<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-01-14 17:46:02"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0077O05-8lNNe/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0077O05-8lNNe/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-C04HBa0077O05-8lNNe/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8527" ref_strand="-" ref_description="SGN-M8527 C2_At4g39850 [cosii_markers]">
      <seq>gagaacaacaacgattaggaatggcacgcttattttttcacaagccacggtttggaatccttgacgaatgtacaaatgctactagtgttgatgttgaagaacacctgtataggcttgctaaggatgctggcattactgttgttacatcctcacagcgccctgctttaatacctttccattctgtggaattacggttgattgatggtgaaggcaagtggcagctgctttcaattaagatggatgaggagggggaagacgaaccaaatgaatacacacaacaattgtgagtacgatgatgtattccaatgttgtgaaaacgttcatagagccaaaaataatgaatgaattatgaatgtaatagtttgcagttagattgagggtaggaaactatatagttagggtatacaaaaactattttaagttgtttcttgtaatatttcatatagttaactgtgtatagcgcctagttcccgtcgttgtaaaaggtttaggcataatctttccggtcagctctccgtgaataaaaatggcaggtagaaaaggaggctgacagattaatttacttatattatcttctacattttacaatgtattttgatgatatttttctgtttaaatataccaaaaatttaatggagtgtatatttttgccctctctaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0077O05-8lNNe/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0077O05.2" temp_strand="+" temp_description="C04HBa0077O05.2  CU457751.8 htgs_phase:3 submitted_to_sgn_as:C04HBa0077O05 sequenced_by:sanger upload_account_name:uk">
        <position start="43652" stop="45216"/>
      </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="43952" g_stop="43974" g_length="23"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="23" r_length="23" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="43975" i_stop="44078" i_length="104">
            <donor d_prob="0.960" d_score="0.00"/>
            <acceptor a_prob="0.827" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44079" g_stop="44131" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="24" r_stop="76" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="44132" i_stop="44232" i_length="101">
            <donor d_prob="0.994" 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="44233" g_stop="44311" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="77" r_stop="155" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="44312" i_stop="44406" i_length="95">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.715" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="44407" g_stop="44909" g_length="503"/>
          <reference_exon_boundary r_type="cDNA" r_start="156" r_stop="658" r_length="503" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="659" polyA_stop="689"/>
      <MATCH_line gen_id="C04HBa0077O05.2" gen_strand="+" ref_id="SGN-M8527" ref_strand="-">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>658</cumulative_length_of_scored_exons>
        <coverage percentage="0.955" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0077O05.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M8527" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="43952" e_stop="43974"/>
          <exon e_start="44079" e_stop="44131"/>
          <exon e_start="44233" e_stop="44311"/>
          <exon e_start="44407" e_stop="44909"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGAACAACAACGATTAGGAATGGTGAGCTCAAAAAGTGCTGATTATTTTCTGACCCAAAAACTTTGTTTAGAAATATATTTCATATTTTGTTTCTTTGCTGCTAACTGATTTGGCATTTCTACAAGGCACGCTTATTTTTTCACAAGCCACGGTTTGGAATCCTTGACGAATGTACAAAGTAAGTAAACAAGCTCAGATCTCAGTGTTCTCCAATTAGCATATGGAAGCTTTTCTATGACCTCGTATACCTGACCTTGCTATTTCCTCTTCTATTTGCAGTGCTACTAGTGTTGATGTTGAAGAACACCTGTATAGGCTTGCTAAGGATGCTGGCATTACTGTTGTTACATCCTCACAGGTTTGCATCCATGTCTCATATTGTCATCGGCATTTCTTATGGCCATCATCAACCCATCTCTTATCCAACTTTTTTCTTGCTCTGTTTTTCCTCAGCGCCCTGCTTTAATACCTTTCCATTCTGTGGAATTACGGTTGATTGATGGTGAAGGCAAGTGGCAGCTGCGTTCAATTAAGATGGATGAGGAGGGGGAAGACGAACCAAATGAATACACACAACAATTGTGAGTACGATGATGTATTCCAATGTTGTGAAAACGTTCATAGAGCCAAAAATAATGAATGAATTATGAATGTAATAGTTTGCAGTTAGATTGAGGGTAGGAAACTATATAGTTAGGGTATACAAAAACTATTTTAAGTTGTTTCTTGTAATATTTCATATAGTTAACTGTGTATAGCGCCTAGTTCCCGTCGTTGTAAAAGGTTTAGGCATAATCTTTCCGGTCAGCTCTCCGTGAATAAAAATGGCAGGTAGAAAAGGAGGCTGACAGATTAATTTACTTATATTATCTTCTACATTTTACAATGTATTTTGATGATATTTTTCTGTTTAAATATACCAAAAATTTAATGGAGTGTATATTTTTGCCCTCTCT</genome_strand>
        <mrna_strand>GAGAACAACAACGATTAGGAATG........................................................................................................GCACGCTTATTTTTTCACAAGCCACGGTTTGGAATCCTTGACGAATGTACAAA.....................................................................................................TGCTACTAGTGTTGATGTTGAAGAACACCTGTATAGGCTTGCTAAGGATGCTGGCATTACTGTTGTTACATCCTCACAG...............................................................................................CGCCCTGCTTTAATACCTTTCCATTCTGTGGAATTACGGTTGATTGATGGTGAAGGCAAGTGGCAGCTGCTTTCAATTAAGATGGATGAGGAGGGGGAAGACGAACCAAATGAATACACACAACAATTGTGAGTACGATGATGTATTCCAATGTTGTGAAAACGTTCATAGAGCCAAAAATAATGAATGAATTATGAATGTAATAGTTTGCAGTTAGATTGAGGGTAGGAAACTATATAGTTAGGGTATACAAAAACTATTTTAAGTTGTTTCTTGTAATATTTCATATAGTTAACTGTGTATAGCGCCTAGTTCCCGTCGTTGTAAAAGGTTTAGGCATAATCTTTCCGGTCAGCTCTCCGTGAATAAAAATGGCAGGTAGAAAAGGAGGCTGACAGATTAATTTACTTATATTATCTTCTACATTTTACAATGTATTTTGATGATATTTTTCTGTTTAAATATACCAAAAATTTAATGGAGTGTATATTTTTGCCCTCTCT</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-C04HBa0077O05-8lNNe/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M2148" ref_strand="+" ref_description="SGN-M2148 T1630 [cos_markers]">
      <seq>taattcaagaacacacagcacattctcaagaaagggaaaaaaaatgtctagtcttaaagttccagcatcagttccagatccttatgaagatgctgagcaactcaaaaaagcttttaaaggatggggcacaaatgaggaacttattattcagattctggctcataggaatgcagcacaacgcaagttaatccgagattcttatgctgctgcttatggagaggatcttctcaaggacttggattctgaactgacaagtgattttcagcgtgtggtgcttctctggactttgagtcctgctgagcgcgacgcctacttggttaatgaggctaccaaacgtctgactgctagcaattgggttatcatggaaattgcttgtaccaggtcttctgatgatctttttaaggcgaggcaggcctaccatgctcgatacaagaaatcacttgaagaagatgttgcttatcatacaagtggggatttccgtaagcttttggttcctcttataactgcattcagatatgaaggagatgaggtgaacatgacattagcaagaaaggaagcaaatatactgcatgagaagatctctgacaaggcttacaatgacgaggagatcatccgaatcatttctacta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0077O05-8lNNe/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0077O05.2" temp_strand="-" temp_description="C04HBa0077O05.2  CU457751.8 htgs_phase:3 submitted_to_sgn_as:C04HBa0077O05 sequenced_by:sanger upload_account_name:uk">
