<?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="2009-01-15 23:39:07"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0243O13-zkb4B/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0243O13-zkb4B/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-C04HBa0243O13-zkb4B/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M271-F" ref_strand="+" ref_description="SGN-M271-F TG516-F [rflp_markers_forward]">
      <seq>tggcaactcacatacaaatgcaaaaggctaggccaggaattggtattttgatctggtcctccaaagttctatattatcagttgcttgatcttgatacatattcatttcctttatcttgtattctaggtggatcaaggtgaaactgttggggagacagatttgtcacaggatgagtccagtatactcgattttcctgtcgatattttatctttggaggcttcatccaaaaagggtctgatttctgcttctgagatggagagaagtaatggcgaagaccttgctttgatgcctttggatgcatttgatggcaaagacatttcttctttggacacttttaaggaaccatatttaatatctgaagaaaaaagagttttttctatagaaaatccgaaggatatgattgcacggtgggagatagataatttggatgtcaaaaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0243O13-zkb4B/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0243O13.1" temp_strand="+" temp_description="C04HBa0243O13.1  CU469409.8 htgs_phase:3 submitted_to_sgn_as:C04HBa0243O13 sequenced_by:sanger upload_account_name:uk">
        <position start="4463" stop="5500"/>
      </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="4763" g_stop="5200" g_length="438"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="438" r_length="438" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0243O13.1" gen_strand="+" ref_id="SGN-M271-F" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>438</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0243O13.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M271-F" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="4763" e_stop="5200"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCAACTCACATACAAATGCAAAAGGCTAGGCCAGGAATTGGTATTTTGATCTGGTCCTCCAAAGTTCTATATTATCAGTTGCTTGATCTTGATACATATTCATTTCCTTTATCTTGTATTCTAGGTGGATCAAGGTGAAACTGTTGGGGAGACAGATTTGTCACAGGATGAGTCCAGTATACTCGATTTTCCTGTCGATATTTTATCTTTGGAGGCTTCATCCAAAAAGGGTCTGATTTCTGCTTCTGAGATGGAGAGAAGTCATGGCGAAGACCTTGCTTTGATGCCTTTGGATGCATTTGATGGCAAAGACATTTCTTCTTTGGACACTTTTAAGGAACCATATTTAATATCTGAAGAAAAAAGAGTTTTTTCTATAGAAAATCCGAAGGATATGATTGCACGGTGGGAGATAGATAATTTGGATGTCAAAACA</genome_strand>
        <mrna_strand>TGGCAACTCACATACAAATGCAAAAGGCTAGGCCAGGAATTGGTATTTTGATCTGGTCCTCCAAAGTTCTATATTATCAGTTGCTTGATCTTGATACATATTCATTTCCTTTATCTTGTATTCTAGGTGGATCAAGGTGAAACTGTTGGGGAGACAGATTTGTCACAGGATGAGTCCAGTATACTCGATTTTCCTGTCGATATTTTATCTTTGGAGGCTTCATCCAAAAAGGGTCTGATTTCTGCTTCTGAGATGGAGAGAAGTAATGGCGAAGACCTTGCTTTGATGCCTTTGGATGCATTTGATGGCAAAGACATTTCTTCTTTGGACACTTTTAAGGAACCATATTTAATATCTGAAGAAAAAAGAGTTTTTTCTATAGAAAATCCGAAGGATATGATTGCACGGTGGGAGATAGATAATTTGGATGTCAAAACA</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-C04HBa0243O13-zkb4B/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M271-R" ref_strand="+" ref_description="SGN-M271-R TG516-R [rflp_markers_reverse]">
      <seq>ggagacagcttgcatgcctgcagtacatgtgaagagacatatgatgatgtaaagttcttgagtgacggtcaagaggcacttcgcaaaactgaatactattttataattggacaagtcaaataatgtagaaaaaagtttgttaatgcattgaagcataaactgtaaagattgcagtttctagatcttaatgtggcattatatcagaaagagatctgtttggttaataaaaattcaaaataaattcttggaactgaaaaaaaagggatccgagtacaaaatatcatagagatatattttctgaaaatcagagaagagattgatggttgagagcttcaatcttcttaaatcagagaaaagattggagattaaagcaggagagtaagtgaaaaattttaacccgcagagtcttaaacccgccgtaccccgcccagtcccattgccatccctacttatgaccaacttcctagcccaagtttacccaactcatcattaccta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0243O13-zkb4B/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0243O13.1" temp_strand="-" temp_description="C04HBa0243O13.1  CU469409.8 htgs_phase:3 submitted_to_sgn_as:C04HBa0243O13 sequenced_by:sanger upload_account_name:uk">
        <position start="6918" stop="5828"/>
      </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="6599" g_stop="6128" g_length="472"/>
          <reference_exon_boundary r_type="cDNA" r_start="24" r_stop="496" r_length="473" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0243O13.1" gen_strand="-" ref_id="SGN-M271-R" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>472</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0243O13.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M271-R" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6599" e_stop="6128"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACATGTGAAGAGACATATGATGATGTAAAGTTCTTGAGTGACGGTCAAGAGGCACTTCGCAAAACTGAATACTATTTTATAATTGGACAAGTCAAATAATGTAGAAAAAAGTTTGTTAATGCATTGAAGCATAAACTGTAAAGATTGCAGTTTCTAGATCTTAATGTGGCATTATATCAGAAAGAGATCTGTTTGGTTAATAAAAATTCAAAATAAATTCTTGGAACTGAAAAAAAAGGGATCCGAGTACAAAATATCATAGAGATATATTTTCTGAAAATCAGAGAAGAGATTGATGGTTGAGAGCTTCAATCTTCTCAAATCAGAGAAAAGATTGGAGATTAAAGCAGGAGAGTAAGTG-AAAATTTTAACCCGCAGAGTCTTAAACCCGCCGTACCCCGCCCAGTCCCATTGCCATCCCTACTTATGACCAACTTCCTAGCCCAAGTTTACCCAACTCATCATTACCTA</genome_strand>
