<?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="2009-01-14 17:41:24"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C05SLe0122H05-yRdLe/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C05SLe0122H05-yRdLe/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-C05SLe0122H05-yRdLe/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M7594" ref_strand="+" ref_description="SGN-M7594 C2_At3g02600 [cosii_markers]">
      <seq>tagaaggattctttgctgataaatcatgtttcctttcttaatctcgatcccaagagattggactgaagtatcaacagtgcttaaatgggttggaaagacaagattagaactgtgtttcagggtaatacaaatgagattgagcttggatgtggacatactattaagtctcatggatcatcagttgcaagaattcacatgcatgactggcttatattactactgcttgtagtaatagaggtagtcctttatgtcattggtccatttcaccggtatgttggaaaggatatgatgactgatctgaaatatcccatgaaagataatacggtcccagtgtggtctgttcccctatatgcagttgtattacctattatcatctttattttcgtttatcttcggaggagggacatctatgatctgcaccacagcattctaggcctcttatttgccgttctaattacggcagtaatcacggatgccatcaagaatggagtaggccgtccccgaccagattttttctggcgttgctttcctgatggtaaagatgagtatgatcagtggggagacgtaaaatgccatggtaaagcaagtgatattaaggaaggacatagagctttcccaagcgggcatacctcatggtcatttgctggtctcgggtttctatcgttgtatttagcagggaagattaaagcatttgatcgccgagggcatgtggcaaaactatgcatagttcttcttcctctcctaatggcatctcttgttggggtctcacgtgtggatgactactggcatcattggcaagacgtgttcactggaggaatgataggccttttcgttgctacattctgttacctgcagttcttccctgctccataccatactgaaggatggggaccatatgcatatttccgggctgtggaggaggttcgtagtagcagaccacacgtccaccctactaatggaggattagagacggaacatcctgaggtacaactgaatcagcgaacgggtacaactcccaatccatttgaggatgtggagtatggcagaatgtgagacataggaaactgcttatatttttgttcaaagtattttaattggcacagtttgttattttcttgtgaatatttatgtttgtttttgttaagtattttagctatagggaactatttgattactgaaattgttttaatcagtggcaagttctttttttaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaacccggggggggggggccccccccccccccccccctggggggggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C05SLe0122H05-yRdLe/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C05SLe0122H05.2" temp_strand="+" temp_description="C05SLe0122H05.2  AC212309.2 htgs_phase:3 submitted_to_sgn_as:C05SLe0122H05 sequenced_by:iitg upload_account_name:india complete sequence">
        <position start="25682" stop="69538"/>
      </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="25982" g_stop="26027" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="46" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="26028" i_stop="26200" i_length="173">
            <donor d_prob="0.728" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="26201" g_stop="26274" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="120" r_length="74" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="26275" i_stop="27220" i_length="946">
            <donor d_prob="0.970" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27221" g_stop="27445" g_length="225"/>
          <reference_exon_boundary r_type="cDNA" r_start="121" r_stop="345" r_length="225" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27446" i_stop="27675" i_length="230">
            <donor d_prob="0.845" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="27676" g_stop="27763" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="346" r_stop="433" r_length="88" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="27764" i_stop="27930" i_length="167">
            <donor d_prob="0.873" 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="27931" g_stop="28040" g_length="110"/>
          <reference_exon_boundary r_type="cDNA" r_start="434" r_stop="543" r_length="110" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="28041" i_stop="28269" i_length="229">
            <donor d_prob="0.910" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="28270" g_stop="28360" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="544" r_stop="634" r_length="91" r_score="0.967"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="28361" i_stop="28452" i_length="92">
            <donor d_prob="0.977" d_score="0.94"/>
            <acceptor a_prob="0.952" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="28453" g_stop="28641" g_length="189"/>
          <reference_exon_boundary r_type="cDNA" r_start="635" r_stop="823" r_length="189" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="28642" i_stop="28725" i_length="84">
            <donor d_prob="0.863" d_score="1.00"/>
            <acceptor a_prob="0.916" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="28726" g_stop="28785" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="824" r_stop="883" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="28786" i_stop="29179" i_length="394">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.971" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="29180" g_stop="29505" g_length="326"/>
          <reference_exon_boundary r_type="cDNA" r_start="884" r_stop="1209" r_length="326" r_score="1.000"/>
        </exon>
        <intron i_serial="9">
