<?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 22:20:48"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C12HBa0020C08-OC9Ft/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C12HBa0020C08-OC9Ft/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-C12HBa0020C08-OC9Ft/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M7100" ref_strand="+" ref_description="SGN-M7100 C2_At1g78770 [cosii_markers]">
      <seq>ccgctcttctcttctgcccaaatctgattcccaaaactctcaattttgaattcaaacttgaacaatcaaagagaaattggtgtacaaacaatgagggaagaagaaattgagaggctaagaggtgtggtgagggattgtgtgagtaaacatttgtattcatcagctatcttctttgctgataaagtagctgcaattacttctgacccagctgatatatacatgcaagcacaagctttgtatcttggtcgacactatcgccgggcttttcaccttcttaatgcttctcaaatcgtccttcgtgacctccgcttccgatacctcgccgccaagtgccttgaagagctgaaggagtgggatcaatgtcttctaatgctgggtgatgctaaagtggatgaatatggaaatattactgatacaagagagtgcaacagcatgtacttagacaaggatggtgaagatcgtgaaataaatattttatcagcaatatgctttttgaggggcaaggcttatgaagcgttggagaatcgtgcacaggctcgactatggtataaagctgctatcaaggctgatccctttgtgttatgaggcattggaatgtctgatagagaatcacatgctcacttgtgatgaagagaaaaccctgctctcatgtttgcaatttggtcctgaaaatgggtggctctcttcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0020C08-OC9Ft/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C12HBa0020C08.3" temp_strand="-" temp_description="C12HBa0020C08.3  AC217430.3 htgs_phase:2 submitted_to_sgn_as:gi|239799562|gb|AC217430.3| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-20C8, WORKING DRAFT SEQUENCE, 5 ordered pieces">
        <position start="56687" stop="51241"/>
      </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="56387" g_stop="56052" g_length="336"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="336" r_length="336" r_score="0.958"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="56051" i_stop="54154" i_length="1898">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="54153" g_stop="54019" g_length="135"/>
          <reference_exon_boundary r_type="cDNA" r_start="337" r_stop="471" r_length="135" r_score="0.956"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="54018" i_stop="53914" i_length="105">
            <donor d_prob="0.976" d_score="0.96"/>
            <acceptor a_prob="0.908" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="53913" g_stop="53840" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="545" r_length="74" r_score="0.973"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="53839" i_stop="52850" i_length="990">
            <donor d_prob="0.104" d_score="0.98"/>
            <acceptor a_prob="0.941" a_score="0.95"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="52849" g_stop="52810" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="546" r_stop="586" r_length="41" r_score="0.950"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="52809" i_stop="52535" i_length="275">