        <mrna_strand>TACATGTGAAGAGACATATGATGATGTAAAGTTCTTGAGTGACGGTCAAGAGGCACTTCGCAAAACTGAATACTATTTTATAATTGGACAAGTCAAATAATGTAGAAAAAAGTTTGTTAATGCATTGAAGCATAAACTGTAAAGATTGCAGTTTCTAGATCTTAATGTGGCATTATATCAGAAAGAGATCTGTTTGGTTAATAAAAATTCAAAATAAATTCTTGGAACTGAAAAAAAAGGGATCCGAGTACAAAATATCATAGAGATATATTTTCTGAAAATCAGAGAAGAGATTGATGGTTGAGAGCTTCAATCTTCTTAAATCAGAGAAAAGATTGGAGATTAAAGCAGGAGAGTAAGTGAAAAATTTTAACCCGCAGAGTCTTAAACCCGCCGTACCCCGCCCAGTCCCATTGCCATCCCTACTTATGACCAACTTCCTAGCCCAAGTTTACCCAACTCATCATTACCTA</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-C04HBa0243O13-zkb4B/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8520" ref_strand="+" ref_description="SGN-M8520 C2_At4g39450 [cosii_markers]">
      <seq>tctcgatgcatttgccatggtttatagccgctttgatatgaaaaatgagactgcttctcttttggagtcacgagcacaccaatcttgtaaggagtggtccctccattctgacaaggatcagaccgatgagctcttggcttccatggggtacttcattgaagctgctgaagtttactcctccattgatgctgggagcaaaacacgccaaagttgtgctcaggcattacttctctatcttcagattcggatgccagacttgcactttatcaatctatctgaaactaatgcacggagggccttggtcgaacaaacccgtttccaagaagcactaattgttgctgaagcttatggtcttaaccagccaggtgaatgggctctagtactttggaatcaaatgctaagaccagagctcatcgaacggtttatggctgagtttgtttgtgtgctcccccttcaaccctcaatgcttcttgaacttgctagattttacagggctgaagtggctgcaaggcgggatcagtcaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0243O13-zkb4B/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0243O13.1" temp_strand="+" temp_description="C04HBa0243O13.1  CU469409.8 htgs_phase:3 submitted_to_sgn_as:C04HBa0243O13 sequenced_by:sanger upload_account_name:uk">
        <position start="29013" stop="30290"/>
      </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="29313" g_stop="29331" g_length="19"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="19" r_length="19" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="29332" i_stop="29484" i_length="153">
            <donor d_prob="0.991" d_score="0.00"/>
            <acceptor a_prob="0.772" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="29485" g_stop="29990" g_length="506"/>
          <reference_exon_boundary r_type="cDNA" r_start="20" r_stop="525" r_length="506" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0243O13.1" gen_strand="+" ref_id="SGN-M8520" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>525</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0243O13.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M8520" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29313" e_stop="29331"/>
          <exon e_start="29485" e_stop="29990"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCGATGCATTTGCCATGGTTTGTACTTGTGCAATTTCATGTTAATAGATGTTTTATCCTCCCCCTTGATACAATTTGATTTTTCTACCAAAAAATATTATCATTTCCTCAAAGCAGAAAAAATGCACCTTTTTGAGGGTAAATAACATGCACCTCTTTATTTCCCCTTAGGTTTATAGCCGCTTTGATATGAAAAATGAGACTGCTTCTCTTTTGGAGTCACGAGCACACCAATCTTGTAAGGAGTGGTCCCTCCATTCTGACAAGGATCAGACCGATGAGCTCTTGGCTTCCATGGGGTACTTCATTGAAGCTGCTGAAGTTTACTCCTCCATTGATGCTGGGAGCAAAACACGCCAAAGTTGTGCTCAGGCATTACTTCTCTATCTTCAGATTCGGATGCCAGACTTGCACTTTATCAATCTATCTGAAACTAATGCACGGAGGGCCTTGGTCGAACAAACCCGTTTCCAAGAAGCACTAATTGTTGCTGAAGCTTATGGTCTTAACCAGCCAGGTGAATGGGCTCTAGTACTTTGGAATCAAATGCTAAGACCAGAGCTCATCGAACGGTTTATGGCTGAGTTTGTTTGTGTGCTCCCCCTTCAACCCTCAATGCTTCTTGAACTTGCTAGATTTTACAGGGCTGAAGTGGCTGCAAGGGGGGATCAGTCACA</genome_strand>
        <mrna_strand>TCTCGATGCATTTGCCATG.........................................................................................................................................................GTTTATAGCCGCTTTGATATGAAAAATGAGACTGCTTCTCTTTTGGAGTCACGAGCACACCAATCTTGTAAGGAGTGGTCCCTCCATTCTGACAAGGATCAGACCGATGAGCTCTTGGCTTCCATGGGGTACTTCATTGAAGCTGCTGAAGTTTACTCCTCCATTGATGCTGGGAGCAAAACACGCCAAAGTTGTGCTCAGGCATTACTTCTCTATCTTCAGATTCGGATGCCAGACTTGCACTTTATCAATCTATCTGAAACTAATGCACGGAGGGCCTTGGTCGAACAAACCCGTTTCCAAGAAGCACTAATTGTTGCTGAAGCTTATGGTCTTAACCAGCCAGGTGAATGGGCTCTAGTACTTTGGAATCAAATGCTAAGACCAGAGCTCATCGAACGGTTTATGGCTGAGTTTGTTTGTGTGCTCCCCCTTCAACCCTCAATGCTTCTTGAACTTGCTAGATTTTACAGGGCTGAAGTGGCTGCAAGGCGGGATCAGTCACA</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-C04HBa0243O13-zkb4B/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8521" ref_strand="+" ref_description="SGN-M8521 C2_At4g39460 [cosii_markers]">
