<?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 23:52:53"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04SLm0129D14-J8ZjL/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04SLm0129D14-J8ZjL/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-C04SLm0129D14-J8ZjL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M6900" ref_strand="+" ref_description="SGN-M6900 C2_At1g58230 [cosii_markers]">
      <seq>tgaagcccctttccatattttgtgtggtcatgatgacgttattacatgcttgtatgcaagtattgagcttgatatagttataagtggatcaaaagatggaacttgtgttttccatacgctacgggatgggagatacgttagatccctacaacatccatctggcagtccactgtcaaagcttgttgcatcacgtcatggaaggattgttctttattctgatgatgatcttagtttgcacctctactctataaatggcaaacacatttcatcttctgaatccaatggccgcctaaactgtcttgaactcagtagctgcggagagttcttggtttgtgctggagatcaagggctaatcatcgtacgctctatgaactcacttgagattgtggggaagtacaatggtattgggaaaatagtaacttcactaactgtgacaccggaagaatgctttatagctgggactaaggatggaagtcttcttgtttattcaatagaaaaccctcaacttcgtaaaactagcatcccgaggaattcaaaatccaaaacctctatgacatagtgaatttgctgttctgggctgaggtgtaaatttaacaataccatcactggaagtgatgctgaattgagggtgaaatgaagcataattatgtcatcaaaaagtgagatatattatggagtatgagcacctgattggtggttcatttttgaagaggaaaatatggatgtcccttcagtagctattata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0129D14-J8ZjL/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04SLm0129D14.1" temp_strand="-" temp_description="C04SLm0129D14.1  CU041360.9 htgs_phase:3 submitted_to_sgn_as:C04SLm0129D14 sequenced_by:sanger upload_account_name:uk">
        <position start="44829" stop="43155"/>
      </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="44529" g_stop="43903" g_length="627"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="627" r_length="627" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="43902" i_stop="43573" i_length="330">
            <donor d_prob="0.980" d_score="0.98"/>
            <acceptor a_prob="0.935" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="43572" g_stop="43455" g_length="118"/>
          <reference_exon_boundary r_type="cDNA" r_start="628" r_stop="745" r_length="118" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0129D14.1" gen_strand="-" ref_id="SGN-M6900" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>745</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0129D14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M6900" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="44529" e_stop="43903"/>
          <exon e_start="43572" e_stop="43455"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAGCCCCTTTCCATATTTTGTGTGGTCATGATGACGTTATTACATGCTTGTATGCAAGTATTGAGCTTGATATAGTTATAAGTGGATCAAAAGATGGAACTTGTGTTTTCCATACGCTACGGGATGGGAGATACGTTAGATCCCTACAACATCCATCTGGCAGTCCACTGTCAAAGCTTGTTGCATCACGTCATGGAAGGATTGTTCTTTATTCTGATGATGATCTTAGTTTGCACCTCTACTCTATAAATGGCAAACACATTTCATCTTCTGAATCCAATGGCCGCCTAAACTGTCTTGAACTCAGTAGCTGCGGAGAGTTCTTGGTTTGTGCTGGAGATCAAGGGCTAATCATCGTACGCTCTATGAACTCACTTGAGATTGTGGGGAAGTACAATGGTATTGGGAAAATAGTAACTTCACTAACTGTGACACCGGAAGAATGCTTTATAGCTGGGACTAAGGATGGAAGTCTTCTTGTTTATTCAATAGAAAACCCTCAACTTCGTAAAACTAGCATCCCGAGGAATTCAAAATCCAAAACCTCTATGACATAGTGAATTTGCTGTTCTGGGCTGTGGTGTAAATTTAACAATACCATCACTGGAAGTGATGCTGAATTGAGGTATGCTTCTATGTCTTTCATGGAGAAAAGTTCATATGGTTTGATGTGTCATTACTGTCTGTTGTTAGCTCCTGGCATTTAGCTGTGAAGTATTGAGTACATTTCCTGATTCTTTTCTTTTTATTTCCACTTGTTTAGCTATTGTTGCCCTTGTACCCAAGATCCTGAGCTATGCCAAGTGAAGCGTCCTCCTTTCTTGTATCCCAGTTCTTAAACGTAGTACCCAGTACTGGTTATTATTTTATTCTTGGCTAATCCAAGCATCATTTTTCCAGATGTTTGGATTTTGTTGTCTTAAAATAACCTTGGTTCATTTCTATTGGCATTCAGGGTGAAATGAAGCATAATTATGTCATCAAAAAGTGAGATATATTATGGAGTATGAGCACCTGATTGGTGTTTCATTTTTGAAGAGGAAAATATGGATGTCCCTTCAGTAGCTATTATA</genome_strand>
