<?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 23:49:20"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C11HBa0119D16-WY1n2/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C11HBa0119D16-WY1n2/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-C11HBa0119D16-WY1n2/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M4684" ref_strand="+" ref_description="SGN-M4684 C2_At5g12200 [cosii_markers]">
      <seq>cgagctattcgtttggccagctttgtgaacactccattgtatgttgttcatgtcatgagtattgacgcgatggaagaaattgccagagctcggaagtcaggtcaaagaattgttggggagccagtcgtttcaggtttacttcttaatgattcagtactttgggatcctgacttccattttgcagcaaggtacgtcatgagcccaccaatcagagcagcaggtcatggaacagctcttcaagcagctcttgctgcaggggttctgcagctggtaggaactgatcactgcaccttcaactcaactcagaaagcgctaggaattggtgatttccggaaaataccaaatggtgttaatggtatggaggagagaatgcatttggtttggaatacaatggtggcttctggtcagatatctgtcactgattatgttcgcataacaagcacagaatgtgctcggattttcaatatctatccaaggaagggagcaatacttgttgggtctgatgcagatataatcattttaaatcccaattcaagcttcaagattagttcaaagtcacaccattataggacagataccaatgtctatgagggttggacaggcatgggaaaggttgaaactacaattgcaggaggaagggttgtttgggaaaatgatgagctgaaagtcatccctggtgctggcaagtacattgaaatgccacctttcagttatctttttgacgggatagacaaggcagatgcaaagtacctctcttccttaagagcacccgtagaacgatcaacgacttgatttggcaaattcactttttcattatgaggaacagaaagtctctctctatttacttgtaaatacagaatatccttaaggacattcaaactcttgcagttgctgaaaaacccttgggcacataatgctatttataaaacttatgtttattccgtaaaggatgttatacattggtgtatagctggattactgaatggagtttgagcatttaccttgtagcatttacctcatagtgcagaataaaagtagattccaggaaacacacagctttgattaaaaaaaaaaaaaataaaaaaaaaactcgaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C11HBa0119D16-WY1n2/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C11HBa0119D16.2" temp_strand="+" temp_description="C11HBa0119D16.2  AC171735.3 htgs_phase:3 submitted_to_sgn_as:Contig25 sequenced_by:cornell upload_account_name:us">
        <position start="90994" stop="97558"/>
      </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="91294" g_stop="91393" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="100" r_length="100" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="91394" i_stop="91897" i_length="504">
            <donor d_prob="0.794" d_score="1.00"/>
            <acceptor a_prob="0.968" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="91898" g_stop="91985" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="101" r_stop="188" r_length="88" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="91986" i_stop="92075" i_length="90">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92076" g_stop="92154" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="189" r_stop="267" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92155" i_stop="92679" i_length="525">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92680" g_stop="92767" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="268" r_stop="355" r_length="88" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="92768" i_stop="92855" i_length="88">
            <donor d_prob="0.999" 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="92856" g_stop="92896" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="356" r_stop="396" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92897" i_stop="92980" i_length="84">