            <donor d_prob="0.996" d_score="0.95"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="52534" g_stop="52489" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="587" r_stop="632" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="52488" i_stop="51599" i_length="890">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="51598" g_stop="51541" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="633" r_stop="690" r_length="58" r_score="0.931"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0020C08.3" gen_strand="-" ref_id="SGN-M7100" ref_strand="+">
        <total_alignment_score>0.957</total_alignment_score>
        <cumulative_length_of_scored_exons>689</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0020C08.3" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M7100" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="56387" e_stop="56052"/>
          <exon e_start="54153" e_stop="54019"/>
          <exon e_start="53913" e_stop="53840"/>
          <exon e_start="52849" e_stop="52810"/>
          <exon e_start="52534" e_stop="52489"/>
          <exon e_start="51598" e_stop="51541"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCGCTCTTCTCTTCTCCCCCAAATTCTTCCCCAAAACTCTCAATTTTGAATTCAAAGTTGAACAATCGAAGAGAAATTTGTATACAAACAATGAGGGAAGAAGAAATTGAGAGGCTAAGAGGTGTTGTGAGGGATTGTGTGAGTAAACATTTGTATTCATCAGCTATCTTCTTTGCTGATAAAGTAGCTGCAATTACTTCTGACCCAGCCGATATATACATGCAAGCACAAGCTTTGTATCTTGGTCGACACTATCGCCGTGCTTTTCACCTTCTTAATGCTTCTCAAATCGTCCTTCGTGACCTCCGCTTCCGATACCTCGCCGCCAAGTGCCTTGTATGCCCTTTTTACTATACAAATAATTGAATAGTTGATTGTTTATTTGTTCCAAGATAATCCGGGTCATTTTGAGGTCTAATTGCTTCCATCTTGTTACAAGATTGTGTCTTTTTGCACTTTTATGAATAAGGTTATATGGGATCTTCATGTTTATGTGTTAATTGAGTAAAAAGGCTACTTATGCATTGTAATTTTATGTTAAGTGGTGATTAACAAAAGTAGGTTTAGGCTCTAGTAGCAAAATGGGGAATAACTACCCAAAGAACTGTTTTTGGTACTTGTTTATTTTTTTTATTGGGGATTCAACATGTTTAGTGGTGCTCCTTAGCTGTTAAATTGAGTTATACAGGCTAGTTGTTGTGCTTTAACATTAGAAGTGGTGATTCAGCAAAGTAGGTTCAGCCTCTAGTACGGTTTTGCTTTAGTTATCACTAGTAAATGGGACACAAATACTACACAAAGCAGTGTATCTTAAGCTGTTATCGAGCAGTGTGTTGGACCTTATTATGTAAAACTTCATAGATACTTGGAACTTGATTCAGGTGTTAAATTTCAGGGGTTGACATCATTTGCCAGATGCTTGTTAATATATTTAAGATGGTTTGATCATATATCAGTGAGGTTGCTCAAAAATGTGAAGGCTTGATAAACCCTGTCTTTTTGTAGTGTAAACTACTTTTTCCCATCCCAAGTAATGTTTTGGACTTCCATCCCCTATCTATACTATAACCTCAAACCTCTTTCTACTTTCTGTGCACCAAATGTTGATTAGGAGATGAAAGAAGCACACCGTGGAATCAAACCAGTCATTTTCCTTATATGGTGAAAGTTGACAGTGAAGATCTACACTTGAATAAAAAATCTACACTAGAGAGCATACACTTGTTAGAGGTGATCCCCACCTCCCCTTTTCACCTAATCCATTAGTTCACAGCTTCACCACTTTATCTAGGATTGAGCTACCACACTCTTGAAACTCGGTAAAATTGTTTTCATTCAATGAGAATATAAAGAAAAGTAGCAATTCTTATAAAAAAGATAAACTGAACAAGTGGATCAGATTCTGGTTCTATTCTTCTTTGTTTGTCTTCCCTAACTTGAAGTGTTACAGTTGCAACACTGCAGAACACAAAACATTTAACTCAACACATAGTACGTGATAGTATTTCCAGCCTGACAAGTCCCACTAATCTTCTACTGTCATTGAATGCCTGCTTGACGCATTCATAAGCCATGAAACTACTTGCAAACAGGTTTAGTGCTTCACCTTGCTTGGGCAGTGCTTCAGTGCAAACACAAAGGTGTTAGGCGTGTGTCTCAGAGTCCAACTGTCTTAAAGAGAGGGCTAAACAATAAATATTTCACCTAATTGTAATTTTGAAAATAAGTTATATAATTGTTATTTGTGTTTATAGTTATTATTCTTGAACTACTACATATTCTGAATTTTTTTGTTAATTAGAATCCCGTGCTTTGTGTGTAGTGCTTAAAGTTAGACATTTGTGCTTCTTTTCACTTTTTGCCATTGATTACATGGCTGCCTACTTGGGCAAGGTGCTACCATTTGAATGTAGGTTGCCGTCTTTCCACTTTCAGTTATCAACATGTCACATCCCTAAGTATGATTATGGTTAGGTTTTAATCTGTAGTATCTGTCCCTTGATTGAAGCCTCAATCCCTAAATAATTGGGATTAACTATAAGTGCTAGTTGGATCCATATTTTCTTCTTCTTCTATATATGTGATCTCAAGAACAGGTCATCATAATCTTGCACTTACCCCTACACTAACATACAAGTAATTAACCAGACTAAACATTAGGCTTAACAAATTGGATACTATTATGTTCTAAAATAGTTTGCTTAAATTTCCTTGTATAATTTCTGTATTTTTAGGAAGAACTGAAGGAGTGGGATCAATGCCTTCTAATGCTGGGTGATGCTAAAGTGGATGAACATGGTAATATTACTGATACAAGAGAGTTCAACAGCATGTACTTGGACAAGGATGGTGAAGATCGTGAAATAAATGTAAGTTTCTCCATTATCCCTTACCTAGTGGGGATTTCCGGGAGAATCTGTTATGAGTCATGACTTTCCCACAGATTCAAAATGCTCTATGTAAATCTTTGACAGATTTTATCAGCAATCTGCTTTTTGAGGGGCAAGGCATATGAAGCGTTGGAGAATCGTGCACAGGCTCGACTATGGTTAGTGATAGTTTGGATATAAGACACTGATGTTCATAGACATAATTTTGGATTACAGATTTGGTCTTAACAACCTCCGTACCTCCACGAGGTAGGGGTAAGGTCTGCATACACTCTACCCTCCTAGATCCCACTTTTGTGATTTCACAAGGTATGTTGTTGTAGATTTGGTCTGAATTTCTTGTGGGTCACGGGAGAGATTTCTCGGTGCTATAGTTTTCTGTTTGGCTGGTAATCATGTTTTCACACTAGTTATGAGGGAGAAGAAATGATAGAAAGTATAGGAAGTGAGGCAAAATGACTTTCCACATTTAATTCGAACATAGTACGCCTTAGCAAAATCGAATAAGCAAAGAATGAAGAAGTTTAACAGTGTTATTTGGGTTCCTTGAGATAAAAGTGGTAAATACTCTAAACCACTTCTATCTCATCTTTTCTCTTCTAAAAAAAAGATAAAAGTGAGTTAGAGCATTTAAATTCCTTACATCTGATTTCTGGTAGTTTCTTAAACTGAAAAGAATAATTGGTGTTGAAGTAATTAACTTTTGACTATAGCCTATCATACGGATGAACCTTTTGTTTACAGACCCCATCCTTTCCCTCGCGTTGGCTCCTTCATTTGTTGTTTGTTAATACAATGAAGAAATTATTGGTTCCCCTTAATATAACTGTAGGAACAAATTATCCTCTTCTTTTGTCTTGTGTTCAGCATCTGTGATCATCAGTGATCTCATCTCCTTACCTCTCATTCCTTGCTTTCTTGTGCATAGAATTAGGTTAGAAAATGAATCTTGAAGATCCTATCTGATAAAGAGATGTATTCAGTCTCAAGTTAACTGTATTGCAAGAGATATCATTGAATCTGATGTTAAGGAATTACAATTCCATCATGTGCTGAGCTGTCTTTCCCTACTTCTTAATATTGATCTAGCAGTTAAATATTATCATCGTAAGGAGCTGACTTGTTATAACTCCGTGACACTTTCTTAGGTATAAAGCTGCTATCAAGGCTGAT-CCTTTGTGTTATGAGGTATGTAAGTTTTGGTATTCTAGTCATTCTTCTTTAATTGATGGAAGTCTTTATCTAGGGGTTGGTTAGTATGTCTCTTGGTTTTTTCTCCTCCTTTGTTATGGCTAAGGAATTAGTCTTGTCAATTACTGTATTAGAGGCCAGATTTATATGGTAAAACTCTGGAAGATACTTAGTTATCTTATATTCATTTTCCTTATCGTAGAAGCATCATAGGTCCTTCATGCTTTCAATTCCATGACAATCTTATGAAATTTATCTATGCTCATTTTCAGGCATTGGAATGTCTGATAGAGAATCACATGCTCACTTGTGATGAAGGTGAGAACCTTTGCTGTTTAAAGTGTATCTTCTTGGAACTATGAAATAGTACAAGCTAATTTGTAGAATCAAACTGTCTTAAAACAATGCAAGTACTTTTGGAGACCGTGTTTATTGTACTCTAAAAGTCCTTGGTGTGTGTTTTTATAAGTAATGAACATTCTCTTTCTTTTAACCAAACATTCTATAGCTGTTCAGTGCTGTTAAAGGCCCGTAATGTGCTCAAACTCTGAAGCTGTGCAGGGGCAGTTGGCTGCTTGTGTTGCTTAGGCAGTATCTATGTAGGCCCCAAGACTAAGGGATCCTCTTCACCACCTATAAGCTCGGTCTTGTAGGGAATAGAACTAAACAACATATATAACTGGAGAATACTCGTAAACCTCCTTGGCAAAGTGGTATATTAATTGATAAAGAAATGTTATATAAATATGTGAGTCATTAGAAATATAAAGTTGGAATTTTAGTAGGGAAGTAGCCACTGAGCCAATATTAGAAAACCAAACCCCCTCTTAGCATTAGAATCAGAAATTTTAAATAGTTTTCGGAACAATCGAAATGTTAAATATGCACTTAACTGTAGCTTCTCAAATTCCTTTGTCCTATAAGTATTACTCGTGCTATAGTTAATTTTTTCAGATCACATTTATAATTTTCATTTGTTTCTTTTGCACCTTTATTTACCATGGCCTGCTCTTTAATTGTGTTTTGCACTTAAAATCTTGTTGAATTTTGGCATTTTTTCTGCTTTTACCTTTTTTAATGCTATTTATTGTTGATACTATCATTGAAAACTGCCAATCTTTTAGATGATAGTATTATTGTGTTAATGTTATCTTTGTTAAAGGAATTATTATGAGAAATTGACCAATCCAGTTGCTAGTGAATTTCAGAGAGAACCCTGCTCTCATGTTTGCAGTTTGGTCCTGAAGATGGGTGGCTTTCTTCATT</genome_strand>