        <position start="75481" stop="72016"/>
      </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="75181" g_stop="75063" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="119" r_length="119" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="75062" i_stop="73804" i_length="1259">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.568" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="73803" g_stop="73658" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="120" r_stop="265" r_length="146" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="73657" i_stop="73449" i_length="209">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.985" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="73448" g_stop="73230" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="266" r_stop="484" r_length="219" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="73229" i_stop="72461" i_length="769">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.613" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="72460" g_stop="72316" g_length="145"/>
          <reference_exon_boundary r_type="cDNA" r_start="485" r_stop="629" r_length="145" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0077O05.2" gen_strand="-" ref_id="SGN-M2148" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>629</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0077O05.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M2148" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="75181" e_stop="75063"/>
          <exon e_start="73803" e_stop="73658"/>
          <exon e_start="73448" e_stop="73230"/>
          <exon e_start="72460" e_stop="72316"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATTCAAGAACACACAGCACATTCTCAAGAAAGGGAAAAAAAATGTCTAGTCTTAAAGTTCCAGCATCAGTTCCAGATCCTTATGAAGATGCTGAGCAACTCAAAAAAGCTTTTAAAGGTTTCACTTTTTTTTTCTTCCAGATCCCCTTTGGTTGGATTTTGTATGCCTGATTTTAGTGCAAGATTTCTTTTCTATATTTGCATTTGCTATTTTTCTTGAATGATCAGTTGATTTTTACTTTTCCTTACTGTTTTTTCCTAGTTTAGTTTAGTTTTAGTTCTTGATGGGGTTCTTGTGATCTGAATGATCTATTCAAAATTGTTTCGAAATGTAACATAGACCATCTGCTGACTCTAAATCTTGAATCTGTCTCGGTTAGGTAAAATGCTGTGTGATTTTTTATTTAATTCATTGTTGGAGGAAATTAGTGATCTTTGACTGTAGGCATATGTAGAAGACATTTTTCTTTATGATTCTGTGTAGTCATTTCCCAAACGTATGATTGGTCTAGATTATTAATTTGTTGACAAAAATGATTAACTCCAATTCTCCGTGGTGGTTAGGCTGATTATGATGTATGGGGCGAGTGGAGTGTTGGTTAGTTAAGAATTCTAATGTCAAAAGATATGAGGTGGCGAAAATGAGGACGCTGAGGTGGATGTGGATATGTAGGAGAGATAAAGATTAAGAATGAAGATATCCAACATAACGTGGGAGTGGCTTCCGTGATGGACAAGATGAGGGAAGTGAGACTGAGATGGTTTAGACATGATATGTGAAGAGGAGGTGCACAGCGATCTAGGGAGAAATGTTAGAGGTTGGCCGTAGTGAGTTTTAGGAGACGTAGAGGGAAACCAAAAAAGTGTTGGGAGGGGTGATTAGACAAAACATGACGCAACTTCAGCTTTCCGATGATATGATTCTAGATTGAAGGTTATGGAGGTCACGGATTAGGGTAGAAGGTTAGTAAATAGTTGAATGTTGTCTCGTTTCCAAGGGGATAGCTTGGTGGTAGTTTTGTTTCATTGTACCTATTTCCCCAGTAATACAAGTAGTAGTAGCATTTTCTCATAGTTGTCTGTCTTGCAATTTTTGTTGCTCGTTATTTACTGTGCTTCTGTTATCACATTAGTTGGTTATTGTTATTGCTCTTGTTTTTTGAATGCTCTAGGTTATGCTTTCCCTTTAATTTTCAATGTCCTGTTACTCTGTTGTGTGTTTTGGGAACAGCCTATCTACCTCCACGAGGTAGGGTTTAGGTTCCTCCCCAGACCCCGACTATGGGACTACATCGAGTTTGCTGTTGTTGTTTGGGCTTGCAAAGCAGGAAGCTGAATTTTGTTTTCCACAGAAGACTCATGGTTAAACGTTTGCAGGATGGGGCACAAATGAGGAACTTATTATTCAGATTCTGGCTCATAGGAATGCAGCACAACGCAAGTTAATCCGAGATTCTTATGCTGCTGCTTATGGAGAGGATCTTCTCAAGGACTTGGATTCTGAACTGACAAGTGATTTTCAGGTTAATTAATCTCAATTTTCCATTCTTGTTCCAAATTGTGTTGGAGTACACCCCGTTTAATCAATCATTGTGGTGTATTGAATGTTTTTCTTTTTGTTCATTTATACTTTCTTAGATTTGTCTAGTCCATATCTACATTATTAATCACAGGTAACATTAGCCAAGGATTGCTTTGACTAATATATAATTTGATTCACATGATATTGCAGCGTGTGGTGCTTCTCTGGACTTTGAGTCCTGCTGAGCGCGACGCCTACTTGGTTAATGAGGCTACCAAACGTCTGACTGCTAGCAATTGGGTTATCATGGAAATTGCTTGTACCAGGTCTTCTGATGATCTTTTTAAGGCGAGGCAGGCCTACCATGCTCGATACAAGAAATCACTTGAAGAAGATGTTGCTTATCATACAAGTGGGGATTTCCGTAAGGTACTTCGCATATAAGATCTACTGTGCCACATTTAATTCATTGTTATTCTAGTGCCAGTCAACTTTGTCATTAGATCAGCTGTAGAGAAAAACCTATAGTCAGCCGAAGTTTGCTAAAGAATCTGCCACTTTGTTGTTTTCTATAAATCTATAGACGATTCTGAAATTACTAGCCGAGAATTTGGATGAAATGAAGCTCCACCATGAGTCTAGGTATCGGCAATTCTTGGGGCTTTTTTATTTTCATTGAAGCGATTATTTGACTGTTTAGTGATTCGAGAACCAGAAGATCATTTTGCCTAGTAAAGCTCATCAACTCTTCTTTTTGCTCGTTGTGACTTCTTAAGGATGATTCTTTCTACCATGTAAGCTGTTGCACTTGCGCCTATTTGCCACCTTTGGGGTGTTTAAGATGAATGATAAACGGTGACAAGTGATGGATAGTCTCCGGTTACGACCATCCACCTCCAGCCATAACGTTGGGGGTTAACCTCACCAAGGGAGCGAAGTGGAGAAGGATCACCGTTGTTGTGCTCTTGAGCCAGGGGAAACTGAGGTTACGGTTTACTGTGTCCAAAAAATAAAATAAAAGGTTTAAGGATGATAGTGTCTGAGATAACAGTGTAAATAGTTAGATAAGCACCTTAAAGTTAGATTTTTGTGTTGTCTGTCTTTGTCTCCAGTGAATACTGAGAATACATGCAACAAATAAATCTTGCAATCACCGTCGTTAAGCTGGTCATATTGTATTAAACTAATTCCCGAACAGCTTTTGGTTCCTCTTATAACTGCATTCAGATATGAAGGAGATGAGGTGAACATGACATTAGCAAGAAAGGAAGCAAATATACTGCATGAGAAGATCTCTGACAAGGCTTACAATGACGAGGAGATCATCCGAATCATTTCTACTA</genome_strand>
        <mrna_strand>TAATTCAAGAACACACAGCACATTCTCAAGAAAGGGAAAAAAAATGTCTAGTCTTAAAGTTCCAGCATCAGTTCCAGATCCTTATGAAGATGCTGAGCAACTCAAAAAAGCTTTTAAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGGGGCACAAATGAGGAACTTATTATTCAGATTCTGGCTCATAGGAATGCAGCACAACGCAAGTTAATCCGAGATTCTTATGCTGCTGCTTATGGAGAGGATCTTCTCAAGGACTTGGATTCTGAACTGACAAGTGATTTTCAG.................................................................................................................................................................................................................CGTGTGGTGCTTCTCTGGACTTTGAGTCCTGCTGAGCGCGACGCCTACTTGGTTAATGAGGCTACCAAACGTCTGACTGCTAGCAATTGGGTTATCATGGAAATTGCTTGTACCAGGTCTTCTGATGATCTTTTTAAGGCGAGGCAGGCCTACCATGCTCGATACAAGAAATCACTTGAAGAAGATGTTGCTTATCATACAAGTGGGGATTTCCGTAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTTTGGTTCCTCTTATAACTGCATTCAGATATGAAGGAGATGAGGTGAACATGACATTAGCAAGAAAGGAAGCAAATATACTGCATGAGAAGATCTCTGACAAGGCTTACAATGACGAGGAGATCATCCGAATCATTTCTACTA</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-C04HBa0077O05-8lNNe/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8528" ref_strand="+" ref_description="SGN-M8528 C2_At4g39870 [cosii_markers]">
