<?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 17:55:55"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0008K13-09mo9/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0008K13-09mo9/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-C04HBa0008K13-09mo9/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M7063" ref_strand="+" ref_description="SGN-M7063 C2_At1g75810 [cosii_markers]">
      <seq>ctgaaaataaaaagaagataagctcagaacccatagcattatcttacacccccctacccctaccccaaccccaaatcgaaaatttcgtaattctcactccataccataatccctttttaaaaccctttattatcagttcactacctgctgcagactcaaaatttaccaaatttcaacttaattttgatcttagaagaccaataattatggcgatttcggatactgtagtggggaatttaacgacgttgtacctgttagtgatagcggcaatgaaggcgtacggattgatgactggacggagctacggcggagtttttgtactgattgtatcaacagctgttgtaggaagtgtattgattttgagtttgacgtgggatgtgtcacgtaaggttactaggtgtgcttttacacgcgatcgttatcttactcagaatcggaatcagccacgtcatcattccgatgagttgtgtagaggtggtatatgttggcacggcgttgctgttagatctccggcgtcgcagtttcggttccggcttcctcagcaccaccctcgctagcggttaagaaaagtgaaaatcgagtgattttaattcactgtaagtatgtaaattagttttggatcgaatttttctatctgtttttggctttttgacgattggaaagttggggaaaatcagtgtaaaatagtcatcggaattacagtttaggcatgtaaataaaaatatatgtgcaatcagttttttctcgctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0008K13-09mo9/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0008K13.1" temp_strand="+" temp_description="C04HBa0008K13.1  CU457448.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0008K13 sequenced_by:sanger upload_account_name:uk">
        <position start="47835" stop="49196"/>
      </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="48135" g_stop="48905" g_length="771"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="759" r_length="759" r_score="0.925"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0008K13.1" gen_strand="+" ref_id="SGN-M7063" ref_strand="+">
        <total_alignment_score>0.925</total_alignment_score>
        <cumulative_length_of_scored_exons>771</cumulative_length_of_scored_exons>
        <coverage percentage="1.016" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0008K13.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M7063" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48135" e_stop="48905"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGAAAATAAAAAGAAGATAAGCTCAGAACCCATAGCATTATCTTACACCCCCCCCCACCCACCACCCCCTACCCCAACCCAAAATCCAAAATTTCGTAATTCTCACTCCATACCATAATACCCTTTTAAAACCCTCTAATATCAGTTCACTACCTACTTTAGACTAAAATTTTACCAAAATTTCAACTTGATTTTGATCTTAGAAGACCGATAAAAATGGCGATTTCGGATACTGTAGTGGGGAATTTAACGACGTTGTACCTGTTAGTGATAGCGGCAATGAAGGCGTACGGATTGATGACAGGACGGAGCTACGGCGGAGTTTTTGTGCTGATTGTGTCAACAGCTGTTGTAGGTACTGTGTTGATTTTGAGTTTGACGTGGGATGTGTCACGTAAGGTTACTAGGTGTGCTTTGACACGCGATCGTCATCTTACTCTGAATCGGAATCAGCCACGTCATCATTCCGATGAGTTGTGTAGAGGTGGTATATGTTGGCACGGCGTTGCTGTTAGATCTCCGGCGTCGCAGTTTCGGTTCCGGCTTCCTCAGCACCACCCTCGCTAGCGGTAAAGATAAGTGAAAATCGAGTGATTTTAACTCACTGTAAGTATGTAAATT-GTTTTGGATCGAATTTTTCTATCTGTTTTTTTGGCTTTATGACGATCGAAAATTTGGGGAAAATCAGTGTAAAATAGTCATCGGAATCGCAGTTTAGGCATGTAAATAAAAATATATGTGCAATCGGTTTTTTCTCGCTACGAGCTTTG</genome_strand>
        <mrna_strand>CTGAAAATAAAAAGAAGATAAGCTCAGAACCCATAGCATTATCTTACA-------CC-CCC-CTA-CCCCTACCCCAACCCCAAATCGAAAATTTCGTAATTCTCACTCCATACCATAATCCCTTTTTAAAACCCTTTATTATCAGTTCACTACCTGCTGCAGACTCAAAATTTACC-AAATTTCAACTTAATTTTGATCTTAGAAGACCAATAATTATGGCGATTTCGGATACTGTAGTGGGGAATTTAACGACGTTGTACCTGTTAGTGATAGCGGCAATGAAGGCGTACGGATTGATGACTGGACGGAGCTACGGCGGAGTTTTTGTACTGATTGTATCAACAGCTGTTGTAGGAAGTGTATTGATTTTGAGTTTGACGTGGGATGTGTCACGTAAGGTTACTAGGTGTGCTTTTACACGCGATCGTTATCTTACTCAGAATCGGAATCAGCCACGTCATCATTCCGATGAGTTGTGTAGAGGTGGTATATGTTGGCACGGCGTTGCTGTTAGATCTCCGGCGTCGCAGTTTCGGTTCCGGCTTCCTCAGCACCACCCTCGCTAGCGGTTAAGAAAAGTGAAAATCGAGTGATTTTAATTCACTGTAAGTATGTAAATTAGTTTTGGATCGAATTTTTCTATCTG--TTTTTGGCTTTTTGACGATTGGAAAGTTGGGGAAAATCAGTGTAAAATAGTCATCGGAATTACAGTTTAGGCATGTAAATAAAAATATATGTGCAATCAGTTTTTTCTCGCTAAAAAAAAAA</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-C04HBa0008K13-09mo9/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M1555" ref_strand="+" ref_description="SGN-M1555 T0708 [cos_markers]">
