<?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 06:12:53"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C00HBa0230N10-xPm7m/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C00HBa0230N10-xPm7m/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-C00HBa0230N10-xPm7m/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At4g33210" ref_strand="+" ref_description="C2_At4g33210">
      <seq>ataacatcagcttccatggctgccatagcccatagctatatgttagaggttctggagcttgataattgcagtttattgacatcagtgtccttggatcttcctcgccttcagagcatcagactagtacattgtcgcaagtttattgaccttaacttgcattgtggaatgttatcgtcaattactgtttctaattgcccattgcttcatcgaatcaatataacttcaagtgcactcaaaaaattagttttgcagaagcaggaaagcttgacaacaattgcattacagtgtccgaatttgctagaagtagaccttactgagtgtgaatcgctcaccaattctatttgtgaagttttcagtgatggtggtggctgtcctgtgcttaaatccttagttctagataactgtggagagcttgacacttgtggctttctgcagcacttctttggtttctctttcacttggtggttgccgtgctttaatttctcttgcacttagttgccgatatcttgaacaagtctctttagatggttgtgatcatcttgaagtagcatcattttgcccagttggtcttaggtcacttaatcttggtatatgccccaaaatgaatatgctccatattgaagctccacaaatggcttcacttgagctgaagggctgtggtgtgctatctgaagcatctattaattgccccctgttaacctcttttgatgcttcattctgcagccaactcaaggatgattgtttatctgccacggcttcgtcgtgccccctcatcgagtcattagtattaatgtcatgtccatctgttggctgtgatggactcctctctttgcagtccctcccaaacttgacctaccttgatctatcctatacgtttttggttaccctgcaacctgtttatgaatcatgcttgcagttaaaggtcctaaagttgcaagcatgcaagtatctcactgatacatctttggaacccctctataaagaaaatgctctcccagccctttgtgagttggatttgtcgtatgggaccttatgccaatcagccattgaggaattgcttgcttactgcacacatttgagtcatgtcagcttgaatggatgtattaatatgcatgatttaaattggggatttactggagatcaactgtcgcatatac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0230N10-xPm7m/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C00HBa0230N10.2" temp_strand="-" temp_description="C00HBa0230N10.2  CU457764.9 htgs_phase:3 submitted_to_sgn_as:C04HBa0230N10 sequenced_by:sanger upload_account_name:uk">
        <position start="70931" stop="65468"/>
      </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="70631" g_stop="70584" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="48" r_length="48" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="70583" i_stop="70487" i_length="97">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="0.979" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="70486" g_stop="70398" g_length="89"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="137" r_length="89" r_score="0.989"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="70397" i_stop="70289" i_length="109">
            <donor d_prob="0.197" d_score="0.98"/>
            <acceptor a_prob="0.712" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="70288" g_stop="70189" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="138" r_stop="237" r_length="100" r_score="0.960"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="70188" i_stop="70091" i_length="98">