      <seq>ctttctcctaatattccacccactttccttttcctttttaggtatattctcaactctttttcaccattaatggcgttttagagcatcacaaaccccaaaaaagtagtggaatttgttgttgtcataaaggagaatactacttatagctttttagaagtaatgggtagtgaaaatcaacagcaatttgaagagaatcttcttcataatcataatcatcaggagcagcagcagcagcagaggaagaaccgttctttaaggagtaaagctgcgcactttgtatcggatgttgctactgttattcttaaccccatatctgataaacccttaaagcccagaccaccacctttgcctgaagatggatctgattctgacggaagtaagcatgagtcaaatgcagagctcttcaccaagttgctagactaggcggctttaggaatcagggttcggcaaagggcagctctgatatggtgtttgatgatggaagtaattctaaagtttccggagataatcaaatacctttggaagatatgaataagaaacctcttctgaacaatcttccgggaacttctgagccttcagttctcctcactgagaaggcacgaatttctctttatgctgcactgcctgtgcttgtgcaggacaggaagtgggtcttgttatacagtacatggaagaatggaatatcactctcgactttatacaggagaagcctactctggcctggcatcagtctgctggttgtgggggaccataatggtgctgtgtttggtgggctagttgatgcacctttaaagccaacaacaaagagaagatatcagggtacaaacaattcatttgttttctcaaatgtatctggccaacctgtcatatttcgtcccacaggtgtcaatcgctattttactgtctgttccacggagtatttagctttgggaggcggtggccattttgctctctacttagacggggatctgctaacaggttcaagtgcaacatcagaaacttatggaaattcttgtttggcacatactgaagactttgaagttaaggaagttgagttatggggctttgtatatgcttccaagtatgaagagatggtttcgattttgcgaacagagacacctggaatttgccgctggtaaacacagtgttaaagatgcttgctttccagtctaaatgattgtttctgtttggtgcccatggttgcggacagcaccacatggaatgcaggataggttttgtacatatgttttcacatgttcagcaacaattttacacttgtataggtgtgtttctttacatgtacagtgaaccattttgataaaattctctttgcttcggtaaatgagaatgaacgtgagagctaaatgaaaatattcattaaactttctccagaaaaaaaaaaaaagaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0077O05-8lNNe/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0077O05.2" temp_strand="+" temp_description="C04HBa0077O05.2  CU457751.8 htgs_phase:3 submitted_to_sgn_as:C04HBa0077O05 sequenced_by:sanger upload_account_name:uk">
        <position start="78777" stop="83953"/>
      </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="79077" g_stop="79427" g_length="351"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="351" r_length="351" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="79428" i_stop="80004" i_length="577">
            <donor d_prob="0.957" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="80005" g_stop="80050" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="352" r_stop="397" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="80051" i_stop="80267" i_length="217">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="80268" g_stop="80534" g_length="267"/>
          <reference_exon_boundary r_type="cDNA" r_start="398" r_stop="664" r_length="267" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="80535" i_stop="80648" i_length="114">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="80649" g_stop="80721" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="665" r_stop="737" r_length="73" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="80722" i_stop="81719" i_length="998">
            <donor d_prob="0.984" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="81720" g_stop="81800" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="738" r_stop="818" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="81801" i_stop="81886" i_length="86">
            <donor d_prob="0.843" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="81887" g_stop="81950" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="819" r_stop="882" r_length="64" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="81951" i_stop="82510" i_length="560">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.457" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="82511" g_stop="82598" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="883" r_stop="970" r_length="88" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="82599" i_stop="83002" i_length="404">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.392" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="83003" g_stop="83087" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="971" r_stop="1055" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="83088" i_stop="83312" i_length="225">
            <donor d_prob="0.770" d_score="1.00"/>
            <acceptor a_prob="0.890" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="83313" g_stop="83653" g_length="341"/>
          <reference_exon_boundary r_type="cDNA" r_start="1056" r_stop="1395" r_length="340" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1396" polyA_stop="1409"/>
      <MATCH_line gen_id="C04HBa0077O05.2" gen_strand="+" ref_id="SGN-M8528" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>1396</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0077O05.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M8528" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="79077" e_stop="79427"/>
          <exon e_start="80005" e_stop="80050"/>
          <exon e_start="80268" e_stop="80534"/>
          <exon e_start="80649" e_stop="80721"/>
          <exon e_start="81720" e_stop="81800"/>
          <exon e_start="81887" e_stop="81950"/>
          <exon e_start="82511" e_stop="82598"/>
          <exon e_start="83003" e_stop="83087"/>
          <exon e_start="83313" e_stop="83653"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTCTCCTAATATTCCACCCACTTTCCTTTTCCTTTTTAGGTATATTCTCAACTCTTTTTCACCATTAATGGCGTTTTAGAGCATCACAAACCCCAAAAAAGTAGTGGAATTTGTTGTTGTCATAAAGGAGAATACTACTTATAGCTTTTTAGAAGTAATGGGTAGTGAAAATCAACAGCAATTTGAAGAGAATCTTCTTCATAATCATAATCATCAGGAGCAGCAGCAGCAGCAGAGGAAGAACCGTTCTTTAAGGAGTAAAGCTGCGCACTTTGTATCGGATGTTGCTACTGTTATTCTTAACCCCATATCTGATAAACCCTTAAAGCCCAGACCACCACCTTTGCCTGTAAGTTTTGGGGGTTCTTGATAATTGAAATGATATATGTATATGTTTTGTATTCTAAATGAAATTTTGATCTTGTTGGGGTTTGTAGTATGATCTTTTGATGATAATTTCAGCTCTTGAACACCCAATTTGGAATTGATCAGAAATGAGGGTTTAGGTTGACTATTATAGTGTAGCCTATGAGCATATAATCTGTGATCTTTAGCTGAACTTGGTAAGTTGTCAATTTTTGTCTAACCTAGTTTCTAGCTAGGCCTCCCAACTTTGTATGTTTTTGTTGATTTTCGAGGGAGTCAAGTCATGTCAAATCCTAGCTTGCTTGTCTCCCTTGATTTTTCCACAATAAGGTAATTGTTGGGTCGTCTAGTCTTGGAGGAAGAACAAGATATGAATAGGATTGCAGCATCATAATCACTTCTTAGTATTCACTGCCCTTTTTACTGAAGATGCAGTGTGGATAACATCCTTTAATATTGGGGCATTTGATATACATTATACTCTGAAAGCAAAGCAGAAGAGAGGTTCTGTTATATTCCCTACAGATTGTATGTTAATAGTTTTTCTTATATTTCTTTAGGAAGATGGATCTGATTCTGACGGAAGTAAGCATGAGTCAAATGCAGAGGGAGATGCCACTGATTTAGTTGACGGTCCTGATACATCTTCTTTCTCAGCGTTCCTATATTCACTGTTGTCGACCACAGGATCCGAGAGTAAGCCTAACACTATTGGAAAATATGATAAGCAAGATGATCGTGATGAGTCAATACCTGAACTTACAATGAGGGAACCTAGCAGAAGAAAAGGTATACTTTCCAGGGGTAAACATTCCCTCGGCAGAGCTCTTCACCAAGTTGCTAGACTAGGCGGCTTTAGGAATCAGGGTTCGGCAAAGGGCAGCTCTGATATGGTGTTTGATGATGGAAGTAATTCTAAAGTTTCCGGAGATAATCAAATACCTTTGGAAGATATGAATAAGAAACCTCTTCTGAACAATCTTCCGGGAACTTCTGAGCCTTCAGTTCTCCTCACTGAGAAGGCACGAATTTCTCTTTATGCTGCACTGCCTGTGCTTGTGCAGGACAGGAAGTGGGTCTTGTTATACAGGCAGGGATCCTGAGTTGTATTAAATTTGAATGCTCTCTGAGCAGCTCTATGCTTATTTTCTCTCCTATTTCCAATTTTATAGTGGATTCTAACTTCTCAATTCTATTTTGCCAGTACATGGAAGAATGGAATATCACTCTCGACTTTATACAGGAGAAGCCTACTCTGGCCTGGCATCAGTCTGCTGGTAATTAACTGAAGACTTGTAAAGAGATATGCATTGCTCATTAAGAATTATGTAACAGGAGTTCCACATTGAAGAGCTGTTTTAATTTACATTTTGAACAATTCTTTGATTGCTTATGGTCTAGATGAATAAGAACTATTATTTTGTTTTCTGTATGTGTGTGTATATCACTTCCTGAAGTAACCACCAGATAATCTCCTTCACTTTTATCAGTATCTGTTGAACTTAAAAAAGAGTAGAATCCCTGTGCTTTCTTGTATGTGGAATAAGATCCAGCTGTTTTAATATATGTTCAAATACTCCAGAGTTTTGCTATCTTTTGATGCCCTAACTTATTAGTGTTGCTGTTGCAGTCCAAATCATATTTTCAGAAACCGAGTATAGGTCAGCTATATAATATACCTCTTACTAAAAAGACAATTTGTCATCGTTTCATAACAGATCTAACCAATGCTTCTCTTGGATGATAAACTCATTGTATAGTAATTTGTTCCTTCTGATATTTCTGGAACTAAGTTTTCTGGGTTTGGTATTTCCTTTCTGCCCTTGTTTTTGATATGCGTTTTTTGAACCGAGTGTCTATGGAAACAGCCTTTCTATCTTCACAAGGTAGGGGCAAGGCTGCATACAATGTACCCACCACCCTCCCCACACTAGGTATGTTGTTGTCGTAAGATTCCTGGCTTCGTTATGATTTGAGAAAGTAAATGATAGATCTTGAGATGGAAATGCCTCTGAAATTTGATGCGAGGCATTGATAAAGTCAAAGTATTGTCACTTTCGATTTTGATTTCTTGCTGGTTGCTCTTTTTGTATGAGTCCAAGTGCTCTATCTCTATGCATTATTGAAGTTAAAAGCATTGGTGTCGGTGTCTGGTGTCTTTTGATTTTCTATCAATGTGAGTGGTGGACAGTCATTAAGACTTAGAGACTTACAGATTATTTGATCTGGCATAAGACTCTAGTTTTGTTTCTCTCATATTGTCCAAATCTTATAGGTTGTGGGGGACCATAATGGTGCTGTGTTTGGTGGGCTAGTTGATGCACCTTTAAAGCCAACAACAAAGAGAAGATATCAGGTAATTCTGAGCAGAATACTTAAAACATGTCACCTCTGCCTTTGAGTTTCCATTTGTCATCTTGATTTGATTTTGGTATTTAACAGGGTACAAACAATTCATTTGTTTTCTCAAATGTATCTGGCCAACCTGTCATATTTCGTCCCACAGGTATCTCTCTTTTCCTTGTACTTGAACCAGACATTTAAAGTTTGTAGAACAAATTTCCGTTCTTTGTTTTGTCTGCTGTCGCTAACAAATTTATTTTTTAATACATGGGGACGGGAGTGGTCTGGTTCAGCATGTCCATATCCTCTTCTATTTGTGGTATTGATGGTCAGGAAGAGAATTAAAACAGTGGTCCTCTTATGGGAAATCTTGGGTTCGAAACATTTTTAATACGTTGTTTACCTGATTTACTGTCATCTTACGATGATGAAAATTTTAGCTGGTGATAGTAGTATAACCATACAAACTTTGAAAAATAGATTTCGTGGTGGATACCAAAGATATAATGATCAAGAATTTATTGTTTTCCAGAAATTAGTCATTTATTCTCTCTGAAATCACTATTATCCCATTTCCAGCATGATTGTTGACTGTTTCTGCTTCTGACTTTGATTTTTCGGTTCCTTTTGCCTTTTATGATAATGTTTGTCCATAAGCCTTGGAACTGTTTGGAACTCAAATCAATTACTTGTGACATGACATTGACGCTGTCGCCTATGTAGGTGTCAATCGCTATTTTACTGTCTGTTCCACGGAGTATTTAGCTTTGGGAGGCGGTGGCCATTTTGCTCTCTACTTAGACGGGGATCTGTAAGATTTCTTTCCCCTTCATTATGATCCTTTTGTCATTGCTTTATATGTGTATGCTTTTTGACTGCTTCCTTCCTAGTATCATAATGTCCTCCAATAAAAGGAGAAATAAGAGGAAAATCAAATGCCACACACCGCCTTGGGAGTTACCTTTTTCCTGTCCCATTTTTGGTTGCCATGACAGGATTTTAAAAAAATCTTCTTAATCTCAAGTTCACAGCTATCATCATCGTCATCATGAATATCACCTTTTAATATATTTTCTGTAGAATCAGATCTTATGATTCCAATTTATTGCCTCTATTGCCCATAGATTAAAAAACAAGGGGAAATCAAATTCTATTGAGTATGTTAAAGATATCTTTGACTCGGATAAATTAGCTCAACAAACTTCACTTTTCCAGGCTAACAGGTTCAAGTGCAACATCAGAAACTTATGGAAATTCTTGTTTGGCACATACTGAAGACTTTGAAGTTAAGGAAGTTGAGGTAGTCTCGTAACTGCATCTCTGTATGTGTTCGCACGCATGCACATTTTGTGTTCTGCCTTGTCTGTCTCTTCACTATCTCTATATGTTATAGTTACATGTGTGTATCTGTCAGGGCAGTTTGTTTGAAATTAGCTCTATGAAATTTACCTTTCAAGAGTACAATATGCATTTAACATGAGAAATTAATTTTTAATGTGATATCCATTTATCATATCATATGCAGTTATGGGGCTTTGTATATGCTTCCAAGTATGAAGAGATGGTTTCGATTTTGCGAACAGAGACACCTGGAATTTGCCGCTGGTAAACACAGTGTTAAAGATGCTTGCTTTCCAGTCTAAATGATTGTTTCTGTTTGGTGCCCATGGTTGCGGACAGCACCACATGGAATGCAGGATAGGTTTTGTACATATGTTTTCACATGTTCAGCAACAATTTTACACTTGTATAGGTGTGTTTCTTTACATGTACAGTGAACCATTTTGATAAAATTCTCTTTGCTTCGGTAAATGAGAATGAACGTGAGAGCTAAATGAAAATATTCATTAAACTGTTCTCCAGAAA</genome_strand>
        <mrna_strand>CTTTCTCCTAATATTCCACCCACTTTCCTTTTCCTTTTTAGGTATATTCTCAACTCTTTTTCACCATTAATGGCGTTTTAGAGCATCACAAACCCCAAAAAAGTAGTGGAATTTGTTGTTGTCATAAAGGAGAATACTACTTATAGCTTTTTAGAAGTAATGGGTAGTGAAAATCAACAGCAATTTGAAGAGAATCTTCTTCATAATCATAATCATCAGGAGCAGCAGCAGCAGCAGAGGAAGAACCGTTCTTTAAGGAGTAAAGCTGCGCACTTTGTATCGGATGTTGCTACTGTTATTCTTAACCCCATATCTGATAAACCCTTAAAGCCCAGACCACCACCTTTGCCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAGATGGATCTGATTCTGACGGAAGTAAGCATGAGTCAAATGCAG.........................................................................................................................................................................................................................AGCTCTTCACCAAGTTGCTAGACTAGGCGGCTTTAGGAATCAGGGTTCGGCAAAGGGCAGCTCTGATATGGTGTTTGATGATGGAAGTAATTCTAAAGTTTCCGGAGATAATCAAATACCTTTGGAAGATATGAATAAGAAACCTCTTCTGAACAATCTTCCGGGAACTTCTGAGCCTTCAGTTCTCCTCACTGAGAAGGCACGAATTTCTCTTTATGCTGCACTGCCTGTGCTTGTGCAGGACAGGAAGTGGGTCTTGTTATACAG..................................................................................................................TACATGGAAGAATGGAATATCACTCTCGACTTTATACAGGAGAAGCCTACTCTGGCCTGGCATCAGTCTGCTG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGTGGGGGACCATAATGGTGCTGTGTTTGGTGGGCTAGTTGATGCACCTTTAAAGCCAACAACAAAGAGAAGATATCAG......................................................................................GGTACAAACAATTCATTTGTTTTCTCAAATGTATCTGGCCAACCTGTCATATTTCGTCCCACAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGTCAATCGCTATTTTACTGTCTGTTCCACGGAGTATTTAGCTTTGGGAGGCGGTGGCCATTTTGCTCTCTACTTAGACGGGGATCT....................................................................................................................................................................................................................................................................................................................................................................................................................GCTAACAGGTTCAAGTGCAACATCAGAAACTTATGGAAATTCTTGTTTGGCACATACTGAAGACTTTGAAGTTAAGGAAGTTGAG.................................................................................................................................................................................................................................TTATGGGGCTTTGTATATGCTTCCAAGTATGAAGAGATGGTTTCGATTTTGCGAACAGAGACACCTGGAATTTGCCGCTGGTAAACACAGTGTTAAAGATGCTTGCTTTCCAGTCTAAATGATTGTTTCTGTTTGGTGCCCATGGTTGCGGACAGCACCACATGGAATGCAGGATAGGTTTTGTACATATGTTTTCACATGTTCAGCAACAATTTTACACTTGTATAGGTGTGTTTCTTTACATGTACAGTGAACCATTTTGATAAAATTCTCTTTGCTTCGGTAAATGAGAATGAACGTGAGAGCTAAATGAAAATATTCATTAAACT-TTCTCCAGAAA</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-C04HBa0077O05-8lNNe/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8528-2" ref_strand="+" ref_description="SGN-M8528-2 C2_At4g39870-2 [cosii_markers]">