        <mrna_strand>CCGCTCTTCTCTTCTGCCCAAATCTGATTCCCAAAACTCTCAATTTTGAATTCAAACTTGAACAATCAAAGAGAAATTGGTGTACAAACAATGAGGGAAGAAGAAATTGAGAGGCTAAGAGGTGTGGTGAGGGATTGTGTGAGTAAACATTTGTATTCATCAGCTATCTTCTTTGCTGATAAAGTAGCTGCAATTACTTCTGACCCAGCTGATATATACATGCAAGCACAAGCTTTGTATCTTGGTCGACACTATCGCCGGGCTTTTCACCTTCTTAATGCTTCTCAAATCGTCCTTCGTGACCTCCGCTTCCGATACCTCGCCGCCAAGTGCCTT..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAGAGCTGAAGGAGTGGGATCAATGTCTTCTAATGCTGGGTGATGCTAAAGTGGATGAATATGGAAATATTACTGATACAAGAGAGTGCAACAGCATGTACTTAGACAAGGATGGTGAAGATCGTGAAATAAAT.........................................................................................................ATTTTATCAGCAATATGCTTTTTGAGGGGCAAGGCTTATGAAGCGTTGGAGAATCGTGCACAGGCTCGACTATG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTATAAAGCTGCTATCAAGGCTGATCCCTTTGTGTTATGAG...................................................................................................................................................................................................................................................................................GCATTGGAATGTCTGATAGAGAATCACATGCTCACTTGTGATGAAG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAAACCCTGCTCTCATGTTTGCAATTTGGTCCTGAAAATGGGTGGCTCTCTTCATT</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="56387" PGL_stop="51541"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="56387" e_stop="56052"/>
            <exon e_start="54153" e_stop="54019"/>
            <exon e_start="53913" e_stop="53840"/>
            <exon e_start="52849" e_stop="52810"/>
            <exon e_start="52534" e_stop="52489"/>
            <exon e_start="51598" e_stop="51541"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.995" acc_prob="0.998" e_score="0.958"/>
          <exon-intron don_prob="0.976" acc_prob="0.908" e_score="0.956"/>
          <exon-intron don_prob="0.104" acc_prob="0.941" e_score="0.973"/>
          <exon-intron don_prob="0.996" acc_prob="0.999" e_score="0.950"/>
          <exon-intron don_prob="0.996" acc_prob="0.000" e_score="1.000"/>
          <exon-only e_score="0.931"/>
        </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="0.958">
            <gDNA_exon_boundary e_start="56387" e_stop="56052" e_length="336"/>
          </exon>
          <intron i_serial="1" don_prob="0.995" acc_prob="0.998">
            <gDNA_intron_boundary i_start="56051" i_stop="54154" i_length="1898"/>
          </intron>
          <exon e_serial="2" e_score="0.956">
            <gDNA_exon_boundary e_start="54153" e_stop="54019" e_length="135"/>
