<?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="2009-02-20 20:34:33"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0069C22-4YNau/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0069C22-4YNau/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-C04HBa0069C22-4YNau/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M1682" ref_strand="+" ref_description="SGN-M1682 T0958 [cos_markers]">
      <seq>aaatggtgatcgtgtcgaacccttggcaacaatcgtacataaagataaggcatattctgtgggaagggctttaacccaaaagctgaaagaacttatacccagacaaatgtttaaagtaccaattcaggcaaccattggctcaaaagtgattgccagcgaggcaatatctgctatcaggaaggatgttctcgccaagtgctatggtggtgacatctcgagaaaaaagaaactgctcaagaaacaggctgaaggaaagaaaaggatgaaagccattggtaaagttgatgtaccacaggaagcattcatggctgtattaaaacttgaaaaagaggtcttataattcattttgttagtaaagatttttaccgtacatcctaccctcgtcagaccctattgggttcgcgggcaaaatgcagtaaagaaagtggggactacattgattctgatataaatatcatgtgaatagctgtatgacctgggatttttttaattttctttttgagttttttgcattatttcaaacacagcattaatgaatagctaattcagattgagaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0069C22-4YNau/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0069C22.1" temp_strand="-" temp_description="C04HBa0069C22.1  CU915758.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0069C22 sequenced_by:sanger upload_account_name:uk">
        <position start="64715" stop="60482"/>
      </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="64415" g_stop="64367" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="49" r_length="49" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64366" i_stop="63832" i_length="535">
            <donor d_prob="0.884" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="63831" g_stop="63754" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="50" r_stop="127" r_length="78" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="63753" i_stop="62700" i_length="1054">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="62699" g_stop="62624" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="128" r_stop="203" r_length="76" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="62623" i_stop="62465" i_length="159">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="62464" g_stop="62424" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="204" r_stop="244" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="62423" i_stop="61095" i_length="1329">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.946" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="61094" g_stop="60782" g_length="313"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="557" r_length="313" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0069C22.1" gen_strand="-" ref_id="SGN-M1682" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>557</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0069C22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M1682" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64415" e_stop="64367"/>
          <exon e_start="63831" e_stop="63754"/>
          <exon e_start="62699" e_stop="62624"/>
          <exon e_start="62464" e_stop="62424"/>
          <exon e_start="61094" e_stop="60782"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATGGTGATCGTGTCGAACCCTTGGCAACAATCGTACATAAAGATAAGGTAAGGAAGGACGTTGTAACATGTGTTTGTGCTTAAAACGGAATGCAAATTCATGTTAAAGAAATGGAACTACTGCATAAAGTTTTTCTGGTGCACAGTAGAGACAGACTTGGAGCTTTTTCTAATGGAAATGATGTAAAAATTGAATTCGTCCAATGTCAGCTACAGTTTACTGCACTGGAATAACTTCACATGCATGCCTCATGAATATAGGTTAACAAAATGTAACTTCTATCTTCCACATAAGCATTCATTAGATACCTGAAAATAGACTGGCAGGCAATTGTTTATTGATTTTTCTGTTCTTTGTTATTGATGGAATCCAAGTCATTTCCTCGTATAATCTTTTTGACTGTTTATTAATGTCTTCAACCTTTGTACAAAATAAAAACGATTAGTCATTGAGTTACAGTTTGCAGGTATCTTGACTTTCTACTTTATTTACCAATCTGAAATTGTCCATCTTATTTGAGACAAATTATTATCTTGGCACAGATATGATGTAACATTTGCTTTCTCTCTATTTTTTTTTCAGGCATATTCTGTGGGAAGGGCTTTAACCCAAAAGCTGAAAGAACTTATACCCAGACAAATGTTTAAAGTACCAATTCAGGTAGTAAATCTCTTTTCTTAGTTGATCATATTTTTTATTTTTGTGATAATGGATATTAAGAGTTTTCATATTTCACATTATTTTTTTTCATTCGAAGAGGAAGCGATTTTTGCATTTATTCTTGGTAGTTTCTCATTCAAATGATACATATTGTTAGTACATCTTTGCTATGCTTTTCGTGCTTTGATTCTTCTTAAGGAAAAAGCCTTAGTTACTTTTGTTAGGTTCCTACTACTGTCAAATGTGAATTCAGTTAGTTATTGATTTCATATTGCTCTTTCCTGGTTGTTTCATAAAGTATTTAAGTGAATTCTAGGAGAAGTGTATCATCAGTTAGTATGAGTCTCCCTCTAGAGTAGTGCATCATTGTTTGGTACATATTTTACATCAATCTGATTTCATGGGTGTCTTCATTCTATATAGCGAAGGGTTTTGCATAGGCTACACACTATTTTCTTTTCGTGTTCTTTTTCTTTTCTATTTTGAGCTTTACGCTGAATTTTCCTATGCCTTGGAAGAGTGCTTTTGTTGATGATTGAATATACTATACATTTGAAATAGTTATCTATCCTGTGAGAGATATAAATTTAAGTTGATGCAATCTTTCATCTTGCGCTCCCAGCAACTAGTCAATTTCTTCCTCTCTGCTCCCTGTTTTATTCCGTCATTTGGAGAGCAGTCAAAATTATTTCTTAACATGAGTGCTGCATTGTTTTTTCAAACTTATATATTACTTTTTTTGCTACGAAGGATATATGCTTGTTTGAACGTGTACTTTCAGAAAGCATAAGATTATTCATGGAGACTTTTATATGAGCAGCATTCAGCAGACTTTTTTAATAGAGACGTCGTGTGCTATTAATAAACCAAAACATTTCTCAATGACCTAAAAATGTGCACGTTATTGAGCAAAGCTATTAGTAATTTTAAACAACGTGCTATTATGTGTTTAAGTATCTCGACAACATAGATGCAAGGTGAAGCAATGTTGTAGGGAATGCTATTCCCTGTCATAGCTTATTAGTTTTATTGAATGTTTAATTTGTCATGACAGGCAACCATTGGCTCAAAAGTGATTGCCAGCGAGGCAATATCTGCTATCAGGAAGGATGTTCTCGCCAAGTGCTATGGTAAGATTACAAGATTATATTAACAGTATGATATACATATTGAAATCACTTACAAGAATTTTCATTCTGCTGCTCATGATAATCTAGAATTTATGATGTTCACATTGACATGTGTATGATCTCTTAGTTTTTTTTTACATTCCATCTTCGTTCATGTAGGTGGTGACATCTCGAGAAAAAAGAAACTGCTCAAGAAACAGGTACCGTACACTCCTGTTCCCTTAAACAAATGCCTTATGGGACATCGTTATTAGTTACAATTACTCGTGTGCATGGTTAGACTGTATTTCTTAAAATATTCGCTTGTGCTGTTATTAGGGTTATGCTTACCTATGCAAAGAAAATCAAATTATTTACAACAAGATGTTCTTCCCGTTGTGTTAGTTGTGCTATACGTTTAGGTTTGTTATACTACCCATACCTAGAAATCATGTGGCATCTTTTGGAGTTAAGTCTTATACCCAAGCATCAACACTTGTAGAGAATATGGCCTTAAACTACATATGTTGAAGGATTGAGAGCCTATTTAATTGTTGCTTTAGTTTTTTTCTGTGTTTGACGATTCAATTTTAGAAGTGATTTCCACTTCAGACCATAGTATCTGGCAAGTCCCTTTCTGTTTCTGGATATTCAGATCAATCCTAGGGCATATTCCGGTATTTTGAAAGTTGGCGATGACCTACTTCTCTTTTCCCCCCTACATTTCGTGTTTCTTTCCTCTACGGTTCTCCCTTCTGCCTCTGGTGCTACATCATCTTTTAGCTTGTGTTTCTACTCTTTTTTTTTTCTTTAGCAAATCTTGAAAATGTAGTAGTCTGAACCCAGTACCTAGCCCGGTCATGTTTCCAGTTGCTATTGGCCTTCAGTTCTGACCTATTCCATAGTTACTTGAGAATCTTTAATTTGGAGGAAAGCGTTGATTTTTACGGTGCAATAGTACTTATCAACACGTTATATTGATCATTCTTCCCTTACCTGTTTCAATTCAAGTATCTTACTTCCCCTTGTAGTCGTTTTTAAAAGAAATATCTCATTTTATGCTTGGTAACTCTCCACAAGAATCAAAGAACATTTTGGCACATTACACACATTTAGTTTAAAACCACAAGATTCAATATTCTCCATTCTTTTCTTAAACTCCATGTCTACTCAAACTGTGACACTCAAATTGAAAAGGAGGAAGTGATATAAATGAGACAGTAATCCACGCTTACTGTTCAATATTTTGCTTGTGAAATTGTTGCAGTTAACTATGCTTATGTACTCGTATCACTTCTTATGGTGATTTTGTTTACTTGTTGGTGGTATCATTTTTATTTCTGTATTTCCTTTTTCAAACTGCTTTGAAATAATTTTTTTAAACTTGATGGTCTTTCGGAAATAGTCTCTCTATCTCTATGAGGTAGGTGTAAGATCTGCGTACACTCGCTCTCTCCAGACCCACTAGCTGGATTTCACTGAATATGTTGTATGTGAACTGGGGCCGCATGATTATGCATAACGATTTATTTGCTGTATCTTTTCATCAGGCTGAAGGAAAGAAAAGGATGAAAGCCATTGGTAAAGTTGATGTACCACAGGAAGCATTCATGGCTGTATTAAAACTTGAAAAAGAGGTCTTATAATTCATTTTGTTAGTAAAGATTTTTACCGTACATCCTACCCTCGTCAGACCCTATTGGGTTCGCGGGCAAAATGCAGTAAAGAAAGTGGGGACTACATTGATTCTGATATAAATATCATGTGAATAGCTGTATGACCTGGGATTTTTTTAATTTTCTTTTTGAGTTTTTTGCATTATTTCAAACACAGCATTAATGAATAGCTAATTCAGATTGAGAA</genome_strand>