          <gDNA_intron_boundary i_start="29506" i_stop="29615" i_length="110">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.809" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="10">
          <gDNA_exon_boundary g_start="29616" g_stop="29632" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="1210" r_stop="1226" r_length="17" r_score="0.706"/>
        </exon>
        <intron i_serial="10">
          <gDNA_intron_boundary i_start="29633" i_stop="30119" i_length="487">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.000" a_score="0.58"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="11">
          <gDNA_exon_boundary g_start="30120" g_stop="30203" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="1227" r_stop="1310" r_length="84" r_score="0.452"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C05SLe0122H05.2" gen_strand="+" ref_id="SGN-M7594" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>1310</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C05SLe0122H05.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M7594" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25982" e_stop="26027"/>
          <exon e_start="26201" e_stop="26274"/>
          <exon e_start="27221" e_stop="27445"/>
          <exon e_start="27676" e_stop="27763"/>
          <exon e_start="27931" e_stop="28040"/>
          <exon e_start="28270" e_stop="28360"/>
          <exon e_start="28453" e_stop="28641"/>
          <exon e_start="28726" e_stop="28785"/>
          <exon e_start="29180" e_stop="29505"/>
          <exon e_start="29616" e_stop="29632"/>
          <exon e_start="30120" e_stop="30203"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGAAGGATTCTTTGCTGATAAATCATGTTTCCTTTCTTAATCTCGGTTAGTTTTTTTTGGGTTTCTTCTCTTTTAAAGGCTTAGTACTTCACACTGTATTTTTTTCCCTAAATTTTCTTCTGTGACTGAAAGATTGAAGCTTTAAGGCATAAACTTGTGAGAACTCATTTAAAAATCTTGTCTTTTTTTGTTAATTTTGGTGGTTTTTTGGATTTTAGATCCCAAGAGATTGGACTGAAGTATCAACAGTGCTTAAATGGGTTGGAAAGACAAGATTAGAACTGTGTTTCAGGTTTGTTGGCATTTTTGCTGTGTTCTTTTCCCATGTTTTCATGATATCCATATTTTTTTAGTTTGATTTCTGGTTCTGCTTATCAATGCTGTTCCTATTTTCATTCTCTTGCAATTAATCGTTTAGTCGAGGGTCTGGCGGAAACGATCGGTTTACCTCCCAAGGTAGGGGTAAGGTCCATGTTGACTCTTCCTTCCCCATACCCCACTCGTGGGATTACACTGCATGTGTTGTTGCAATTGTCCTTTACTCGTTGGCGTATGGTACTTAATTGTTTTGACTGTCTTATTTAGCAGCAATAATGTTAATGATGAAAAATCCAAATTTTGTATGGGATGAGAAGAATTAGGGGGGTTGAACTGTGGGGTTCTTGATGTAGATTCAATCAGTGCAATTTAGTGCTCCAGTAAGATAATGAACGAAATCTGTAGTGATATTGAAAGATCTTTTAGTGATGATACTGTTTATTTTATTGGTATATCTACAACTATTTCTTTCTGCGGGATATTTCAGCATGTTGTGGTTAAAGAGGTCTTGTTTTCTCCTGAAAACATTTGAACATTACATTTAATCAACAAATTTTTGTTACTGATTCCCATTTCTGTTGATTTGCCAGTTGAAAATATATTAAAAAAACGTTATGTTTACTCTTAATTCTTCTCCTACGCAAAACTGGACCAAGATTAGCGTAAATGGACTGATATGAACAGTGAGGATTTGTAGCCAACCCAACTTGCTTGTTTTTGAGGCATAGATGTTTGTTGTTGCTGTATTCCCATTTCTGAAGATTATGTTGTGTGGTTCAAAACGAAGTGTTTATTCATCTGGATTTGCTAACTTCAAATTACTTTTGCTTGTTAGAATGTGTTATCAATGAACTATCAATTTGTATACTAATTTGTTTTTGCAACCGTACGTATTGATATTACTGTTTCAAATGGAGCAGGGTAATACAAATGAGATTGAGCTTGGATGTGGACATACTATTAAGTCTCATGGATCATCAGTTGCAAGAATTCACATGCATGACTGGCTTATATTACTACTGCTTGTAGTAATAGAGGTAGTCCTTTATGTCATTGGTCCATTTCACCGGTATGTTGGAAAGGATATGATGACTGATCTGAAATATCCCATGAAAGATAATACGGTCCCAGTGTGGTCTGTTCCCGTGAGTATTCCTTTTGTTTTTTCAACATATACAGTCGAGTATCAATGTAATGTATGTAATGTACGGAAAATTAATTGCTCTAATAGTACATTGAAGCTTCTATTCTACGATAGAATAGAGGTGCAGGAGGAGTGCTGATTACACCGTGCTTGCAAATTTCAAAAAGTTCAAATTTTTGTAATCAAGTCCCGGGGTTTCTAGTGTTATTAACAGATTTCTTTTATGAACAGCTATATGCAGTTGTATTACCTATTATCATCTTTATTTTCGTTTATCTTCGGAGGAGGGACATCTATGATCTGCACCACAGCATTCTAGGTAATTTCCGTTTCAGCGTTATTTTCCCCGTAGTACAGATTGAAATATCGAGTAGAAGTGAATTTTGTCTCTGACTTTGTTTTCATTGCTGTTGTACAAGGAATGTTTTCCTGTTTGGTTTGCCAAGTAACTTTACTAACTGCATTAAACTTGTTCAAAAATTGCAGGCCTCTTATTTGCCGTTCTAATTACGGCAGTAATCACGGATGCCATCAAGAATGGAGTAGGCCGTCCCCGACCAGATTTTTTCTGGCGTTGCTTTCCTGATGGTAAAGATGTATGTATCTTACTCTCCCAATCTGCCTGATTCGAGAAGTTTTACCTTTTTCCCCTATTAAGGGTTAGCTTCTTAGTGCATTTCTGTTTGACTTGTGTTTATCTGATAGTGAAAGCGCTTTTCGTGATGAACGATGATCATAACTGTAATACACTTAAAAGTGTATTGCTTAGAGTGGTGCTCAACTCCATTGTAAGACGATTGATTTATTTTGCGGTTCTTTTTTCAGGAGTATGATCAGTGGGGAGACGTAAAATGCCATGGTAAAGCAAGTGATATTAAGGAAGGACATAAGAGC-TTCCCAAGCGGGCATACCTCATGTATGTAGCTCAACTTTCTCCGTTTCCACTATCCATGTACATTAAATCAGGATTTCCGAGATATCAAGAAAATTTGAGTTCTTCTTTTGCAGGGTCATTTGCTGGTCTCGGGTTTCTATCGTTGTATTTAGCAGGGAAGATTAAAGCATTTGATCGCCGAGGGCATGTGGCAAAACTATGCATAGTTCTTCTTCCTCTCCTAATGGCATCTCTTGTTGGGGTCTCACGTGTGGATGACTACTGGCATCATTGGCAAGACGTGTTCACTGGAGGAATGATAGGTTCGTCTTGAAATTCTACATTAACATTAAACGAGGGCTGCGTATCATTTGATGAATACTAACTCCATGTGTTTCACATTTCAGGCCTTTTCGTTGCTACATTCTGTTACCTGCAGTTCTTCCCTGCTCCATACCATACTGAAGGTACGTTCTTCACTAATCTCCTCCCGCTTTAATTACATTTTGTGTAGTAATTCCTCGCGCTTAAACAAACCTTTCTCCAATCTTTTCGATTTTGTTATATCCTTAGTACTTCAAAATATTCCGTATCCAGACTAATACCAAGTTAATTACACCCTTTCGTTGAAAGGATCTATACATCTGCCCTTTCTCAACTCATTTCTTGAAACAAAGAAGATCCAATCATCTAAGCCTGATCTGATCATATATTCCAATCGCATTTTCTTCTAATTTCCTATGGATTTGCTAATGATCTAGGAGAAGGCATTGCACCAAATCTCCTCTCCGCAACTTTACTGTTACAGTGGACATAACTCTGAAATTAACCCGATATGTTCATTTTTCTCGCTGTTCTCAGGATGGGGACCATATGCATATTTCCGGGCTGTGGAGGAGGTTCGTAGTAGCAGACCACACGTCCACCCTACTAATGGAGGATTAGAGACGGAACATCCTGAGGTACAACTGAATCAGCGAACGGGTACAACTCCCAATCCATTTGAGGATGTGGAGTATGGCAGAATGTGAGACATAGGAAACTGCTTATATTTTTGTTCAAAGTATTTTAATTGGCACAGTTTGTTATTTTCTTGTGAATATTTATGTTTGTTTTTGTTAAGTATTTTAGCTATAGGGAACTATTTGATTACTGAAATTGTTTTAATCAGTGGCAAGTTCTTTTTTTTGTGTGTGTGTAATTTGTTGCATAATTAGTTTATTGGTTGATAATTTTGTCATTATTTCTTTCATTCCTTGAGCTAAAGATCATTTTGTTAGTATGGAATTGATTTTAGTACTTAAAAAGGAAAAATGAAGGTGCTATAACCCAAGTTGCGAGAAAATCTCAAATATCTGGAGTTTCTTTTTGTATATTATATGGATAATCCGATTCGCAAGGACCATGATTGGAAATTGATCAGTCATCTTCCTCTGAGGAATAGTCGAAATAAAAGTGTATAGTACGATGAAAGTTATAAGTTGTGTTTGGTTTGGGGGTGGGGGTGGGTCTATCGTTGGCCTCTATGTTAGAATCTGATTTGAAAGGACACAAACAAGTTGCTACTGACTGCCTCAATGGTAGAATATGACCTGAAAGGATACCAACAAGTTGCTATTGAACGTGAACAAAGTCAAGTGATGGAATCAACTGAATATAATTAGTTTTTTTTTACGTCAATCTTCTTTATTGATGTCGTATCCATATCAAATTCTCCCAAAATATATTACGTTTGTAGAATTTGACACACATTCATTGACGTAGCAACACAAGTTATAACATGTAAATTCTAGTTAGGTTCAAAATACAAAAATAAAATAAAAAATCCGACAATCGACACATATGACGTGTGTTTATACATCTGGCTGTGTAGCCTAGTGATCAA</genome_strand>
        <mrna_strand>TAGAAGGATTCTTTGCTGATAAATCATGTTTCCTTTCTTAATCTCG.............................................................................................................................................................................ATCCCAAGAGATTGGACTGAAGTATCAACAGTGCTTAAATGGGTTGGAAAGACAAGATTAGAACTGTGTTTCAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTAATACAAATGAGATTGAGCTTGGATGTGGACATACTATTAAGTCTCATGGATCATCAGTTGCAAGAATTCACATGCATGACTGGCTTATATTACTACTGCTTGTAGTAATAGAGGTAGTCCTTTATGTCATTGGTCCATTTCACCGGTATGTTGGAAAGGATATGATGACTGATCTGAAATATCCCATGAAAGATAATACGGTCCCAGTGTGGTCTGTTCCC......................................................................................................................................................................................................................................CTATATGCAGTTGTATTACCTATTATCATCTTTATTTTCGTTTATCTTCGGAGGAGGGACATCTATGATCTGCACCACAGCATTCTAG.......................................................................................................................................................................GCCTCTTATTTGCCGTTCTAATTACGGCAGTAATCACGGATGCCATCAAGAATGGAGTAGGCCGTCCCCGACCAGATTTTTTCTGGCGTTGCTTTCCTGATGGTAAAGAT.....................................................................................................................................................................................................................................GAGTATGATCAGTGGGGAGACGTAAAATGCCATGGTAAAGCAAGTGATATTAAGGAAGGACAT-AGAGCTTTCCCAAGCGGGCATACCTCAT............................................................................................GGTCATTTGCTGGTCTCGGGTTTCTATCGTTGTATTTAGCAGGGAAGATTAAAGCATTTGATCGCCGAGGGCATGTGGCAAAACTATGCATAGTTCTTCTTCCTCTCCTAATGGCATCTCTTGTTGGGGTCTCACGTGTGGATGACTACTGGCATCATTGGCAAGACGTGTTCACTGGAGGAATGATAG....................................................................................GCCTTTTCGTTGCTACATTCTGTTACCTGCAGTTCTTCCCTGCTCCATACCATACTGAAG..........................................................................................................................................................................................................................................................................................................................................................................................................GATGGGGACCATATGCATATTTCCGGGCTGTGGAGGAGGTTCGTAGTAGCAGACCACACGTCCACCCTACTAATGGAGGATTAGAGACGGAACATCCTGAGGTACAACTGAATCAGCGAACGGGTACAACTCCCAATCCATTTGAGGATGTGGAGTATGGCAGAATGTGAGACATAGGAAACTGCTTATATTTTTGTTCAAAGTATTTTAATTGGCACAGTTTGTTATTTTCTTGTGAATATTTATGTTTGTTTTTGTTAAGTATTTTAGCTATAGGGAACTATTTGATTACTGAAATTGTTTTAATCAGTGGCAAGTTCTTTTTT..............................................................................................................TAAAAAAAAAAAAAAAA.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCGGGGGGGGGGGGCCCCCCCCCCCCCCCCCCCTGGGGGGGGT</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-C05SLe0122H05-yRdLe/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M7594-2" ref_strand="-" ref_description="SGN-M7594-2 C2_At3g02600-2 [cosii_markers]">
      <seq>atggtaaagatgagtatgatcagtggggagacgtgaaatgccatggtaaagcaagtgatattaaggaaggacataagagcttcccaagcgggcatacctcatggtcatttgctggtctcgggtttctatcattgtatttagcagggaagattaaagcatttgatcgacgagggcatgtggcaaaactatgcatagtttttcttcctctcctaatggcatctcttgttggggtctcacgtgtggatgactactggcatcattggcaagacgtgttcactggaggaatgataggccttttcgttgctacgttctgttacctgcagttcttccctgctccataccatactgaaggatggggaccttatgcatatttccgggcagtggaggaggttcgtagtagcagacaacacgtccaccctactaacggaggattagagatagaacgtcccgaggtacaactgaatcagcgatccagtacaactcccaatccatttgaggatgtggagtatggcagaatgtgagacataagacagtgtacacttatgcttatatttgttcaaagtattttagttggcacagtttgttattttcttgtgaatatttaagtctgtttttgttaagtattttagctttagggaactatttgattactgaaattgtttaatcagtgttaagttctttttctttttctgtgtaatttgttgcataattagttcaattggttgatgattttgtaattatttctttctttgagctaaagatcactttgttaatctggaaaaaaaaaaaaaaaaaaaactgagactagttctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C05SLe0122H05-yRdLe/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C05SLe0122H05.2" temp_strand="+" temp_description="C05SLe0122H05.2  AC212309.2 htgs_phase:3 submitted_to_sgn_as:C05SLe0122H05 sequenced_by:iitg upload_account_name:india complete sequence">