      <seq>ccaactccaacttcccaagaactgaaaagagaattttaaggttcaaaatggggccttttgcattagctttggatacaaagaattcttttgcagcctcctcttctgctacagatgcatctggcagaaaaatggataaccttcagatggtaccaaaaaagttctttgcatcaatcaacaatgaagaagagaaaccatttgattttctacggatactatttgagggtgtgatagcaggagggaccgccggtgttgttgttgaaacagctttatatcccattgatacaataaagacacggctgcaggtagctcgtggtggaggacaaatagccttgaaagggttgtattctgggcttcttggaaatcttgctggagtcctaccggcttctgctatttttgttggtgtatatgaaccggcaaagcagaagctattgaagatgtttcctgaaaatcttagtgctgtggcccatcttactgctggtgctttaggaggcattgctgcttccttcgttcgtgttccaactgaggtcattaagcagcgaatgcaaactaggcaatttgcttcggctcctgatgctgttcgcttaatagtctcaaaagaaggttttaaaggtctttatgcgggatatgggtcatttctacttcgagatttaccatttgacgccatccagttctgtatctatgagcagatgcggataggggtatagctggctgcaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0243O13-zkb4B/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0243O13.1" temp_strand="-" temp_description="C04HBa0243O13.1  CU469409.8 htgs_phase:3 submitted_to_sgn_as:C04HBa0243O13 sequenced_by:sanger upload_account_name:uk">
        <position start="39627" stop="34057"/>
      </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="39322" g_stop="39252" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="111" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39251" i_stop="37787" i_length="1465">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="37786" g_stop="37679" g_length="108"/>
          <reference_exon_boundary r_type="cDNA" r_start="112" r_stop="219" r_length="108" r_score="0.981"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="37678" i_stop="36574" i_length="1105">
            <donor d_prob="0.961" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="36573" g_stop="36491" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="220" r_stop="302" r_length="83" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="36490" i_stop="36106" i_length="385">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.986" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="36105" g_stop="36029" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="303" r_stop="379" r_length="77" r_score="0.987"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="36028" i_stop="35815" i_length="214">
            <donor d_prob="0.984" d_score="0.98"/>
            <acceptor a_prob="0.994" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="35814" g_stop="35724" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="380" r_stop="470" r_length="91" r_score="0.989"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="35723" i_stop="34854" i_length="870">
            <donor d_prob="0.654" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="34853" g_stop="34800" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="471" r_stop="524" r_length="54" r_score="0.944"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="34799" i_stop="34659" i_length="141">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.986" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="34658" g_stop="34563" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="525" r_stop="620" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="34562" i_stop="34434" i_length="129">
            <donor d_prob="0.952" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="34433" g_stop="34344" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="621" r_stop="710" r_length="90" r_score="0.922"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0243O13.1" gen_strand="-" ref_id="SGN-M8521" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>670</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0243O13.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8521" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39322" e_stop="39252"/>
          <exon e_start="37786" e_stop="37679"/>
          <exon e_start="36573" e_stop="36491"/>
          <exon e_start="36105" e_stop="36029"/>
          <exon e_start="35814" e_stop="35724"/>
          <exon e_start="34853" e_stop="34800"/>
          <exon e_start="34658" e_stop="34563"/>
          <exon e_start="34433" e_stop="34344"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCAAAATGGGGCCTTTTGCATTAGCTTTGGATACAAAGAATTCTTTTGCAACCTCCTCTTCTGCTACAGGTATCTTCACTTTCCATATCTTTTTACTTTTTCTAATTTTTCTTTGGGTTGTTGTATATGGAAGTAATAATTTCAGTGTACTATTGTTTGTAGTTTGGACTAAGATTTTTGGGCATAATTTGTCACATTTTACAGTGTAGAAATGCTAATGTAGGTTTTTTTTTTTGGTGGGTGGGTGGGTGGGAGGGATAACAACAGCTTACCCTGTGGAACTTACTACTACTTTGTGGAGGTGGAGGTAGAGAGGTTGTTTCTGAAAGTCCGTGTGTGGGAGGGATAATGAATTTAAATTAATTGCAGGGTTAATGTATGATATATTTGGTTTAAGTTTTGATTGAAACTAAAGGTAGGTGCAACTATAGTCATATCTGGAAATTGCAAGAGTAACTGATATTAGTGATTCTGCTTGTGCGTGAATATATGGGAGTCTAGGGTTCCACTGGTTCCCTTTGTGGCTAAGAATGAGTAAACGTCCAGTATAATTCCACAAGTGGGGTGTGGGGAGTGTAGAGTGTACGCAGATCTTACTCTTACCTTCTATGGGTAGGGCGGTTGTTTCTGATAGATCCTCGGCTCATGAAGAGGTGAAAAGGAAGCAGTAACAACAACAAGATAATAAGATAAACGAAATGAAAGAAATAAACCTGTAGTACTAGATATTTAATAATATTAGCAAGCATTTTTTGGGTAGTATGGACAGAAAGGAATCAGAGATGTTTTGATGTTATATCAGATCCTAATCATTTCCTTGTGTGGCTAAGAATGATGAATAAGGTAATTATATTTTTAAGGGATACTTGAACATTGGGATCTCAAGATCCAAATTACGTCACTAAACCAACTCAATTACTGGATTCAGTATTTATTGGAGTCAGTGTTTTTATACTAAGATTACTTGATATTTTAATTTGACAGTGTTGTCGTAATGTTTTTACATTAGGTCCACGTACTTTGAGTTACATATCTGATTGCTAATATGTACGGCTAGTGCTACTTGTTGGTTTGAACAGACAAAACTGAAAAGTGATAGTAGTGAAATATTTCTATTAGTTACATTAAGGAAAACTTTTTCCTTCAGAAAATACAATTAGTCAAGCATAACTGTTTAGTGTAATGATCGGTCTAGCTTAATTGCTCAATAGATTGAATGGTGCTCCTTTTAGAAACACAAAAGTTTCTTTATATCAATTCTGAATACTCACAACTTTAATTGTTTAATGAGATTAACTAACTACTCTTAAGCTGATGTCTTGAATACCAATTTGCACACAGCAAGGATGAAATAGAGAGGTAGCATGATGGTTTCATTTGTCACCATTTCCATTATTAAAATGTTCTCGTCTCTTTGGCAAACTATACTAAGAATAAGCTCAAGGTTTCTCGATGAAGGATTAAAGAATAACCACGCATTACCCATATCTTGTAGTTCCCGGTTCGTTCTTGAGGATGTGGTTTGATTTTGCAGATGCATCTGGCAGAAAAATGGATAACCTTCAGATGGTACCAAAAAAGTTCTTTGCATCAATCAACAACGGAGAAGAGAAACCATTTGATTTTCTACGGATACTATTTGGTATGTCTGCTGAAACAATAGTAATTAAATGATGATATTGGAACATTCTTGTCAAGTTGTCATATTTCCTTAGGTTGTTGCTCTCTTTATTTTTCTTTTATTTAACGGATGCTCCCAGCTTGCCCACAGCCAACCTCCACCTCTAACAAAACACGTCCTGAAAGACAGATAAGAAGATCAGTTCTTTCTCTTTACACTCTACAGTTGACAGATAGGAACTCTCTTACGTCAATCTGGTTTCCCAACTTCCCCTTTCATTTTTTATTCTGATTCATTTACAAAAGTACTTCAACATTTGTAGGTAGGAATTGAACAGCCACACCACACAGAAATTTCAAAAAGTCATTTTGACTACTTTTTGTTACAGAGGTGGTATACCGGGGATTCTTCCATCGTTAATAAGATTATTTATTATATCTTAGAAAAAGTTATTGAGTCACTAGTAAAAAATGTTCTCGAGTGTCATAGAGCAATGTAGCCCAGACGGTCAGGGGCTTAAATTTTATTTACCAATTTCTTAGCTGAGATTCCAAGTGATAAACCTGTCAAATGGTAGAATGGTTTTCTCTGGAGCAACTTCGTGCGTAAAAGCTTATGATGGCATCATAATTTCTTTTTGACAGGGTTGTTTAGTAATAAAGGCTCAGTACTAAGCTAATAGTGGGACAGAGTACATCATACAAAACTGGATGGGCATATGATGGCATCATGCTCCCAGGACTTAGTTCAGGTGGCAAAGGTTGAGGGAGTTGACTTAGATCACAGGTTCAAGCCCTTGCCATGCAAACTGAGTATGGTATTTTAGTGGAGAAGGGTAGAGGGGCGGGCCTATTATCCTCTAGTTTGAAGTGTGTGGTTGCTCCTAAGGATTAGATTTTCTTGGTCATAGAAAAGAATAGAAGAAGGTATATGATGCATCATCTTTGTCTAAAAAAAGAAGGTATATGATGCATCATAATTATTTTATGCTAGTTGGGCTACAGAAATTAATAACATAGAGTTCCTCTACTGCTAAAAAGAAAATATTTCAGTAATCAAAACTATCATAGGGCAAGAATCTTTTGTTTTGAGGTTTGGCTTTTCTAATTGTGGTTAATTTGTGCAGAGGGTGTGATAGCAGGAGGGACCGCCGGTGTTGTTGTTGAAACAGCTTTATATCCCATTGATACAATAAAGACACGGCTGCAGGCAAGTTAATTGTTTATTACCGAAGTCTTTATCAATTATATGAGTGATATGACAATGCTTGAGTTGGTTTCTTTAGTAGCTTCACAACAGGCTTTTTATGGATTCTCGAGGCTATTAGCTCCTTATGTTGACAGGCTGGAACAAAGAGATAAGGAAATGGTAGATAGATAATTTAGATGGAGTAGAACTGTATTCATAACGACATTTTATTGCCTAGACCAGTTGACATTCCATTTGCATACCGCTGAGTAGCTACATTCAGGTCCACTGCCATTAAAATAGTTGAATGCAGAGCGCCAGGCCTCTTTCATTTTAATTAGATTATTTTCAGTCTCTTGTTTCCCCCTGAGTATTCGAATCATCAGTTCATTGCTTCCTGGTGCAGGTAGCTCGTGGTGGAGGACAAATAGCCTTGAAGGGGTTGTATTCTGGGCTTCTTGGAAATCTTGCTGGAGTCCTACCGTAAGTTATAGTAACAAAGTACTATTTAATAGCTTAGAACTATGAATATCAGTCTCCATGATACCTGCACTTTTGTCAACCGATGCAATTGAAATTCTCTTTTGCAACCATAACTTGCTTTCATTTACTGAGGTGAACAGTCGTATTTTCTTGTAAGGTTTCTTACCTAAGGGTATTTAATAGCAGTTTCTATTGATCCTGTTCTCTCGTGCAGGGCTTCTGCTATTTTTGTTGGTGTATATGAACCGGCAAAGCAGAAGCTGTTGAAGATGTTTCCTGAAAATCTTAGTGCTGTGGCCCATCTTGTGAGAATTTCTCCTCCCATTGTCATGACTGCATTTTTGATCTTGTTTTTTAGTTTTTTTAAATCAAGCTGGTCTTGTTTTCTAGCTTGTGATGTGACATACGACATACACCAATTCATTAATAGAACTTATGTGAATAAAAATCATATTTAGAACTTTCTAGTGGGTGTTTGATGGAATATACTGTTTTCATAGTCATTATTCCCCACGAAAAAAGAAAAAGGTACCACATGAAGCAGAATTTGAGGACTAAAAGGAATACAACTGTCAGTGTACTAGACGATATGATACATCATGAAACTCAGGTAATTAGCTAGTGGAAACGTATCTGCAATGAAATAAGCCAAGAAACATGACATAAATCTTGCAGTATGTCAAGCACACACTAAGAGGGTGTTTGGATTGGCTTAAAAGTTGGTCAAACCTACTTTTAAGTCAGTTTTTGACTTCTGGAAGTGTTTGGCTAATATGAAAATAATTTAAAATAAGTAAAAAATGACTTACAATAAGTTGAGAAGTGTTTGGTAAGGTAAAAAATGACATAAAATAACTTTAAAATGACTTAAAATAAGTCAAAAACCAAAAGTAGGTCTCCCCCTACTTTTTATTTTTTTGACTTAAAAGTCATTTCAGTTTGACTTTTTATTTTTGACTTTAAAGTTACTTTTTTTAAGCCAATCCAAACGGGCTAAACACTGGTTACTGATAACATGAATTCGTATCACCTCATGAATTATAATTTATTGCTGTAAATTATACATGCATTTTACTCTATTCTTCAAGTATGTGACGTCTGAATTCTAAAGCATGCATATTACTCATTCAATTGTGATTTATGTTTCATAATAAGAACTGCCAAATTTAATGCAGACTGCTGGTGCTTTAGGAGGCATTGCAGCTTCCTTTGTCCGTGTTCCAACTGAGGTGAATGATTTTTTTTTTTTTTTTGAGATTTTCAGTTTCCTGAATATCATGATTCTCCTTTTGTTATCATTCTTGATTTTGCCTGTTTAGGATATTCCCTTTGTTAATCTATTGATTGCACTTGGTTTCTTGACACTACAGGTCATTAAGCAGCGAATGCAAACTAGGCAATTTGCTTCGGCTCCTGATGCTGTTCGCTTAATAGTCTCAAAAGAAGGTTTTAAAGGTCTTTATGCGGTATGCTAGTTCTTTAATGTCACATATCTAGTTCATTACTGTTTTCAGGTATTCCTGGTTAGCCGGGTGCAACTTTCACACGATAGATATAACATTGGTTTATTTTATTGTAATATGGGGATTTTGTAGGGATATGGGTCATTTCTACTTCGAGATTTACCATTTGATGCCATCCAGTTCTGTATCTATGAGCAGCTGCGGATAGGTTATAAGCTGGCT</genome_strand>