        <mrna_strand>AAATGGTGATCGTGTCGAACCCTTGGCAACAATCGTACATAAAGATAAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATATTCTGTGGGAAGGGCTTTAACCCAAAAGCTGAAAGAACTTATACCCAGACAAATGTTTAAAGTACCAATTCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAACCATTGGCTCAAAAGTGATTGCCAGCGAGGCAATATCTGCTATCAGGAAGGATGTTCTCGCCAAGTGCTATG...............................................................................................................................................................GTGGTGACATCTCGAGAAAAAAGAAACTGCTCAAGAAACAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGAAGGAAAGAAAAGGATGAAAGCCATTGGTAAAGTTGATGTACCACAGGAAGCATTCATGGCTGTATTAAAACTTGAAAAAGAGGTCTTATAATTCATTTTGTTAGTAAAGATTTTTACCGTACATCCTACCCTCGTCAGACCCTATTGGGTTCGCGGGCAAAATGCAGTAAAGAAAGTGGGGACTACATTGATTCTGATATAAATATCATGTGAATAGCTGTATGACCTGGGATTTTTTTAATTTTCTTTTTGAGTTTTTTGCATTATTTCAAACACAGCATTAATGAATAGCTAATTCAGATTGAGAA</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-C04HBa0069C22-4YNau/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8621-2" ref_strand="+" ref_description="SGN-M8621-2 C2_At5g08650-2 [cosii_markers]">
      <seq>ttgctgcaaatgacgggaactgtagagagccgagacatgaaggaacagtttctagataatatggatttggagagagagagaggcatcactatcaaattgcaggctgctcgaatgcgtttcatttatgaaaatgagccatattgccttaatctgattgacactccaggtcatgtagatttctcgtatgaggtgtctcggtctcttgctgcctgtgaaggtgcattgcttgtagttgatgcgtcccagggagtagaggcgcaaaccctggctaatgtgtatttagcattggaaaacaatcttgagatcatcccggttttgaacaagattgatcttccaggagctgatccagctcgtgtttgtcaagagatagaagagattgttggcctggattgtagcaatgccatatacacctcagcaaaggaaggaataggtattactgaaattctaaacgcgattgttcagaggattccacctccacatgatactgccgaaaggcctctgagggctcttatatttgacagttactatgatccatatcggggcgttattgtctattttcgaatcattgatgggactattaagaaaggtgacagagtgctttttatggccagtgggaaggatattatgctgatgaattaggagttttatcgccctaccagttgcaagttgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0069C22-4YNau/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0069C22.1" temp_strand="-" temp_description="C04HBa0069C22.1  CU915758.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0069C22 sequenced_by:sanger upload_account_name:uk">
        <position start="75495" stop="69379"/>
      </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="75195" g_stop="75094" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="102" r_length="102" r_score="0.980"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="75093" i_stop="74014" i_length="1080">
            <donor d_prob="0.893" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="74013" g_stop="73927" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="103" r_stop="189" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="73926" i_stop="72703" i_length="1224">
            <donor d_prob="0.961" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="72702" g_stop="72646" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="190" r_stop="246" r_length="57" r_score="0.930"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="72645" i_stop="72472" i_length="174">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.984" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="72471" g_stop="72406" g_length="66"/>
          <reference_exon_boundary r_type="cDNA" r_start="247" r_stop="312" r_length="66" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="72405" i_stop="71573" i_length="833">
            <donor d_prob="0.971" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="71572" g_stop="71510" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="313" r_stop="375" r_length="63" r_score="0.984"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="71509" i_stop="71137" i_length="373">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.860" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="71136" g_stop="71092" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="376" r_stop="420" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="71091" i_stop="70937" i_length="155">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="70936" g_stop="70836" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="421" r_stop="521" r_length="101" r_score="0.960"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="70835" i_stop="70547" i_length="289">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.989" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="70546" g_stop="70450" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="522" r_stop="618" r_length="97" r_score="0.969"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="70449" i_stop="69733" i_length="717">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.829" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="69732" g_stop="69679" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="619" r_stop="671" r_length="53" r_score="0.944"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0069C22.1" gen_strand="-" ref_id="SGN-M8621-2" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>672</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0069C22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8621-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="75195" e_stop="75094"/>
          <exon e_start="74013" e_stop="73927"/>
          <exon e_start="72702" e_stop="72646"/>
          <exon e_start="72471" e_stop="72406"/>
          <exon e_start="71572" e_stop="71510"/>
          <exon e_start="71136" e_stop="71092"/>
          <exon e_start="70936" e_stop="70836"/>
          <exon e_start="70546" e_stop="70450"/>
          <exon e_start="69732" e_stop="69679"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCTGCAAATGACGGGAACCGTAGAGAGCCGAGACATGAAGGAACAGTTTCTAGATAATATGGATTTGGAGAGAGAAAGAGGCATCACTATCAAATTGCAGGTGCATTGTAATTATTAACCCAGAACCCCAACAAGGAAAAACATATTTTACTTGGTTTCAATGTGAGTTTTGAGTAAGATATCTGGTATAGTTAATAGTTTGTTTGATTCCAACAGCATTTATGAAGATAGCAACAAGACACACTTCAGACTTCTAATTTATGTTGAGTGATAATGTATATAGTACTACTACTAGAACGTAGAAACTGATACTTGTTGACAGTAAAATGCAAGCTGTAGTGTTTCATTGCTATTTACGGGATTTCAGTGTGATATTATAATTCTTTCCTTTGATGAGCAATCGTCTCATCTATGGGGGCTTCTAGGATAAGAGCAAGTTGTTATTTTTAGAACCTTCCTCTTTTAAATATCGTGCAAATTATAAAAGAATGAACTATTTCTCTATTTTTAAGTTTCCTATAATGGAAAGACCACTTGTTTTAACGAAGTTTCTGGCATATTGCATGAAGGCAACCTTATATTCCCATTTCCCTCCAATACTCTTATGTGTAATAGTAGGCTTAGCAGAATGCTAGAAAAGGTAGAAGGAGTGGGGTCTGAGCAACATAGAATGCCATAAATAATTAGCTATGAAGGAATAGTCATAAGTGTGGGAACAATAGTGAGAGATACATAGGAGTTCTCCATAACCATGAACTTACACGAGGGATCTACATTAAGCGCATGCTTGTTTGACTAGTTATGGATGAGCAATATACATGATAAAGTTCCATGCTATTTGCTGTTTGAGGCGATATTGTGTTAGTTGACGAAAGTACAAAGAGTTGCAACAAAAAATTTGAGTTATATGTTCTTAAAACCTTTTCTTTGTCTCAGTATTGATCATTCTATTTGCAATCTGTGTTTCTTTGCCTCATTTGCCTTATCTTGTTATTTTTCTGTCACTTATTCTTTACATCCTGTTTCATTTACATTTTTTTGATCCGACGGTCTATCGGAAACAACCTCTCTACCCCACAAAGGTAGTGGTAAGGTTTGCGTACGTCTTACCCTCTCCAGACTCTATTTGTGGATATGTTGTAATGCAAACAAAGTAAATTCATGTAGCTTTTTGTTGCAGGCTGCTCGAATGCGTTTCATTTATGAAAATGAGCCATATTGCCTTAATCTGATTGACACTCCAGGTCATGTAGATTTCTCGTATGAGGTATGTGGCAGAAATGGTTTAACATGAAAGTGTTGTGCTAATTCTCAATTTTACAGTATACCAACCATCCTAATCTTATAAGGTATACACTCTCTATGCATATGGTTTTTGTTTCATGTTTCATATTCATAGGTGGGTTACTGAGCAAGATGTTAATTTTGTTAAAACAACAACGAATTTGTAGTATAACAATATAACTGATAAAATTTCCTAAATATATGAAGTGATTGCATCATCATCTTAAATTGAAGACGTCATATACCAAAGCTGAACCTGGTCGTAACTTAAGCAATCTCATTTCTTATCTAATTAGAATCTTACAACATCGTTTGGTTTGTGTGGTGAATAGCTCATCAAGGACTCAAATTTTAAGTTGCTTTTACCATGACATATATGCCACTTATTTGTGGTTATTGTTAATTTGGCCCGTTCGAAATGATTCAACCAAAGCAAAAAAGATTGAGAAGTTAAGCCTAATAATGTATAACTTTTGTTGATCTTGAAGGAGGTTGGAGACCAACAATTTTACTTTAGCATTTATCTAATACTTCCGCTGGTCTAATTTATGTGGTATATTTTCCTTTTCACCTGTCCCAAAAAGAATGTCATACTTCTTTTTTTTAAAAAATAATTTTGAGTTTTTTCGTTTACCCTTAATGAGATGATTTATAGCCGTACAAGTGTCTGTCTTGTTTTAGACCACAAGTTTCAAAAGTCTCTTTCTTTCTTAAACTTGATGCCTAGTCAAAAACCTCCACATAAATTGGGAAGGAGGGAATATAGATACCATGTTAGGCATTCCCATCCATGGTTCATTTAGATCTATATATTTCTGATCTTTTTGTTAAACTTCTTTTTAGACTTGGTTGTTGGGGGATAATCAAGTGGGATCAGTTCCAAATATATGTGGGGACCCAACTATAAAATACCCTACTCCTTGGCGATTCTTATATATTTGGCTTTGGAAATGTTGACATGACCAGCTGACCATTAAAATGTAGATAATTCATTTTCACTTAAAACTTGATCTGTCTTCCAGTGACTAACCAACTTTCATCAAGCTTAGTGAAATCACCCAATATGCTATAAATTAGCAGACCAAATCCACCAAAATGCATAATGCATTTGTAGTGTGCCCCAAAGGTGGTTGATTTGTGAATTATCTCTTGTGAAGCACAAATCAGATTTCCATTTGATGCCATATTAATTCTTCTTTAATATCAGGTCTCTCGGTCTCTTGCTGCATGTGAAGGTGCACTACTTGTAGTTGATGCGTCCCAGGTTTAAAATCACTTGCCTCCTCTATATTTTTGAATATAATCATACCATGCATATTCTATGTTGCAGTCTAATTAGTTGCTGTAGTTAAAGTATATGAACTGCTCTATTTCATTTTATTCAGTAAATTGAGTTCTTTAAAGTGACCAATTCTTAAGTTGAGTTCTTATGTTTTAGGGAGTAGAGGCGCAAACCCTGGCTAATGTGTATTTAGCATTGGAAAACAATCTTGAGATCATCCCGGTAAGTTGGTGGAATGCTAATGTGTATCATTGGTATATCGTGACTTACATTCCAAGCACATAACTATTTCAGATGTTTCAATTATGGCAAATGTCAGCCGATTTATGGTGTTACAATATTTATTTATTATTGATGGTTTCTAGCAATTCATGATTAATAGTTTTAAATTGGCTAAGTTTGTTTTTCCAAAACTATTGAAAGTCAACAGCTTTGATTTAGTTATATATTTAAATGTGTCTGCAATCACTGCTTGTTTAAATTGATTGAACTTGAGTAGAGAATCTTATGAAGATCATTGCGTAGGGTATACAGTATTTTAAAATATACTGTATCCAATTGTAGGAATTAAATTACTTACCTTATTGTATGTATACTAAACCGTCTTATATAAGAAGCCCCTCTTGTATACCATCAACAACCAAAACTTTTTAAGAGTTCTTTCTCTTTTCTTTACTCTCCTTTTAATGTCATCTGAGCTTTTATTTAGTAAATACCTAGGTATCTTCAATTTAAGGGTTCCCAAAGGGTGTTTGGGAATGCTACACTTTCTGTGCAAGGGCCTCACAAGAGGTTTATAGTGTCCTTGGACACTCAATCCATTGCATTGAGGTTTTGGGTTGGATGCACAAATTACTTCAAAGCTACGATTCACTAGTTTGTTAATTTACTAAATGTGCTCTACATCATGGTAGAGATGCAGGAGCATCTTTGCTCTCGTTATTTCTTATCCATCATGAAGCCCAGTTCTTTTGTCATTGTTATCTTCAAATCATGTCGTTTCTTACTTATTTAGTTATTTGTTTATTTACAAGAATGATGATTCTTCTCCTCAGGTTTTGAACAAGATTGATCTTCCAGGTGCTGATCCAGCTCGTGTTTGTCAAGAGATAGAAGAGGTTGGTTTGTTGATATAAATACAGTTCAGAACTTTGTGTCTGTTACTATAGTTATAGATACTATTTGTGGTACCATTATAAGTCTGCACCACTAAATCACTATGCAATTGCTAAGATTCCTGCTACCCCTCTGGTTGTCATTCTCAACATTACTGATGCTGTTGTGACTAGTACTACTTGCTCTATATTATTTTGCAATTTTTCTCTAAGGTTAGATGACCACTATAATGCCTTAATTGATAATTTATGTTTTTCCATGCTCTGCTGTCAATGGTTTGCCGTATAGCTGTCAGGATATGATTGAAGGAAAAAGATACTTGACGCTTCTGTAACTTCACAATTAACCATAGAATCAACTCATCTTGTTGTATAGATTGTTGGCCTGGATTGTAGCAATGCCATATACACCTCAGCAAAGGTAATTCTTTGATAACACTCATTTCCCGTTCTTTCTGTTCAAAGAATACATGGCAGATTCTACGTTTGATCAAAGAGAAGAAAAGGTGAAGTAGTGGTTGAATAAGTAGCCTTGCTACAACTTGCGGGATTTGATATGTGTTTTCTGCTCATTAGGAAGGAATAGGTATTAGTGAAATTCTAAACGCGATTGTTCAGAGGATTCCACCTCCACGTGCAACTGCCGAAAGGCCTCTGAGGGCTCTTATATTTGACAGGTATATCTGATTGATAGCCCTTTGAATATATTAGCGTTATTTCACTACCATATTCAGATATTTGAAAGATTATGCATGGAAATACTCATAGATTTTGAATCTTGCAGTTGCAATACCCAATGTTAAATACTGGTATTAATCTCAATATGATTGATGTTATCTACTACTTACTTTGGAAGATGTTACCATATTTGCAAACAAAATACTAACGTTGTGAATTTTATCCAAAGCTGCTAGCATGTACTTGGAATAACACATCATAACTAACTGAATTTGTTTCCCTTTGCAGTTACTATGATCCATATCGGGGCGTTATTGTTTATTTTCGAGTCATTGATGGGACTATTAAGAAAGGTGATAGAGTGCTTTTTATGGCCAGTGGGAAGGTATTTCTTAATATATACTTAACCTTTTATTTTGTACCTGGTGGTCATTTGGAGAATCATCATCTAACATTCTGTGATATAGTTGCGATTCTATGTGCTCCACTGTTGAGAATAATAATCTGACTTATTGTTCGATAAGAAAGACCTGATTTGCTACCCAAGGAGAATGTAAAGCAAGAACAGTTTGTAGGCAGTTAACAACTAAGCCGATGTGTGTGAAAAAAACTAATCTTTTAGAGTTCATAAGCTTTTTTTCCCCTTACAATAAGGGGTTCAATGCTATTAACTCCTAATCTGTGTTAAAAGAAATCTTGTACAAGAAATAGTATGCTTTCATCCCATAGAATTAGTAGTTCAGTCTACCTTCAAATCTTCAATAACCCCTTGGATCTGATGAATATTAATAACCTCTTGATGTCTTAAAGAATCAGACATACTCTGAGGTACAACCTTACTGATGGAAAACTATTCCTATGATAATCTTCTTCTTTTTTTCTTTTAGTTTTCTGATTAGGGTCTATGTCTTAAATTTTGAAGGCATCTTGTTCTGGAGTGCTATATCGATCTTTACTTAGATCCTCTTTTCTTATGTACGAGGATTTTTTTTAATTCTTTACCAATGACCTTCTCAGTTTTCTGAACTCATTCTGTTCTCTTTTTTGGTTGATGGATAAATCACAATATCTGTTGGCTTATTCTCAACTACAACAAATGCAGGATTATTATGCTGATGAATTAGGAGTTTTATCTCCCAACCAGTTGCAAGTTGAT</genome_strand>
        <mrna_strand>TTGCTGCAAATGACGGGAACTGTAGAGAGCCGAGACATGAAGGAACAGTTTCTAGATAATATGGATTTGGAGAGAGAGAGAGGCATCACTATCAAATTGCAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGCTCGAATGCGTTTCATTTATGAAAATGAGCCATATTGCCTTAATCTGATTGACACTCCAGGTCATGTAGATTTCTCGTATGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGTCTCGGTCTCTTGCTGCCTGTGAAGGTGCATTGCTTGTAGTTGATGCGTCCCAG..............................................................................................................................................................................GGAGTAGAGGCGCAAACCCTGGCTAATGTGTATTTAGCATTGGAAAACAATCTTGAGATCATCCCG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTTGAACAAGATTGATCTTCCAGGAGCTGATCCAGCTCGTGTTTGTCAAGAGATAGAAGAG.....................................................................................................................................................................................................................................................................................................................................................................................ATTGTTGGCCTGGATTGTAGCAATGCCATATACACCTCAGCAAAG...........................................................................................................................................................GAAGGAATAGGTATTACTGAAATTCTAAACGCGATTGTTCAGAGGATTCCACCTCCACATGATACTGCCGAAAGGCCTCTGAGGGCTCTTATATTTGACAG.................................................................................................................................................................................................................................................................................................TTACTATGATCCATATCGGGGCGTTATTGTCTATTTTCGAATCATTGATGGGACTATTAAGAAAGGTGACAGAGTGCTTTTTATGGCCAGTGGGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GA-TATTATGCTGATGAATTAGGAGTTTTATCGCCCTACCAGTTGCAAGTTGAT</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-C04HBa0069C22-4YNau/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8621" ref_strand="+" ref_description="SGN-M8621 C2_At5g08650 [cosii_markers]">