            <donor d_prob="0.935" d_score="0.94"/>
            <acceptor a_prob="0.981" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="70090" g_stop="69920" g_length="171"/>
          <reference_exon_boundary r_type="cDNA" r_start="238" r_stop="409" r_length="172" r_score="0.977"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="69919" i_stop="68344" i_length="1576">
            <donor d_prob="0.947" d_score="0.94"/>
            <acceptor a_prob="0.966" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="68343" g_stop="68191" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="410" r_stop="562" r_length="153" r_score="0.967"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="68190" i_stop="68029" i_length="162">
            <donor d_prob="0.990" d_score="0.96"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="68028" g_stop="67868" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="563" r_stop="723" r_length="161" r_score="0.988"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67867" i_stop="67785" i_length="83">
            <donor d_prob="0.877" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67784" g_stop="67586" g_length="199"/>
          <reference_exon_boundary r_type="cDNA" r_start="724" r_stop="922" r_length="199" r_score="0.990"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67585" i_stop="66003" i_length="1583">
            <donor d_prob="0.928" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="66002" g_stop="65768" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="923" r_stop="1157" r_length="235" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0230N10.2" gen_strand="-" ref_id="C2_At4g33210" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>1156</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0230N10.2" gen_strand="-"/>
        <rDNA rDNA_id="C2_At4g33210" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="70631" e_stop="70584"/>
          <exon e_start="70486" e_stop="70398"/>
          <exon e_start="70288" e_stop="70189"/>
          <exon e_start="70090" e_stop="69920"/>
          <exon e_start="68343" e_stop="68191"/>
          <exon e_start="68028" e_stop="67868"/>
          <exon e_start="67784" e_stop="67586"/>
          <exon e_start="66002" e_stop="65768"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAACATCAGCTTCCATGGCTGCCATAGCCCATAGCTATATGTTAGAGGTTTGTCTCTTTCCTCACCCTTTTCATACTGGTAGCCGTGCTGTAACCAGGAGTCCTTACATTCATATTGAACAGTGAATTTCACTTTTTTTTTCAGGTTCTGGAGCTTGATAATTGCAGTTTATTGACATCAGTGTCCTTGGATCTTCCTCGCCTTCAGAGCATTAGACTAGTACATTGTCGCAAGTATGATACAGGCTTTACAGTCTCCATATCCAGTCTCAAGGGAACTTCTTTCCGTCCCTTGATTGCCGTCACTCTTTTGTGCAGTAACCTACTGTTTATATTGAAACAGGTTTATTGACCTTAACTTGCATTGTGGAATGTTATCATCAATTACTGTTTCTAATTGCCCATTGCTTCAAAGAATCAATATAACTTCAAGTGCTCTCAAAGTAAGTGTATTCCTAGATGTTATATATTGTCATCTTATTTTATTGACTAGAATTATTCTATTCATTGAATAATATTTCTCTCCTTCATCATTCCACAGAAATTAGTTTTGCAGAAGCAGGAAAGCTTGACAACAATTGCATTACAGTGTCCGAATTTGCTAGAAGTAGACCTTACTGAGTGTGAATCGCTCACCAATTCTGTTTGTGAAGTTTTCAGTGATGGTGGTGGCTGTCCTGTGCTTAAATCCTTAGTTCTGGATAACTGT-GAGGTTGGCAATTTTAGTTCCTCATTGCTAACTTGTGCATTCTTGGTTGTTATTTTTCTAAACCTATCGATATATATGATCTCTTCTTAGTTTTGCTTGTCAACGGAAGGTGGTTCACTTAAGCCGAGTACATTTGTAAGAGTTTGTTTTTGTACTCATGTATATCAATGTGGTTATGGACCTATGATCATAGTGCCATTTTTGCTTTTCTTGTAACAGATACTGGTGATTCTTTTTTATGCATGTTTCCTAGTAAATAAATATAGTACTGAATTATGACAATCAATAATCAGGTATTTTAATTAGTAATCATGAAAGATGATGAAAGGAAAAAAGTATGATCCAAGTGTACTGACCGTTGTGTCATCTGGTTGTGCTTTTTTATTTGCTGTAAGCCTGGGAAGGCGTCAGCCTGGGAAGGCGTTCTACTGGGTGTGCTAAGGGCTCGTTTGATATGAGGGATAAGAGATTACTGATTCCAGGATTAGTTTTAGGATGAGTTTATCCCATGTTTGGTTGGGATAAAATCGAGGGATAACTTATCCCGGTATTGTAGTGTCATTCTTATCCCACATTGAGGATGGGATAAGAACCCTGGACAACTTGTTGCGAGACTCTCCTTCAGTAACTCAGAGAAGTTAAAAAATATTGAAATTGTTCAAGAGGTGAAGCGGGAAAGATGAAAAGTTCTAATTCCTTTGTTTTGGGATTAAGGATAGTGATTATGTATTCCTATATTTACCAGTAGTGTTTATTTTATGCTCACATTTTTAAATTGGCTTGAAGTATTTTTATCTTGTCAAAATATAACTATTAGGGTTAACGTCTTTCTTGGTATCATAAGCTCTTTGTTTCTTTCAACATTTTGATTAGATACATGGGAGTTCTTAAGGGAACGGTTTAAGCTGAACTATAACATGAGAACTATTACCCAGATGGAAGAAGAAAATAGTTCACCTTTTTTTTTCCTGATTCAATTAGAGCTGATGTCACACCATTTAAAGAAAATGTCAAAGCGGAATTTTCTTTTGAAGCTTGATGAAAATATGTACTACTCTTCCAATCAAGATTCCCTTTTATTTGATTTTTGGTGATCAAGAAAAGCAAGGCTGAATTAGGTTTGGGTTTGACATTGCAGTTTCTTAGAGATGTTCAAAATAATGAACTACATTTGTCAATATTCTGGTAGATTATTGAAGAAATTAACAAAAGATAAGTATTATATTTCGGTTATCGTCTCTCCCTCCCCCATGTCCCCTCCCCCCTCCTGGGAATAAGGGGGCCCCACCTGGTGAGAGAGAGTAATATATTCATGTTGCACCCTCCTGGGGAAAAGGGGGCTGAGAGAGGGAAAGGTTTCTACTGTTTTAGAGTGGGTCCTGATTAGCGTTCGCCTTCTGTGTTCTTTTTTCTTCCAGATCTGTTTAGGCTAACACCTATTCAGAAAAGATTTTTTTTTTATATTGAAAGTGAATAATGATATATTTCTGCCTATTCAACTTGAAAGATCCTGCTGTATCTATGTAATATTTGTATGTGTTGTTATGGTCCAAATCTAATTGCGGTCTTTTTTTTTCAGAGCTTGACACTTGTGGCTTTCTGCAGCACTTCTTTGGTTTCTCTTTCACTTGGTGGTTGCCGTGCTTTAATTTCTCTTGCGCTTAGGTGCCCATATCTTGAACAAGTATCTTTAGATGGTTGTGATCATCTTGAAGTAGCATCATTTTGCCCCGTAAGTGATCATCAACTCCTTCCTCTTTTCTATACATCATCTCTGGGTTTGAGACTGAGTTGTATGTTCACCTGCTGATTTTATGATTGTTAATTTGTTACACATGCATTTTTTTCTTTATTTATATCCAAGTGGTTTGATAAATGTGTGCTCTTATTCCAGGTTGGTCTTAGGTCACTTAATCTTGGTATATGCCCCAAAATGAATATGCTTCATATTGAAGCTCCACAAATGGCTTCACTTGAGCTGAAGGGCTGTGGTGTGCTCTCTGAAGCATCTATTAATTGCCCCCTGTTAACCTCTTTTGATGCTTCATTCTGCAGGTTGCTTACTTTCTCTCGGCTGTCACACGTGCATATTTTTTTTAGTTCTGTCACATCTCATTAATTTCTTTCCATATATGCAGCCAACTCAAGGATGATTGTTTATCTGCCACGACTTCGTCGTGCCCCCTCATCGAGTCATTAGTATTAATGTCATGTCCATCTGTTGGCTGTGATGGACTCCTCTCTTTGCAGTCCCTCCCAAACTTGACCTACCTTGATCTATCCTATACGTTTTTGGTTACCTTGCAACCTGTTTATGAATCATGCTTGCAGTTAAAGGTAACTTCTATCACCTAAGCATATTATCACTTTCTCCATTACAGTGGGAAGCTAGATGAACTTAATTTAACACTCTATTTTGTGGAAAAAGTATGCCTATTTATCTAGTGTAGACTCTTCTAGATCTATGGGCCCTTTCCTATCTTTTTTTCTATTGGTATCAATGGGATGCGCTGGCTTAAGTTTGTGCTGATTAAAATACCTAACTACAAAATTTACTCATGTTAAGATGGGATGAACACACGGTCATAAGCCAATTACTTTAATCTCTCCTTTTCCTTTTTCTGTTCTCCTTTTTTCCCTCTTGCAGTATAAGCTAAAACACATGGATGTAAGTAACAATTTGTGAATCAGTTCTGACTGATTGAAAGTTTATTTCAGTAGAACTGATTTTATTTTGACTATTGCAAATTTAATAATCATTGTTTGTGGCCATATTTTTCGGGAACTAGAAGTGGTTTTTTTTCCTTTAGTTTTTTGTTAGTTAAGGTGTTTGACCATTCTTCTTGGAAAAGAAATGTGATCTTTAGTACCATAAGCTGTTTCTCTGTTGTGGCTAAGAAGTCAACTTTGAAGCTTTTCATTAAGCAGAAGAAGATGCAGAACCACAAAATTTCAAATTTTCAATACAAAATACCATTATAATTTTCTTACCAAGTTATACCACAGTACTGACGGGTGCCAACTGTATTAATTTAAAGAGGAAAGCCCGGTGCATTATGCTCTGGGTCCGGAGAACGGCCGGATCACTAGGGTCTATTATAGACAGCCTTAGGCTTTAGCTTTTACCTGCTCTGGTGGAGCTGGAACAACAGAAACTGTAAAGAGCAATCAGAAAACTTGTAAGAGGTTTCCATTTTGCATTGAAAAGAACTCTAGTTGGAGGGCAAGGGAAAGAGAGTCAACAAAGTATAGAATAAGATTGTAGATTGTTGGACTTCTAAAATCTACAGTTATATTAGCTGTTGATGGAGTAGGATATTGTAATGCTATTCCAGGACTGATGATGTTGTCTCTGTTCTCAAATAGTTGTGTCACTTGGCTGGATTGTTTATAAATGCACTTGTTAAATATTACGAAACTCTAGACTAGAATTTCCACCTTAACTGTTTCATTATCGGCCCTCCTTTTTAGACCCTTGAAGATGGACGGCCTGGAATTGTGGAAGTTAAATGTGGGATCCAGTTACTGTAGGCATTCTATTGTTCTTTTTTATTTTGGAGTGTAACATCTGAATATTTCTACTTTCCAACAGATGCTTTAACTTTTCCATATCCAATGTTTGCCATTGTCTTGTACCCAATTTGTTTCAGTGCAAGGGCTTGAGTTCTTCCCTGTATGCAGATTTTCTAATGCTATATCTGAAATTTTCTGATGCGACTCTAGTTTAGCAACGCAAGTGTGTTTCTCTTTTTTGCTGCACTAGGCACATCCTTATTGCTTTTGGGAAAAACTTTTTGGATCTGCATGATACATTGTTGGGCTTTTTTGGCTTACTGCCCCTCACCCCCACCCCCACCTTCCTTTTTTAACCCCTCTCTAAGGTTTTTTATATATATATCTATATATATGTTATGTTGTAGGTCCTAAAGTTGCAAGCATGCAAGTATCTCACTGATACATCTTTGGAACCCCTCTATAAAGAAAATGCTCTTCCAGCCCTTTGTGAGTTGGATCTGTCGTATGGGACCTTATGCCAATCAGCCATTGAGGAATTGCTTGCTTGCTGCACACATTTGAGTCATGTCAGCTTGAATGGATGTATTAATATGCATGATTTAAATTGGGGATTTTCTGGAGATCAACTGTCACAAATAC</genome_strand>
        <mrna_strand>ATAACATCAGCTTCCATGGCTGCCATAGCCCATAGCTATATGTTAGAG.................................................................................................GTTCTGGAGCTTGATAATTGCAGTTTATTGACATCAGTGTCCTTGGATCTTCCTCGCCTTCAGAGCATCAGACTAGTACATTGTCGCAA.............................................................................................................GTTTATTGACCTTAACTTGCATTGTGGAATGTTATCGTCAATTACTGTTTCTAATTGCCCATTGCTTCATCGAATCAATATAACTTCAAGTGCACTCAAA..................................................................................................AAATTAGTTTTGCAGAAGCAGGAAAGCTTGACAACAATTGCATTACAGTGTCCGAATTTGCTAGAAGTAGACCTTACTGAGTGTGAATCGCTCACCAATTCTATTTGTGAAGTTTTCAGTGATGGTGGTGGCTGTCCTGTGCTTAAATCCTTAGTTCTAGATAACTGTGGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCTTGACACTTGTGGCTTTCTGCAGCACTTCTTTGGTTTCTCTTTCACTTGGTGGTTGCCGTGCTTTAATTTCTCTTGCACTTAGTTGCCGATATCTTGAACAAGTCTCTTTAGATGGTTGTGATCATCTTGAAGTAGCATCATTTTGCCCA..................................................................................................................