        <position start="27968" stop="29872"/>
      </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="28030" g_stop="28040" g_length="11"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="11" r_length="11" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="28041" i_stop="28269" i_length="229">
            <donor d_prob="0.910" d_score="0.00"/>
            <acceptor a_prob="0.994" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28270" g_stop="28360" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="102" r_length="91" r_score="0.989"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="28361" i_stop="28452" i_length="92">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.952" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="28453" g_stop="28641" g_length="189"/>
          <reference_exon_boundary r_type="cDNA" r_start="103" r_stop="291" r_length="189" r_score="0.984"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="28642" i_stop="28725" i_length="84">
            <donor d_prob="0.863" d_score="1.00"/>
            <acceptor a_prob="0.916" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="28726" g_stop="28785" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="292" r_stop="351" r_length="60" r_score="0.983"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="28786" i_stop="29179" i_length="394">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.971" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="29180" g_stop="29597" g_length="418"/>
          <reference_exon_boundary r_type="cDNA" r_start="352" r_stop="772" r_length="421" r_score="0.876"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="779" polyA_stop="799"/>
      <MATCH_line gen_id="C05SLe0122H05.2" gen_strand="+" ref_id="SGN-M7594-2" ref_strand="-">
        <total_alignment_score>0.925</total_alignment_score>
        <cumulative_length_of_scored_exons>769</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C05SLe0122H05.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M7594-2" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="28030" e_stop="28040"/>
          <exon e_start="28270" e_stop="28360"/>
          <exon e_start="28453" e_stop="28641"/>
          <exon e_start="28726" e_stop="28785"/>
          <exon e_start="29180" e_stop="29597"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGTAAAGATGTATGTATCTTACTCTCCCAATCTGCCTGATTCGAGAAGTTTTACCTTTTTCCCCTATTAAGGGTTAGCTTCTTAGTGCATTTCTGTTTGACTTGTGTTTATCTGATAGTGAAAGCGCTTTTCGTGATGAACGATGATCATAACTGTAATACACTTAAAAGTGTATTGCTTAGAGTGGTGCTCAACTCCATTGTAAGACGATTGATTTATTTTGCGGTTCTTTTTTCAGGAGTATGATCAGTGGGGAGACGTAAAATGCCATGGTAAAGCAAGTGATATTAAGGAAGGACATAAGAGCTTCCCAAGCGGGCATACCTCATGTATGTAGCTCAACTTTCTCCGTTTCCACTATCCATGTACATTAAATCAGGATTTCCGAGATATCAAGAAAATTTGAGTTCTTCTTTTGCAGGGTCATTTGCTGGTCTCGGGTTTCTATCGTTGTATTTAGCAGGGAAGATTAAAGCATTTGATCGCCGAGGGCATGTGGCAAAACTATGCATAGTTCTTCTTCCTCTCCTAATGGCATCTCTTGTTGGGGTCTCACGTGTGGATGACTACTGGCATCATTGGCAAGACGTGTTCACTGGAGGAATGATAGGTTCGTCTTGAAATTCTACATTAACATTAAACGAGGGCTGCGTATCATTTGATGAATACTAACTCCATGTGTTTCACATTTCAGGCCTTTTCGTTGCTACATTCTGTTACCTGCAGTTCTTCCCTGCTCCATACCATACTGAAGGTACGTTCTTCACTAATCTCCTCCCGCTTTAATTACATTTTGTGTAGTAATTCCTCGCGCTTAAACAAACCTTTCTCCAATCTTTTCGATTTTGTTATATCCTTAGTACTTCAAAATATTCCGTATCCAGACTAATACCAAGTTAATTACACCCTTTCGTTGAAAGGATCTATACATCTGCCCTTTCTCAACTCATTTCTTGAAACAAAGAAGATCCAATCATCTAAGCCTGATCTGATCATATATTCCAATCGCATTTTCTTCTAATTTCCTATGGATTTGCTAATGATCTAGGAGAAGGCATTGCACCAAATCTCCTCTCCGCAACTTTACTGTTACAGTGGACATAACTCTGAAATTAACCCGATATGTTCATTTTTCTCGCTGTTCTCAGGATGGGGACCATATGCATATTTCCGGGCTGTGGAGGAGGTTCGTAGTAGCAGACCACACGTCCACCCTACTAATGGAGGATTAGAGACGGAACATCCTGAGGTACAACTGAATCAGCGAACGGGTACAACTCCCAATCCATTTGAGGATGTGGAGTATGGCAGAATGTGAGACATAGGAAACTG----CTTA----TATTTTTGTTCAAAGTATTTTAATTGGCACAGTTTGTTATTTTCTTGTGAATATTTATGTTTGTTTTTGTTAAGTATTTTAGCTATAGGGAACTATTTGATTACTGAAATTGTTTTAATCAGTGGCAAGTTCTTTTTTTTGTGTGTGTGTAATTTGTTGCATAATTAGTT-TATTGGTTGATAATTTTGTCATTATTTCTTTCATTCCTTGAGCTAAAGATCATTTTGTTA</genome_strand>