      <seq>aaagcaaacgcggcgacggagctcagtccgtacgacggcggcggcaacggtggcgtagtagcttgcgtgtggattgccaagcagctgcgactgacctcgaagccacagctcgcgccgggaaagaccgtctgttgaaggtaccaatatcaaatataaggaatttctcaataatagcacatattgatcacgggaaatcaacgttggcagataagttgctgcaaatgacgggaaccgtagagagccgagacatgaaggaacagtttctagataatatggatttggagagagaaagaggcatcactatcaaattgcaggctgctcgaatgcgtttcatttatgaaaatgagccatattgccttaatctgattgacactccaggtcatgtagatttctcgtatgaggtctctcggtctcttgctgcatgtgaaggtgcactacttgtagttgatgcgtcccagggagtagaggcgcaaaccctggctaatgtgtatttagcattggaaaacaatcttgagatcatcccggttttgaacaagattgatcttccaggtgctgatccagctcgtgtttgtcaagagatagaagagattgttggcctggattgtagncatgccatatacacctcagcaaaggaaggaataggtattagtgaaattctaaacgcgattgttcagaggattccacctcacgtgcaactgccgaaaaggctctgagggctcttatatttgacaggtactatgatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0069C22-4YNau/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0069C22.1" temp_strand="-" temp_description="C04HBa0069C22.1  CU915758.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0069C22 sequenced_by:sanger upload_account_name:uk">
        <position start="76650" stop="70530"/>
      </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="76350" g_stop="76214" g_length="137"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="137" r_length="137" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="76213" i_stop="75271" i_length="943">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.973" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75270" g_stop="75094" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="138" r_stop="314" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="75093" i_stop="74014" i_length="1080">
            <donor d_prob="0.893" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="74013" g_stop="73927" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="315" r_stop="401" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="73926" i_stop="72703" i_length="1224">
            <donor d_prob="0.961" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="72702" g_stop="72646" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="402" r_stop="458" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="72645" i_stop="72472" i_length="174">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.984" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="72471" g_stop="72406" g_length="66"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="524" r_length="66" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="72405" i_stop="71573" i_length="833">
            <donor d_prob="0.971" 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="71572" g_stop="71510" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="525" r_stop="587" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="71509" i_stop="71137" i_length="373">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.860" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="71136" g_stop="71092" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="588" r_stop="632" r_length="45" r_score="0.956"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="71091" i_stop="70937" i_length="155">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="70936" g_stop="70836" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="633" r_stop="732" r_length="100" r_score="0.970"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="70835" i_stop="70547" i_length="289">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.989" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="70546" g_stop="70536" g_length="11"/>
          <reference_exon_boundary r_type="cDNA" r_start="733" r_stop="743" r_length="11" r_score="0.909"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0069C22.1" gen_strand="-" ref_id="SGN-M8621" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>744</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0069C22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8621" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="76350" e_stop="76214"/>
          <exon e_start="75270" e_stop="75094"/>
          <exon e_start="74013" e_stop="73927"/>
          <exon e_start="72702" e_stop="72646"/>
          <exon e_start="72471" e_stop="72406"/>
          <exon e_start="71572" e_stop="71510"/>
          <exon e_start="71136" e_stop="71092"/>
          <exon e_start="70936" e_stop="70836"/>
          <exon e_start="70546" e_stop="70536"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGCAAACGCGGCGACGGAGCTCAGTCCGTACGACGGCGGCGGCAACGGTGGCGTAGTAGCTTGCGTGTGGATTGCCAAGCAGCTGCGACTGACCTCGAAGCCACAGCTCGCGCCGGGAAAGACCGTCTGTTGAAGGTCTCATTTTCGTATTTTTTTGTTTTTGAGTTTGATAAGTTATATGCACTGAAGTTTAAGTATTTACATAATCAGCTCATTTATTAGGTAATTTGTTAGTTAATTTTTTCGATAAACGATTAACTGATTACAATAACAACAACAACAACATAACCACTGAAATTCTGTAGGTGGAGTTTTGAGGATTGTAGAGTGTATGCGCAGACCTTACCTTACCTTTTGGAGAGACTGTCAGCTCAAGTAAAACACATGTCAAAGCAGATTTAGAAGGAGAAAATAGATTGATTATCTAATAAAAATAGTAACTAACCTTTTGATGATATCTAAACACTTAAATATTTACAAAATTTGCTCACTTAATAGAAAATTATAGGAAAATTTCTTGATAAACATTAATAGATTGTTTGATAAAATTGCTTCTAGCACCCAACCGTGTGGCTTAGTGGTAAATATAGTAGGTTGAGATTTGAGAACCATGAGATGGTCTCGGGTTCAAATTCTAGTAGGGACAAAATATTAGGTGATTTATCCTCATCTGTCCTAGACTTGGTGCACAGAGAAACTTGTACATGTTGTTGTTGGGAGGTGATAAATATCCCGTCGAATTAGTCGAGGTGAGCGCAAGCTGGCCTGTACACCAGGGTTATAAACAAATAAGAAGAAAAACAGCAACTAACTTGCTATCAAATGTTAAAAAAGTGTAAAAAGGACATGTATAAGAAGTACTTTGCTCGATCAGCTCACTTATTGCGTAACTATATTTAGTATAGATAAATCTCTTGATGAACTGATAGATTATTTGTTAAAAATGGTAACTAATCAGCTATTATAGGTTAAATTTTATTGATTATGTTAACACGAGTCTATATAATTTAAGTCCATTGTTTTGTGATATTTCATTTGGTAAGATGAATTGGCATTTGCTATATTTGTATGTATGTAGGTACCAATATCAAATATAAGGAATTTCTCAATAATAGCACATATTGATCACGGGAAATCAACGTTGGCAGATAAGTTGCTGCAAATGACGGGAACCGTAGAGAGCCGAGACATGAAGGAACAGTTTCTAGATAATATGGATTTGGAGAGAGAAAGAGGCATCACTATCAAATTGCAGGTGCATTGTAATTATTAACCCAGAACCCCAACAAGGAAAAACATATTTTACTTGGTTTCAATGTGAGTTTTGAGTAAGATATCTGGTATAGTTAATAGTTTGTTTGATTCCAACAGCATTTATGAAGATAGCAACAAGACACACTTCAGACTTCTAATTTATGTTGAGTGATAATGTATATAGTACTACTACTAGAACGTAGAAACTGATACTTGTTGACAGTAAAATGCAAGCTGTAGTGTTTCATTGCTATTTACGGGATTTCAGTGTGATATTATAATTCTTTCCTTTGATGAGCAATCGTCTCATCTATGGGGGCTTCTAGGATAAGAGCAAGTTGTTATTTTTAGAACCTTCCTCTTTTAAATATCGTGCAAATTATAAAAGAATGAACTATTTCTCTATTTTTAAGTTTCCTATAATGGAAAGACCACTTGTTTTAACGAAGTTTCTGGCATATTGCATGAAGGCAACCTTATATTCCCATTTCCCTCCAATACTCTTATGTGTAATAGTAGGCTTAGCAGAATGCTAGAAAAGGTAGAAGGAGTGGGGTCTGAGCAACATAGAATGCCATAAATAATTAGCTATGAAGGAATAGTCATAAGTGTGGGAACAATAGTGAGAGATACATAGGAGTTCTCCATAACCATGAACTTACACGAGGGATCTACATTAAGCGCATGCTTGTTTGACTAGTTATGGATGAGCAATATACATGATAAAGTTCCATGCTATTTGCTGTTTGAGGCGATATTGTGTTAGTTGACGAAAGTACAAAGAGTTGCAACAAAAAATTTGAGTTATATGTTCTTAAAACCTTTTCTTTGTCTCAGTATTGATCATTCTATTTGCAATCTGTGTTTCTTTGCCTCATTTGCCTTATCTTGTTATTTTTCTGTCACTTATTCTTTACATCCTGTTTCATTTACATTTTTTTGATCCGACGGTCTATCGGAAACAACCTCTCTACCCCACAAAGGTAGTGGTAAGGTTTGCGTACGTCTTACCCTCTCCAGACTCTATTTGTGGATATGTTGTAATGCAAACAAAGTAAATTCATGTAGCTTTTTGTTGCAGGCTGCTCGAATGCGTTTCATTTATGAAAATGAGCCATATTGCCTTAATCTGATTGACACTCCAGGTCATGTAGATTTCTCGTATGAGGTATGTGGCAGAAATGGTTTAACATGAAAGTGTTGTGCTAATTCTCAATTTTACAGTATACCAACCATCCTAATCTTATAAGGTATACACTCTCTATGCATATGGTTTTTGTTTCATGTTTCATATTCATAGGTGGGTTACTGAGCAAGATGTTAATTTTGTTAAAACAACAACGAATTTGTAGTATAACAATATAACTGATAAAATTTCCTAAATATATGAAGTGATTGCATCATCATCTTAAATTGAAGACGTCATATACCAAAGCTGAACCTGGTCGTAACTTAAGCAATCTCATTTCTTATCTAATTAGAATCTTACAACATCGTTTGGTTTGTGTGGTGAATAGCTCATCAAGGACTCAAATTTTAAGTTGCTTTTACCATGACATATATGCCACTTATTTGTGGTTATTGTTAATTTGGCCCGTTCGAAATGATTCAACCAAAGCAAAAAAGATTGAGAAGTTAAGCCTAATAATGTATAACTTTTGTTGATCTTGAAGGAGGTTGGAGACCAACAATTTTACTTTAGCATTTATCTAATACTTCCGCTGGTCTAATTTATGTGGTATATTTTCCTTTTCACCTGTCCCAAAAAGAATGTCATACTTCTTTTTTTTAAAAAATAATTTTGAGTTTTTTCGTTTACCCTTAATGAGATGATTTATAGCCGTACAAGTGTCTGTCTTGTTTTAGACCACAAGTTTCAAAAGTCTCTTTCTTTCTTAAACTTGATGCCTAGTCAAAAACCTCCACATAAATTGGGAAGGAGGGAATATAGATACCATGTTAGGCATTCCCATCCATGGTTCATTTAGATCTATATATTTCTGATCTTTTTGTTAAACTTCTTTTTAGACTTGGTTGTTGGGGGATAATCAAGTGGGATCAGTTCCAAATATATGTGGGGACCCAACTATAAAATACCCTACTCCTTGGCGATTCTTATATATTTGGCTTTGGAAATGTTGACATGACCAGCTGACCATTAAAATGTAGATAATTCATTTTCACTTAAAACTTGATCTGTCTTCCAGTGACTAACCAACTTTCATCAAGCTTAGTGAAATCACCCAATATGCTATAAATTAGCAGACCAAATCCACCAAAATGCATAATGCATTTGTAGTGTGCCCCAAAGGTGGTTGATTTGTGAATTATCTCTTGTGAAGCACAAATCAGATTTCCATTTGATGCCATATTAATTCTTCTTTAATATCAGGTCTCTCGGTCTCTTGCTGCATGTGAAGGTGCACTACTTGTAGTTGATGCGTCCCAGGTTTAAAATCACTTGCCTCCTCTATATTTTTGAATATAATCATACCATGCATATTCTATGTTGCAGTCTAATTAGTTGCTGTAGTTAAAGTATATGAACTGCTCTATTTCATTTTATTCAGTAAATTGAGTTCTTTAAAGTGACCAATTCTTAAGTTGAGTTCTTATGTTTTAGGGAGTAGAGGCGCAAACCCTGGCTAATGTGTATTTAGCATTGGAAAACAATCTTGAGATCATCCCGGTAAGTTGGTGGAATGCTAATGTGTATCATTGGTATATCGTGACTTACATTCCAAGCACATAACTATTTCAGATGTTTCAATTATGGCAAATGTCAGCCGATTTATGGTGTTACAATATTTATTTATTATTGATGGTTTCTAGCAATTCATGATTAATAGTTTTAAATTGGCTAAGTTTGTTTTTCCAAAACTATTGAAAGTCAACAGCTTTGATTTAGTTATATATTTAAATGTGTCTGCAATCACTGCTTGTTTAAATTGATTGAACTTGAGTAGAGAATCTTATGAAGATCATTGCGTAGGGTATACAGTATTTTAAAATATACTGTATCCAATTGTAGGAATTAAATTACTTACCTTATTGTATGTATACTAAACCGTCTTATATAAGAAGCCCCTCTTGTATACCATCAACAACCAAAACTTTTTAAGAGTTCTTTCTCTTTTCTTTACTCTCCTTTTAATGTCATCTGAGCTTTTATTTAGTAAATACCTAGGTATCTTCAATTTAAGGGTTCCCAAAGGGTGTTTGGGAATGCTACACTTTCTGTGCAAGGGCCTCACAAGAGGTTTATAGTGTCCTTGGACACTCAATCCATTGCATTGAGGTTTTGGGTTGGATGCACAAATTACTTCAAAGCTACGATTCACTAGTTTGTTAATTTACTAAATGTGCTCTACATCATGGTAGAGATGCAGGAGCATCTTTGCTCTCGTTATTTCTTATCCATCATGAAGCCCAGTTCTTTTGTCATTGTTATCTTCAAATCATGTCGTTTCTTACTTATTTAGTTATTTGTTTATTTACAAGAATGATGATTCTTCTCCTCAGGTTTTGAACAAGATTGATCTTCCAGGTGCTGATCCAGCTCGTGTTTGTCAAGAGATAGAAGAGGTTGGTTTGTTGATATAAATACAGTTCAGAACTTTGTGTCTGTTACTATAGTTATAGATACTATTTGTGGTACCATTATAAGTCTGCACCACTAAATCACTATGCAATTGCTAAGATTCCTGCTACCCCTCTGGTTGTCATTCTCAACATTACTGATGCTGTTGTGACTAGTACTACTTGCTCTATATTATTTTGCAATTTTTCTCTAAGGTTAGATGACCACTATAATGCCTTAATTGATAATTTATGTTTTTCCATGCTCTGCTGTCAATGGTTTGCCGTATAGCTGTCAGGATATGATTGAAGGAAAAAGATACTTGACGCTTCTGTAACTTCACAATTAACCATAGAATCAACTCATCTTGTTGTATAGATTGTTGGCCTGGATTGTAGCAATGCCATATACACCTCAGCAAAGGTAATTCTTTGATAACACTCATTTCCCGTTCTTTCTGTTCAAAGAATACATGGCAGATTCTACGTTTGATCAAAGAGAAGAAAAGGTGAAGTAGTGGTTGAATAAGTAGCCTTGCTACAACTTGCGGGATTTGATATGTGTTTTCTGCTCATTAGGAAGGAATAGGTATTAGTGAAATTCTAAACGCGATTGTTCAGAGGATTCCACCTCCACGTGCAACTGCCGAAAGGCCTCTGAGGGCTCTTATATTTGACAGGTATATCTGATTGATAGCCCTTTGAATATATTAGCGTTATTTCACTACCATATTCAGATATTTGAAAGATTATGCATGGAAATACTCATAGATTTTGAATCTTGCAGTTGCAATACCCAATGTTAAATACTGGTATTAATCTCAATATGATTGATGTTATCTACTACTTACTTTGGAAGATGTTACCATATTTGCAAACAAAATACTAACGTTGTGAATTTTATCCAAAGCTGCTAGCATGTACTTGGAATAACACATCATAACTAACTGAATTTGTTTCCCTTTGCAGTTACTATGATC</genome_strand>
        <mrna_strand>AAAGCAAACGCGGCGACGGAGCTCAGTCCGTACGACGGCGGCGGCAACGGTGGCGTAGTAGCTTGCGTGTGGATTGCCAAGCAGCTGCGACTGACCTCGAAGCCACAGCTCGCGCCGGGAAAGACCGTCTGTTGAAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACCAATATCAAATATAAGGAATTTCTCAATAATAGCACATATTGATCACGGGAAATCAACGTTGGCAGATAAGTTGCTGCAAATGACGGGAACCGTAGAGAGCCGAGACATGAAGGAACAGTTTCTAGATAATATGGATTTGGAGAGAGAAAGAGGCATCACTATCAAATTGCAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGCTCGAATGCGTTTCATTTATGAAAATGAGCCATATTGCCTTAATCTGATTGACACTCCAGGTCATGTAGATTTCTCGTATGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTCTCGGTCTCTTGCTGCATGTGAAGGTGCACTACTTGTAGTTGATGCGTCCCAG..............................................................................................................................................................................GGAGTAGAGGCGCAAACCCTGGCTAATGTGTATTTAGCATTGGAAAACAATCTTGAGATCATCCCG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTTGAACAAGATTGATCTTCCAGGTGCTGATCCAGCTCGTGTTTGTCAAGAGATAGAAGAG.....................................................................................................................................................................................................................................................................................................................................................................................ATTGTTGGCCTGGATTGTAGNCATGCCATATACACCTCAGCAAAG...........................................................................................................................................................GAAGGAATAGGTATTAGTGAAATTCTAAACGCGATTGTTCAGAGGATTCCACCT-CACGTGCAACTGCCGAAAAGGCTCTGAGGGCTCTTATATTTGACAG.................................................................................................................................................................................................................................................................................................GTACTATGATC</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-C04HBa0069C22-4YNau/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M1685" ref_strand="+" ref_description="SGN-M1685 T0964 [cos_markers]">
      <seq>aagcaaacgcggcgacggagctcattccgtacgacggaggcggcaacggaggcgtagtagcttgcgtgtggattgccaagcagctgcgactgacctcgaagccacagctcgcgccgggaaagaccgtctgttgaaggtaccaatatcaaatataaggaatttctcaataatagcacatattgatcacgggaaatcaacgttggcagataagttgctgcaaatgacgggaaccgtagagagccgagacatgaaggaacagtttctagataatatggatttggagagagaaagaggcatcactatcaaattgcaggctgctcgaatgcgtttcatttatgaaaatgagccatattgccttaatctgattgacactccaggtcatgtagatttctcgtatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0069C22-4YNau/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0069C22.1" temp_strand="-" temp_description="C04HBa0069C22.1  CU915758.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0069C22 sequenced_by:sanger upload_account_name:uk">
        <position start="76649" stop="73628"/>