        <mrna_strand>GTTCAAAATGGGGCCTTTTGCATTAGCTTTGGATACAAAGAATTCTTTTGCAGCCTCCTCTTCTGCTACAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGCATCTGGCAGAAAAATGGATAACCTTCAGATGGTACCAAAAAAGTTCTTTGCATCAATCAACAATGAAGAAGAGAAACCATTTGATTTTCTACGGATACTATTTG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGGGTGTGATAGCAGGAGGGACCGCCGGTGTTGTTGTTGAAACAGCTTTATATCCCATTGATACAATAAAGACACGGCTGCAG.................................................................................................................................................................................................................................................................................................................................................................................................GTAGCTCGTGGTGGAGGACAAATAGCCTTGAAAGGGTTGTATTCTGGGCTTCTTGGAAATCTTGCTGGAGTCCTACC......................................................................................................................................................................................................................GGCTTCTGCTATTTTTGTTGGTGTATATGAACCGGCAAAGCAGAAGCTATTGAAGATGTTTCCTGAAAATCTTAGTGCTGTGGCCCATCTT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTGCTGGTGCTTTAGGAGGCATTGCTGCTTCCTTCGTTCGTGTTCCAACTGAG.............................................................................................................................................GTCATTAAGCAGCGAATGCAAACTAGGCAATTTGCTTCGGCTCCTGATGCTGTTCGCTTAATAGTCTCAAAAGAAGGTTTTAAAGGTCTTTATGCG.................................................................................................................................GGATATGGGTCATTTCTACTTCGAGATTTACCATTTGACGCCATCCAGTTCTGTATCTATGAGCAGATGCGGATAGGGGTATAGCTGGCT</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="4763" PGL_stop="5200"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="4763" e_stop="5200"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="0.998">
            <gDNA_exon_boundary e_start="4763" e_stop="5200" e_length="438"/>
          </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="4763" stop="5200"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M271-F" 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>TGGCAACTCACATACAAATGCAAAAGGCTAGGCCAGGAATTGGTATTTTGATCTGGTCCTCCAAAGTTCTATATTATCAGTTGCTTGATCTTGATACATATTCATTTCCTTTATCTTGTATTCTAGGTGGATCAAGGTGAAACTGTTGGGGAGACAGATTTGTCACAGGATGAGTCCAGTATACTCGATTTTCCTGTCGATATTTTATCTTTGGAGGCTTCATCCAAAAAGGGTCTGATTTCTGCTTCTGAGATGGAGAGAAGTCATGGCGAAGACCTTGCTTTGATGCCTTTGGATGCATTTGATGGCAAAGACATTTCTTCTTTGGACACTTTTAAGGAACCATATTTAATATCTGAAGAAAAAAGAGTTTTTTCTATAGAAAATCCGAAGGATATGATTGCACGGTGGGAGATAGATAATTTGGATGTCAAAACA</gDNA_template>
            <first_frame> W  Q  L  T  Y  K  C  K  R  L  G  Q  E  L  V  F  *  S  G  P  P  K  F  Y  I  I  S  C  L  I  L  I  H  I  H  F  L  Y  L  V  F  *  V  D  Q  G  E  T  V  G  E  T  D  L  S  Q  D  E  S  S  I  L  D  F  P  V  D  I  L  S  L  E  A  S  S  K  K  G  L  I  S  A  S  E  M  E  R  S  H  G  E  D  L  A  L  M  P  L  D  A  F  D  G  K  D  I  S  S  L  D  T  F  K  E  P  Y  L  I  S  E  E  K  R  V  F  S  I  E  N  P  K  D  M  I  A  R  W  E  I  D  N  L  D  V  K  T </first_frame>
            <second_frame>  G  N  S  H  T  N  A  K  G  *  A  R  N  W  Y  F  D  L  V  L  Q  S  S  I  L  S  V  A  *  S  *  Y  I  F  I  S  F  I  L  Y  S  R  W  I  K  V  K  L  L  G  R  Q  I  C  H  R  M  S  P  V  Y  S  I  F  L  S  I  F  Y  L  W  R  L  H  P  K  R  V  *  F  L  L  L  R  W  R  E  V  M  A  K  T  L  L  *  C  L  W  M  H  L  M  A  K  T  F  L  L  W  T  L  L  R  N  H  I  *  Y  L  K  K  K  E  F  F  L  *  K  I  R  R  I  *  L  H  G  G  R  *  I  I  W  M  S  K   </second_frame>
            <third_frame>   A  T  H  I  Q  M  Q  K  A  R  P  G  I  G  I  L  I  W  S  S  K  V  L  Y  Y  Q  L  L  D  L  D  T  Y  S  F  P  L  S  C  I  L  G  G  S  R  *  N  C  W  G  D  R  F  V  T  G  *  V  Q  Y  T  R  F  S  C  R  Y  F  I  F  G  G  F  I  Q  K  G  S  D  F  C  F  *  D  G  E  K  S  W  R  R  P  C  F  D  A  F  G  C  I  *  W  Q  R  H  F  F  F  G  H  F  *  G  T  I  F  N  I  *  R  K  K  S  F  F  Y  R  K  S  E  G  Y  D  C  T  V  G  D  R  *  F  G  C  Q  N  </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="C04HBa0243O13.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="4889" stop="5200"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>312</number_coding_nucleotides>
                  <number_encoded_amino_acids>104</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VDQGETVGETDLSQDESSILDFPVDILSLEASSKKGLISASEMERSHGEDLALMPLDAFDGKDISSLDTFKEPYLISEEKRVFSIENPKDMIARWEIDNLDVKT</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="6599" PGL_stop="6128"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="6599" e_stop="6128"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.994"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.994">
            <gDNA_exon_boundary e_start="6599" e_stop="6128" e_length="472"/>