            <donor d_prob="0.932" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="92981" g_stop="93033" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="397" r_stop="449" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="93034" i_stop="93390" i_length="357">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.984" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="93391" g_stop="93547" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="450" r_stop="606" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="93548" i_stop="94752" i_length="1205">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="94753" g_stop="95159" g_length="407"/>
          <reference_exon_boundary r_type="cDNA" r_start="607" r_stop="1007" r_length="401" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1065" polyA_stop="1089"/>
      <MATCH_line gen_id="C11HBa0119D16.2" gen_strand="+" ref_id="SGN-M4684" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>1013</cumulative_length_of_scored_exons>
        <coverage percentage="0.924" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C11HBa0119D16.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M4684" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91294" e_stop="91393"/>
          <exon e_start="91898" e_stop="91985"/>
          <exon e_start="92076" e_stop="92154"/>
          <exon e_start="92680" e_stop="92767"/>
          <exon e_start="92856" e_stop="92896"/>
          <exon e_start="92981" e_stop="93033"/>
          <exon e_start="93391" e_stop="93547"/>
          <exon e_start="94753" e_stop="95159"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAGCTATTCGTTTGGCCAGCTTTGTGAACACTCCATTGTATGTTGTTCATGTCATGAGTATTGACGCGATGGAAGAAATTGCCAGAGCTCGGAAGTCAGGTTTGGCATAAAGTGTTTGAATAGTATATTTGATGGAAATTTGGATTAGTGGCTTTGTAATGCTTACCTTATGGTGAATTTGCAATGATTTATTGTCCCCTCTAAGGAATATTAGTAAGTATTCCCATCATATCATCCATGCAAACCTGTTCTGGGGCTAAACTTTTGTTAATTTTTTTTATATTGACCATGGAGCTCCTTTGATATGAAGGTCCTCTTTTCTGCTTCATGCTGTAACCAAATTGTTTACTCTGCTTAGAATATACCAACCTTAACTGCGAACTTGTAAACAAAACTTAACTTGGTACTGGCAATGTTTCTATCTCTAACTTGCACCATGCACATTTTTGTCTCCTCTCTGAAAGACACGTTTATTTGGGTACCCTTTGATTTGGAACTATTTCTCCTCTACGTTAATATTATTTATCAAAAAACTCTGCTTCAGATACCAGTTTCATGGGACTTCACTTATGCCTCTATACTAAATTTACGATCTCATTTCAGGTCAAAGAATTGTTGGGGAGCCAGTCGTTTCAGGTTTACTTCTTAATGATTCAGTACTTTGGGATCCTGACTTCCATTTTGCAGCAAGGTAAAGATCATTTTTCTCCTCTGTGGTTTAACTTTTCTTTTCTCCCTTTATAGATGGCATAAGATGCCCGTAAACGTTTTAATATTTCAGGTACGTCATGAGCCCACCAATCAGAGCAGCAGGTCATGGAACAGCTCTTCAAGCAGCTCTTGCTGCAGGGGTTCTGCAGGTTTCAGTCTGATTTATGTATAGATATCAATATATGCTTTTTGTGCTGTCACAAAATTTAAAGATACTTGGGCGACTCCGTTGGCCATAGGTAATATCCAAGATGGCGTTTGGCCATGTTTCGTTGTAAAAATTGAAAAAAAGAAGTTTTTGGTTTCCAAGTGAAAAATTATATTTGAAATTTGGAGTTTTATGTGACTATGACACAAATTAGAGTTCTTTTTTGTAAAAAAAAAATTGTGAGTAATTTGGAGTTAAAAAAGCGAAAACAACTTTTTGTTGTTTTGGAATTTCTGAAAATTCCGAAATTCAAAGTTGAATTCGGGAATTTTCTGAATTTTTATGGCCAAACGTGGTTTCCGGAGTTCAACTCCAAAGAAGTACAAAAATATCATGGTCAAACACTACTCAAATATTTCACTTTCCCATCTTATGATCTATCCATCAACTCATATGAGCAAGATAGAAGTCATTAGCGTTCCTTTTCTTGTCTATACAACTAATCAGCATGGTTTTATATATGCAGCTGGTAGGAACTGATCACTGCACCTTCAACTCAACTCAGAAAGCGCTAGGAATTGGTGATTTCCGGAAAATACCAAATGGTGTTAATGGTATGCAAAAGTTTCTTTTTCCTTACATATATCTATCGATGTGTCTTTATCTTCCTTCTAATGTATCAGTGTAATCATTTATTTATAGGTATGGAGGAGAGAATGCATTTGGTTTGGAATACAATGGTGGTAAGCTGTGACATTTTCTATTGTTGCTCAAATAAATTGTCCTATGCGAGTATATTGTTTATTTTCTTCCGATGGTTTTGTCAGGCTTCTGGTCAGATATCTGTCACTGATTATGTTCGCATAACAAGCACAGAATGGTAAACTACTTAACTTTTTCTGAATAACTTCTCAAAATTTGATAATGGACCCTTCCCTCTACCCTTCTCCACTTAAGTACCAGACTTTTATCTACAACAGTGGTAAACTCCTAAACTTTGGCAAAAAGTCTTGTAGATGTTCTGATATATATATTTTCTTTATAACCATGGTGTTCGGTCTAGCTTGCGTGCACCTCGACGAGCAGATGTTCTGATATTTATTTCAATGTGAATCTAATTCAACCAGCTTGATGCTTATGATATCTTCTTTGGTTTAAATCGCTATATTTCAATTTCTAACAATGCAACTGTCTTATTATGGAAGCTTAACTGGAAATATCTGATCTTGTGATTTAGTGCTCGGATTTTCAATATCTATCCAAGGAAGGGAGCAATACTTGTTGGGTCTGATGCAGATATAATCATTTTAAATCCCAATTCAAGCTTCAAGATTAGTTCAAAGTCACACCATTATAGGACAGATACCAATGTCTATGAGGGTTGGACAGGCATGGTAAGCATTCACAAATTATCGAGGCTTATGTATTACTCATAATATTATGTTGTAGCTTTGCCAAATACAGTGATTTTGTTGTTTAGATTTTCTTATGAATTTACTTAATAAGTGCTACAGAATATGATTAGCCAAATCAAATGAGCGACTCTAGGATATTTTACTTTAACCTCTCTCTTCAGTAGCACTCTTTTCCAATGCCATTTTCCAGCAACCCTGACTGGAAATACATCAGTTTCATCACCATAAACAATTTCCCAGCATATTTCGATGGAAGACAGCACAATCTATTTTGATGTAGGATTTAAATCATATAATGTAACCTGAAGTGAATTGACAATAGAGGTATGGTATGATTGGACAGAACGTGATCGGAACCGTTAGAAAGGAATACAAACAAGAATAGTATATACAATCCTACTTAAAATCCGAATAGTAGTATTATATAGAATCCTACTTGGTAAATGATTGTATTATAGTGTCTATAAATAGGGTCTCTGTGAAAAAATGTACATACACAATTCAATAATATTTTTCTCCAATATTTCTCATATGGTATTATGGCACTCTTGAGAAACAACCTCTTTACCTCACACAAGGTAGTAGGTATAACGTCTGAGTGCACTCTACCCACTCCAGATCCCACAACGGGTATGTTGTAGTTGTTGTTAGGTGCCAACTATAGAAAGATATAAAAGAGAATCCTGCAAACTTGCTATCTACATATGGGCTATGTACATTACTAAGAAAGAGGTCTATATTCACTGTACATTGCGTGTGACATTACTGGTTAAAAAATCTGCAATCAAATGTCACCTTTTAAGAGCTTGTGCCTTCAGTATATTTAGGTATCTTGGTGTACATATATAGAAGCACTTAAAAACAGTAGAGTATTACATTTTGCTGGAATCTGTATTCTCATGGATAATCACTTCATTTAAAAGTTGTAATTGTCCAATTCCATAAAAAAAATTCTATTGTCGCGAAAAGGGAACACTATATTTTTCTTGAAAATGTATATTTTCTATAATTCAACCCTTCACAAACTTTCTGTTTTTTCTGAGTGACATTTTTTTTGCACTGACTACACCAAATTTCCGCAGCCCCTCCCTTTACTGATTTTCAAACAATGCCACCGCTTTGTGTTTGCAATTTATTAAACCTATGCATTTTTTTTTATTTTTCCCATTTTATTCCTTATACAGGGAAAGGTTGAAACTACAATTGCAGGAGGAAGGGTTGTTTGGGAAAATGATGAGCTGAAAGTCATCCCTGGTGCTGGCAAGTACATTGAAATGCCACCTTTCAGTTATCTTTTTGACGGGATAGACAAGGCAGATGCAAAGTACCTCTCTTCCTTAAGAGCACCCGTAGAACGATCAACGACTTGATTTGGCAAATTCACTTTTTCATTATGAGGAAGAGGAATAGAAAGTCTCTCTCTATTTACTTGTAAATACAGAATATCCTTAAGGACATTCAAACTCTTGCAGTTGCTGAAAAACCCTTGGTCACATAATGCTATTTATAAAACTTATGTTTATTCCGTAAAGGATGTTATACATTGGTGTATAGCTGGATTACTGAATGGAGTTTGAGCATTTACCTCATA</genome_strand>
        <mrna_strand>CGAGCTATTCGTTTGGCCAGCTTTGTGAACACTCCATTGTATGTTGTTCATGTCATGAGTATTGACGCGATGGAAGAAATTGCCAGAGCTCGGAAGTCAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCAAAGAATTGTTGGGGAGCCAGTCGTTTCAGGTTTACTTCTTAATGATTCAGTACTTTGGGATCCTGACTTCCATTTTGCAGCAAG..........................................................................................GTACGTCATGAGCCCACCAATCAGAGCAGCAGGTCATGGAACAGCTCTTCAAGCAGCTCTTGCTGCAGGGGTTCTGCAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGGTAGGAACTGATCACTGCACCTTCAACTCAACTCAGAAAGCGCTAGGAATTGGTGATTTCCGGAAAATACCAAATGGTGTTAATG........................................................................................GTATGGAGGAGAGAATGCATTTGGTTTGGAATACAATGGTG....................................................................................GCTTCTGGTCAGATATCTGTCACTGATTATGTTCGCATAACAAGCACAGAATG.....................................................................................................