................................................GTTGGTCTTAGGTCACTTAATCTTGGTATATGCCCCAAAATGAATATGCTCCATATTGAAGCTCCACAAATGGCTTCACTTGAGCTGAAGGGCTGTGGTGTGCTATCTGAAGCATCTATTAATTGCCCCCTGTTAACCTCTTTTGATGCTTCATTCTGCAG...................................................................................CCAACTCAAGGATGATTGTTTATCTGCCACGGCTTCGTCGTGCCCCCTCATCGAGTCATTAGTATTAATGTCATGTCCATCTGTTGGCTGTGATGGACTCCTCTCTTTGCAGTCCCTCCCAAACTTGACCTACCTTGATCTATCCTATACGTTTTTGGTTACCCTGCAACCTGTTTATGAATCATGCTTGCAGTTAAAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCTAAAGTTGCAAGCATGCAAGTATCTCACTGATACATCTTTGGAACCCCTCTATAAAGAAAATGCTCTCCCAGCCCTTTGTGAGTTGGATTTGTCGTATGGGACCTTATGCCAATCAGCCATTGAGGAATTGCTTGCTTACTGCACACATTTGAGTCATGTCAGCTTGAATGGATGTATTAATATGCATGATTTAAATTGGGGATTTACTGGAGATCAACTGTCGCATATAC</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="70631" PGL_stop="65768"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="70631" e_stop="70584"/>
            <exon e_start="70486" e_stop="70398"/>
            <exon e_start="70288" e_stop="70189"/>
            <exon e_start="70090" e_stop="69920"/>
            <exon e_start="68343" e_stop="68191"/>
            <exon e_start="68028" e_stop="67868"/>
            <exon e_start="67784" e_stop="67586"/>
            <exon e_start="66002" e_stop="65768"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.979" acc_prob="0.979" e_score="1.000"/>
          <exon-intron don_prob="0.197" acc_prob="0.712" e_score="0.989"/>
          <exon-intron don_prob="0.935" acc_prob="0.981" e_score="0.960"/>
          <exon-intron don_prob="0.947" acc_prob="0.966" e_score="0.977"/>
          <exon-intron don_prob="0.990" acc_prob="0.991" e_score="0.967"/>
          <exon-intron don_prob="0.877" acc_prob="0.998" e_score="0.988"/>
          <exon-intron don_prob="0.928" acc_prob="0.988" e_score="0.990"/>
          <exon-only e_score="0.974"/>
        </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="70631" e_stop="70584" e_length="48"/>
          </exon>
          <intron i_serial="1" don_prob="0.979" acc_prob="0.979">
            <gDNA_intron_boundary i_start="70583" i_stop="70487" i_length="97"/>
          </intron>
          <exon e_serial="2" e_score="0.989">
            <gDNA_exon_boundary e_start="70486" e_stop="70398" e_length="89"/>
          </exon>
          <intron i_serial="2" don_prob="0.197" acc_prob="0.712">
            <gDNA_intron_boundary i_start="70397" i_stop="70289" i_length="109"/>
          </intron>
          <exon e_serial="3" e_score="0.960">
            <gDNA_exon_boundary e_start="70288" e_stop="70189" e_length="100"/>
          </exon>
          <intron i_serial="3" don_prob="0.935" acc_prob="0.981">
            <gDNA_intron_boundary i_start="70188" i_stop="70091" i_length="98"/>