      <seq>gaagactttgaagttaaggaagttgagttatggggatttgtatatgcttccaagtacgaagagatggtttcgattttgcgaacagagacacctggaatttgccgctggtaaacacagcgttcagctgtttgccttcccgtctaaatgattgtttctgtttggatgcccatggttgtgcacagcaccacacggaatgcaggataggttttgtacatatcttttaacatgttcagcaacaatgctacatttgtataggtgtgtttctttacatgtacagtgaaccactttgataaaattctctttgctttgggaaatgagaatgaacgtgagagctaactgaaaatattcattaaactgttctccagaaactgaggcttaacatgctgtgatgctgctaatgatttttttttccattggtggaaaattaagatttcagta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0077O05-8lNNe/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0077O05.2" temp_strand="+" temp_description="C04HBa0077O05.2  CU457751.8 htgs_phase:3 submitted_to_sgn_as:C04HBa0077O05 sequenced_by:sanger upload_account_name:uk">
        <position start="82761" stop="84026"/>
      </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="83061" g_stop="83087" g_length="27"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="27" r_length="27" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="83088" i_stop="83312" i_length="225">
            <donor d_prob="0.770" d_score="0.00"/>
            <acceptor a_prob="0.890" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="83313" g_stop="83726" g_length="414"/>
          <reference_exon_boundary r_type="cDNA" r_start="28" r_stop="438" r_length="411" r_score="0.925"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0077O05.2" gen_strand="+" ref_id="SGN-M8528-2" ref_strand="+">
        <total_alignment_score>0.925</total_alignment_score>
        <cumulative_length_of_scored_exons>441</cumulative_length_of_scored_exons>
        <coverage percentage="1.007" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0077O05.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M8528-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83061" e_stop="83087"/>
          <exon e_start="83313" e_stop="83726"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGACTTTGAAGTTAAGGAAGTTGAGGTAGTCTCGTAACTGCATCTCTGTATGTGTTCGCACGCATGCACATTTTGTGTTCTGCCTTGTCTGTCTCTTCACTATCTCTATATGTTATAGTTACATGTGTGTATCTGTCAGGGCAGTTTGTTTGAAATTAGCTCTATGAAATTTACCTTTCAAGAGTACAATATGCATTTAACATGAGAAATTAATTTTTAATGTGATATCCATTTATCATATCATATGCAGTTATGGGGCTTTGTATATGCTTCCAAGTATGAAGAGATGGTTTCGATTTTGCGAACAGAGACACCTGGAATTTGCCGCTGGTAAACACAGTGTTAAAGATGCTTGCTTTCCAGTCTAAATGATTGTTTCTGTTTGG-TGCCCATGGTTGCGGACAGCACCACATGGAATGCAGGATAGGTTTTGTACATATGTTTTCACATGTTCAGCAACAATTTTACACTTGTATAGGTGTGTTTCTTTACATGTACAGTGAACCATTTTGATAAAATTCTCTTTGCTTCGGTAAATGAGAATGAACGTGAGAGCTAAATGAAAATATTCATTAAACTGTTCTCCAGAAACTGATGCTTAACATGCTGTGATGCTGCTAATGATTATTTTTTTTTCGTTGTTGGTGAAATTAAGATTTCAGTA</genome_strand>
        <mrna_strand>GAAGACTTTGAAGTTAAGGAAGTTGAG.................................................................................................................................................................................................................................TTATGGGGATTTGTATATGCTTCCAAGTACGAAGAGATGGTTTCGATTTTGCGAACAGAGACACCTGGAATTTGCCGCTGGTAAACACAGCGTT-CAGCTGTTTGCCTTCCCGTCTAAATGATTGTTTCTGTTTGGATGCCCATGGTTGTGCACAGCACCACACGGAATGCAGGATAGGTTTTGTACATATCTTTTAACATGTTCAGCAACAATGCTACATTTGTATAGGTGTGTTTCTTTACATGTACAGTGAACCACTTTGATAAAATTCTCTTTGCTTTGGGAAATGAGAATGAACGTGAGAGCTAACTGAAAATATTCATTAAACTGTTCTCCAGAAACTGAGGCTTAACATGCTGTGATGCTGCTAATGA-T-TTTTTTTTCCATTGGTGG-AAAATTAAGATTTCAGTA</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="43952" PGL_stop="44909"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="43952" e_stop="43974"/>
            <exon e_start="44079" e_stop="44131"/>
            <exon e_start="44233" e_stop="44311"/>
            <exon e_start="44407" e_stop="44909"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.960" acc_prob="0.827" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="0.715" e_score="1.000"/>
          <exon-only e_score="0.998"/>
        </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="43952" e_stop="43974" e_length="23"/>
          </exon>
          <intron i_serial="1" don_prob="0.960" acc_prob="0.827">
            <gDNA_intron_boundary i_start="43975" i_stop="44078" i_length="104"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="44079" e_stop="44131" e_length="53"/>
          </exon>
          <intron i_serial="2" don_prob="0.994" acc_prob="0.997">
            <gDNA_intron_boundary i_start="44132" i_stop="44232" i_length="101"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="44233" e_stop="44311" e_length="79"/>
          </exon>
          <intron i_serial="3" don_prob="0.993" acc_prob="0.715">
            <gDNA_intron_boundary i_start="44312" i_stop="44406" i_length="95"/>
          </intron>
          <exon e_serial="4" e_score="0.998">
            <gDNA_exon_boundary e_start="44407" e_stop="44909" e_length="503"/>
          </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="43952" stop="43974"/>
              <exon start="44079" stop="44131"/>
              <exon start="44233" stop="44311"/>
              <exon start="44407" stop="44909"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8527" 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>GAGAACAACAACGATTAGGAATG : GCACGCTTATTTTTTCACAAGCCACGGTTTGGAATCCTTGACGAATGTACAAA : TGCTACTAGTGTTGATGTTGAAGAACACCTGTATAGGCTTGCTAAGGATGCTGGCATTACTGTTGTTACATCCTCACAG : CGCCCTGCTTTAATACCTTTCCATTCTGTGGAATTACGGTTGATTGATGGTGAAGGCAAGTGGCAGCTGCGTTCAATTAAGATGGATGAGGAGGGGGAAGACGAACCAAATGAATACACACAACAATTGTGAGTACGATGATGTATTCCAATGTTGTGAAAACGTTCATAGAGCCAAAAATAATGAATGAATTATGAATGTAATAGTTTGCAGTTAGATTGAGGGTAGGAAACTATATAGTTAGGGTATACAAAAACTATTTTAAGTTGTTTCTTGTAATATTTCATATAGTTAACTGTGTATAGCGCCTAGTTCCCGTCGTTGTAAAAGGTTTAGGCATAATCTTTCCGGTCAGCTCTCCGTGAATAAAAATGGCAGGTAGAAAAGGAGGCTGACAGATTAATTTACTTATATTATCTTCTACATTTTACAATGTATTTTGATGATATTTTTCTGTTTAAATATACCAAAAATTTAATGGAGTGTATATTTTTGCCCTCTCT</gDNA_template>
            <first_frame> E  N  N  N  D  *  E  W :   H  A  Y  F  F  T  S  H  G  L  E  S  L  T  N  V  Q   : M  L  L  V  L  M  L  K  N  T  C  I  G  L  L  R  M  L  A  L  L  L  L  H  P  H  S :   A  L  L  *  Y  L  S  I  L  W  N  Y  G  *  L  M  V  K  A  S  G  S  C  V  Q  L  R  W  M  R  R  G  K  T  N  Q  M  N  T  H  N  N  C  E  Y  D  D  V  F  Q  C  C  E  N  V  H  R  A  K  N  N  E  *  I  M  N  V  I  V  C  S  *  I  E  G  R  K  L  Y  S  *  G  I  Q  K  L  F  *  V  V  S  C  N  I  S  Y  S  *  L  C  I  A  P  S  S  R  R  C  K  R  F  R  H  N  L  S  G  Q  L  S  V  N  K  N  G  R  *  K  R  R  L  T  D  *  F  T  Y  I  I  F  Y  I  L  Q  C  I  L  M  I  F  F  C  L  N  I  P  K  I  *  W  S  V  Y  F  C  P  L  </first_frame>