      <seq>tccaatttgtacattaaatatctaagaacaaactaagccatgggtggaggcaatggacagaaggcaaagatggctcgtgagaagaatatggaaaagatgaaaggccaaaagggaagccagcttgaggctaacaagaaggctatgaatatccagtgcaaggtgtgcatgcagacattcatttgcaccacttctgaagtcaagtgcagagaacatgctgaggcgaagcatcccaaatctgatgtctatgcatgtttccctcatctcaagaaatgattcacatttcacagtctgggctgatggttgtttcccaactatgtttcgggattctgttaaccatgataaagtttgaatctgttcaaaagttgttgctccgttctgcttcaaactgttgatggcacttagtttggaactgtgtgaaatatatgtctataataactgcctccttttggatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0008K13-09mo9/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0008K13.1" temp_strand="-" temp_description="C04HBa0008K13.1  CU457448.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0008K13 sequenced_by:sanger upload_account_name:uk">
        <position start="54361" stop="50741"/>
      </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="54061" g_stop="53950" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="112" r_length="112" r_score="0.973"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="53949" i_stop="53865" i_length="85">
            <donor d_prob="0.958" d_score="1.00"/>
            <acceptor a_prob="0.986" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="53864" g_stop="53824" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="113" r_stop="153" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="53823" i_stop="51340" i_length="2484">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="51339" g_stop="51041" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="154" r_stop="452" r_length="299" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0008K13.1" gen_strand="-" ref_id="SGN-M1555" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0008K13.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M1555" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54061" e_stop="53950"/>
          <exon e_start="53864" e_stop="53824"/>
          <exon e_start="51339" e_stop="51041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCAATTTGTACAGGAAATATCGAAGAACAAACTAAGCCATGGGTGGAGGCAATGGACAGAAGGCAAAGATGGCTCGTGAGAAGAATATGGAAAAGATGAAAGGCCAAAAGGGTAGGGATATCTAAGTTTGTTTATAATTTTGGATTTTTTTTTCGAAGAAAGATTGGAGTTTTAGCTAATTATGGTGTATGTACAGGAAGCCAGCTTGAGGCTAACAAGAAGGCTATGAATATCCAGGTTTTTGTTGTTTCCACTTAAATTTATCTTCTTTCTTCATACCCAGTTCCTTTATCTGTAGAATTCTTTTCAACCAGCTGAAAATTTTATAATTTAGGGTTTCAATTGGGTTTTTTTTATTCTATATATTTGTTTGGGGATACACCAAAGGGTTTTAACTAAGTTTTGGAGTTTTTAATTGGATATCTGGAGTTCTTGAAGTTTTTTGTTGTGTAGACTGATAATTTAGTCAGATCTCTGTGTCTACGAGCTAAAGGGGATGATTTTAGGTGCTGCAATTTGTTAATCTCTTGTTACTCTAATCTAATTGATCGGATGATGAAGAATCTGGATTATATAATTTGGAAAATTGATTTTGATATCTCGAACAAATAACAACAATATTATACACAGTTTAATCCTATGAGTGGGGTTTGGGGAGGATAGTGTGTACGCTGCGATACTCCTATCCTTGGAAAGGAAGTGTTCAAGTTCGTGTATAGATTTATTCTCTTAATATCTTGTTAATGAGTCTTTAATAGGATAATTATTTTCTTACAATTCTGACATTAGCTTTTAAAACATAACTGACCATTTGAGTAGTTTTTGTATTCAATTTGTGCAATTGTGACATATTTTTTAATAGCTTTGAATAGTGGTTTTTACATTGTTATGTATTTGGATGTTACAAGCTATTAGATGTGAAGCGTCTGTCCACTCCTTTGCCTAGGTATGCTCCTATGCATTGGCTTGGGAAGTGTGGAAAAAGTGGACGTAATCTTCTCCTTTATAATGTCATATACACGTCAAGATTAAAAAAGGAGAAAATTTTCATACCATTTTCGTGATTATTTTAGCAAGTAGCAAGTCCGAAATTTTCTTTGTTTTTATCAGAACAATATATGTTGAACAACTTGTTAGAAAGAGTACTTCATATAATATTCGGACATACTACCTTGTTTGCATAAATTATTTGATCTAGTTGAGCAGGAGAAAATTCATCGTGTTTTGAATCTCTTAGTATAAAGAGCAGAGAAATTATGTTTCTGCGATGATGTTTCACCTTTGGAACATCAGGGAAGTGTTAGGCAAAGTTATACGCAGGTGAATTAGAAATAGTAGCAGGAGACGTTTGTGCAAACAGGAAGACCACTGGTATTTCAGTAACAGTAGTAGATTGATTGTTTCCATGATCGGGGACAACAGAATAAAAGAAATATCCTTGAGAATATTGTAAAAACAATTGAATTAACAAGGAAATGGGAGGAACATCCTTTTAGCTTGAGATATGTACGGCACACCCTTTAGGATATTTGATCGATGAAGGTGTATCCCTCATGGCTTAACAAACTCTTCTAGTATAATTTATGATCAGAAAAAACAGAGAATAAACAAAAGAATCTCGCACTACAAAAGAAAAGGATCTCGCACTACAAAAAAAATCATTTTTCTAACATGTCTACATGCTATGCTACTGCCTCACAGCTATAAAGAGAAGCTGAAATAGGTGTCATCTGGAATATATTTTCCCCCATTCCAAACACATTAGTGGCAAAGTGAGTTTGTTTTGTTGAAGTTTTGAAAGATACAAAAGCTGAAGTCATGCTTGTTAAAGAGGGATAGATTGAGAAAAGTGAATTAGAGACACATGACGTATGTTTTTTGATTTAGATGTAAGAATAAATTGTGGGCGAGTCAACAATTGTGTACCTGTAAATGCAGAGGAAGATTCGTTGAACTCACCACCAAAAGAATTGCCTGCCTCTATGTCAAACTTTGAATCTCATGGTAACAAAGTTAGAAATTATCACAAACTAAATATCTTTGCTTTGCTGCGTGTTTTCGAAAGAAACTAGAGAAATATCTCTGTTGAAGTAAAATGAGTTGTTCTATTTTTTATATTCATAGAGAAGTTGTATATATTTCTCTTACAGAAAAACCGATCACATCCACCAGTTCTTTTTTTTAGTCATGTGGTGGTTTAGTTTTAGATAACTTAAATCTTTATCTCTGTCAACGGGTTGGGTCGGGTCAGCCCACACAGGAGATCCGATATCCAACAGTACTGTGCCATTTGGTATCTAGTTTTCAAGATTTTCTTCATGGAACTAGAACTTGGGATTTATTGCTCAGAAAATTAATGGTCCTCTGCCCAATCCAAGAACTATAATTCTTGCTGAACTGTTATCTATTTGTCCTGATTGTTGCTAGTTTTCAAATGCAGTGGAATAAGAAATAGGGCGGTAAACGAGGAAAACGGTTTCTAAACAATGTTATGCACTTGTTTTAGTGTGTGCTAATTGTCAAAAATGTAGTGTAATAAGAAACAAGATCATAAACAAGGAAAACAATCTCTAAACAATGTAATTCATCTGTCTAGTTTTTGCTACTTTGTCAGAAAACTAGACAGCAACAAGAAAGAAGCTATGCAAAACTGTTATCTAGTTATTTTGAAACAAAACCTGTTATCCATTTTTCTTAACATTTGCTAATTGTTAAATGCAGTGCAAGGTGTGCATGCAGACATTCATTTGCACCACTTCTGAAGTCAAGTGCAGAGAACATGCTGAGGCGAAGCATCCCAAATCTGATGTCTATGCATGTTTCCCTCATCTCAAGAAATGATTCACATTTCAGAGTCTGGGCTGATGGTTGTTTCCCAACTATGTTTCTAAATTCTGTTAACCATGATAAAGTTTGAATCTGTTCAAAAGTTGTTGCTCCGTTCTGCTTCAAACTGTTGATGGCACTTAGTTTGGAACTGTGTGAAATATATGTCTATAATAACTGCCTCCTTTTGGATT</genome_strand>
        <mrna_strand>TCCAATTTGTACATTAAATATCTAAGAACAAACTAAGCCATGGGTGGAGGCAATGGACAGAAGGCAAAGATGGCTCGTGAGAAGAATATGGAAAAGATGAAAGGCCAAAAGG.....................................................................................GAAGCCAGCTTGAGGCTAACAAGAAGGCTATGAATATCCAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCAAGGTGTGCATGCAGACATTCATTTGCACCACTTCTGAAGTCAAGTGCAGAGAACATGCTGAGGCGAAGCATCCCAAATCTGATGTCTATGCATGTTTCCCTCATCTCAAGAAATGATTCACATTTCACAGTCTGGGCTGATGGTTGTTTCCCAACTATGTTTCGGGATTCTGTTAACCATGATAAAGTTTGAATCTGTTCAAAAGTTGTTGCTCCGTTCTGCTTCAAACTGTTGATGGCACTTAGTTTGGAACTGTGTGAAATATATGTCTATAATAACTGCCTCCTTTTGGATT</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-C04HBa0008K13-09mo9/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M9214" ref_strand="+" ref_description="SGN-M9214 C2_At5g65860 [cosii_markers]">
      <seq>cgaggtcgtaaaggctctccttgatgctagtgccccatggaatgccctgaccccttccaatgtctccgccggcgacttcgccatggatgctggtcatcaagaggcttttgacgttcttctcaataccgcaatccaggcagaattgatccttggaacaattgcaaggaaggacaatgctaaggggaactcagatgggaactatttagatgatagagtcacttttagtgaagataaaattatggactctgatagtaaggctattatgatggcttgggagaagccattgatggaagctcatgcgaaagctgtctgctcaaatggtggtcacatactgaacattggatttgggatgggccttgtagatacagccatacaacaatattcacctttatcacacactattattgaagctcatccagaggtctatgatcgtatgatgcgcgcaggttggggtgagaaggagaatgtgaaaatcatatttggtcggtggcaagatgtcatttctaaacttgaaacctatgatggaatattttttgatacttatggggagtattatgaagatatgcgggaatttcatcaacatcttcctagattattgaagccaggtggtatatattcattttttaatggtctatgtggaggtaatcccttctttcatatcgtatactgtcagctagtctctctaaaacttgaaagcttgggatattctacgcagctgataccattaccagtgaaggattgtttaggtgaatctgtgtgggagggtgttaaacaaaagtactggcagttagatacgtattaccttcctgtttgtcagtctatgagcgaatcagaatgatattattggacccctgataatgtggcatcaaatgaaaaagcctcctaggatcttcttcttttcttgttgtgtattcattttgtaacgagtttggtagtattttcacatcttcgattttttgatatttaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0008K13-09mo9/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0008K13.1" temp_strand="-" temp_description="C04HBa0008K13.1  CU457448.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0008K13 sequenced_by:sanger upload_account_name:uk">
        <position start="89777" stop="70090"/>
      </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="89477" g_stop="89350" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="128" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="89349" i_stop="88227" i_length="1123">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="88226" g_stop="87831" g_length="396"/>
          <reference_exon_boundary r_type="cDNA" r_start="129" r_stop="524" r_length="396" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="87830" i_stop="86962" i_length="869">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="86961" g_stop="86522" g_length="440"/>
          <reference_exon_boundary r_type="cDNA" r_start="525" r_stop="964" r_length="440" r_score="0.986"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="86521" i_stop="86402" i_length="120">
            <donor d_prob="0.000" d_score="0.98"/>