          </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="6599" stop="6128"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M271-R" 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>TACATGTGAAGAGACATATGATGATGTAAAGTTCTTGAGTGACGGTCAAGAGGCACTTCGCAAAACTGAATACTATTTTATAATTGGACAAGTCAAATAATGTAGAAAAAAGTTTGTTAATGCATTGAAGCATAAACTGTAAAGATTGCAGTTTCTAGATCTTAATGTGGCATTATATCAGAAAGAGATCTGTTTGGTTAATAAAAATTCAAAATAAATTCTTGGAACTGAAAAAAAAGGGATCCGAGTACAAAATATCATAGAGATATATTTTCTGAAAATCAGAGAAGAGATTGATGGTTGAGAGCTTCAATCTTCTCAAATCAGAGAAAAGATTGGAGATTAAAGCAGGAGAGTAAGTGAAAATTTTAACCCGCAGAGTCTTAAACCCGCCGTACCCCGCCCAGTCCCATTGCCATCCCTACTTATGACCAACTTCCTAGCCCAAGTTTACCCAACTCATCATTACCTA</gDNA_template>
            <first_frame> Y  M  *  R  D  I  *  *  C  K  V  L  E  *  R  S  R  G  T  S  Q  N  *  I  L  F  Y  N  W  T  S  Q  I  M  *  K  K  V  C  *  C  I  E  A  *  T  V  K  I  A  V  S  R  S  *  C  G  I  I  S  E  R  D  L  F  G  *  *  K  F  K  I  N  S  W  N  *  K  K  R  D  P  S  T  K  Y  H  R  D  I  F  S  E  N  Q  R  R  D  *  W  L  R  A  S  I  F  S  N  Q  R  K  D  W  R  L  K  Q  E  S  K  *  K  F  *  P  A  E  S  *  T  R  R  T  P  P  S  P  I  A  I  P  T  Y  D  Q  L  P  S  P  S  L  P  N  S  S  L  P  </first_frame>
            <second_frame>  T  C  E  E  T  Y  D  D  V  K  F  L  S  D  G  Q  E  A  L  R  K  T  E  Y  Y  F  I  I  G  Q  V  K  *  C  R  K  K  F  V  N  A  L  K  H  K  L  *  R  L  Q  F  L  D  L  N  V  A  L  Y  Q  K  E  I  C  L  V  N  K  N  S  K  *  I  L  G  T  E  K  K  G  I  R  V  Q  N  I  I  E  I  Y  F  L  K  I  R  E  E  I  D  G  *  E  L  Q  S  S  Q  I  R  E  K  I  G  D  *  S  R  R  V  S  E  N  F  N  P  Q  S  L  K  P  A  V  P  R  P  V  P  L  P  S  L  L  M  T  N  F  L  A  Q  V  Y  P  T  H  H  Y  L </second_frame>
            <third_frame>   H  V  K  R  H  M  M  M  *  S  S  *  V  T  V  K  R  H  F  A  K  L  N  T  I  L  *  L  D  K  S  N  N  V  E  K  S  L  L  M  H  *  S  I  N  C  K  D  C  S  F  *  I  L  M  W  H  Y  I  R  K  R  S  V  W  L  I  K  I  Q  N  K  F  L  E  L  K  K  K  G  S  E  Y  K  I  S  *  R  Y  I  F  *  K  S  E  K  R  L  M  V  E  S  F  N  L  L  K  S  E  K  R  L  E  I  K  A  G  E  *  V  K  I  L  T  R  R  V  L  N  P  P  Y  P  A  Q  S  H  C  H  P  Y  L  *  P  T  S  *  P  K  F  T  Q  L  I  I  T   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0243O13.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="+" PGL_start="29313" PGL_stop="29990"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="29313" e_stop="29331"/>
            <exon e_start="29485" e_stop="29990"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.991" acc_prob="0.772" 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="29313" e_stop="29331" e_length="19"/>
          </exon>
          <intron i_serial="1" don_prob="0.991" acc_prob="0.772">
            <gDNA_intron_boundary i_start="29332" i_stop="29484" i_length="153"/>
          </intron>
          <exon e_serial="2" e_score="0.998">
            <gDNA_exon_boundary e_start="29485" e_stop="29990" e_length="506"/>
          </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="29313" stop="29331"/>
              <exon start="29485" stop="29990"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8520" 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>TCTCGATGCATTTGCCATG : GTTTATAGCCGCTTTGATATGAAAAATGAGACTGCTTCTCTTTTGGAGTCACGAGCACACCAATCTTGTAAGGAGTGGTCCCTCCATTCTGACAAGGATCAGACCGATGAGCTCTTGGCTTCCATGGGGTACTTCATTGAAGCTGCTGAAGTTTACTCCTCCATTGATGCTGGGAGCAAAACACGCCAAAGTTGTGCTCAGGCATTACTTCTCTATCTTCAGATTCGGATGCCAGACTTGCACTTTATCAATCTATCTGAAACTAATGCACGGAGGGCCTTGGTCGAACAAACCCGTTTCCAAGAAGCACTAATTGTTGCTGAAGCTTATGGTCTTAACCAGCCAGGTGAATGGGCTCTAGTACTTTGGAATCAAATGCTAAGACCAGAGCTCATCGAACGGTTTATGGCTGAGTTTGTTTGTGTGCTCCCCCTTCAACCCTCAATGCTTCTTGAACTTGCTAGATTTTACAGGGCTGAAGTGGCTGCAAGGGGGGATCAGTCACA</gDNA_template>
            <first_frame> S  R  C  I  C  H   : G  L  *  P  L  *  Y  E  K  *  D  C  F  S  F  G  V  T  S  T  P  I  L  *  G  V  V  P  P  F  *  Q  G  S  D  R  *  A  L  G  F  H  G  V  L  H  *  S  C  *  S  L  L  L  H  *  C  W  E  Q  N  T  P  K  L  C  S  G  I  T  S  L  S  S  D  S  D  A  R  L  A  L  Y  Q  S  I  *  N  *  C  T  E  G  L  G  R  T  N  P  F  P  R  S  T  N  C  C  *  S  L  W  S  *  P  A  R  *  M  G  S  S  T  L  E  S  N  A  K  T  R  A  H  R  T  V  Y  G  *  V  C  L  C  A  P  P  S  T  L  N  A  S  *  T  C  *  I  L  Q  G  *  S  G  C  K  G  G  S  V  T </first_frame>
            <second_frame>  L  D  A  F  A  M  :  V  Y  S  R  F  D  M  K  N  E  T  A  S  L  L  E  S  R  A  H  Q  S  C  K  E  W  S  L  H  S  D  K  D  Q  T  D  E  L  L  A  S  M  G  Y  F  I  E  A  A  E  V  Y  S  S  I  D  A  G  S  K  T  R  Q  S  C  A  Q  A  L  L  L  Y  L  Q  I  R  M  P  D  L  H  F  I  N  L  S  E  T  N  A  R  R  A  L  V  E  Q  T  R  F  Q  E  A  L  I  V  A  E  A  Y  G  L  N  Q  P  G  E  W  A  L  V  L  W  N  Q  M  L  R  P  E  L  I  E  R  F  M  A  E  F  V  C  V  L  P  L  Q  P  S  M  L  L  E  L  A  R  F  Y  R  A  E  V  A  A  R  G  D  Q  S   </second_frame>