        <mrna_strand>ATGGTAAAGAT.....................................................................................................................................................................................................................................GAGTATGATCAGTGGGGAGACGTGAAATGCCATGGTAAAGCAAGTGATATTAAGGAAGGACATAAGAGCTTCCCAAGCGGGCATACCTCAT............................................................................................GGTCATTTGCTGGTCTCGGGTTTCTATCATTGTATTTAGCAGGGAAGATTAAAGCATTTGATCGACGAGGGCATGTGGCAAAACTATGCATAGTTTTTCTTCCTCTCCTAATGGCATCTCTTGTTGGGGTCTCACGTGTGGATGACTACTGGCATCATTGGCAAGACGTGTTCACTGGAGGAATGATAG....................................................................................GCCTTTTCGTTGCTACGTTCTGTTACCTGCAGTTCTTCCCTGCTCCATACCATACTGAAG..........................................................................................................................................................................................................................................................................................................................................................................................................GATGGGGACCTTATGCATATTTCCGGGCAGTGGAGGAGGTTCGTAGTAGCAGACAACACGTCCACCCTACTAACGGAGGATTAGAGATAGAACGTCCCGAGGTACAACTGAATCAGCGATCCAGTACAACTCCCAATCCATTTGAGGATGTGGAGTATGGCAGAATGTGAGACATAAGACAGTGTACACTTATGCTTATATTTGTTCAAAGTATTTTAGTTGGCACAGTTTGTTATTTTCTTGTGAATATTTAAGTCTGTTTTTGTTAAGTATTTTAGCTTTAGGGAACTATTTGATTACTGAAATTG-TTTAATCAGTGTTAAGTTCTTTTTCTT-TTTCTGTGTAATTTGTTGCATAATTAGTTCAATTGGTTGATGATTTTGTAATTATTTCTTTC--T--TTGAGCTAAAGATCACTTTGTTA</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="25982" PGL_stop="30203"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="25982" e_stop="26027"/>
            <exon e_start="26201" e_stop="26274"/>
            <exon e_start="27221" e_stop="27445"/>
            <exon e_start="27676" e_stop="27763"/>
            <exon e_start="27931" e_stop="28040"/>
            <exon e_start="28270" e_stop="28360"/>
            <exon e_start="28453" e_stop="28641"/>
            <exon e_start="28726" e_stop="28785"/>
            <exon e_start="29180" e_stop="29505"/>
            <exon e_start="29616" e_stop="29632"/>
            <exon e_start="30120" e_stop="30203"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.728" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="0.970" acc_prob="0.987" e_score="1.000"/>
          <exon-intron don_prob="0.845" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.873" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.910" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.977" acc_prob="0.952" e_score="0.967"/>
          <exon-intron don_prob="0.863" acc_prob="0.916" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.971" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.809" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.706"/>
          <exon-only e_score="0.452"/>
        </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="25982" e_stop="26027" e_length="46"/>
          </exon>
          <intron i_serial="1" don_prob="0.728" acc_prob="0.992">
            <gDNA_intron_boundary i_start="26028" i_stop="26200" i_length="173"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="26201" e_stop="26274" e_length="74"/>
          </exon>
          <intron i_serial="2" don_prob="0.970" acc_prob="0.987">
            <gDNA_intron_boundary i_start="26275" i_stop="27220" i_length="946"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="27221" e_stop="27445" e_length="225"/>
          </exon>
          <intron i_serial="3" don_prob="0.845" acc_prob="0.000">
            <gDNA_intron_boundary i_start="27446" i_stop="27675" i_length="230"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="27676" e_stop="27763" e_length="88"/>
          </exon>
          <intron i_serial="4" don_prob="0.873" acc_prob="0.998">
            <gDNA_intron_boundary i_start="27764" i_stop="27930" i_length="167"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="27931" e_stop="28040" e_length="110"/>
          </exon>
          <intron i_serial="5" don_prob="0.910" acc_prob="0.994">
            <gDNA_intron_boundary i_start="28041" i_stop="28269" i_length="229"/>
          </intron>
          <exon e_serial="6" e_score="0.967">
            <gDNA_exon_boundary e_start="28270" e_stop="28360" e_length="91"/>
          </exon>
          <intron i_serial="6" don_prob="0.977" acc_prob="0.952">
            <gDNA_intron_boundary i_start="28361" i_stop="28452" i_length="92"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="28453" e_stop="28641" e_length="189"/>
          </exon>
          <intron i_serial="7" don_prob="0.863" acc_prob="0.916">
            <gDNA_intron_boundary i_start="28642" i_stop="28725" i_length="84"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="28726" e_stop="28785" e_length="60"/>
          </exon>
          <intron i_serial="8" don_prob="1.000" acc_prob="0.971">
            <gDNA_intron_boundary i_start="28786" i_stop="29179" i_length="394"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="29180" e_stop="29505" e_length="326"/>
          </exon>
          <intron i_serial="9" don_prob="0.000" acc_prob="0.809">
            <gDNA_intron_boundary i_start="29506" i_stop="29615" i_length="110"/>
          </intron>
          <exon e_serial="10" e_score="0.706">
            <gDNA_exon_boundary e_start="29616" e_stop="29632" e_length="17"/>
          </exon>
          <intron i_serial="10" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="29633" i_stop="30119" i_length="487"/>
