAAGTAGCTATTTGTGAATTTCACTACTTTGCTAGTTGACCACTTTTACCACTTGTGAAAAGGAGATGAGTGCC</genome_strand>
        <mrna_strand>GTTGGAGCCCTTAGTGGCTAAG...............................................................................................................................................................................................................................................................................CCTCATTCTCCTGATAATCGTGCTTTGGCAAGAGAATGCAAAGATGTCAAAATCGACAGAGTATATATTGGATCTTGTACTGGTGGAAAGACAGAGGACTTCATGGCTGCTGCAAAAGTTTTTCTAGCTTCC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGAAAGAAGGTAAAGGTTCCCACTTTCCTTGTTCCTGCTACCCAAAAG...................................................................................................GTATGGATGGATGTATATAGCCTCCCAGTTCCAGGATCAGGTGGGAAAACATGTTCCCAGATTTTTGAGGAGGCAGGTTGCGATACACCTGCAAGTCCTAGTTGTGGTGCTTGTTTGGGTGGCCCTAAAGACACTTATGCACGCATGAATGAAGCTCAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTGTGTATCAACCACGAATAGGAACTTCCCTGGTCGAATGGGACACAAGGAAGGCCAAATTTATCTTGCATCCCCGTACACAGCTGCAGCATCAGCATTGACCGGTTATGTCACTGATCCCCGAGAGTTTTTGCAATGAAG----T---T--CCTCGTTTTAGGAGTTTGGATTATGTTGTACACTAACAGATGAGTGAATCTTAAGCTTTTAGTGCTTGTTTATTCCTGA-AAAGG.............................................................................................................................................................................................................................................................................................................................................................................GCAATGAATGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>1</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="4814" PGL_stop="8745"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="4814" e_stop="4835"/>
            <exon e_start="5107" e_stop="5238"/>
            <exon e_start="6436" e_stop="6483"/>
            <exon e_start="6583" e_stop="6741"/>
            <exon e_start="8130" e_stop="8368"/>
            <exon e_start="8734" e_stop="8745"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.856" acc_prob="0.976" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.830" e_score="0.992"/>
          <exon-intron don_prob="0.999" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.663" acc_prob="0.998" e_score="0.994"/>
          <exon-intron don_prob="0.000" acc_prob="0.959" e_score="0.921"/>
          <exon-only e_score="0.667"/>
        </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="4814" e_stop="4835" e_length="22"/>
          </exon>
          <intron i_serial="1" don_prob="0.856" acc_prob="0.976">
            <gDNA_intron_boundary i_start="4836" i_stop="5106" i_length="271"/>
          </intron>
          <exon e_serial="2" e_score="0.992">
            <gDNA_exon_boundary e_start="5107" e_stop="5238" e_length="132"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.830">
            <gDNA_intron_boundary i_start="5239" i_stop="6435" i_length="1197"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="6436" e_stop="6483" e_length="48"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.995">
            <gDNA_intron_boundary i_start="6484" i_stop="6582" i_length="99"/>
          </intron>
          <exon e_serial="4" e_score="0.994">
            <gDNA_exon_boundary e_start="6583" e_stop="6741" e_length="159"/>
          </exon>
          <intron i_serial="4" don_prob="0.663" acc_prob="0.998">
            <gDNA_intron_boundary i_start="6742" i_stop="8129" i_length="1388"/>
          </intron>
          <exon e_serial="5" e_score="0.921">
            <gDNA_exon_boundary e_start="8130" e_stop="8368" e_length="239"/>
          </exon>
          <intron i_serial="5" don_prob="0.000" acc_prob="0.959">
            <gDNA_intron_boundary i_start="8369" i_stop="8733" i_length="365"/>
          </intron>
          <exon e_serial="6" e_score="0.667">
            <gDNA_exon_boundary e_start="8734" e_stop="8745" e_length="12"/>
          </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="4814" stop="4835"/>
              <exon start="5107" stop="5238"/>
              <exon start="6436" stop="6483"/>
              <exon start="6583" stop="6741"/>
              <exon start="8130" stop="8368"/>
              <exon start="8734" stop="8745"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At4g13430" 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>GTTGGAGCCCTTAGTGGCTAAG : CCTCATTCTCCTGATAATCGTGCTTTGGCAAGAGAATGCAAAGATGTCAAAATCGATAGAGTATATATTGGATCTTGTACTGGTGGAAAGACAGAGGACTTCATGGCTGCTGCAAAAGTTTTTCTAGCTTCC : GGAAAGAAGGTAAAGGTTCCCACTTTCCTTGTTCCTGCTACCCAAAAG : GTATGGATGGATGTATATAGCCTCCCAGTTCCAGGATCAGGTGGCAAAACATGTTCCCAGATTTTTGAGGAGGCAGGTTGCGATACACCTGCAAGTCCTAGTTGTGGTGCTTGTTTGGGTGGCCCTAAAGACACTTATGCACGCATGAATGAAGCTCAG : GTCTGTGTATCAACCACGAATAGGAACTTCCCTGGTCGAATGGGACACAAGGAAGGCCAGATTTATCTTGCATCTCCGTATACAGCTGCAGCATCAGCATTGACCGGTTATGTCACTGATCCCCGAGAGTTTTTGCAGTGAAGTTCCTCGATGACCTCGTTTTAGGAGTTTGGATTATGTTGTACACTAACAGATGAGTGAATCTTGAGCTTTTGATGCTTATATATTCCTGAGAAAGG : GAGATGAGTGCC</gDNA_template>
            <first_frame> V  G  A  L  S  G  *   : A  S  F  S  *  *  S  C  F  G  K  R  M  Q  R  C  Q  N  R  *  S  I  Y  W  I  L  Y  W  W  K  D  R  G  L  H  G  C  C  K  S  F  S  S  F   : R  K  E  G  K  G  S  H  F  P  C  S  C  Y  P  K   : G  M  D  G  C  I  *  P  P  S  S  R  I  R  W  Q  N  M  F  P  D  F  *  G  G  R  L  R  Y  T  C  K  S  *  L  W  C  L  F  G  W  P  *  R  H  L  C  T  H  E  *  S  S   : G  L  C  I  N  H  E  *  E  L  P  W  S  N  G  T  Q  G  R  P  D  L  S  C  I  S  V  Y  S  C  S  I  S  I  D  R  L  C  H  *  S  P  R  V  F  A  V  K  F  L  D  D  L  V  L  G  V  W  I  M  L  Y  T  N  R  *  V  N  L  E  L  L  M  L  I  Y  S  *  E  R  :  E  M  S  A </first_frame>
            <second_frame>  L  E  P  L  V  A  K  :  P  H  S  P  D  N  R  A  L  A  R  E  C  K  D  V  K  I  D  R  V  Y  I  G  S  C  T  G  G  K  T  E  D  F  M  A  A  A  K  V  F  L  A  S  :  G  K  K  V  K  V  P  T  F  L  V  P  A  T  Q  K  :  V  W  M  D  V  Y  S  L  P  V  P  G  S  G  G  K  T  C  S  Q  I  F  E  E  A  G  C  D  T  P  A  S  P  S  C  G  A  C  L  G  G  P  K  D  T  Y  A  R  M  N  E  A  Q  :  V  C  V  S  T  T  N  R  N  F  P  G  R  M  G  H  K  E  G  Q  I  Y  L  A  S  P  Y  T  A  A  A  S  A  L  T  G  Y  V  T  D  P  R  E  F  L  Q  *  S  S  S  M  T  S  F  *  E  F  G  L  C  C  T  L  T  D  E  *  I  L  S  F  *  C  L  Y  I  P  E  K  G :   R  *  V   </second_frame>
            <third_frame>   W  S  P  *  W  L  S :   L  I  L  L  I  I  V  L  W  Q  E  N  A  K  M  S  K  S  I  E  Y  I  L  D  L  V  L  V  E  R  Q  R  T  S  W  L  L  Q  K  F  F  *  L  P :   E  R  R  *  R  F  P  L  S  L  F  L  L  P  K  R :   Y  G  W  M  Y  I  A  S  Q  F  Q  D  Q  V  A  K  H  V  P  R  F  L  R  R  Q  V  A  I  H  L  Q  V  L  V  V  V  L  V  W  V  A  L  K  T  L  M  H  A  *  M  K  L  R :   S  V  Y  Q  P  R  I  G  T  S  L  V  E  W  D  T  R  K  A  R  F  I  L  H  L  R  I  Q  L  Q  H  Q  H  *  P  V  M  S  L  I  P  E  S  F  C  S  E  V  P  R  *  P  R  F  R  S  L  D  Y  V  V  H  *  Q  M  S  E  S  *  A  F  D  A  Y  I  F  L  R  K   : G  D  E  C  </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="C00HBa0207A03.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="4815" stop="4835"/>
                    <exon start="5107" stop="5238"/>
                    <exon start="6436" stop="6483"/>
                    <exon start="6583" stop="6741"/>
                    <exon start="8130" stop="8270"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>498</number_coding_nucleotides>
                  <number_encoded_amino_acids>166</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LEPLVAKPHSPDNRALARECKDVKIDRVYIGSCTGGKTEDFMAAAKVFLASGKKVKVPTFLVPATQKVWMDVYSLPVPGSGGKTCSQIFEEAGCDTPASPSCGACLGGPKDTYARMNEAQVCVSTTNRNFPGRMGHKEGQIYLASPYTAAASALTGYVTDPREFLQ*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 3 chains have been computed
$ 
$ memory statistics:
$ 2024 bytes spliced alignments in total
$ 1 spliced alignments have been stored
$ 2024 bytes was the average size of a spliced alignment
$ 5688 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5688 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 3 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 06:04:51
-->