          </exon>
          <intron i_serial="2" don_prob="0.976" acc_prob="0.908">
            <gDNA_intron_boundary i_start="54018" i_stop="53914" i_length="105"/>
          </intron>
          <exon e_serial="3" e_score="0.973">
            <gDNA_exon_boundary e_start="53913" e_stop="53840" e_length="74"/>
          </exon>
          <intron i_serial="3" don_prob="0.104" acc_prob="0.941">
            <gDNA_intron_boundary i_start="53839" i_stop="52850" i_length="990"/>
          </intron>
          <exon e_serial="4" e_score="0.950">
            <gDNA_exon_boundary e_start="52849" e_stop="52810" e_length="40"/>
          </exon>
          <intron i_serial="4" don_prob="0.996" acc_prob="0.999">
            <gDNA_intron_boundary i_start="52809" i_stop="52535" i_length="275"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="52534" e_stop="52489" e_length="46"/>
          </exon>
          <intron i_serial="5" don_prob="0.996" acc_prob="0.000">
            <gDNA_intron_boundary i_start="52488" i_stop="51599" i_length="890"/>
          </intron>
          <exon e_serial="6" e_score="0.931">
            <gDNA_exon_boundary e_start="51598" e_stop="51541" e_length="58"/>
          </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="56387" stop="56052"/>
              <exon start="54153" stop="54019"/>
              <exon start="53913" stop="53840"/>
              <exon start="52849" stop="52810"/>
              <exon start="52534" stop="52489"/>
              <exon start="51598" stop="51541"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M7100" 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>CCGCTCTTCTCTTCTCCCCCAAATTCTTCCCCAAAACTCTCAATTTTGAATTCAAAGTTGAACAATCGAAGAGAAATTTGTATACAAACAATGAGGGAAGAAGAAATTGAGAGGCTAAGAGGTGTTGTGAGGGATTGTGTGAGTAAACATTTGTATTCATCAGCTATCTTCTTTGCTGATAAAGTAGCTGCAATTACTTCTGACCCAGCCGATATATACATGCAAGCACAAGCTTTGTATCTTGGTCGACACTATCGCCGTGCTTTTCACCTTCTTAATGCTTCTCAAATCGTCCTTCGTGACCTCCGCTTCCGATACCTCGCCGCCAAGTGCCTT : GAAGAACTGAAGGAGTGGGATCAATGCCTTCTAATGCTGGGTGATGCTAAAGTGGATGAACATGGTAATATTACTGATACAAGAGAGTTCAACAGCATGTACTTGGACAAGGATGGTGAAGATCGTGAAATAAAT : ATTTTATCAGCAATCTGCTTTTTGAGGGGCAAGGCATATGAAGCGTTGGAGAATCGTGCACAGGCTCGACTATG : GTATAAAGCTGCTATCAAGGCTGATCCTTTGTGTTATGAG : GCATTGGAATGTCTGATAGAGAATCACATGCTCACTTGTGATGAAG : AGAGAACCCTGCTCTCATGTTTGCAGTTTGGTCCTGAAGATGGGTGGCTTTCTTCATT</gDNA_template>
            <first_frame> P  L  F  S  S  P  P  N  S  S  P  K  L  S  I  L  N  S  K  L  N  N  R  R  E  I  C  I  Q  T  M  R  E  E  E  I  E  R  L  R  G  V  V  R  D  C  V  S  K  H  L  Y  S  S  A  I  F  F  A  D  K  V  A  A  I  T  S  D  P  A  D  I  Y  M  Q  A  Q  A  L  Y  L  G  R  H  Y  R  R  A  F  H  L  L  N  A  S  Q  I  V  L  R  D  L  R  F  R  Y  L  A  A  K  C  L  :  E  E  L  K  E  W  D  Q  C  L  L  M  L  G  D  A  K  V  D  E  H  G  N  I  T  D  T  R  E  F  N  S  M  Y  L  D  K  D  G  E  D  R  E  I  N  :  I  L  S  A  I  C  F  L  R  G  K  A  Y  E  A  L  E  N  R  A  Q  A  R  L  W :   Y  K  A  A  I  K  A  D  P  L  C  Y  E  :  A  L  E  C  L  I  E  N  H  M  L  T  C  D  E   : E  R  T  L  L  S  C  L  Q  F  G  P  E  D  G  W  L  S  S   </first_frame>