          </intron>
          <exon e_serial="11" e_score="0.452">
            <gDNA_exon_boundary e_start="30120" e_stop="30203" e_length="84"/>
          </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="25982" stop="26027"/>
              <exon start="26201" stop="26274"/>
              <exon start="27221" stop="27445"/>
              <exon start="27676" stop="27763"/>
              <exon start="27931" stop="28040"/>
              <exon start="28270" stop="28360"/>
              <exon start="28453" stop="28641"/>
              <exon start="28726" stop="28785"/>
              <exon start="29180" stop="29505"/>
              <exon start="29616" stop="29632"/>
              <exon start="30120" stop="30203"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M7594" 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>TAGAAGGATTCTTTGCTGATAAATCATGTTTCCTTTCTTAATCTCG : ATCCCAAGAGATTGGACTGAAGTATCAACAGTGCTTAAATGGGTTGGAAAGACAAGATTAGAACTGTGTTTCAG : GGTAATACAAATGAGATTGAGCTTGGATGTGGACATACTATTAAGTCTCATGGATCATCAGTTGCAAGAATTCACATGCATGACTGGCTTATATTACTACTGCTTGTAGTAATAGAGGTAGTCCTTTATGTCATTGGTCCATTTCACCGGTATGTTGGAAAGGATATGATGACTGATCTGAAATATCCCATGAAAGATAATACGGTCCCAGTGTGGTCTGTTCCC : CTATATGCAGTTGTATTACCTATTATCATCTTTATTTTCGTTTATCTTCGGAGGAGGGACATCTATGATCTGCACCACAGCATTCTAG : GCCTCTTATTTGCCGTTCTAATTACGGCAGTAATCACGGATGCCATCAAGAATGGAGTAGGCCGTCCCCGACCAGATTTTTTCTGGCGTTGCTTTCCTGATGGTAAAGAT : GAGTATGATCAGTGGGGAGACGTAAAATGCCATGGTAAAGCAAGTGATATTAAGGAAGGACATAAGAGCTTCCCAAGCGGGCATACCTCAT : GGTCATTTGCTGGTCTCGGGTTTCTATCGTTGTATTTAGCAGGGAAGATTAAAGCATTTGATCGCCGAGGGCATGTGGCAAAACTATGCATAGTTCTTCTTCCTCTCCTAATGGCATCTCTTGTTGGGGTCTCACGTGTGGATGACTACTGGCATCATTGGCAAGACGTGTTCACTGGAGGAATGATAG : GCCTTTTCGTTGCTACATTCTGTTACCTGCAGTTCTTCCCTGCTCCATACCATACTGAAG : GATGGGGACCATATGCATATTTCCGGGCTGTGGAGGAGGTTCGTAGTAGCAGACCACACGTCCACCCTACTAATGGAGGATTAGAGACGGAACATCCTGAGGTACAACTGAATCAGCGAACGGGTACAACTCCCAATCCATTTGAGGATGTGGAGTATGGCAGAATGTGAGACATAGGAAACTGCTTATATTTTTGTTCAAAGTATTTTAATTGGCACAGTTTGTTATTTTCTTGTGAATATTTATGTTTGTTTTTGTTAAGTATTTTAGCTATAGGGAACTATTTGATTACTGAAATTGTTTTAATCAGTGGCAAGTTCTTTTTT : TACTTAAAAAGGAAAAA : AAAATACAAAAATAAAATAAAAAATCCGACAATCGACACATATGACGTGTGTTTATACATCTGGCTGTGTAGCCTAGTGATCAA</gDNA_template>
            <first_frame> *  K  D  S  L  L  I  N  H  V  S  F  L  N  L   : D  P  K  R  L  D  *  S  I  N  S  A  *  M  G  W  K  D  K  I  R  T  V  F  Q  :  G  N  T  N  E  I  E  L  G  C  G  H  T  I  K  S  H  G  S  S  V  A  R  I  H  M  H  D  W  L  I  L  L  L  L  V  V  I  E  V  V  L  Y  V  I  G  P  F  H  R  Y  V  G  K  D  M  M  T  D  L  K  Y  P  M  K  D  N  T  V  P  V  W  S  V  P  :  L  Y  A  V  V  L  P  I  I  I  F  I  F  V  Y  L  R  R  R  D  I  Y  D  L  H  H  S  I  L   : G  L  L  F  A  V  L  I  T  A  V  I  T  D  A  I  K  N  G  V  G  R  P  R  P  D  F  F  W  R  C  F  P  D  G  K  D  :  E  Y  D  Q  W  G  D  V  K  C  H  G  K  A  S  D  I  K  E  G  H  K  S  F  P  S  G  H  T  S   : W  S  F  A  G  L  G  F  L  S  L  Y  L  A  G  K  I  K  A  F  D  R  R  G  H  V  A  K  L  C  I  V  L  L  P  L  L  M  A  S  L  V  G  V  S  R  V  D  D  Y  W  H  H  W  Q  D  V  F  T  G  G  M  I   : G  L  F  V  A  T  F  C  Y  L  Q  F  F  P  A  P  Y  H  T  E   : G  W  G  P  Y  A  Y  F  R  A  V  E  E  V  R  S  S  R  P  H  V  H  P  T  N  G  G  L  E  T  E  H  P  E  V  Q  L  N  Q  R  T  G  T  T  P  N  P  F  E  D  V  E  Y  G  R  M  *  D  I  G  N  C  L  Y  F  C  S  K  Y  F  N  W  H  S  L  L  F  S  C  E  Y  L  C  L  F  L  L  S  I  L  A  I  G  N  Y  L  I  T  E  I  V  L  I  S  G  K  F  F  F  :  Y  L  K  R  K  K :   K  Y  K  N  K  I  K  N  P  T  I  D  T  Y  D  V  C  L  Y  I  W  L  C  S  L  V  I   </first_frame>
            <second_frame>  R  R  I  L  C  *  *  I  M  F  P  F  L  I  S  :  I  P  R  D  W  T  E  V  S  T  V  L  K  W  V  G  K  T  R  L  E  L  C  F  R :   V  I  Q  M  R  L  S  L  D  V  D  I  L  L  S  L  M  D  H  Q  L  Q  E  F  T  C  M  T  G  L  Y  Y  Y  C  L  *  *  *  R  *  S  F  M  S  L  V  H  F  T  G  M  L  E  R  I  *  *  L  I  *  N  I  P  *  K  I  I  R  S  Q  C  G  L  F  P :   Y  M  Q  L  Y  Y  L  L  S  S  L  F  S  F  I  F  G  G  G  T  S  M  I  C  T  T  A  F  *  :  A  S  Y  L  P  F  *  L  R  Q  *  S  R  M  P  S  R  M  E  *  A  V  P  D  Q  I  F  S  G  V  A  F  L  M  V  K  M :   S  M  I  S  G  E  T  *  N  A  M  V  K  Q  V  I  L  R  K  D  I  R  A  S  Q  A  G  I  P  H  :  G  H  L  L  V  S  G  F  Y  R  C  I  *  Q  G  R  L  K  H  L  I  A  E  G  M  W  Q  N  Y  A  *  F  F  F  L  S  *  W  H  L  L  L  G  S  H  V  W  M  T  T  G  I  I  G  K  T  C  S  L  E  E  *  *  :  A  F  S  L  L  H  S  V  T  C  S  S  S  L  L  H  T  I  L  K  :  D  G  D  H  M  H  I  S  G  L  W  R  R  F  V  V  A  D  H  T  S  T  L  L  M  E  D  *  R  R  N  I  L  R  Y  N  *  I  S  E  R  V  Q  L  P  I  H  L  R  M  W  S  M  A  E  C  E  T  *  E  T  A  Y  I  F  V  Q  S  I  L  I  G  T  V  C  Y  F  L  V  N  I  Y  V  C  F  C  *  V  F  *  L  *  G  T  I  *  L  L  K  L  F  *  S  V  A  S  S  F  F :   T  *  K  G  K   : K  N  T  K  I  K  *  K  I  R  Q  S  T  H  M  T  C  V  Y  T  S  G  C  V  A  *  *  S  </second_frame>