................................................................................................................................................................................................................................................................TGCTCGGATTTTCAATATCTATCCAAGGAAGGGAGCAATACTTGTTGGGTCTGATGCAGATATAATCATTTTAAATCCCAATTCAAGCTTCAAGATTAGTTCAAAGTCACACCATTATAGGACAGATACCAATGTCTATGAGGGTTGGACAGGCATG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGAAAGGTTGAAACTACAATTGCAGGAGGAAGGGTTGTTTGGGAAAATGATGAGCTGAAAGTCATCCCTGGTGCTGGCAAGTACATTGAAATGCCACCTTTCAGTTATCTTTTTGACGGGATAGACAAGGCAGATGCAAAGTACCTCTCTTCCTTAAGAGCACCCGTAGAACGATCAACGACTTGATTTGGCAAATTCACTTTTTCATTAT------GAGGAACAGAAAGTCTCTCTCTATTTACTTGTAAATACAGAATATCCTTAAGGACATTCAAACTCTTGCAGTTGCTGAAAAACCCTTGGGCACATAATGCTATTTATAAAACTTATGTTTATTCCGTAAAGGATGTTATACATTGGTGTATAGCTGGATTACTGAATGGAGTTTGAGCATTTACCTTGTA</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="91294" PGL_stop="95159"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="91294" e_stop="91393"/>
            <exon e_start="91898" e_stop="91985"/>
            <exon e_start="92076" e_stop="92154"/>
            <exon e_start="92680" e_stop="92767"/>
            <exon e_start="92856" e_stop="92896"/>
            <exon e_start="92981" e_stop="93033"/>
            <exon e_start="93391" e_stop="93547"/>
            <exon e_start="94753" e_stop="95159"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.794" acc_prob="0.968" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.932" acc_prob="0.987" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="0.984" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.975"/>
        </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="91294" e_stop="91393" e_length="100"/>
          </exon>
          <intron i_serial="1" don_prob="0.794" acc_prob="0.968">
            <gDNA_intron_boundary i_start="91394" i_stop="91897" i_length="504"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="91898" e_stop="91985" e_length="88"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="91986" i_stop="92075" i_length="90"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="92076" e_stop="92154" e_length="79"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.992">
            <gDNA_intron_boundary i_start="92155" i_stop="92679" i_length="525"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="92680" e_stop="92767" e_length="88"/>
          </exon>
          <intron i_serial="4" don_prob="0.999" acc_prob="0.998">
            <gDNA_intron_boundary i_start="92768" i_stop="92855" i_length="88"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="92856" e_stop="92896" e_length="41"/>
          </exon>
          <intron i_serial="5" don_prob="0.932" acc_prob="0.987">
            <gDNA_intron_boundary i_start="92897" i_stop="92980" i_length="84"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="92981" e_stop="93033" e_length="53"/>
          </exon>
          <intron i_serial="6" don_prob="0.993" acc_prob="0.984">
            <gDNA_intron_boundary i_start="93034" i_stop="93390" i_length="357"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="93391" e_stop="93547" e_length="157"/>
          </exon>