      </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="76349" g_stop="76214" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="136" r_length="136" r_score="0.978"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="76213" i_stop="75271" i_length="943">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.973" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75270" g_stop="75094" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="137" r_stop="313" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="75093" i_stop="74014" i_length="1080">
            <donor d_prob="0.893" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="74013" g_stop="73928" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="314" r_stop="399" r_length="86" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0069C22.1" gen_strand="-" ref_id="SGN-M1685" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>399</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0069C22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M1685" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="76349" e_stop="76214"/>
          <exon e_start="75270" e_stop="75094"/>
          <exon e_start="74013" e_stop="73928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGCAAACGCGGCGACGGAGCTCAGTCCGTACGACGGCGGCGGCAACGGTGGCGTAGTAGCTTGCGTGTGGATTGCCAAGCAGCTGCGACTGACCTCGAAGCCACAGCTCGCGCCGGGAAAGACCGTCTGTTGAAGGTCTCATTTTCGTATTTTTTTGTTTTTGAGTTTGATAAGTTATATGCACTGAAGTTTAAGTATTTACATAATCAGCTCATTTATTAGGTAATTTGTTAGTTAATTTTTTCGATAAACGATTAACTGATTACAATAACAACAACAACAACATAACCACTGAAATTCTGTAGGTGGAGTTTTGAGGATTGTAGAGTGTATGCGCAGACCTTACCTTACCTTTTGGAGAGACTGTCAGCTCAAGTAAAACACATGTCAAAGCAGATTTAGAAGGAGAAAATAGATTGATTATCTAATAAAAATAGTAACTAACCTTTTGATGATATCTAAACACTTAAATATTTACAAAATTTGCTCACTTAATAGAAAATTATAGGAAAATTTCTTGATAAACATTAATAGATTGTTTGATAAAATTGCTTCTAGCACCCAACCGTGTGGCTTAGTGGTAAATATAGTAGGTTGAGATTTGAGAACCATGAGATGGTCTCGGGTTCAAATTCTAGTAGGGACAAAATATTAGGTGATTTATCCTCATCTGTCCTAGACTTGGTGCACAGAGAAACTTGTACATGTTGTTGTTGGGAGGTGATAAATATCCCGTCGAATTAGTCGAGGTGAGCGCAAGCTGGCCTGTACACCAGGGTTATAAACAAATAAGAAGAAAAACAGCAACTAACTTGCTATCAAATGTTAAAAAAGTGTAAAAAGGACATGTATAAGAAGTACTTTGCTCGATCAGCTCACTTATTGCGTAACTATATTTAGTATAGATAAATCTCTTGATGAACTGATAGATTATTTGTTAAAAATGGTAACTAATCAGCTATTATAGGTTAAATTTTATTGATTATGTTAACACGAGTCTATATAATTTAAGTCCATTGTTTTGTGATATTTCATTTGGTAAGATGAATTGGCATTTGCTATATTTGTATGTATGTAGGTACCAATATCAAATATAAGGAATTTCTCAATAATAGCACATATTGATCACGGGAAATCAACGTTGGCAGATAAGTTGCTGCAAATGACGGGAACCGTAGAGAGCCGAGACATGAAGGAACAGTTTCTAGATAATATGGATTTGGAGAGAGAAAGAGGCATCACTATCAAATTGCAGGTGCATTGTAATTATTAACCCAGAACCCCAACAAGGAAAAACATATTTTACTTGGTTTCAATGTGAGTTTTGAGTAAGATATCTGGTATAGTTAATAGTTTGTTTGATTCCAACAGCATTTATGAAGATAGCAACAAGACACACTTCAGACTTCTAATTTATGTTGAGTGATAATGTATATAGTACTACTACTAGAACGTAGAAACTGATACTTGTTGACAGTAAAATGCAAGCTGTAGTGTTTCATTGCTATTTACGGGATTTCAGTGTGATATTATAATTCTTTCCTTTGATGAGCAATCGTCTCATCTATGGGGGCTTCTAGGATAAGAGCAAGTTGTTATTTTTAGAACCTTCCTCTTTTAAATATCGTGCAAATTATAAAAGAATGAACTATTTCTCTATTTTTAAGTTTCCTATAATGGAAAGACCACTTGTTTTAACGAAGTTTCTGGCATATTGCATGAAGGCAACCTTATATTCCCATTTCCCTCCAATACTCTTATGTGTAATAGTAGGCTTAGCAGAATGCTAGAAAAGGTAGAAGGAGTGGGGTCTGAGCAACATAGAATGCCATAAATAATTAGCTATGAAGGAATAGTCATAAGTGTGGGAACAATAGTGAGAGATACATAGGAGTTCTCCATAACCATGAACTTACACGAGGGATCTACATTAAGCGCATGCTTGTTTGACTAGTTATGGATGAGCAATATACATGATAAAGTTCCATGCTATTTGCTGTTTGAGGCGATATTGTGTTAGTTGACGAAAGTACAAAGAGTTGCAACAAAAAATTTGAGTTATATGTTCTTAAAACCTTTTCTTTGTCTCAGTATTGATCATTCTATTTGCAATCTGTGTTTCTTTGCCTCATTTGCCTTATCTTGTTATTTTTCTGTCACTTATTCTTTACATCCTGTTTCATTTACATTTTTTTGATCCGACGGTCTATCGGAAACAACCTCTCTACCCCACAAAGGTAGTGGTAAGGTTTGCGTACGTCTTACCCTCTCCAGACTCTATTTGTGGATATGTTGTAATGCAAACAAAGTAAATTCATGTAGCTTTTTGTTGCAGGCTGCTCGAATGCGTTTCATTTATGAAAATGAGCCATATTGCCTTAATCTGATTGACACTCCAGGTCATGTAGATTTCTCGTATGA</genome_strand>
        <mrna_strand>AAGCAAACGCGGCGACGGAGCTCATTCCGTACGACGGAGGCGGCAACGGAGGCGTAGTAGCTTGCGTGTGGATTGCCAAGCAGCTGCGACTGACCTCGAAGCCACAGCTCGCGCCGGGAAAGACCGTCTGTTGAAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACCAATATCAAATATAAGGAATTTCTCAATAATAGCACATATTGATCACGGGAAATCAACGTTGGCAGATAAGTTGCTGCAAATGACGGGAACCGTAGAGAGCCGAGACATGAAGGAACAGTTTCTAGATAATATGGATTTGGAGAGAGAAAGAGGCATCACTATCAAATTGCAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGCTCGAATGCGTTTCATTTATGAAAATGAGCCATATTGCCTTAATCTGATTGACACTCCAGGTCATGTAGATTTCTCGTATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>4</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="64415" PGL_stop="60782"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="64415" e_stop="64367"/>
            <exon e_start="63831" e_stop="63754"/>
            <exon e_start="62699" e_stop="62624"/>
            <exon e_start="62464" e_stop="62424"/>
            <exon e_start="61094" e_stop="60782"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.884" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.978" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.987" acc_prob="0.946" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </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="64415" e_stop="64367" e_length="49"/>
          </exon>
          <intron i_serial="1" don_prob="0.884" acc_prob="0.999">
            <gDNA_intron_boundary i_start="64366" i_stop="63832" i_length="535"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="63831" e_stop="63754" e_length="78"/>
          </exon>
          <intron i_serial="2" don_prob="0.978" acc_prob="1.000">
            <gDNA_intron_boundary i_start="63753" i_stop="62700" i_length="1054"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="62699" e_stop="62624" e_length="76"/>
          </exon>
          <intron i_serial="3" don_prob="0.998" acc_prob="0.998">
            <gDNA_intron_boundary i_start="62623" i_stop="62465" i_length="159"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="62464" e_stop="62424" e_length="41"/>
          </exon>
          <intron i_serial="4" don_prob="0.987" acc_prob="0.946">
            <gDNA_intron_boundary i_start="62423" i_stop="61095" i_length="1329"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="61094" e_stop="60782" e_length="313"/>
          </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="64415" stop="64367"/>
              <exon start="63831" stop="63754"/>
              <exon start="62699" stop="62624"/>
              <exon start="62464" stop="62424"/>
              <exon start="61094" stop="60782"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M1682" 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>AAATGGTGATCGTGTCGAACCCTTGGCAACAATCGTACATAAAGATAAG : GCATATTCTGTGGGAAGGGCTTTAACCCAAAAGCTGAAAGAACTTATACCCAGACAAATGTTTAAAGTACCAATTCAG : GCAACCATTGGCTCAAAAGTGATTGCCAGCGAGGCAATATCTGCTATCAGGAAGGATGTTCTCGCCAAGTGCTATG : GTGGTGACATCTCGAGAAAAAAGAAACTGCTCAAGAAACAG : GCTGAAGGAAAGAAAAGGATGAAAGCCATTGGTAAAGTTGATGTACCACAGGAAGCATTCATGGCTGTATTAAAACTTGAAAAAGAGGTCTTATAATTCATTTTGTTAGTAAAGATTTTTACCGTACATCCTACCCTCGTCAGACCCTATTGGGTTCGCGGGCAAAATGCAGTAAAGAAAGTGGGGACTACATTGATTCTGATATAAATATCATGTGAATAGCTGTATGACCTGGGATTTTTTTAATTTTCTTTTTGAGTTTTTTGCATTATTTCAAACACAGCATTAATGAATAGCTAATTCAGATTGAGAA</gDNA_template>