            <second_frame>  R  T  T  T  I  R  N   : G  T  L  I  F  S  Q  A  T  V  W  N  P  *  R  M  Y  K  :  C  Y  *  C  *  C  *  R  T  P  V  *  A  C  *  G  C  W  H  Y  C  C  Y  I  L  T   : A  P  C  F  N  T  F  P  F  C  G  I  T  V  D  *  W  *  R  Q  V  A  A  A  F  N  *  D  G  *  G  G  G  R  R  T  K  *  I  H  T  T  I  V  S  T  M  M  Y  S  N  V  V  K  T  F  I  E  P  K  I  M  N  E  L  *  M  *  *  F  A  V  R  L  R  V  G  N  Y  I  V  R  V  Y  K  N  Y  F  K  L  F  L  V  I  F  H  I  V  N  C  V  *  R  L  V  P  V  V  V  K  G  L  G  I  I  F  P  V  S  S  P  *  I  K  M  A  G  R  K  G  G  *  Q  I  N  L  L  I  L  S  S  T  F  Y  N  V  F  *  *  Y  F  S  V  *  I  Y  Q  K  F  N  G  V  Y  I  F  A  L  S </second_frame>
            <third_frame>   E  Q  Q  R  L  G  M  :  A  R  L  F  F  H  K  P  R  F  G  I  L  D  E  C  T  N :   A  T  S  V  D  V  E  E  H  L  Y  R  L  A  K  D  A  G  I  T  V  V  T  S  S  Q  :  R  P  A  L  I  P  F  H  S  V  E  L  R  L  I  D  G  E  G  K  W  Q  L  R  S  I  K  M  D  E  E  G  E  D  E  P  N  E  Y  T  Q  Q  L  *  V  R  *  C  I  P  M  L  *  K  R  S  *  S  Q  K  *  *  M  N  Y  E  C  N  S  L  Q  L  D  *  G  *  E  T  I  *  L  G  Y  T  K  T  I  L  S  C  F  L  *  Y  F  I  *  L  T  V  Y  S  A  *  F  P  S  L  *  K  V  *  A  *  S  F  R  S  A  L  R  E  *  K  W  Q  V  E  K  E  A  D  R  L  I  Y  L  Y  Y  L  L  H  F  T  M  Y  F  D  D  I  F  L  F  K  Y  T  K  N  L  M  E  C  I  F  L  P  S   </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="C04HBa0077O05.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="43954" stop="43974"/>
                    <exon start="44079" stop="44131"/>
                    <exon start="44233" stop="44311"/>
                    <exon start="44407" stop="44538"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>282</number_coding_nucleotides>
                  <number_encoded_amino_acids>94</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EQQRLGMARLFFHKPRFGILDECTNATSVDVEEHLYRLAKDAGITVVTSSQRPALIPFHSVELRLIDGEGKWQLRSIKMDEEGEDEPNEYTQQL*</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="75181" PGL_stop="72316"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="75181" e_stop="75063"/>
            <exon e_start="73803" e_stop="73658"/>
            <exon e_start="73448" e_stop="73230"/>
            <exon e_start="72460" e_stop="72316"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.991" acc_prob="0.568" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.985" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.613" 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="75181" e_stop="75063" e_length="119"/>
          </exon>
          <intron i_serial="1" don_prob="0.991" acc_prob="0.568">
            <gDNA_intron_boundary i_start="75062" i_stop="73804" i_length="1259"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="73803" e_stop="73658" e_length="146"/>
          </exon>
          <intron i_serial="2" don_prob="0.997" acc_prob="0.985">
            <gDNA_intron_boundary i_start="73657" i_stop="73449" i_length="209"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="73448" e_stop="73230" e_length="219"/>
          </exon>
          <intron i_serial="3" don_prob="0.997" acc_prob="0.613">
            <gDNA_intron_boundary i_start="73229" i_stop="72461" i_length="769"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="72460" e_stop="72316" e_length="145"/>
          </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="75181" stop="75063"/>
              <exon start="73803" stop="73658"/>
              <exon start="73448" stop="73230"/>
              <exon start="72460" stop="72316"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M2148" 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>TAATTCAAGAACACACAGCACATTCTCAAGAAAGGGAAAAAAAATGTCTAGTCTTAAAGTTCCAGCATCAGTTCCAGATCCTTATGAAGATGCTGAGCAACTCAAAAAAGCTTTTAAAG : GATGGGGCACAAATGAGGAACTTATTATTCAGATTCTGGCTCATAGGAATGCAGCACAACGCAAGTTAATCCGAGATTCTTATGCTGCTGCTTATGGAGAGGATCTTCTCAAGGACTTGGATTCTGAACTGACAAGTGATTTTCAG : CGTGTGGTGCTTCTCTGGACTTTGAGTCCTGCTGAGCGCGACGCCTACTTGGTTAATGAGGCTACCAAACGTCTGACTGCTAGCAATTGGGTTATCATGGAAATTGCTTGTACCAGGTCTTCTGATGATCTTTTTAAGGCGAGGCAGGCCTACCATGCTCGATACAAGAAATCACTTGAAGAAGATGTTGCTTATCATACAAGTGGGGATTTCCGTAAG : CTTTTGGTTCCTCTTATAACTGCATTCAGATATGAAGGAGATGAGGTGAACATGACATTAGCAAGAAAGGAAGCAAATATACTGCATGAGAAGATCTCTGACAAGGCTTACAATGACGAGGAGATCATCCGAATCATTTCTACTA</gDNA_template>
            <first_frame> *  F  K  N  T  Q  H  I  L  K  K  G  K  K  N  V  *  S  *  S  S  S  I  S  S  R  S  L  *  R  C  *  A  T  Q  K  S  F  *  R :   M  G  H  K  *  G  T  Y  Y  S  D  S  G  S  *  E  C  S  T  T  Q  V  N  P  R  F  L  C  C  C  L  W  R  G  S  S  Q  G  L  G  F  *  T  D  K  *  F  S   : A  C  G  A  S  L  D  F  E  S  C  *  A  R  R  L  L  G  *  *  G  Y  Q  T  S  D  C  *  Q  L  G  Y  H  G  N  C  L  Y  Q  V  F  *  *  S  F  *  G  E  A  G  L  P  C  S  I  Q  E  I  T  *  R  R  C  C  L  S  Y  K  W  G  F  P  *   : A  F  G  S  S  Y  N  C  I  Q  I  *  R  R  *  G  E  H  D  I  S  K  K  G  S  K  Y  T  A  *  E  D  L  *  Q  G  L  Q  *  R  G  D  H  P  N  H  F  Y   </first_frame>
            <second_frame>  N  S  R  T  H  S  T  F  S  R  K  G  K  K  M  S  S  L  K  V  P  A  S  V  P  D  P  Y  E  D  A  E  Q  L  K  K  A  F  K   : G  W  G  T  N  E  E  L  I  I  Q  I  L  A  H  R  N  A  A  Q  R  K  L  I  R  D  S  Y  A  A  A  Y  G  E  D  L  L  K  D  L  D  S  E  L  T  S  D  F  Q  :  R  V  V  L  L  W  T  L  S  P  A  E  R  D  A  Y  L  V  N  E  A  T  K  R  L  T  A  S  N  W  V  I  M  E  I  A  C  T  R  S  S  D  D  L  F  K  A  R  Q  A  Y  H  A  R  Y  K  K  S  L  E  E  D  V  A  Y  H  T  S  G  D  F  R  K  :  L  L  V  P  L  I  T  A  F  R  Y  E  G  D  E  V  N  M  T  L  A  R  K  E  A  N  I  L  H  E  K  I  S  D  K  A  Y  N  D  E  E  I  I  R  I  I  S  T  </second_frame>
            <third_frame>   I  Q  E  H  T  A  H  S  Q  E  R  E  K  K  C  L  V  L  K  F  Q  H  Q  F  Q  I  L  M  K  M  L  S  N  S  K  K  L  L  K  :  D  G  A  Q  M  R  N  L  L  F  R  F  W  L  I  G  M  Q  H  N  A  S  *  S  E  I  L  M  L  L  L  M  E  R  I  F  S  R  T  W  I  L  N  *  Q  V  I  F  S :   V  W  C  F  S  G  L  *  V  L  L  S  A  T  P  T  W  L  M  R  L  P  N  V  *  L  L  A  I  G  L  S  W  K  L  L  V  P  G  L  L  M  I  F  L  R  R  G  R  P  T  M  L  D  T  R  N  H  L  K  K  M  L  L  I  I  Q  V  G  I  S  V  S :   F  W  F  L  L  *  L  H  S  D  M  K  E  M  R  *  T  *  H  *  Q  E  R  K  Q  I  Y  C  M  R  R  S  L  T  R  L  T  M  T  R  R  S  S  E  S  F  L  L </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="C04HBa0077O05.2" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="75180" stop="75063"/>