          </intron>
          <exon e_serial="4" e_score="0.977">
            <gDNA_exon_boundary e_start="70090" e_stop="69920" e_length="171"/>
          </exon>
          <intron i_serial="4" don_prob="0.947" acc_prob="0.966">
            <gDNA_intron_boundary i_start="69919" i_stop="68344" i_length="1576"/>
          </intron>
          <exon e_serial="5" e_score="0.967">
            <gDNA_exon_boundary e_start="68343" e_stop="68191" e_length="153"/>
          </exon>
          <intron i_serial="5" don_prob="0.990" acc_prob="0.991">
            <gDNA_intron_boundary i_start="68190" i_stop="68029" i_length="162"/>
          </intron>
          <exon e_serial="6" e_score="0.988">
            <gDNA_exon_boundary e_start="68028" e_stop="67868" e_length="161"/>
          </exon>
          <intron i_serial="6" don_prob="0.877" acc_prob="0.998">
            <gDNA_intron_boundary i_start="67867" i_stop="67785" i_length="83"/>
          </intron>
          <exon e_serial="7" e_score="0.990">
            <gDNA_exon_boundary e_start="67784" e_stop="67586" e_length="199"/>
          </exon>
          <intron i_serial="7" don_prob="0.928" acc_prob="0.988">
            <gDNA_intron_boundary i_start="67585" i_stop="66003" i_length="1583"/>
          </intron>
          <exon e_serial="8" e_score="0.974">
            <gDNA_exon_boundary e_start="66002" e_stop="65768" e_length="235"/>
          </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="70631" stop="70584"/>
              <exon start="70486" stop="70398"/>
              <exon start="70288" stop="70189"/>
              <exon start="70090" stop="69920"/>
              <exon start="68343" stop="68191"/>
              <exon start="68028" stop="67868"/>
              <exon start="67784" stop="67586"/>
              <exon start="66002" stop="65768"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At4g33210" 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>ATAACATCAGCTTCCATGGCTGCCATAGCCCATAGCTATATGTTAGAG : GTTCTGGAGCTTGATAATTGCAGTTTATTGACATCAGTGTCCTTGGATCTTCCTCGCCTTCAGAGCATTAGACTAGTACATTGTCGCAA : GTTTATTGACCTTAACTTGCATTGTGGAATGTTATCATCAATTACTGTTTCTAATTGCCCATTGCTTCAAAGAATCAATATAACTTCAAGTGCTCTCAAA : AAATTAGTTTTGCAGAAGCAGGAAAGCTTGACAACAATTGCATTACAGTGTCCGAATTTGCTAGAAGTAGACCTTACTGAGTGTGAATCGCTCACCAATTCTGTTTGTGAAGTTTTCAGTGATGGTGGTGGCTGTCCTGTGCTTAAATCCTTAGTTCTGGATAACTGTGAG : AGCTTGACACTTGTGGCTTTCTGCAGCACTTCTTTGGTTTCTCTTTCACTTGGTGGTTGCCGTGCTTTAATTTCTCTTGCGCTTAGGTGCCCATATCTTGAACAAGTATCTTTAGATGGTTGTGATCATCTTGAAGTAGCATCATTTTGCCCC : GTTGGTCTTAGGTCACTTAATCTTGGTATATGCCCCAAAATGAATATGCTTCATATTGAAGCTCCACAAATGGCTTCACTTGAGCTGAAGGGCTGTGGTGTGCTCTCTGAAGCATCTATTAATTGCCCCCTGTTAACCTCTTTTGATGCTTCATTCTGCAG : CCAACTCAAGGATGATTGTTTATCTGCCACGACTTCGTCGTGCCCCCTCATCGAGTCATTAGTATTAATGTCATGTCCATCTGTTGGCTGTGATGGACTCCTCTCTTTGCAGTCCCTCCCAAACTTGACCTACCTTGATCTATCCTATACGTTTTTGGTTACCTTGCAACCTGTTTATGAATCATGCTTGCAGTTAAAG : GTCCTAAAGTTGCAAGCATGCAAGTATCTCACTGATACATCTTTGGAACCCCTCTATAAAGAAAATGCTCTTCCAGCCCTTTGTGAGTTGGATCTGTCGTATGGGACCTTATGCCAATCAGCCATTGAGGAATTGCTTGCTTGCTGCACACATTTGAGTCATGTCAGCTTGAATGGATGTATTAATATGCATGATTTAAATTGGGGATTTTCTGGAGATCAACTGTCACAAATAC</gDNA_template>