            <first_frame> K  W  *  S  C  R  T  L  G  N  N  R  T  *  R  *   : G  I  F  C  G  K  G  F  N  P  K  A  E  R  T  Y  T  Q  T  N  V  *  S  T  N  S   : G  N  H  W  L  K  S  D  C  Q  R  G  N  I  C  Y  Q  E  G  C  S  R  Q  V  L  W :   W  *  H  L  E  K  K  E  T  A  Q  E  T   : G  *  R  K  E  K  D  E  S  H  W  *  S  *  C  T  T  G  S  I  H  G  C  I  K  T  *  K  R  G  L  I  I  H  F  V  S  K  D  F  Y  R  T  S  Y  P  R  Q  T  L  L  G  S  R  A  K  C  S  K  E  S  G  D  Y  I  D  S  D  I  N  I  M  *  I  A  V  *  P  G  I  F  L  I  F  F  L  S  F  L  H  Y  F  K  H  S  I  N  E  *  L  I  Q  I  E   </first_frame>
            <second_frame>  N  G  D  R  V  E  P  L  A  T  I  V  H  K  D  K  :  A  Y  S  V  G  R  A  L  T  Q  K  L  K  E  L  I  P  R  Q  M  F  K  V  P  I  Q  :  A  T  I  G  S  K  V  I  A  S  E  A  I  S  A  I  R  K  D  V  L  A  K  C  Y   : G  G  D  I  S  R  K  K  K  L  L  K  K  Q  :  A  E  G  K  K  R  M  K  A  I  G  K  V  D  V  P  Q  E  A  F  M  A  V  L  K  L  E  K  E  V  L  *  F  I  L  L  V  K  I  F  T  V  H  P  T  L  V  R  P  Y  W  V  R  G  Q  N  A  V  K  K  V  G  T  T  L  I  L  I  *  I  S  C  E  *  L  Y  D  L  G  F  F  *  F  S  F  *  V  F  C  I  I  S  N  T  A  L  M  N  S  *  F  R  L  R  </second_frame>
            <third_frame>   M  V  I  V  S  N  P  W  Q  Q  S  Y  I  K  I  R :   H  I  L  W  E  G  L  *  P  K  S  *  K  N  L  Y  P  D  K  C  L  K  Y  Q  F  R :   Q  P  L  A  Q  K  *  L  P  A  R  Q  Y  L  L  S  G  R  M  F  S  P  S  A  M  :  V  V  T  S  R  E  K  R  N  C  S  R  N  R :   L  K  E  R  K  G  *  K  P  L  V  K  L  M  Y  H  R  K  H  S  W  L  Y  *  N  L  K  K  R  S  Y  N  S  F  C  *  *  R  F  L  P  Y  I  L  P  S  S  D  P  I  G  F  A  G  K  M  Q  *  R  K  W  G  L  H  *  F  *  Y  K  Y  H  V  N  S  C  M  T  W  D  F  F  N  F  L  F  E  F  F  A  L  F  Q  T  Q  H  *  *  I  A  N  S  D  *  E </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="C04HBa0069C22.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="64414" stop="64367"/>
                    <exon start="63831" stop="63754"/>
                    <exon start="62699" stop="62624"/>
                    <exon start="62464" stop="62424"/>
                    <exon start="61094" stop="60999"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>336</number_coding_nucleotides>
                  <number_encoded_amino_acids>112</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NGDRVEPLATIVHKDKAYSVGRALTQKLKELIPRQMFKVPIQATIGSKVIASEAISAIRKDVLAKCYGGDISRKKKLLKKQAEGKKRMKAIGKVDVPQEAFMAVLKLEKEVL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="-" PGL_start="76350" PGL_stop="69679"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="76350" e_stop="76214"/>
            <exon e_start="75270" e_stop="75094"/>
            <exon e_start="74013" e_stop="73927"/>
            <exon e_start="72702" e_stop="72646"/>
            <exon e_start="72471" e_stop="72406"/>
            <exon e_start="71572" e_stop="71510"/>
            <exon e_start="71136" e_stop="71092"/>
            <exon e_start="70936" e_stop="70836"/>
            <exon e_start="70546" e_stop="70450"/>
            <exon e_start="69732" e_stop="69679"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="0.973" e_score="1.000"/>
          <exon-intron don_prob="0.893" acc_prob="0.982" e_score="1.000"/>
          <exon-intron don_prob="0.961" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.984" e_score="1.000"/>
          <exon-intron don_prob="0.971" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.860" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.954" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.989" e_score="0.970"/>
          <exon-intron don_prob="0.994" acc_prob="0.829" e_score="0.969"/>
          <exon-only e_score="0.944"/>
        </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="76350" e_stop="76214" e_length="137"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="0.973">
            <gDNA_intron_boundary i_start="76213" i_stop="75271" i_length="943"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="75270" e_stop="75094" e_length="177"/>
          </exon>
          <intron i_serial="2" don_prob="0.893" acc_prob="0.982">
            <gDNA_intron_boundary i_start="75093" i_stop="74014" i_length="1080"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="74013" e_stop="73927" e_length="87"/>
          </exon>
          <intron i_serial="3" don_prob="0.961" acc_prob="0.996">
            <gDNA_intron_boundary i_start="73926" i_stop="72703" i_length="1224"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="72702" e_stop="72646" e_length="57"/>
          </exon>
          <intron i_serial="4" don_prob="0.999" acc_prob="0.984">
            <gDNA_intron_boundary i_start="72645" i_stop="72472" i_length="174"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="72471" e_stop="72406" e_length="66"/>
          </exon>
          <intron i_serial="5" don_prob="0.971" acc_prob="0.994">
            <gDNA_intron_boundary i_start="72405" i_stop="71573" i_length="833"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="71572" e_stop="71510" e_length="63"/>
          </exon>
          <intron i_serial="6" don_prob="0.999" acc_prob="0.860">
            <gDNA_intron_boundary i_start="71509" i_stop="71137" i_length="373"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="71136" e_stop="71092" e_length="45"/>
          </exon>
          <intron i_serial="7" don_prob="0.999" acc_prob="0.954">
            <gDNA_intron_boundary i_start="71091" i_stop="70937" i_length="155"/>
          </intron>
          <exon e_serial="8" e_score="0.970">
            <gDNA_exon_boundary e_start="70936" e_stop="70836" e_length="101"/>
          </exon>
          <intron i_serial="8" don_prob="0.999" acc_prob="0.989">
            <gDNA_intron_boundary i_start="70835" i_stop="70547" i_length="289"/>
          </intron>
          <exon e_serial="9" e_score="0.969">
            <gDNA_exon_boundary e_start="70546" e_stop="70450" e_length="97"/>
          </exon>
          <intron i_serial="9" don_prob="0.994" acc_prob="0.829">
            <gDNA_intron_boundary i_start="70449" i_stop="69733" i_length="717"/>
          </intron>
          <exon e_serial="10" e_score="0.944">
            <gDNA_exon_boundary e_start="69732" e_stop="69679" e_length="54"/>
          </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="76350" stop="76214"/>