            <acceptor a_prob="0.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="86401" g_stop="86373" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="965" r_stop="993" r_length="29" r_score="0.655"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0008K13.1" gen_strand="-" ref_id="SGN-M9214" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>993</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0008K13.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M9214" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="89477" e_stop="89350"/>
          <exon e_start="88226" e_stop="87831"/>
          <exon e_start="86961" e_stop="86522"/>
          <exon e_start="86401" e_stop="86373"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAGGTCGTAAAGGCTCTCCTTGATGCTAGTGCCCCATGGAATGCCCTGACCCCTTCCAATGTCTCCGCCGGCGACTTCGCCATGGATGCTGGTCATCAAGAGGCTTTTGACGTTCTTCTCAATACCGGTGCTTACTTTTAATCCTCGCAATCTCTTCCTTATGTTTTAGAGTTAGCTTTGGCTACTCAATAGTACATTATACGCATCATTTAAATTTTGTGTTGTAAATTTATTCAAATTGTTAATGCGTGACATTACGTAACAACAGAAATCCATACCAAATACTACACTATCCAATATAATAGATTATTATGAAACTATATGTAACAACTATCCAAACAGAATGGAATTCTATAAGACTTGTGTTTGGTTTGAGGTATAAAGAAATATATTAGTAGAGTAACTGCTGTATTACTGACACAAATTCTAGTTTTCTGATAATACATCTGCGAATTAATAATATAACTCTACTTTGCTAATACAATGTCTGACTTTCTATACGAAACTTCACATAAGTAATAACAGCATAACTAGTTTTGAGAAAAATTATGTATTATTCCAGATAGGATGTGGAATAATAATATGTGCATCTGAAGAAGTAGCTGTATAAGATGTACATCACAAAGATACTCTTAATGTAAGAGGACTTGTTTTGATATCACATTTCCGGCATAATAATCCCCATGTTGTCATCCAATGCATGATAATTCATGTACTAATACGGAACGAAACAACCTGTTAGTCTATCTTATTTAGCTGTATAATTCCTCTTGTTTTAAGCATAAGGAAAATCTGATCTCTCTTCATGTTCATATGATGATGTTTTACTCATCACATAATTTTAAGATATTAGTTGACATCTATATAGTTAACTAATGGTTGAAAATTGTTTGATGAAGAATGTTATGAGTGGATGGTGTAAACATATGGAAAATCACAAATGGAAAAGTGTGATATAACTTGGGACAAAACGACTGATTCGTATATTGTGCAGAAAATAATAATTAAGAGCAAATTGTTATGTTTCATTAATTTTTTATTATGTTGTTGTAATTGTTGTTTTTATTGTTCCCAATATGCCTGAGAGCCAACATTATATTAAAATTTGAAATTTTGCAGAGTAAAAAACTAGTATCAGAAAAGGCAACTGAAGCTGTTAATCTTCTTTATTCAGTGTGTAGTTCAACTAAAAGTTTGAGGCTGTTTAGCTTAATATTTCTGATCAAACATGTTTATTATTCAATATGTAGCAATCCAGGCAGAATTGATCCTTGGAACAATTGCAAGGAAGGACAATGCTAAGGGGAACTCAGATGGGAACTATTTAGATGATAGAGTCACTTTTAGTGAAGATAAAATTATGGACTCTGATAGTAAGGCTATTATGATGGCTTGGGAGAAGCCATTGATGGAAGCTCATGCGAAAGCTGTCTGCTCAAATGGTGGTCACATACTGAACATTGGATTTGGGATGGGCCTTGTAGATACAGCCATACAACAATATTCACCTTTATCACACACTATTATTGAAGCTCATCCAGAGGTCTATGATCGTATGATGCGCGCAGGTTGGGGTGAGAAGGAGAATGTGAAAATCATATTTGGTCGGTGGCAAGATGTCATTTCTAAACTTGAAACCTATGATGGTAAACTTCCACTTCTTCCCTTTCTATTTTTAAAAGAAGAAAAACCCCTTTATGCTGGTAATACTTCTGATTTTTAGTGTCTTGTTAGTGCATTGCTTGTTTTGATCATGAGATTCTTCCCTATACATTTTCTTTTCTGGTAAGTTTAGAAAATCACTCTCTCATCATGCCTATGAAGTATGAATGACAATATGAGAATATACTACTTCAAGGTTTCATTGCACTTAGTTTAGCGATGAAAACATGAAAACCTTTCAGGAAAACATATCAGTTTCAAGTAGAATTTCCTCTTTTTCCTCCATTCAAATTACTGCTCAATATCCCAAGTCAATAGTTGGTGCATGATTCTTATTGTCATCAATATGATACATTATTCTGAAGTTTGTACTGGTGGTTGTTAATACATTTTCTTCAAAAAATTTATGCACTATGCACAATTTTTTGTTTTTTTGTATGTTTACAGGCACTGCTGTAACATAAAATTCATTTCTCTCTAAAAACTGTGTAGGAAGTGTTTTTTAATCTTCACAAAGGAGCAATTTTCTTTTGAGCTCCTAGCTATTGATTTCATATGCTGATTCTTGCTGTTCCAATGACATAAATGCCTCACAAAACAACATACAATGCTTTTCATAACTCCGCTTGCTAGCAAAAGCAATAAGACAAATAATAAGAGTCATGAGTGTCAAGTTGGCCTACTTCTGTAACTTGATTAAGCAAAAAATTTCACTTATCCAACATTGTAATAATTGAAGATGTCAGTTAATTATATAAGCTCGGTTCTCTTTTGTTAGATTTAAGTTTAGATTCTATCTGTTGTCTTCTTTTTTCATCTTTATCTCTTAATGTGTATCTACTCTGTTCTGCAGGAATATTTTTTGATACTTATGGGGAGTATTATGAAGATATGCGGGAATTTCATCAACATCTTCCTAGATTATTGAAGCCAGGTGGTATATATTCATTTTTTAATGGTCTATGTGGAGGTAATCCCTTCTTTCATATCGTATACTGTCAGCTAGTCTCTCTAGAACTTGAGAGCTTGGGATATTCTACGCAGCTGATACCATTACCAGTGAAGGATTGTTTAGGTGAATCTGTGTGGGAGGGTGTTAAACAGAAGTACTGGCAGTTAGATACGTATTACCTTCCTGTTTGTCAGTCTATGAGCGAATCAGAATGATATTATTGGACCACTGATAATGTGGCATCAGATGAAAAAGCCTCCTAGGATCTTCTTCTTTTCTTGTTGTGTATTCATTTTGTAACGAGTTTGGTAGTATTTTCACATCTTCGATTTTTAGATATTATTATGCTGGCATGCTGCTTATATTTTTTTTGGAATTGGGATGATTTGTGTGAATCAGTGCATAGATGCTATTACAACACCAACATACCCAGTGTAGTCCCATAAATGCATAAATGCTATTGCCAAGAAAAAAACCCAAAGAAAAGAGA</genome_strand>