          <intron i_serial="7" don_prob="0.997" acc_prob="0.999">
            <gDNA_intron_boundary i_start="93548" i_stop="94752" i_length="1205"/>
          </intron>
          <exon e_serial="8" e_score="0.975">
            <gDNA_exon_boundary e_start="94753" e_stop="95159" e_length="407"/>
          </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="91294" stop="91393"/>
              <exon start="91898" stop="91985"/>
              <exon start="92076" stop="92154"/>
              <exon start="92680" stop="92767"/>
              <exon start="92856" stop="92896"/>
              <exon start="92981" stop="93033"/>
              <exon start="93391" stop="93547"/>
              <exon start="94753" stop="95159"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M4684" 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>CGAGCTATTCGTTTGGCCAGCTTTGTGAACACTCCATTGTATGTTGTTCATGTCATGAGTATTGACGCGATGGAAGAAATTGCCAGAGCTCGGAAGTCAG : GTCAAAGAATTGTTGGGGAGCCAGTCGTTTCAGGTTTACTTCTTAATGATTCAGTACTTTGGGATCCTGACTTCCATTTTGCAGCAAG : GTACGTCATGAGCCCACCAATCAGAGCAGCAGGTCATGGAACAGCTCTTCAAGCAGCTCTTGCTGCAGGGGTTCTGCAG : CTGGTAGGAACTGATCACTGCACCTTCAACTCAACTCAGAAAGCGCTAGGAATTGGTGATTTCCGGAAAATACCAAATGGTGTTAATG : GTATGGAGGAGAGAATGCATTTGGTTTGGAATACAATGGTG : GCTTCTGGTCAGATATCTGTCACTGATTATGTTCGCATAACAAGCACAGAATG : TGCTCGGATTTTCAATATCTATCCAAGGAAGGGAGCAATACTTGTTGGGTCTGATGCAGATATAATCATTTTAAATCCCAATTCAAGCTTCAAGATTAGTTCAAAGTCACACCATTATAGGACAGATACCAATGTCTATGAGGGTTGGACAGGCATG : GGAAAGGTTGAAACTACAATTGCAGGAGGAAGGGTTGTTTGGGAAAATGATGAGCTGAAAGTCATCCCTGGTGCTGGCAAGTACATTGAAATGCCACCTTTCAGTTATCTTTTTGACGGGATAGACAAGGCAGATGCAAAGTACCTCTCTTCCTTAAGAGCACCCGTAGAACGATCAACGACTTGATTTGGCAAATTCACTTTTTCATTATGAGGAAGAGGAATAGAAAGTCTCTCTCTATTTACTTGTAAATACAGAATATCCTTAAGGACATTCAAACTCTTGCAGTTGCTGAAAAACCCTTGGTCACATAATGCTATTTATAAAACTTATGTTTATTCCGTAAAGGATGTTATACATTGGTGTATAGCTGGATTACTGAATGGAGTTTGAGCATTTACCTCATA</gDNA_template>
            <first_frame> R  A  I  R  L  A  S  F  V  N  T  P  L  Y  V  V  H  V  M  S  I  D  A  M  E  E  I  A  R  A  R  K  S   : G  Q  R  I  V  G  E  P  V  V  S  G  L  L  L  N  D  S  V  L  W  D  P  D  F  H  F  A  A  R :   Y  V  M  S  P  P  I  R  A  A  G  H  G  T  A  L  Q  A  A  L  A  A  G  V  L  Q  :  L  V  G  T  D  H  C  T  F  N  S  T  Q  K  A  L  G  I  G  D  F  R  K  I  P  N  G  V  N   : G  M  E  E  R  M  H  L  V  W  N  T  M  V  :  A  S  G  Q  I  S  V  T  D  Y  V  R  I  T  S  T  E  C :   A  R  I  F  N  I  Y  P  R  K  G  A  I  L  V  G  S  D  A  D  I  I  I  L  N  P  N  S  S  F  K  I  S  S  K  S  H  H  Y  R  T  D  T  N  V  Y  E  G  W  T  G  M  :  G  K  V  E  T  T  I  A  G  G  R  V  V  W  E  N  D  E  L  K  V  I  P  G  A  G  K  Y  I  E  M  P  P  F  S  Y  L  F  D  G  I  D  K  A  D  A  K  Y  L  S  S  L  R  A  P  V  E  R  S  T  T  *  F  G  K  F  T  F  S  L  *  G  R  G  I  E  S  L  S  L  F  T  C  K  Y  R  I  S  L  R  T  F  K  L  L  Q  L  L  K  N  P  W  S  H  N  A  I  Y  K  T  Y  V  Y  S  V  K  D  V  I  H  W  C  I  A  G  L  L  N  G  V  *  A  F  T  S   </first_frame>