            <third_frame>   E  G  F  F  A  D  K  S  C  F  L  S  *  S  R :   S  Q  E  I  G  L  K  Y  Q  Q  C  L  N  G  L  E  R  Q  D  *  N  C  V  S   : G  *  Y  K  *  D  *  A  W  M  W  T  Y  Y  *  V  S  W  I  I  S  C  K  N  S  H  A  *  L  A  Y  I  T  T  A  C  S  N  R  G  S  P  L  C  H  W  S  I  S  P  V  C  W  K  G  Y  D  D  *  S  E  I  S  H  E  R  *  Y  G  P  S  V  V  C  S   : P  I  C  S  C  I  T  Y  Y  H  L  Y  F  R  L  S  S  E  E  G  H  L  *  S  A  P  Q  H  S  R :   P  L  I  C  R  S  N  Y  G  S  N  H  G  C  H  Q  E  W  S  R  P  S  P  T  R  F  F  L  A  L  L  S  *  W  *  R   : *  V  *  S  V  G  R  R  K  M  P  W  *  S  K  *  Y  *  G  R  T  *  E  L  P  K  R  A  Y  L  M :   V  I  C  W  S  R  V  S  I  V  V  F  S  R  E  D  *  S  I  *  S  P  R  A  C  G  K  T  M  H  S  S  S  S  S  P  N  G  I  S  C  W  G  L  T  C  G  *  L  L  A  S  L  A  R  R  V  H  W  R  N  D  R :   P  F  R  C  Y  I  L  L  P  A  V  L  P  C  S  I  P  Y  *  R :   M  G  T  I  C  I  F  P  G  C  G  G  G  S  *  *  Q  T  T  R  P  P  Y  *  W  R  I  R  D  G  T  S  *  G  T  T  E  S  A  N  G  Y  N  S  Q  S  I  *  G  C  G  V  W  Q  N  V  R  H  R  K  L  L  I  F  L  F  K  V  F  *  L  A  Q  F  V  I  F  L  *  I  F  M  F  V  F  V  K  Y  F  S  Y  R  E  L  F  D  Y  *  N  C  F  N  Q  W  Q  V  L  F   : L  L  K  K  E  K  :  K  I  Q  K  *  N  K  K  S  D  N  R  H  I  *  R  V  F  I  H  L  A  V  *  P  S  D  Q </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="C05SLe0122H05.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="26239" stop="26274"/>
                    <exon start="27221" stop="27445"/>
                    <exon start="27676" stop="27763"/>
                    <exon start="27931" stop="28040"/>
                    <exon start="28270" stop="28360"/>
                    <exon start="28453" stop="28641"/>
                    <exon start="28726" stop="28785"/>
                    <exon start="29180" stop="29349"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>966</number_coding_nucleotides>
                  <number_encoded_amino_acids>322</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MGWKDKIRTVFQGNTNEIELGCGHTIKSHGSSVARIHMHDWLILLLLVVIEVVLYVIGPFHRYVGKDMMTDLKYPMKDNTVPVWSVPLYAVVLPIIIFIFVYLRRRDIYDLHHSILGLLFAVLITAVITDAIKNGVGRPRPDFFWRCFPDGKDEYDQWGDVKCHGKASDIKEGHKSFPSGHTSWSFAGLGFLSLYLAGKIKAFDRRGHVAKLCIVLLPLLMASLVGVSRVDDYWHHWQDVFTGGMIGLFVATFCYLQFFPAPYHTEGWGPYAYFRAVEEVRSSRPHVHPTNGGLETEHPEVQLNQRTGTTPNPFEDVEYGRM*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C05SLe0122H05.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="29350" stop="29505"/>
                    <exon start="29616" stop="29632"/>
                    <exon start="30120" stop="30201"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>255</number_coding_nucleotides>
                  <number_encoded_amino_acids>85</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DIGNCLYFCSKYFNWHSLLFSCEYLCLFLLSILAIGNYLITEIVLISGKFFFYLKRKKKYKNKIKNPTIDTYDVCLYIWLCSLVI</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="28030" e_stop="28040"/>
            <exon e_start="28270" e_stop="28360"/>
            <exon e_start="28453" e_stop="28641"/>
            <exon e_start="28726" e_stop="28785"/>
            <exon e_start="29180" e_stop="29597"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.910" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.977" acc_prob="0.952" e_score="0.989"/>
          <exon-intron don_prob="0.863" acc_prob="0.916" e_score="0.984"/>
          <exon-intron don_prob="1.000" acc_prob="0.971" e_score="0.983"/>
          <exon-only e_score="0.876"/>
        </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="28030" e_stop="28040" e_length="11"/>
          </exon>
          <intron i_serial="1" don_prob="0.910" acc_prob="0.994">
            <gDNA_intron_boundary i_start="28041" i_stop="28269" i_length="229"/>
          </intron>
          <exon e_serial="2" e_score="0.989">
            <gDNA_exon_boundary e_start="28270" e_stop="28360" e_length="91"/>
          </exon>
          <intron i_serial="2" don_prob="0.977" acc_prob="0.952">
            <gDNA_intron_boundary i_start="28361" i_stop="28452" i_length="92"/>
          </intron>
          <exon e_serial="3" e_score="0.984">
            <gDNA_exon_boundary e_start="28453" e_stop="28641" e_length="189"/>
          </exon>
          <intron i_serial="3" don_prob="0.863" acc_prob="0.916">
            <gDNA_intron_boundary i_start="28642" i_stop="28725" i_length="84"/>
          </intron>
          <exon e_serial="4" e_score="0.983">
            <gDNA_exon_boundary e_start="28726" e_stop="28785" e_length="60"/>
          </exon>
          <intron i_serial="4" don_prob="1.000" acc_prob="0.971">
            <gDNA_intron_boundary i_start="28786" i_stop="29179" i_length="394"/>
          </intron>
          <exon e_serial="5" e_score="0.876">