        <mrna_strand>CGAGGTCGTAAAGGCTCTCCTTGATGCTAGTGCCCCATGGAATGCCCTGACCCCTTCCAATGTCTCCGCCGGCGACTTCGCCATGGATGCTGGTCATCAAGAGGCTTTTGACGTTCTTCTCAATACCG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAATCCAGGCAGAATTGATCCTTGGAACAATTGCAAGGAAGGACAATGCTAAGGGGAACTCAGATGGGAACTATTTAGATGATAGAGTCACTTTTAGTGAAGATAAAATTATGGACTCTGATAGTAAGGCTATTATGATGGCTTGGGAGAAGCCATTGATGGAAGCTCATGCGAAAGCTGTCTGCTCAAATGGTGGTCACATACTGAACATTGGATTTGGGATGGGCCTTGTAGATACAGCCATACAACAATATTCACCTTTATCACACACTATTATTGAAGCTCATCCAGAGGTCTATGATCGTATGATGCGCGCAGGTTGGGGTGAGAAGGAGAATGTGAAAATCATATTTGGTCGGTGGCAAGATGTCATTTCTAAACTTGAAACCTATGATG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATATTTTTTGATACTTATGGGGAGTATTATGAAGATATGCGGGAATTTCATCAACATCTTCCTAGATTATTGAAGCCAGGTGGTATATATTCATTTTTTAATGGTCTATGTGGAGGTAATCCCTTCTTTCATATCGTATACTGTCAGCTAGTCTCTCTAAAACTTGAAAGCTTGGGATATTCTACGCAGCTGATACCATTACCAGTGAAGGATTGTTTAGGTGAATCTGTGTGGGAGGGTGTTAAACAAAAGTACTGGCAGTTAGATACGTATTACCTTCCTGTTTGTCAGTCTATGAGCGAATCAGAATGATATTATTGGACCCCTGATAATGTGGCATCAAATGAAAAAGCCTCCTAGGATCTTCTTCTTTTCTTGTTGTGTATTCATTTTGTAACGAGTTTGGTAGTATTTTCACATCTTCGATTTTTTGATATT........................................................................................................................TAAAAAAAAAAAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>3</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="48135" PGL_stop="48905"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="48135" e_stop="48905"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="0.925">
            <gDNA_exon_boundary e_start="48135" e_stop="48905" e_length="771"/>
          </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="48135" stop="48905"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M7063" 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>CTGAAAATAAAAAGAAGATAAGCTCAGAACCCATAGCATTATCTTACACCCCCCCCCACCCACCACCCCCTACCCCAACCCAAAATCCAAAATTTCGTAATTCTCACTCCATACCATAATACCCTTTTAAAACCCTCTAATATCAGTTCACTACCTACTTTAGACTAAAATTTTACCAAAATTTCAACTTGATTTTGATCTTAGAAGACCGATAAAAATGGCGATTTCGGATACTGTAGTGGGGAATTTAACGACGTTGTACCTGTTAGTGATAGCGGCAATGAAGGCGTACGGATTGATGACAGGACGGAGCTACGGCGGAGTTTTTGTGCTGATTGTGTCAACAGCTGTTGTAGGTACTGTGTTGATTTTGAGTTTGACGTGGGATGTGTCACGTAAGGTTACTAGGTGTGCTTTGACACGCGATCGTCATCTTACTCTGAATCGGAATCAGCCACGTCATCATTCCGATGAGTTGTGTAGAGGTGGTATATGTTGGCACGGCGTTGCTGTTAGATCTCCGGCGTCGCAGTTTCGGTTCCGGCTTCCTCAGCACCACCCTCGCTAGCGGTAAAGATAAGTGAAAATCGAGTGATTTTAACTCACTGTAAGTATGTAAATTGTTTTGGATCGAATTTTTCTATCTGTTTTTTTGGCTTTATGACGATCGAAAATTTGGGGAAAATCAGTGTAAAATAGTCATCGGAATCGCAGTTTAGGCATGTAAATAAAAATATATGTGCAATCGGTTTTTTCTCGCTACGAGCTTTG</gDNA_template>
            <first_frame> L  K  I  K  R  R  *  A  Q  N  P  *  H  Y  L  T  P  P  P  T  H  H  P  L  P  Q  P  K  I  Q  N  F  V  I  L  T  P  Y  H  N  T  L  L  K  P  S  N  I  S  S  L  P  T  L  D  *  N  F  T  K  I  S  T  *  F  *  S  *  K  T  D  K  N  G  D  F  G  Y  C  S  G  E  F  N  D  V  V  P  V  S  D  S  G  N  E  G  V  R  I  D  D  R  T  E  L  R  R  S  F  C  A  D  C  V  N  S  C  C  R  Y  C  V  D  F  E  F  D  V  G  C  V  T  *  G  Y  *  V  C  F  D  T  R  S  S  S  Y  S  E  S  E  S  A  T  S  S  F  R  *  V  V  *  R  W  Y  M  L  A  R  R  C  C  *  I  S  G  V  A  V  S  V  P  A  S  S  A  P  P  S  L  A  V  K  I  S  E  N  R  V  I  L  T  H  C  K  Y  V  N  C  F  G  S  N  F  S  I  C  F  F  G  F  M  T  I  E  N  L  G  K  I  S  V  K  *  S  S  E  S  Q  F  R  H  V  N  K  N  I  C  A  I  G  F  F  S  L  R  A  L </first_frame>
            <second_frame>  *  K  *  K  E  D  K  L  R  T  H  S  I  I  L  H  P  P  P  P  T  T  P  Y  P  N  P  K  S  K  I  S  *  F  S  L  H  T  I  I  P  F  *  N  P  L  I  S  V  H  Y  L  L  *  T  K  I  L  P  K  F  Q  L  D  F  D  L  R  R  P  I  K  M  A  I  S  D  T  V  V  G  N  L  T  T  L  Y  L  L  V  I  A  A  M  K  A  Y  G  L  M  T  G  R  S  Y  G  G  V  F  V  L  I  V  S  T  A  V  V  G  T  V  L  I  L  S  L  T  W  D  V  S  R  K  V  T  R  C  A  L  T  R  D  R  H  L  T  L  N  R  N  Q  P  R  H  H  S  D  E  L  C  R  G  G  I  C  W  H  G  V  A  V  R  S  P  A  S  Q  F  R  F  R  L  P  Q  H  H  P  R  *  R  *  R  *  V  K  I  E  *  F  *  L  T  V  S  M  *  I  V  L  D  R  I  F  L  S  V  F  L  A  L  *  R  S  K  I  W  G  K  S  V  *  N  S  H  R  N  R  S  L  G  M  *  I  K  I  Y  V  Q  S  V  F  S  R  Y  E  L   </second_frame>