            <second_frame>  R  S  S  L  L  P  Q  I  L  P  Q  N  S  Q  F  *  I  Q  S  *  T  I  E  E  K  F  V  Y  K  Q  *  G  K  K  K  L  R  G  *  E  V  L  *  G  I  V  *  V  N  I  C  I  H  Q  L  S  S  L  L  I  K  *  L  Q  L  L  L  T  Q  P  I  Y  T  C  K  H  K  L  C  I  L  V  D  T  I  A  V  L  F  T  F  L  M  L  L  K  S  S  F  V  T  S  A  S  D  T  S  P  P  S  A  L :   K  N  *  R  S  G  I  N  A  F  *  C  W  V  M  L  K  W  M  N  M  V  I  L  L  I  Q  E  S  S  T  A  C  T  W  T  R  M  V  K  I  V  K  *  I :   F  Y  Q  Q  S  A  F  *  G  A  R  H  M  K  R  W  R  I  V  H  R  L  D  Y   : G  I  K  L  L  S  R  L  I  L  C  V  M  R :   H  W  N  V  *  *  R  I  T  C  S  L  V  M  K  :  R  E  P  C  S  H  V  C  S  L  V  L  K  M  G  G  F  L  H  </second_frame>
            <third_frame>   A  L  L  F  S  P  K  F  F  P  K  T  L  N  F  E  F  K  V  E  Q  S  K  R  N  L  Y  T  N  N  E  G  R  R  N  *  E  A  K  R  C  C  E  G  L  C  E  *  T  F  V  F  I  S  Y  L  L  C  *  *  S  S  C  N  Y  F  *  P  S  R  Y  I  H  A  S  T  S  F  V  S  W  S  T  L  S  P  C  F  S  P  S  *  C  F  S  N  R  P  S  *  P  P  L  P  I  P  R  R  Q  V  P   : *  R  T  E  G  V  G  S  M  P  S  N  A  G  *  C  *  S  G  *  T  W  *  Y  Y  *  Y  K  R  V  Q  Q  H  V  L  G  Q  G  W  *  R  S  *  N  K   : Y  F  I  S  N  L  L  F  E  G  Q  G  I  *  S  V  G  E  S  C  T  G  S  T  M  :  V  *  S  C  Y  Q  G  *  S  F  V  L  *   : G  I  G  M  S  D  R  E  S  H  A  H  L  *  *  R :   E  N  P  A  L  M  F  A  V  W  S  *  R  W  V  A  F  F  I </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0020C08.3" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="56387" stop="56052"/>
                    <exon start="54153" stop="54019"/>
                    <exon start="53913" stop="53840"/>
                    <exon start="52849" stop="52810"/>
                    <exon start="52534" stop="52489"/>
                    <exon start="51598" stop="51543"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>687</number_coding_nucleotides>
                  <number_encoded_amino_acids>229</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PLFSSPPNSSPKLSILNSKLNNRREICIQTMREEEIERLRGVVRDCVSKHLYSSAIFFADKVAAITSDPADIYMQAQALYLGRHYRRAFHLLNASQIVLRDLRFRYLAAKCLEELKEWDQCLLMLGDAKVDEHGNITDTREFNSMYLDKDGEDREINILSAICFLRGKAYEALENRAQARLWYKAAIKADPLCYEALECLIENHMLTCDEERTLLSCLQFGPEDGWLSS</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 5 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
$ 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
$ 5 backtrace matrices have been allocated
$ 
$ date finished: 2009-07-24 22:20:51
-->