                    <exon start="73803" stop="73658"/>
                    <exon start="73448" stop="73230"/>
                    <exon start="72460" stop="72317"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>627</number_coding_nucleotides>
                  <number_encoded_amino_acids>209</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NSRTHSTFSRKGKKMSSLKVPASVPDPYEDAEQLKKAFKGWGTNEELIIQILAHRNAAQRKLIRDSYAAAYGEDLLKDLDSELTSDFQRVVLLWTLSPAERDAYLVNEATKRLTASNWVIMEIACTRSSDDLFKARQAYHARYKKSLEEDVAYHTSGDFRKLLVPLITAFRYEGDEVNMTLARKEANILHEKISDKAYNDEEIIRIIST</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="+" PGL_start="79077" PGL_stop="83726"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="79077" e_stop="79427"/>
            <exon e_start="80005" e_stop="80050"/>
            <exon e_start="80268" e_stop="80534"/>
            <exon e_start="80649" e_stop="80721"/>
            <exon e_start="81720" e_stop="81800"/>
            <exon e_start="81887" e_stop="81950"/>
            <exon e_start="82511" e_stop="82598"/>
            <exon e_start="83003" e_stop="83087"/>
            <exon e_start="83313" e_stop="83726"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.957" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.978" e_score="1.000"/>
          <exon-intron don_prob="0.984" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.843" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.457" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.392" e_score="1.000"/>
          <exon-intron don_prob="0.770" acc_prob="0.890" e_score="1.000"/>
          <exon-only e_score="0.925"/>
        </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="79077" e_stop="79427" e_length="351"/>
          </exon>
          <intron i_serial="1" don_prob="0.957" acc_prob="1.000">
            <gDNA_intron_boundary i_start="79428" i_stop="80004" i_length="577"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="80005" e_stop="80050" e_length="46"/>
          </exon>
          <intron i_serial="2" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="80051" i_stop="80267" i_length="217"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="80268" e_stop="80534" e_length="267"/>
          </exon>
          <intron i_serial="3" don_prob="0.000" acc_prob="0.978">
            <gDNA_intron_boundary i_start="80535" i_stop="80648" i_length="114"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="80649" e_stop="80721" e_length="73"/>
          </exon>
          <intron i_serial="4" don_prob="0.984" acc_prob="1.000">
            <gDNA_intron_boundary i_start="80722" i_stop="81719" i_length="998"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="81720" e_stop="81800" e_length="81"/>
          </exon>
          <intron i_serial="5" don_prob="0.843" acc_prob="0.990">
            <gDNA_intron_boundary i_start="81801" i_stop="81886" i_length="86"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="81887" e_stop="81950" e_length="64"/>
          </exon>
          <intron i_serial="6" don_prob="0.998" acc_prob="0.457">
            <gDNA_intron_boundary i_start="81951" i_stop="82510" i_length="560"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="82511" e_stop="82598" e_length="88"/>
          </exon>
          <intron i_serial="7" don_prob="1.000" acc_prob="0.392">
            <gDNA_intron_boundary i_start="82599" i_stop="83002" i_length="404"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="83003" e_stop="83087" e_length="85"/>
          </exon>
          <intron i_serial="8" don_prob="0.770" acc_prob="0.890">
            <gDNA_intron_boundary i_start="83088" i_stop="83312" i_length="225"/>
          </intron>
          <exon e_serial="9" e_score="0.925">
            <gDNA_exon_boundary e_start="83313" e_stop="83726" e_length="414"/>
          </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="79077" stop="79427"/>
              <exon start="80005" stop="80050"/>
              <exon start="80268" stop="80534"/>
              <exon start="80649" stop="80721"/>
              <exon start="81720" stop="81800"/>
              <exon start="81887" stop="81950"/>
              <exon start="82511" stop="82598"/>
              <exon start="83003" stop="83087"/>
              <exon start="83313" stop="83653"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8528" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83061" stop="83087"/>
              <exon start="83313" stop="83726"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8528-2" 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="3" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CTTTCTCCTAATATTCCACCCACTTTCCTTTTCCTTTTTAGGTATATTCTCAACTCTTTTTCACCATTAATGGCGTTTTAGAGCATCACAAACCCCAAAAAAGTAGTGGAATTTGTTGTTGTCATAAAGGAGAATACTACTTATAGCTTTTTAGAAGTAATGGGTAGTGAAAATCAACAGCAATTTGAAGAGAATCTTCTTCATAATCATAATCATCAGGAGCAGCAGCAGCAGCAGAGGAAGAACCGTTCTTTAAGGAGTAAAGCTGCGCACTTTGTATCGGATGTTGCTACTGTTATTCTTAACCCCATATCTGATAAACCCTTAAAGCCCAGACCACCACCTTTGCCT : GAAGATGGATCTGATTCTGACGGAAGTAAGCATGAGTCAAATGCAG : AGCTCTTCACCAAGTTGCTAGACTAGGCGGCTTTAGGAATCAGGGTTCGGCAAAGGGCAGCTCTGATATGGTGTTTGATGATGGAAGTAATTCTAAAGTTTCCGGAGATAATCAAATACCTTTGGAAGATATGAATAAGAAACCTCTTCTGAACAATCTTCCGGGAACTTCTGAGCCTTCAGTTCTCCTCACTGAGAAGGCACGAATTTCTCTTTATGCTGCACTGCCTGTGCTTGTGCAGGACAGGAAGTGGGTCTTGTTATACAG : TACATGGAAGAATGGAATATCACTCTCGACTTTATACAGGAGAAGCCTACTCTGGCCTGGCATCAGTCTGCTG : GTTGTGGGGGACCATAATGGTGCTGTGTTTGGTGGGCTAGTTGATGCACCTTTAAAGCCAACAACAAAGAGAAGATATCAG : GGTACAAACAATTCATTTGTTTTCTCAAATGTATCTGGCCAACCTGTCATATTTCGTCCCACAG : GTGTCAATCGCTATTTTACTGTCTGTTCCACGGAGTATTTAGCTTTGGGAGGCGGTGGCCATTTTGCTCTCTACTTAGACGGGGATCT : GCTAACAGGTTCAAGTGCAACATCAGAAACTTATGGAAATTCTTGTTTGGCACATACTGAAGACTTTGAAGTTAAGGAAGTTGAG : TTATGGGGCTTTGTATATGCTTCCAAGTATGAAGAGATGGTTTCGATTTTGCGAACAGAGACACCTGGAATTTGCCGCTGGTAAACACAGTGTTAAAGATGCTTGCTTTCCAGTCTAAATGATTGTTTCTGTTTGGTGCCCATGGTTGCGGACAGCACCACATGGAATGCAGGATAGGTTTTGTACATATGTTTTCACATGTTCAGCAACAATTTTACACTTGTATAGGTGTGTTTCTTTACATGTACAGTGAACCATTTTGATAAAATTCTCTTTGCTTCGGTAAATGAGAATGAACGTGAGAGCTAAATGAAAATATTCATTAAACTGTTCTCCAGAAACTGATGCTTAACATGCTGTGATGCTGCTAATGATTATTTTTTTTTCGTTGTTGGTGAAATTAAGATTTCAGTA</gDNA_template>