            <gDNA_exon_boundary e_start="29180" e_stop="29597" e_length="418"/>
          </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="28030" stop="28040"/>
              <exon start="28270" stop="28360"/>
              <exon start="28453" stop="28641"/>
              <exon start="28726" stop="28785"/>
              <exon start="29180" stop="29597"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M7594-2" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATGGTAAAGAT : GAGTATGATCAGTGGGGAGACGTAAAATGCCATGGTAAAGCAAGTGATATTAAGGAAGGACATAAGAGCTTCCCAAGCGGGCATACCTCAT : GGTCATTTGCTGGTCTCGGGTTTCTATCGTTGTATTTAGCAGGGAAGATTAAAGCATTTGATCGCCGAGGGCATGTGGCAAAACTATGCATAGTTCTTCTTCCTCTCCTAATGGCATCTCTTGTTGGGGTCTCACGTGTGGATGACTACTGGCATCATTGGCAAGACGTGTTCACTGGAGGAATGATAG : GCCTTTTCGTTGCTACATTCTGTTACCTGCAGTTCTTCCCTGCTCCATACCATACTGAAG : GATGGGGACCATATGCATATTTCCGGGCTGTGGAGGAGGTTCGTAGTAGCAGACCACACGTCCACCCTACTAATGGAGGATTAGAGACGGAACATCCTGAGGTACAACTGAATCAGCGAACGGGTACAACTCCCAATCCATTTGAGGATGTGGAGTATGGCAGAATGTGAGACATAGGAAACTGCTTATATTTTTGTTCAAAGTATTTTAATTGGCACAGTTTGTTATTTTCTTGTGAATATTTATGTTTGTTTTTGTTAAGTATTTTAGCTATAGGGAACTATTTGATTACTGAAATTGTTTTAATCAGTGGCAAGTTCTTTTTTTTGTGTGTGTGTAATTTGTTGCATAATTAGTTTATTGGTTGATAATTTTGTCATTATTTCTTTCATTCCTTGAGCTAAAGATCATTTTGTTA</gDNA_template>
            <first_frame> M  V  K  M :   S  M  I  S  G  E  T  *  N  A  M  V  K  Q  V  I  L  R  K  D  I  R  A  S  Q  A  G  I  P  H  :  G  H  L  L  V  S  G  F  Y  R  C  I  *  Q  G  R  L  K  H  L  I  A  E  G  M  W  Q  N  Y  A  *  F  F  F  L  S  *  W  H  L  L  L  G  S  H  V  W  M  T  T  G  I  I  G  K  T  C  S  L  E  E  *  *  :  A  F  S  L  L  H  S  V  T  C  S  S  S  L  L  H  T  I  L  K  :  D  G  D  H  M  H  I  S  G  L  W  R  R  F  V  V  A  D  H  T  S  T  L  L  M  E  D  *  R  R  N  I  L  R  Y  N  *  I  S  E  R  V  Q  L  P  I  H  L  R  M  W  S  M  A  E  C  E  T  *  E  T  A  Y  I  F  V  Q  S  I  L  I  G  T  V  C  Y  F  L  V  N  I  Y  V  C  F  C  *  V  F  *  L  *  G  T  I  *  L  L  K  L  F  *  S  V  A  S  S  F  F  C  V  C  V  I  C  C  I  I  S  L  L  V  D  N  F  V  I  I  S  F  I  P  *  A  K  D  H  F  V  </first_frame>
            <second_frame>  W  *  R   : *  V  *  S  V  G  R  R  K  M  P  W  *  S  K  *  Y  *  G  R  T  *  E  L  P  K  R  A  Y  L  M :   V  I  C  W  S  R  V  S  I  V  V  F  S  R  E  D  *  S  I  *  S  P  R  A  C  G  K  T  M  H  S  S  S  S  S  P  N  G  I  S  C  W  G  L  T  C  G  *  L  L  A  S  L  A  R  R  V  H  W  R  N  D  R :   P  F  R  C  Y  I  L  L  P  A  V  L  P  C  S  I  P  Y  *  R :   M  G  T  I  C  I  F  P  G  C  G  G  G  S  *  *  Q  T  T  R  P  P  Y  *  W  R  I  R  D  G  T  S  *  G  T  T  E  S  A  N  G  Y  N  S  Q  S  I  *  G  C  G  V  W  Q  N  V  R  H  R  K  L  L  I  F  L  F  K  V  F  *  L  A  Q  F  V  I  F  L  *  I  F  M  F  V  F  V  K  Y  F  S  Y  R  E  L  F  D  Y  *  N  C  F  N  Q  W  Q  V  L  F  F  V  C  V  *  F  V  A  *  L  V  Y  W  L  I  I  L  S  L  F  L  S  F  L  E  L  K  I  I  L  L </second_frame>
            <third_frame>   G  K  D  :  E  Y  D  Q  W  G  D  V  K  C  H  G  K  A  S  D  I  K  E  G  H  K  S  F  P  S  G  H  T  S   : W  S  F  A  G  L  G  F  L  S  L  Y  L  A  G  K  I  K  A  F  D  R  R  G  H  V  A  K  L  C  I  V  L  L  P  L  L  M  A  S  L  V  G  V  S  R  V  D  D  Y  W  H  H  W  Q  D  V  F  T  G  G  M  I   : G  L  F  V  A  T  F  C  Y  L  Q  F  F  P  A  P  Y  H  T  E   : G  W  G  P  Y  A  Y  F  R  A  V  E  E  V  R  S  S  R  P  H  V  H  P  T  N  G  G  L  E  T  E  H  P  E  V  Q  L  N  Q  R  T  G  T  T  P  N  P  F  E  D  V  E  Y  G  R  M  *  D  I  G  N  C  L  Y  F  C  S  K  Y  F  N  W  H  S  L  L  F  S  C  E  Y  L  C  L  F  L  L  S  I  L  A  I  G  N  Y  L  I  T  E  I  V  L  I  S  G  K  F  F  F  L  C  V  C  N  L  L  H  N  *  F  I  G  *  *  F  C  H  Y  F  F  H  S  L  S  *  R  S  F  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="C05SLe0122H05.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="28032" stop="28040"/>
                    <exon start="28270" stop="28360"/>
                    <exon start="28453" stop="28641"/>
                    <exon start="28726" stop="28785"/>
                    <exon start="29180" stop="29349"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>516</number_coding_nucleotides>
                  <number_encoded_amino_acids>172</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GKDEYDQWGDVKCHGKASDIKEGHKSFPSGHTSWSFAGLGFLSLYLAGKIKAFDRRGHVAKLCIVLLPLLMASLVGVSRVDDYWHHWQDVFTGGMIGLFVATFCYLQFFPAPYHTEGWGPYAYFRAVEEVRSSRPHVHPTNGGLETEHPEVQLNQRTGTTPNPFEDVEYGRM*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 14 chains have been computed
$ 
$ memory statistics:
$ 82528 bytes spliced alignments in total
$ 2 spliced alignments have been stored
$ 41264 bytes was the average size of a spliced alignment
$ 6064 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 6064 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 16 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-14 17:41:33
-->