            <first_frame> I  T  S  A  S  M  A  A  I  A  H  S  Y  M  L  E  :  V  L  E  L  D  N  C  S  L  L  T  S  V  S  L  D  L  P  R  L  Q  S  I  R  L  V  H  C  R  K :   F  I  D  L  N  L  H  C  G  M  L  S  S  I  T  V  S  N  C  P  L  L  Q  R  I  N  I  T  S  S  A  L  K  :  K  L  V  L  Q  K  Q  E  S  L  T  T  I  A  L  Q  C  P  N  L  L  E  V  D  L  T  E  C  E  S  L  T  N  S  V  C  E  V  F  S  D  G  G  G  C  P  V  L  K  S  L  V  L  D  N  C  E  :  S  L  T  L  V  A  F  C  S  T  S  L  V  S  L  S  L  G  G  C  R  A  L  I  S  L  A  L  R  C  P  Y  L  E  Q  V  S  L  D  G  C  D  H  L  E  V  A  S  F  C  P  :  V  G  L  R  S  L  N  L  G  I  C  P  K  M  N  M  L  H  I  E  A  P  Q  M  A  S  L  E  L  K  G  C  G  V  L  S  E  A  S  I  N  C  P  L  L  T  S  F  D  A  S  F  C  S :   Q  L  K  D  D  C  L  S  A  T  T  S  S  C  P  L  I  E  S  L  V  L  M  S  C  P  S  V  G  C  D  G  L  L  S  L  Q  S  L  P  N  L  T  Y  L  D  L  S  Y  T  F  L  V  T  L  Q  P  V  Y  E  S  C  L  Q  L  K  :  V  L  K  L  Q  A  C  K  Y  L  T  D  T  S  L  E  P  L  Y  K  E  N  A  L  P  A  L  C  E  L  D  L  S  Y  G  T  L  C  Q  S  A  I  E  E  L  L  A  C  C  T  H  L  S  H  V  S  L  N  G  C  I  N  M  H  D  L  N  W  G  F  S  G  D  Q  L  S  Q  I  </first_frame>
            <second_frame>  *  H  Q  L  P  W  L  P  *  P  I  A  I  C  *  R :   F  W  S  L  I  I  A  V  Y  *  H  Q  C  P  W  I  F  L  A  F  R  A  L  D  *  Y  I  V  A   : S  L  L  T  L  T  C  I  V  E  C  Y  H  Q  L  L  F  L  I  A  H  C  F  K  E  S  I  *  L  Q  V  L  S  K :   N  *  F  C  R  S  R  K  A  *  Q  Q  L  H  Y  S  V  R  I  C  *  K  *  T  L  L  S  V  N  R  S  P  I  L  F  V  K  F  S  V  M  V  V  A  V  L  C  L  N  P  *  F  W  I  T  V  R :   A  *  H  L  W  L  S  A  A  L  L  W  F  L  F  H  L  V  V  A  V  L  *  F  L  L  R  L  G  A  H  I  L  N  K  Y  L  *  M  V  V  I  I  L  K  *  H  H  F  A  P :   L  V  L  G  H  L  I  L  V  Y  A  P  K  *  I  C  F  I  L  K  L  H  K  W  L  H  L  S  *  R  A  V  V  C  S  L  K  H  L  L  I  A  P  C  *  P  L  L  M  L  H  S  A   : A  N  S  R  M  I  V  Y  L  P  R  L  R  R  A  P  S  S  S  H  *  Y  *  C  H  V  H  L  L  A  V  M  D  S  S  L  C  S  P  S  Q  T  *  P  T  L  I  Y  P  I  R  F  W  L  P  C  N  L  F  M  N  H  A  C  S  *  R :   S  *  S  C  K  H  A  S  I  S  L  I  H  L  W  N  P  S  I  K  K  M  L  F  Q  P  F  V  S  W  I  C  R  M  G  P  Y  A  N  Q  P  L  R  N  C  L  L  A  A  H  I  *  V  M  S  A  *  M  D  V  L  I  C  M  I  *  I  G  D  F  L  E  I  N  C  H  K  Y </second_frame>