            <third_frame>   E  N  K  K  K  I  S  S  E  P  I  A  L  S  Y  T  P  P  H  P  P  P  P  T  P  T  Q  N  P  K  F  R  N  S  H  S  I  P  *  Y  P  F  K  T  L  *  Y  Q  F  T  T  Y  F  R  L  K  F  Y  Q  N  F  N  L  I  L  I  L  E  D  R  *  K  W  R  F  R  I  L  *  W  G  I  *  R  R  C  T  C  *  *  *  R  Q  *  R  R  T  D  *  *  Q  D  G  A  T  A  E  F  L  C  *  L  C  Q  Q  L  L  *  V  L  C  *  F  *  V  *  R  G  M  C  H  V  R  L  L  G  V  L  *  H  A  I  V  I  L  L  *  I  G  I  S  H  V  I  I  P  M  S  C  V  E  V  V  Y  V  G  T  A  L  L  L  D  L  R  R  R  S  F  G  S  G  F  L  S  T  T  L  A  S  G  K  D  K  *  K  S  S  D  F  N  S  L  *  V  C  K  L  F  W  I  E  F  F  Y  L  F  F  W  L  Y  D  D  R  K  F  G  E  N  Q  C  K  I  V  I  G  I  A  V  *  A  C  K  *  K  Y  M  C  N  R  F  F  L  A  T  S  F  </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="C04HBa0008K13.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="48298" stop="48702"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>402</number_coding_nucleotides>
                  <number_encoded_amino_acids>134</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TKILPKFQLDFDLRRPIKMAISDTVVGNLTTLYLLVIAAMKAYGLMTGRSYGGVFVLIVSTAVVGTVLILSLTWDVSRKVTRCALTRDRHLTLNRNQPRHHSDELCRGGICWHGVAVRSPASQFRFRLPQHHPR*</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="54061" PGL_stop="51041"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="54061" e_stop="53950"/>
            <exon e_start="53864" e_stop="53824"/>
            <exon e_start="51339" e_stop="51041"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.958" acc_prob="0.986" e_score="0.973"/>
          <exon-intron don_prob="0.992" acc_prob="0.989" e_score="1.000"/>
          <exon-only e_score="0.987"/>
        </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="0.973">
            <gDNA_exon_boundary e_start="54061" e_stop="53950" e_length="112"/>
          </exon>
          <intron i_serial="1" don_prob="0.958" acc_prob="0.986">
            <gDNA_intron_boundary i_start="53949" i_stop="53865" i_length="85"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="53864" e_stop="53824" e_length="41"/>
          </exon>
          <intron i_serial="2" don_prob="0.992" acc_prob="0.989">
            <gDNA_intron_boundary i_start="53823" i_stop="51340" i_length="2484"/>
          </intron>
          <exon e_serial="3" e_score="0.987">
            <gDNA_exon_boundary e_start="51339" e_stop="51041" e_length="299"/>
          </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="54061" stop="53950"/>
              <exon start="53864" stop="53824"/>
              <exon start="51339" stop="51041"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M1555" 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>TCCAATTTGTACAGGAAATATCGAAGAACAAACTAAGCCATGGGTGGAGGCAATGGACAGAAGGCAAAGATGGCTCGTGAGAAGAATATGGAAAAGATGAAAGGCCAAAAGG : GAAGCCAGCTTGAGGCTAACAAGAAGGCTATGAATATCCAG : TGCAAGGTGTGCATGCAGACATTCATTTGCACCACTTCTGAAGTCAAGTGCAGAGAACATGCTGAGGCGAAGCATCCCAAATCTGATGTCTATGCATGTTTCCCTCATCTCAAGAAATGATTCACATTTCAGAGTCTGGGCTGATGGTTGTTTCCCAACTATGTTTCTAAATTCTGTTAACCATGATAAAGTTTGAATCTGTTCAAAAGTTGTTGCTCCGTTCTGCTTCAAACTGTTGATGGCACTTAGTTTGGAACTGTGTGAAATATATGTCTATAATAACTGCCTCCTTTTGGATT</gDNA_template>
            <first_frame> S  N  L  Y  R  K  Y  R  R  T  N  *  A  M  G  G  G  N  G  Q  K  A  K  M  A  R  E  K  N  M  E  K  M  K  G  Q  K   : G  S  Q  L  E  A  N  K  K  A  M  N  I  Q  :  C  K  V  C  M  Q  T  F  I  C  T  T  S  E  V  K  C  R  E  H  A  E  A  K  H  P  K  S  D  V  Y  A  C  F  P  H  L  K  K  *  F  T  F  Q  S  L  G  *  W  L  F  P  N  Y  V  S  K  F  C  *  P  *  *  S  L  N  L  F  K  S  C  C  S  V  L  L  Q  T  V  D  G  T  *  F  G  T  V  *  N  I  C  L  *  *  L  P  P  F  G   </first_frame>
            <second_frame>  P  I  C  T  G  N  I  E  E  Q  T  K  P  W  V  E  A  M  D  R  R  Q  R  W  L  V  R  R  I  W  K  R  *  K  A  K  R  :  E  A  S  L  R  L  T  R  R  L  *  I  S  S :   A  R  C  A  C  R  H  S  F  A  P  L  L  K  S  S  A  E  N  M  L  R  R  S  I  P  N  L  M  S  M  H  V  S  L  I  S  R  N  D  S  H  F  R  V  W  A  D  G  C  F  P  T  M  F  L  N  S  V  N  H  D  K  V  *  I  C  S  K  V  V  A  P  F  C  F  K  L  L  M  A  L  S  L  E  L  C  E  I  Y  V  Y  N  N  C  L  L  L  D  </second_frame>