              <exon start="75270" stop="75094"/>
              <exon start="74013" stop="73927"/>
              <exon start="72702" stop="72646"/>
              <exon start="72471" stop="72406"/>
              <exon start="71572" stop="71510"/>
              <exon start="71136" stop="71092"/>
              <exon start="70936" stop="70836"/>
              <exon start="70546" stop="70536"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8621" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="76349" stop="76214"/>
              <exon start="75270" stop="75094"/>
              <exon start="74013" stop="73928"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M1685" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="75195" stop="75094"/>
              <exon start="74013" stop="73927"/>
              <exon start="72702" stop="72646"/>
              <exon start="72471" stop="72406"/>
              <exon start="71572" stop="71510"/>
              <exon start="71136" stop="71092"/>
              <exon start="70936" stop="70836"/>
              <exon start="70546" stop="70450"/>
              <exon start="69732" stop="69679"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8621-2" 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="2" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AAAGCAAACGCGGCGACGGAGCTCAGTCCGTACGACGGCGGCGGCAACGGTGGCGTAGTAGCTTGCGTGTGGATTGCCAAGCAGCTGCGACTGACCTCGAAGCCACAGCTCGCGCCGGGAAAGACCGTCTGTTGAAG : GTACCAATATCAAATATAAGGAATTTCTCAATAATAGCACATATTGATCACGGGAAATCAACGTTGGCAGATAAGTTGCTGCAAATGACGGGAACCGTAGAGAGCCGAGACATGAAGGAACAGTTTCTAGATAATATGGATTTGGAGAGAGAAAGAGGCATCACTATCAAATTGCAG : GCTGCTCGAATGCGTTTCATTTATGAAAATGAGCCATATTGCCTTAATCTGATTGACACTCCAGGTCATGTAGATTTCTCGTATGAG : GTCTCTCGGTCTCTTGCTGCATGTGAAGGTGCACTACTTGTAGTTGATGCGTCCCAG : GGAGTAGAGGCGCAAACCCTGGCTAATGTGTATTTAGCATTGGAAAACAATCTTGAGATCATCCCG : GTTTTGAACAAGATTGATCTTCCAGGTGCTGATCCAGCTCGTGTTTGTCAAGAGATAGAAGAG : ATTGTTGGCCTGGATTGTAGCAATGCCATATACACCTCAGCAAAG : GAAGGAATAGGTATTAGTGAAATTCTAAACGCGATTGTTCAGAGGATTCCACCTCCACGTGCAACTGCCGAAAGGCCTCTGAGGGCTCTTATATTTGACAG : TTACTATGATCCATATCGGGGCGTTATTGTTTATTTTCGAGTCATTGATGGGACTATTAAGAAAGGTGATAGAGTGCTTTTTATGGCCAGTGGGAAG : GATTATTATGCTGATGAATTAGGAGTTTTATCTCCCAACCAGTTGCAAGTTGAT</gDNA_template>
            <first_frame> K  A  N  A  A  T  E  L  S  P  Y  D  G  G  G  N  G  G  V  V  A  C  V  W  I  A  K  Q  L  R  L  T  S  K  P  Q  L  A  P  G  K  T  V  C  *  R :   Y  Q  Y  Q  I  *  G  I  S  Q  *  *  H  I  L  I  T  G  N  Q  R  W  Q  I  S  C  C  K  *  R  E  P  *  R  A  E  T  *  R  N  S  F  *  I  I  W  I  W  R  E  K  E  A  S  L  S  N  C  R :   L  L  E  C  V  S  F  M  K  M  S  H  I  A  L  I  *  L  T  L  Q  V  M  *  I  S  R  M  R :   S  L  G  L  L  L  H  V  K  V  H  Y  L  *  L  M  R  P  R :   E  *  R  R  K  P  W  L  M  C  I  *  H  W  K  T  I  L  R  S  S  R :   F  *  T  R  L  I  F  Q  V  L  I  Q  L  V  F  V  K  R  *  K  R :   L  L  A  W  I  V  A  M  P  Y  T  P  Q  Q  R :   K  E  *  V  L  V  K  F  *  T  R  L  F  R  G  F  H  L  H  V  Q  L  P  K  G  L  *  G  L  L  Y  L  T   : V  T  M  I  H  I  G  A  L  L  F  I  F  E  S  L  M  G  L  L  R  K  V  I  E  C  F  L  W  P  V  G  R :   I  I  M  L  M  N  *  E  F  Y  L  P  T  S  C  K  L   </first_frame>
            <second_frame>  K  Q  T  R  R  R  S  S  V  R  T  T  A  A  A  T  V  A  *  *  L  A  C  G  L  P  S  S  C  D  *  P  R  S  H  S  S  R  R  E  R  P  S  V  E   : G  T  N  I  K  Y  K  E  F  L  N  N  S  T  Y  *  S  R  E  I  N  V  G  R  *  V  A  A  N  D  G  N  R  R  E  P  R  H  E  G  T  V  S  R  *  Y  G  F  G  E  R  K  R  H  H  Y  Q  I  A   : G  C  S  N  A  F  H  L  *  K  *  A  I  L  P  *  S  D  *  H  S  R  S  C  R  F  L  V  *   : G  L  S  V  S  C  C  M  *  R  C  T  T  C  S  *  C  V  P   : G  S  R  G  A  N  P  G  *  C  V  F  S  I  G  K  Q  S  *  D  H  P   : G  F  E  Q  D  *  S  S  R  C  *  S  S  S  C  L  S  R  D  R  R   : D  C  W  P  G  L  *  Q  C  H  I  H  L  S  K   : G  R  N  R  Y  *  *  N  S  K  R  D  C  S  E  D  S  T  S  T  C  N  C  R  K  A  S  E  G  S  Y  I  *  Q  :  L  L  *  S  I  S  G  R  Y  C  L  F  S  S  H  *  W  D  Y  *  E  R  *  *  S  A  F  Y  G  Q  W  E   : G  L  L  C  *  *  I  R  S  F  I  S  Q  P  V  A  S  *  </second_frame>
            <third_frame>   S  K  R  G  D  G  A  Q  S  V  R  R  R  R  Q  R  W  R  S  S  L  R  V  D  C  Q  A  A  A  T  D  L  E  A  T  A  R  A  G  K  D  R  L  L  K  :  V  P  I  S  N  I  R  N  F  S  I  I  A  H  I  D  H  G  K  S  T  L  A  D  K  L  L  Q  M  T  G  T  V  E  S  R  D  M  K  E  Q  F  L  D  N  M  D  L  E  R  E  R  G  I  T  I  K  L  Q  :  A  A  R  M  R  F  I  Y  E  N  E  P  Y  C  L  N  L  I  D  T  P  G  H  V  D  F  S  Y  E  :  V  S  R  S  L  A  A  C  E  G  A  L  L  V  V  D  A  S  Q  :  G  V  E  A  Q  T  L  A  N  V  Y  L  A  L  E  N  N  L  E  I  I  P  :  V  L  N  K  I  D  L  P  G  A  D  P  A  R  V  C  Q  E  I  E  E  :  I  V  G  L  D  C  S  N  A  I  Y  T  S  A  K  :  E  G  I  G  I  S  E  I  L  N  A  I  V  Q  R  I  P  P  P  R  A  T  A  E  R  P  L  R  A  L  I  F  D  S :   Y  Y  D  P  Y  R  G  V  I  V  Y  F  R  V  I  D  G  T  I  K  K  G  D  R  V  L  F  M  A  S  G  K  :  D  Y  Y  A  D  E  L  G  V  L  S  P  N  Q  L  Q  V  D </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="C04HBa0069C22.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="76348" stop="76214"/>
                    <exon start="75270" stop="75094"/>
                    <exon start="74013" stop="73927"/>
                    <exon start="72702" stop="72646"/>
                    <exon start="72471" stop="72406"/>
                    <exon start="71572" stop="71510"/>
                    <exon start="71136" stop="71092"/>
                    <exon start="70936" stop="70836"/>
                    <exon start="70546" stop="70450"/>
                    <exon start="69732" stop="69679"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>882</number_coding_nucleotides>
                  <number_encoded_amino_acids>294</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SKRGDGAQSVRRRRQRWRSSLRVDCQAAATDLEATARAGKDRLLKVPISNIRNFSIIAHIDHGKSTLADKLLQMTGTVESRDMKEQFLDNMDLERERGITIKLQAARMRFIYENEPYCLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENNLEIIPVLNKIDLPGADPARVCQEIEEIVGLDCSNAIYTSAKEGIGISEILNAIVQRIPPPRATAERPLRALIFDSYYDPYRGVIVYFRVIDGTIKKGDRVLFMASGKDYYADELGVLSPNQLQVD</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 8 chains have been computed
$ 
$ memory statistics:
$ 8352 bytes spliced alignments in total
$ 4 spliced alignments have been stored
$ 2088 bytes was the average size of a spliced alignment
$ 7120 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3560 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 8 backtrace matrices have been allocated
$ 
$ date finished: 2009-02-20 20:34:38
-->