            <first_frame> L  S  P  N  I  P  P  T  F  L  F  L  F  R  Y  I  L  N  S  F  S  P  L  M  A  F  *  S  I  T  N  P  K  K  V  V  E  F  V  V  V  I  K  E  N  T  T  Y  S  F  L  E  V  M  G  S  E  N  Q  Q  Q  F  E  E  N  L  L  H  N  H  N  H  Q  E  Q  Q  Q  Q  Q  R  K  N  R  S  L  R  S  K  A  A  H  F  V  S  D  V  A  T  V  I  L  N  P  I  S  D  K  P  L  K  P  R  P  P  P  L  P  :  E  D  G  S  D  S  D  G  S  K  H  E  S  N  A   : E  L  F  T  K  L  L  D  *  A  A  L  G  I  R  V  R  Q  R  A  A  L  I  W  C  L  M  M  E  V  I  L  K  F  P  E  I  I  K  Y  L  W  K  I  *  I  R  N  L  F  *  T  I  F  R  E  L  L  S  L  Q  F  S  S  L  R  R  H  E  F  L  F  M  L  H  C  L  C  L  C  R  T  G  S  G  S  C  Y  T   : V  H  G  R  M  E  Y  H  S  R  L  Y  T  G  E  A  Y  S  G  L  A  S  V  C  W :   L  W  G  T  I  M  V  L  C  L  V  G  *  L  M  H  L  *  S  Q  Q  Q  R  E  D  I  R :   V  Q  T  I  H  L  F  S  Q  M  Y  L  A  N  L  S  Y  F  V  P  Q  :  V  S  I  A  I  L  L  S  V  P  R  S  I  *  L  W  E  A  V  A  I  L  L  S  T  *  T  G  I   : C  *  Q  V  Q  V  Q  H  Q  K  L  M  E  I  L  V  W  H  I  L  K  T  L  K  L  R  K  L  S :   Y  G  A  L  Y  M  L  P  S  M  K  R  W  F  R  F  C  E  Q  R  H  L  E  F  A  A  G  K  H  S  V  K  D  A  C  F  P  V  *  M  I  V  S  V  W  C  P  W  L  R  T  A  P  H  G  M  Q  D  R  F  C  T  Y  V  F  T  C  S  A  T  I  L  H  L  Y  R  C  V  S  L  H  V  Q  *  T  I  L  I  K  F  S  L  L  R  *  M  R  M  N  V  R  A  K  *  K  Y  S  L  N  C  S  P  E  T  D  A  *  H  A  V  M  L  L  M  I  I  F  F  S  L  L  V  K  L  R  F  Q   </first_frame>
            <second_frame>  F  L  L  I  F  H  P  L  S  F  S  F  L  G  I  F  S  T  L  F  H  H  *  W  R  F  R  A  S  Q  T  P  K  K  *  W  N  L  L  L  S  *  R  R  I  L  L  I  A  F  *  K  *  W  V  V  K  I  N  S  N  L  K  R  I  F  F  I  I  I  I  I  R  S  S  S  S  S  R  G  R  T  V  L  *  G  V  K  L  R  T  L  Y  R  M  L  L  L  L  F  L  T  P  Y  L  I  N  P  *  S  P  D  H  H  L  C  L :   K  M  D  L  I  L  T  E  V  S  M  S  Q  M  Q  :  S  S  S  P  S  C  *  T  R  R  L  *  E  S  G  F  G  K  G  Q  L  *  Y  G  V  *  *  W  K  *  F  *  S  F  R  R  *  S  N  T  F  G  R  Y  E  *  E  T  S  S  E  Q  S  S  G  N  F  *  A  F  S  S  P  H  *  E  G  T  N  F  S  L  C  C  T  A  C  A  C  A  G  Q  E  V  G  L  V  I  Q  :  Y  M  E  E  W  N  I  T  L  D  F  I  Q  E  K  P  T  L  A  W  H  Q  S  A   : G  C  G  G  P  *  W  C  C  V  W  W  A  S  *  C  T  F  K  A  N  N  K  E  K  I  S   : G  Y  K  Q  F  I  C  F  L  K  C  I  W  P  T  C  H  I  S  S  H  R :   C  Q  S  L  F  Y  C  L  F  H  G  V  F  S  F  G  R  R  W  P  F  C  S  L  L  R  R  G  S  :  A  N  R  F  K  C  N  I  R  N  L  W  K  F  L  F  G  T  Y  *  R  L  *  S  *  G  S  *   : V  M  G  L  C  I  C  F  Q  V  *  R  D  G  F  D  F  A  N  R  D  T  W  N  L  P  L  V  N  T  V  L  K  M  L  A  F  Q  S  K  *  L  F  L  F  G  A  H  G  C  G  Q  H  H  M  E  C  R  I  G  F  V  H  M  F  S  H  V  Q  Q  Q  F  Y  T  C  I  G  V  F  L  Y  M  Y  S  E  P  F  *  *  N  S  L  C  F  G  K  *  E  *  T  *  E  L  N  E  N  I  H  *  T  V  L  Q  K  L  M  L  N  M  L  *  C  C  *  *  L  F  F  F  R  C  W  *  N  *  D  F  S  </second_frame>
            <third_frame>   F  S  *  Y  S  T  H  F  P  F  P  F  *  V  Y  S  Q  L  F  F  T  I  N  G  V  L  E  H  H  K  P  Q  K  S  S  G  I  C  C  C  H  K  G  E  Y  Y  L  *  L  F  R  S  N  G  *  *  K  S  T  A  I  *  R  E  S  S  S  *  S  *  S  S  G  A  A  A  A  A  E  E  E  P  F  F  K  E  *  S  C  A  L  C  I  G  C  C  Y  C  Y  S  *  P  H  I  *  *  T  L  K  A  Q  T  T  T  F  A   : *  R  W  I  *  F  *  R  K  *  A  *  V  K  C  R :   A  L  H  Q  V  A  R  L  G  G  F  R  N  Q  G  S  A  K  G  S  S  D  M  V  F  D  D  G  S  N  S  K  V  S  G  D  N  Q  I  P  L  E  D  M  N  K  K  P  L  L  N  N  L  P  G  T  S  E  P  S  V  L  L  T  E  K  A  R  I  S  L  Y  A  A  L  P  V  L  V  Q  D  R  K  W  V  L  L  Y  S :   T  W  K  N  G  I  S  L  S  T  L  Y  R  R  S  L  L  W  P  G  I  S  L  L  :  V  V  G  D  H  N  G  A  V  F  G  G  L  V  D  A  P  L  K  P  T  T  K  R  R  Y  Q  :  G  T  N  N  S  F  V  F  S  N  V  S  G  Q  P  V  I  F  R  P  T   : G  V  N  R  Y  F  T  V  C  S  T  E  Y  L  A  L  G  G  G  G  H  F  A  L  Y  L  D  G  D  L :   L  T  G  S  S  A  T  S  E  T  Y  G  N  S  C  L  A  H  T  E  D  F  E  V  K  E  V  E  :  L  W  G  F  V  Y  A  S  K  Y  E  E  M  V  S  I  L  R  T  E  T  P  G  I  C  R  W  *  T  Q  C  *  R  C  L  L  S  S  L  N  D  C  F  C  L  V  P  M  V  A  D  S  T  T  W  N  A  G  *  V  L  Y  I  C  F  H  M  F  S  N  N  F  T  L  V  *  V  C  F  F  T  C  T  V  N  H  F  D  K  I  L  F  A  S  V  N  E  N  E  R  E  S  *  M  K  I  F  I  K  L  F  S  R  N  *  C  L  T  C  C  D  A  A  N  D  Y  F  F  F  V  V  G  E  I  K  I  S  V </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="C04HBa0077O05.2" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="80040" stop="80050"/>
                    <exon start="80268" stop="80534"/>
                    <exon start="80649" stop="80721"/>
                    <exon start="81720" stop="81800"/>
                    <exon start="81887" stop="81950"/>
                    <exon start="82511" stop="82598"/>
                    <exon start="83003" stop="83087"/>
                    <exon start="83313" stop="83396"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>750</number_coding_nucleotides>
                  <number_encoded_amino_acids>250</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VKCRALHQVARLGGFRNQGSAKGSSDMVFDDGSNSKVSGDNQIPLEDMNKKPLLNNLPGTSEPSVLLTEKARISLYAALPVLVQDRKWVLLYSTWKNGISLSTLYRRSLLWPGISLLVVGDHNGAVFGGLVDAPLKPTTKRRYQGTNNSFVFSNVSGQPVIFRPTGVNRYFTVCSTEYLALGGGGHFALYLDGDLLTGSSATSETYGNSCLAHTEDFEVKEVELWGFVYASKYEEMVSILRTETPGICRW*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 38 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
$ 8328 bytes predicted gene locations in total
$ 3 predicted gene locations have been stored
$ 2776 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 39 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-14 17:46:07
-->