            <third_frame>   Q  F  V  Q  E  I  S  K  N  K  L  S  H  G  W  R  Q  W  T  E  G  K  D  G  S  *  E  E  Y  G  K  D  E  R  P  K  G :   K  P  A  *  G  *  Q  E  G  Y  E  Y  P   : V  Q  G  V  H  A  D  I  H  L  H  H  F  *  S  Q  V  Q  R  T  C  *  G  E  A  S  Q  I  *  C  L  C  M  F  P  S  S  Q  E  M  I  H  I  S  E  S  G  L  M  V  V  S  Q  L  C  F  *  I  L  L  T  M  I  K  F  E  S  V  Q  K  L  L  L  R  S  A  S  N  C  *  W  H  L  V  W  N  C  V  K  Y  M  S  I  I  T  A  S  F  W  I </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0008K13.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="54025" stop="53950"/>
                    <exon start="53864" stop="53824"/>
                    <exon start="51339" stop="51220"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>234</number_coding_nucleotides>
                  <number_encoded_amino_acids>78</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AMGGGNGQKAKMAREKNMEKMKGQKGSQLEANKKAMNIQCKVCMQTFICTTSEVKCREHAEAKHPKSDVYACFPHLKK*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0008K13.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="53831" stop="53824"/>
                    <exon start="51339" stop="51144"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>201</number_coding_nucleotides>
                  <number_encoded_amino_acids>67</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ISSARCACRHSFAPLLKSSAENMLRRSIPNLMSMHVSLISRNDSHFRVWADGCFPTMFLNSVNHDKV*</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="89477" PGL_stop="86373"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="89477" e_stop="89350"/>
            <exon e_start="88226" e_stop="87831"/>
            <exon e_start="86961" e_stop="86522"/>
            <exon e_start="86401" e_stop="86373"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.986"/>
          <exon-only e_score="0.655"/>
        </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="89477" e_stop="89350" e_length="128"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.997">
            <gDNA_intron_boundary i_start="89349" i_stop="88227" i_length="1123"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="88226" e_stop="87831" e_length="396"/>
          </exon>
          <intron i_serial="2" don_prob="0.997" acc_prob="0.996">
            <gDNA_intron_boundary i_start="87830" i_stop="86962" i_length="869"/>
          </intron>
          <exon e_serial="3" e_score="0.986">
            <gDNA_exon_boundary e_start="86961" e_stop="86522" e_length="440"/>
          </exon>
          <intron i_serial="3" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="86521" i_stop="86402" i_length="120"/>
          </intron>
          <exon e_serial="4" e_score="0.655">
            <gDNA_exon_boundary e_start="86401" e_stop="86373" e_length="29"/>
          </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="89477" stop="89350"/>
              <exon start="88226" stop="87831"/>
              <exon start="86961" stop="86522"/>
              <exon start="86401" stop="86373"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M9214" 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>CGAGGTCGTAAAGGCTCTCCTTGATGCTAGTGCCCCATGGAATGCCCTGACCCCTTCCAATGTCTCCGCCGGCGACTTCGCCATGGATGCTGGTCATCAAGAGGCTTTTGACGTTCTTCTCAATACCG : CAATCCAGGCAGAATTGATCCTTGGAACAATTGCAAGGAAGGACAATGCTAAGGGGAACTCAGATGGGAACTATTTAGATGATAGAGTCACTTTTAGTGAAGATAAAATTATGGACTCTGATAGTAAGGCTATTATGATGGCTTGGGAGAAGCCATTGATGGAAGCTCATGCGAAAGCTGTCTGCTCAAATGGTGGTCACATACTGAACATTGGATTTGGGATGGGCCTTGTAGATACAGCCATACAACAATATTCACCTTTATCACACACTATTATTGAAGCTCATCCAGAGGTCTATGATCGTATGATGCGCGCAGGTTGGGGTGAGAAGGAGAATGTGAAAATCATATTTGGTCGGTGGCAAGATGTCATTTCTAAACTTGAAACCTATGATG : GAATATTTTTTGATACTTATGGGGAGTATTATGAAGATATGCGGGAATTTCATCAACATCTTCCTAGATTATTGAAGCCAGGTGGTATATATTCATTTTTTAATGGTCTATGTGGAGGTAATCCCTTCTTTCATATCGTATACTGTCAGCTAGTCTCTCTAGAACTTGAGAGCTTGGGATATTCTACGCAGCTGATACCATTACCAGTGAAGGATTGTTTAGGTGAATCTGTGTGGGAGGGTGTTAAACAGAAGTACTGGCAGTTAGATACGTATTACCTTCCTGTTTGTCAGTCTATGAGCGAATCAGAATGATATTATTGGACCACTGATAATGTGGCATCAGATGAAAAAGCCTCCTAGGATCTTCTTCTTTTCTTGTTGTGTATTCATTTTGTAACGAGTTTGGTAGTATTTTCACATCTTCGATTTTTAGATATT : TGCCAAGAAAAAAACCCAAAGAAAAGAGA</gDNA_template>