            <third_frame>   S  M  H  L  P  W :   F  I  A  A  L  I  *  K  M  R  L  L  L  F  W  S  H  E  H  T  N  L  V  R  S  G  P  S  I  L  T  R  I  R  P  M  S  S  W  L  P  W  G  T  S  L  K  L  L  K  F  T  P  P  L  M  L  G  A  K  H  A  K  V  V  L  R  H  Y  F  S  I  F  R  F  G  C  Q  T  C  T  L  S  I  Y  L  K  L  M  H  G  G  P  W  S  N  K  P  V  S  K  K  H  *  L  L  L  K  L  M  V  L  T  S  Q  V  N  G  L  *  Y  F  G  I  K  C  *  D  Q  S  S  S  N  G  L  W  L  S  L  F  V  C  S  P  F  N  P  Q  C  F  L  N  L  L  D  F  T  G  L  K  W  L  Q  G  G  I  S  H  </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="C04HBa0243O13.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="29314" stop="29331"/>
                    <exon start="29485" stop="29988"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>522</number_coding_nucleotides>
                  <number_encoded_amino_acids>174</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LDAFAMVYSRFDMKNETASLLESRAHQSCKEWSLHSDKDQTDELLASMGYFIEAAEVYSSIDAGSKTRQSCAQALLLYLQIRMPDLHFINLSETNARRALVEQTRFQEALIVAEAYGLNQPGEWALVLWNQMLRPELIERFMAEFVCVLPLQPSMLLELARFYRAEVAARGDQS</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="39322" PGL_stop="34344"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="39322" e_stop="39252"/>
            <exon e_start="37786" e_stop="37679"/>
            <exon e_start="36573" e_stop="36491"/>
            <exon e_start="36105" e_stop="36029"/>
            <exon e_start="35814" e_stop="35724"/>
            <exon e_start="34853" e_stop="34800"/>
            <exon e_start="34658" e_stop="34563"/>
            <exon e_start="34433" e_stop="34344"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.995" e_score="0.986"/>
          <exon-intron don_prob="0.961" acc_prob="1.000" e_score="0.981"/>
          <exon-intron don_prob="1.000" acc_prob="0.986" e_score="1.000"/>
          <exon-intron don_prob="0.984" acc_prob="0.994" e_score="0.987"/>
          <exon-intron don_prob="0.654" acc_prob="0.996" e_score="0.989"/>
          <exon-intron don_prob="0.999" acc_prob="0.986" e_score="0.944"/>
          <exon-intron don_prob="0.952" acc_prob="0.982" e_score="1.000"/>
          <exon-only e_score="0.922"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.986">
            <gDNA_exon_boundary e_start="39322" e_stop="39252" e_length="71"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.995">
            <gDNA_intron_boundary i_start="39251" i_stop="37787" i_length="1465"/>
          </intron>
          <exon e_serial="2" e_score="0.981">
            <gDNA_exon_boundary e_start="37786" e_stop="37679" e_length="108"/>
          </exon>
          <intron i_serial="2" don_prob="0.961" acc_prob="1.000">
            <gDNA_intron_boundary i_start="37678" i_stop="36574" i_length="1105"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="36573" e_stop="36491" e_length="83"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.986">
            <gDNA_intron_boundary i_start="36490" i_stop="36106" i_length="385"/>
          </intron>
          <exon e_serial="4" e_score="0.987">
            <gDNA_exon_boundary e_start="36105" e_stop="36029" e_length="77"/>
          </exon>
          <intron i_serial="4" don_prob="0.984" acc_prob="0.994">
            <gDNA_intron_boundary i_start="36028" i_stop="35815" i_length="214"/>
          </intron>
          <exon e_serial="5" e_score="0.989">
            <gDNA_exon_boundary e_start="35814" e_stop="35724" e_length="91"/>
          </exon>
          <intron i_serial="5" don_prob="0.654" acc_prob="0.996">
            <gDNA_intron_boundary i_start="35723" i_stop="34854" i_length="870"/>
          </intron>
          <exon e_serial="6" e_score="0.944">
            <gDNA_exon_boundary e_start="34853" e_stop="34800" e_length="54"/>
          </exon>
          <intron i_serial="6" don_prob="0.999" acc_prob="0.986">
            <gDNA_intron_boundary i_start="34799" i_stop="34659" i_length="141"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="34658" e_stop="34563" e_length="96"/>
          </exon>
          <intron i_serial="7" don_prob="0.952" acc_prob="0.982">
            <gDNA_intron_boundary i_start="34562" i_stop="34434" i_length="129"/>
          </intron>
          <exon e_serial="8" e_score="0.922">
            <gDNA_exon_boundary e_start="34433" e_stop="34344" e_length="90"/>
          </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="39322" stop="39252"/>
              <exon start="37786" stop="37679"/>
              <exon start="36573" stop="36491"/>
              <exon start="36105" stop="36029"/>
              <exon start="35814" stop="35724"/>