            <second_frame>  E  L  F  V  W  P  A  L  *  T  L  H  C  M  L  F  M  S  *  V  L  T  R  W  K  K  L  P  E  L  G  S  Q  :  V  K  E  L  L  G  S  Q  S  F  Q  V  Y  F  L  M  I  Q  Y  F  G  I  L  T  S  I  L  Q  Q   : G  T  S  *  A  H  Q  S  E  Q  Q  V  M  E  Q  L  F  K  Q  L  L  L  Q  G  F  C  S :   W  *  E  L  I  T  A  P  S  T  Q  L  R  K  R  *  E  L  V  I  S  G  K  Y  Q  M  V  L  M  :  V  W  R  R  E  C  I  W  F  G  I  Q  W  W :   L  L  V  R  Y  L  S  L  I  M  F  A  *  Q  A  Q  N   : V  L  G  F  S  I  S  I  Q  G  R  E  Q  Y  L  L  G  L  M  Q  I  *  S  F  *  I  P  I  Q  A  S  R  L  V  Q  S  H  T  I  I  G  Q  I  P  M  S  M  R  V  G  Q  A  W :   E  R  L  K  L  Q  L  Q  E  E  G  L  F  G  K  M  M  S  *  K  S  S  L  V  L  A  S  T  L  K  C  H  L  S  V  I  F  L  T  G  *  T  R  Q  M  Q  S  T  S  L  P  *  E  H  P  *  N  D  Q  R  L  D  L  A  N  S  L  F  H  Y  E  E  E  E  *  K  V  S  L  Y  L  L  V  N  T  E  Y  P  *  G  H  S  N  S  C  S  C  *  K  T  L  G  H  I  M  L  F  I  K  L  M  F  I  P  *  R  M  L  Y  I  G  V  *  L  D  Y  *  M  E  F  E  H  L  P  H  </second_frame>
            <third_frame>   S  Y  S  F  G  Q  L  C  E  H  S  I  V  C  C  S  C  H  E  Y  *  R  D  G  R  N  C  Q  S  S  E  V  R :   S  K  N  C  W  G  A  S  R  F  R  F  T  S  *  *  F  S  T  L  G  S  *  L  P  F  C  S  K  :  V  R  H  E  P  T  N  Q  S  S  R  S  W  N  S  S  S  S  S  S  C  C  R  G  S  A   : A  G  R  N  *  S  L  H  L  Q  L  N  S  E  S  A  R  N  W  *  F  P  E  N  T  K  W  C  *  W :   Y  G  G  E  N  A  F  G  L  E  Y  N  G   : G  F  W  S  D  I  C  H  *  L  C  S  H  N  K  H  R  M  :  C  S  D  F  Q  Y  L  S  K  E  G  S  N  T  C  W  V  *  C  R  Y  N  H  F  K  S  Q  F  K  L  Q  D  *  F  K  V  T  P  L  *  D  R  Y  Q  C  L  *  G  L  D  R  H   : G  K  G  *  N  Y  N  C  R  R  K  G  C  L  G  K  *  *  A  E  S  H  P  W  C  W  Q  V  H  *  N  A  T  F  Q  L  S  F  *  R  D  R  Q  G  R  C  K  V  P  L  F  L  K  S  T  R  R  T  I  N  D  L  I  W  Q  I  H  F  F  I  M  R  K  R  N  R  K  S  L  S  I  Y  L  *  I  Q  N  I  L  K  D  I  Q  T  L  A  V  A  E  K  P  L  V  T  *  C  Y  L  *  N  L  C  L  F  R  K  G  C  Y  T  L  V  Y  S  W  I  T  E  W  S  L  S  I  Y  L  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="C11HBa0119D16.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="91294" stop="91393"/>
                    <exon start="91898" stop="91985"/>
                    <exon start="92076" stop="92154"/>
                    <exon start="92680" stop="92767"/>
                    <exon start="92856" stop="92896"/>
                    <exon start="92981" stop="93033"/>
                    <exon start="93391" stop="93547"/>
                    <exon start="94753" stop="94938"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>789</number_coding_nucleotides>
                  <number_encoded_amino_acids>263</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RAIRLASFVNTPLYVVHVMSIDAMEEIARARKSGQRIVGEPVVSGLLLNDSVLWDPDFHFAARYVMSPPIRAAGHGTALQAALAAGVLQLVGTDHCTFNSTQKALGIGDFRKIPNGVNGMEERMHLVWNTMVASGQISVTDYVRITSTECARIFNIYPRKGAILVGSDADIIILNPNSSFKISSKSHHYRTDTNVYEGWTGMGKVETTIAGGRVVWENDELKVIPGAGKYIEMPPFSYLFDGIDKADAKYLSSLRAPVERSTT*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 50 chains have been computed
$ 
$ memory statistics:
$ 2024 bytes spliced alignments in total
$ 1 spliced alignments have been stored
$ 2024 bytes was the average size of a spliced alignment
$ 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
$ 52 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-14 23:49:26
-->