            <third_frame>   N  I  S  F  H  G  C  H  S  P  *  L  Y  V  R   : G  S  G  A  *  *  L  Q  F  I  D  I  S  V  L  G  S  S  S  P  S  E  H  *  T  S  T  L  S  Q  :  V  Y  *  P  *  L  A  L  W  N  V  I  I  N  Y  C  F  *  L  P  I  A  S  K  N  Q  Y  N  F  K  C  S  Q   : K  I  S  F  A  E  A  G  K  L  D  N  N  C  I  T  V  S  E  F  A  R  S  R  P  Y  *  V  *  I  A  H  Q  F  C  L  *  S  F  Q  *  W  W  W  L  S  C  A  *  I  L  S  S  G  *  L  *   : E  L  D  T  C  G  F  L  Q  H  F  F  G  F  S  F  T  W  W  L  P  C  F  N  F  S  C  A  *  V  P  I  S  *  T  S  I  F  R  W  L  *  S  S  *  S  S  I  I  L  P   : R  W  S  *  V  T  *  S  W  Y  M  P  Q  N  E  Y  A  S  Y  *  S  S  T  N  G  F  T  *  A  E  G  L  W  C  A  L  *  S  I  Y  *  L  P  P  V  N  L  F  *  C  F  I  L  Q  :  P  T  Q  G  *  L  F  I  C  H  D  F  V  V  P  P  H  R  V  I  S  I  N  V  M  S  I  C  W  L  *  W  T  P  L  F  A  V  P  P  K  L  D  L  P  *  S  I  L  Y  V  F  G  Y  L  A  T  C  L  *  I  M  L  A  V  K   : G  P  K  V  A  S  M  Q  V  S  H  *  Y  I  F  G  T  P  L  *  R  K  C  S  S  S  P  L  *  V  G  S  V  V  W  D  L  M  P  I  S  H  *  G  I  A  C  L  L  H  T  F  E  S  C  Q  L  E  W  M  Y  *  Y  A  *  F  K  L  G  I  F  W  R  S  T  V  T  N   </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="C00HBa0230N10.2" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="70631" stop="70584"/>
                    <exon start="70486" stop="70398"/>
                    <exon start="70288" stop="70189"/>
                    <exon start="70090" stop="69920"/>
                    <exon start="68343" stop="68191"/>
                    <exon start="68028" stop="67868"/>
                    <exon start="67784" stop="67586"/>
                    <exon start="66002" stop="65769"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1155</number_coding_nucleotides>
                  <number_encoded_amino_acids>385</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ITSASMAAIAHSYMLEVLELDNCSLLTSVSLDLPRLQSIRLVHCRKFIDLNLHCGMLSSITVSNCPLLQRINITSSALKKLVLQKQESLTTIALQCPNLLEVDLTECESLTNSVCEVFSDGGGCPVLKSLVLDNCESLTLVAFCSTSLVSLSLGGCRALISLALRCPYLEQVSLDGCDHLEVASFCPVGLRSLNLGICPKMNMLHIEAPQMASLELKGCGVLSEASINCPLLTSFDASFCSQLKDDCLSATTSSCPLIESLVLMSCPSVGCDGLLSLQSLPNLTYLDLSYTFLVTLQPVYESCLQLKVLKLQACKYLTDTSLEPLYKENALPALCELDLSYGTLCQSAIEELLACCTHLSHVSLNGCINMHDLNWGFSGDQLSQI</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 7 chains have been computed
$ 
$ memory statistics:
$ 2536 bytes spliced alignments in total
$ 1 spliced alignments have been stored
$ 2536 bytes was the average size of a spliced alignment
$ 5752 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5752 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 7 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 06:12:57
-->