            <first_frame> R  G  R  K  G  S  P  *  C  *  C  P  M  E  C  P  D  P  F  Q  C  L  R  R  R  L  R  H  G  C  W  S  S  R  G  F  *  R  S  S  Q  Y  R :   N  P  G  R  I  D  P  W  N  N  C  K  E  G  Q  C  *  G  E  L  R  W  E  L  F  R  *  *  S  H  F  *  *  R  *  N  Y  G  L  *  *  *  G  Y  Y  D  G  L  G  E  A  I  D  G  S  S  C  E  S  C  L  L  K  W  W  S  H  T  E  H  W  I  W  D  G  P  C  R  Y  S  H  T  T  I  F  T  F  I  T  H  Y  Y  *  S  S  S  R  G  L  *  S  Y  D  A  R  R  L  G  *  E  G  E  C  E  N  H  I  W  S  V  A  R  C  H  F  *  T  *  N  L  *  W :   N  I  F  *  Y  L  W  G  V  L  *  R  Y  A  G  I  S  S  T  S  S  *  I  I  E  A  R  W  Y  I  F  I  F  *  W  S  M  W  R  *  S  L  L  S  Y  R  I  L  S  A  S  L  S  R  T  *  E  L  G  I  F  Y  A  A  D  T  I  T  S  E  G  L  F  R  *  I  C  V  G  G  C  *  T  E  V  L  A  V  R  Y  V  L  P  S  C  L  S  V  Y  E  R  I  R  M  I  L  L  D  H  *  *  C  G  I  R  *  K  S  L  L  G  S  S  S  F  L  V  V  Y  S  F  C  N  E  F  G  S  I  F  T  S  S  I  F  R  Y   : L  P  R  K  K  P  K  E  K  R </first_frame>
            <second_frame>  E  V  V  K  A  L  L  D  A  S  A  P  W  N  A  L  T  P  S  N  V  S  A  G  D  F  A  M  D  A  G  H  Q  E  A  F  D  V  L  L  N  T   : A  I  Q  A  E  L  I  L  G  T  I  A  R  K  D  N  A  K  G  N  S  D  G  N  Y  L  D  D  R  V  T  F  S  E  D  K  I  M  D  S  D  S  K  A  I  M  M  A  W  E  K  P  L  M  E  A  H  A  K  A  V  C  S  N  G  G  H  I  L  N  I  G  F  G  M  G  L  V  D  T  A  I  Q  Q  Y  S  P  L  S  H  T  I  I  E  A  H  P  E  V  Y  D  R  M  M  R  A  G  W  G  E  K  E  N  V  K  I  I  F  G  R  W  Q  D  V  I  S  K  L  E  T  Y  D   : G  I  F  F  D  T  Y  G  E  Y  Y  E  D  M  R  E  F  H  Q  H  L  P  R  L  L  K  P  G  G  I  Y  S  F  F  N  G  L  C  G  G  N  P  F  F  H  I  V  Y  C  Q  L  V  S  L  E  L  E  S  L  G  Y  S  T  Q  L  I  P  L  P  V  K  D  C  L  G  E  S  V  W  E  G  V  K  Q  K  Y  W  Q  L  D  T  Y  Y  L  P  V  C  Q  S  M  S  E  S  E  *  Y  Y  W  T  T  D  N  V  A  S  D  E  K  A  S  *  D  L  L  L  F  L  L  C  I  H  F  V  T  S  L  V  V  F  S  H  L  R  F  L  D  I  :  C  Q  E  K  N  P  K  K  R   </second_frame>
            <third_frame>   R  S  *  R  L  S  L  M  L  V  P  H  G  M  P  *  P  L  P  M  S  P  P  A  T  S  P  W  M  L  V  I  K  R  L  L  T  F  F  S  I  P  :  Q  S  R  Q  N  *  S  L  E  Q  L  Q  G  R  T  M  L  R  G  T  Q  M  G  T  I  *  M  I  E  S  L  L  V  K  I  K  L  W  T  L  I  V  R  L  L  *  W  L  G  R  S  H  *  W  K  L  M  R  K  L  S  A  Q  M  V  V  T  Y  *  T  L  D  L  G  W  A  L  *  I  Q  P  Y  N  N  I  H  L  Y  H  T  L  L  L  K  L  I  Q  R  S  M  I  V  *  C  A  Q  V  G  V  R  R  R  M  *  K  S  Y  L  V  G  G  K  M  S  F  L  N  L  K  P  M  M  :  E  Y  F  L  I  L  M  G  S  I  M  K  I  C  G  N  F  I  N  I  F  L  D  Y  *  S  Q  V  V  Y  I  H  F  L  M  V  Y  V  E  V  I  P  S  F  I  S  Y  T  V  S  *  S  L  *  N  L  R  A  W  D  I  L  R  S  *  Y  H  Y  Q  *  R  I  V  *  V  N  L  C  G  R  V  L  N  R  S  T  G  S  *  I  R  I  T  F  L  F  V  S  L  *  A  N  Q  N  D  I  I  G  P  L  I  M  W  H  Q  M  K  K  P  P  R  I  F  F  F  S  C  C  V  F  I  L  *  R  V  W  *  Y  F  H  I  F  D  F  *  I  F :   A  K  K  K  T  Q  R  K  E  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0008K13.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="89476" stop="89350"/>
                    <exon start="88226" stop="87831"/>
                    <exon start="86961" stop="86648"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>834</number_coding_nucleotides>
                  <number_encoded_amino_acids>278</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EVVKALLDASAPWNALTPSNVSAGDFAMDAGHQEAFDVLLNTAIQAELILGTIARKDNAKGNSDGNYLDDRVTFSEDKIMDSDSKAIMMAWEKPLMEAHAKAVCSNGGHILNIGFGMGLVDTAIQQYSPLSHTIIEAHPEVYDRMMRAGWGEKENVKIIFGRWQDVISKLETYDGIFFDTYGEYYEDMREFHQHLPRLLKPGGIYSFFNGLCGGNPFFHIVYCQLVSLELESLGYSTQLIPLPVKDCLGESVWEGVKQKYWQLDTYYLPVCQSMSESE*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 10 chains have been computed
$ 
$ memory statistics:
$ 38856 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 12952 bytes was the average size of a spliced alignment
$ 8040 bytes predicted gene locations in total
$ 3 predicted gene locations have been stored
$ 2680 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 10 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-14 17:56:01
-->