              <exon start="34853" stop="34800"/>
              <exon start="34658" stop="34563"/>
              <exon start="34433" stop="34344"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8521" 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="4" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GTTCAAAATGGGGCCTTTTGCATTAGCTTTGGATACAAAGAATTCTTTTGCAACCTCCTCTTCTGCTACAG : ATGCATCTGGCAGAAAAATGGATAACCTTCAGATGGTACCAAAAAAGTTCTTTGCATCAATCAACAACGGAGAAGAGAAACCATTTGATTTTCTACGGATACTATTTG : AGGGTGTGATAGCAGGAGGGACCGCCGGTGTTGTTGTTGAAACAGCTTTATATCCCATTGATACAATAAAGACACGGCTGCAG : GTAGCTCGTGGTGGAGGACAAATAGCCTTGAAGGGGTTGTATTCTGGGCTTCTTGGAAATCTTGCTGGAGTCCTACC : GGCTTCTGCTATTTTTGTTGGTGTATATGAACCGGCAAAGCAGAAGCTGTTGAAGATGTTTCCTGAAAATCTTAGTGCTGTGGCCCATCTT : ACTGCTGGTGCTTTAGGAGGCATTGCAGCTTCCTTTGTCCGTGTTCCAACTGAG : GTCATTAAGCAGCGAATGCAAACTAGGCAATTTGCTTCGGCTCCTGATGCTGTTCGCTTAATAGTCTCAAAAGAAGGTTTTAAAGGTCTTTATGCG : GGATATGGGTCATTTCTACTTCGAGATTTACCATTTGATGCCATCCAGTTCTGTATCTATGAGCAGCTGCGGATAGGTTATAAGCTGGCT</gDNA_template>
            <first_frame> V  Q  N  G  A  F  C  I  S  F  G  Y  K  E  F  F  C  N  L  L  F  C  Y  R :   C  I  W  Q  K  N  G  *  P  S  D  G  T  K  K  V  L  C  I  N  Q  Q  R  R  R  E  T  I  *  F  S  T  D  T  I  * :   G  C  D  S  R  R  D  R  R  C  C  C  *  N  S  F  I  S  H  *  Y  N  K  D  T  A  A   : G  S  S  W  W  R  T  N  S  L  E  G  V  V  F  W  A  S  W  K  S  C  W  S  P  T  :  G  F  C  Y  F  C  W  C  I  *  T  G  K  A  E  A  V  E  D  V  S  *  K  S  *  C  C  G  P  S   : Y  C  W  C  F  R  R  H  C  S  F  L  C  P  C  S  N  *   : G  H  *  A  A  N  A  N  *  A  I  C  F  G  S  *  C  C  S  L  N  S  L  K  R  R  F  *  R  S  L  C   : G  I  W  V  I  S  T  S  R  F  T  I  *  C  H  P  V  L  Y  L  *  A  A  A  D  R  L  *  A  G  </first_frame>
            <second_frame>  F  K  M  G  P  F  A  L  A  L  D  T  K  N  S  F  A  T  S  S  S  A  T   : D  A  S  G  R  K  M  D  N  L  Q  M  V  P  K  K  F  F  A  S  I  N  N  G  E  E  K  P  F  D  F  L  R  I  L  F   : E  G  V  I  A  G  G  T  A  G  V  V  V  E  T  A  L  Y  P  I  D  T  I  K  T  R  L  Q  :  V  A  R  G  G  G  Q  I  A  L  K  G  L  Y  S  G  L  L  G  N  L  A  G  V  L  P :   A  S  A  I  F  V  G  V  Y  E  P  A  K  Q  K  L  L  K  M  F  P  E  N  L  S  A  V  A  H  L  :  T  A  G  A  L  G  G  I  A  A  S  F  V  R  V  P  T  E  :  V  I  K  Q  R  M  Q  T  R  Q  F  A  S  A  P  D  A  V  R  L  I  V  S  K  E  G  F  K  G  L  Y  A  :  G  Y  G  S  F  L  L  R  D  L  P  F  D  A  I  Q  F  C  I  Y  E  Q  L  R  I  G  Y  K  L  A </second_frame>
            <third_frame>   S  K  W  G  L  L  H  *  L  W  I  Q  R  I  L  L  Q  P  P  L  L  L  Q  :  M  H  L  A  E  K  W  I  T  F  R  W  Y  Q  K  S  S  L  H  Q  S  T  T  E  K  R  N  H  L  I  F  Y  G  Y  Y  L  :  R  V  *  *  Q  E  G  P  P  V  L  L  L  K  Q  L  Y  I  P  L  I  Q  *  R  H  G  C  R :   *  L  V  V  E  D  K  *  P  *  R  G  C  I  L  G  F  L  E  I  L  L  E  S  Y   : R  L  L  L  F  L  L  V  Y  M  N  R  Q  S  R  S  C  *  R  C  F  L  K  I  L  V  L  W  P  I  L :   L  L  V  L  *  E  A  L  Q  L  P  L  S  V  F  Q  L  R :   S  L  S  S  E  C  K  L  G  N  L  L  R  L  L  M  L  F  A  *  *  S  Q  K  K  V  L  K  V  F  M  R :   D  M  G  H  F  Y  F  E  I  Y  H  L  M  P  S  S  S  V  S  M  S  S  C  G  *  V  I  S  W   </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="C04HBa0243O13.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="39321" stop="39252"/>
                    <exon start="37786" stop="37679"/>
                    <exon start="36573" stop="36491"/>
                    <exon start="36105" stop="36029"/>
                    <exon start="35814" stop="35724"/>
                    <exon start="34853" stop="34800"/>
                    <exon start="34658" stop="34563"/>
                    <exon start="34433" stop="34344"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>669</number_coding_nucleotides>
                  <number_encoded_amino_acids>223</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FKMGPFALALDTKNSFATSSSATDASGRKMDNLQMVPKKFFASINNGEEKPFDFLRILFEGVIAGGTAGVVVETALYPIDTIKTRLQVARGGGQIALKGLYSGLLGNLAGVLPASAIFVGVYEPAKQKLLKMFPENLSAVAHLTAGALGGIAASFVRVPTEVIKQRMQTRQFASAPDAVRLIVSKEGFKGLYAGYGSFLLRDLPFDAIQFCIYEQLRIGYKLA</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 20 chains have been computed
$ 
$ memory statistics:
$ 7104 bytes spliced alignments in total
$ 4 spliced alignments have been stored
$ 1776 bytes was the average size of a spliced alignment
$ 9312 bytes predicted gene locations in total
$ 4 predicted gene locations have been stored
$ 2328 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 20 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-15 23:39:17
-->