        <mrna_strand>TGAAGCCCCTTTCCATATTTTGTGTGGTCATGATGACGTTATTACATGCTTGTATGCAAGTATTGAGCTTGATATAGTTATAAGTGGATCAAAAGATGGAACTTGTGTTTTCCATACGCTACGGGATGGGAGATACGTTAGATCCCTACAACATCCATCTGGCAGTCCACTGTCAAAGCTTGTTGCATCACGTCATGGAAGGATTGTTCTTTATTCTGATGATGATCTTAGTTTGCACCTCTACTCTATAAATGGCAAACACATTTCATCTTCTGAATCCAATGGCCGCCTAAACTGTCTTGAACTCAGTAGCTGCGGAGAGTTCTTGGTTTGTGCTGGAGATCAAGGGCTAATCATCGTACGCTCTATGAACTCACTTGAGATTGTGGGGAAGTACAATGGTATTGGGAAAATAGTAACTTCACTAACTGTGACACCGGAAGAATGCTTTATAGCTGGGACTAAGGATGGAAGTCTTCTTGTTTATTCAATAGAAAACCCTCAACTTCGTAAAACTAGCATCCCGAGGAATTCAAAATCCAAAACCTCTATGACATAGTGAATTTGCTGTTCTGGGCTGAGGTGTAAATTTAACAATACCATCACTGGAAGTGATGCTGAATTGAG..........................................................................................................................................................................................................................................................................................................................................GGTGAAATGAAGCATAATTATGTCATCAAAAAGTGAGATATATTATGGAGTATGAGCACCTGATTGGTGGTTCATTTTTGAAGAGGAAAATATGGATGTCCCTTCAGTAGCTATTATA</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-C04SLm0129D14-J8ZjL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M6900-2" ref_strand="+" ref_description="SGN-M6900-2 C2_At1g58230-2 [cosii_markers]">
      <seq>gttctgatatccttccgcctcggaaaattgggagtcctctggctgaaaatatcgagcttggagcacaatgctttggaacattatcaacaccatctgaaagttttttgataacatgtggtacctgtgaaaacagctttcaggttatttcgctaactgatggaagaatggtacagagcattagacaacataaagatgttgtgagctgcatttcagttacatctgatggaagcatcctggctactggaagttacgacacaacagtaatgatctgggagattgttcgcatcagaacctctgaaaagcgagtaaagcacactcaagcagaggttcctcggaaagattgtatcattgctgaagcccctttccatattttgtgtggtcatgatgacgttattacgtgcttgtatgcaagtattgagcttgatatagttataagtggatcaaaagatggaacttgtgttttccatacgctacgggatgggagatacgttagatccctacgacatccatctggcagtccactgtcaaagcttgttgcatcacgtcatggaaggattgttctttattctgatgatgatcttagtttgcacctctactctataaatggcaaacacatttcatcttctgaatccaatggccgcctaaactgtcttgaactcagtagctgcggagagttcttggtttgtgctggagatcaagggctgatcatcgtacgctctatgaactcactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0129D14-J8ZjL/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04SLm0129D14.1" temp_strand="-" temp_description="C04SLm0129D14.1  CU041360.9 htgs_phase:3 submitted_to_sgn_as:C04SLm0129D14 sequenced_by:sanger upload_account_name:uk">
        <position start="47341" stop="43851"/>
      </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="47041" g_stop="46829" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="213" r_length="213" r_score="0.977"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="46828" i_stop="44669" i_length="2160">
            <donor d_prob="0.832" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44668" g_stop="44151" g_length="518"/>
          <reference_exon_boundary r_type="cDNA" r_start="214" r_stop="731" r_length="518" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0129D14.1" gen_strand="-" ref_id="SGN-M6900-2" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>731</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0129D14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M6900-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="47041" e_stop="46829"/>
          <exon e_start="44668" e_stop="44151"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCTGATATCCTTCCTCCTCGGAAAATCGGGAGTCCTCTGGCTGAAAATATCGAGCTTGGAGCACAATGCTTTGGAACATTATCAACACCGTCTGAAAATTTTTTGATAACATGTGGTACCTGCGAAAACAGCTTTCAGGTTATTTCGCTAACTGATGGAAGAATGGTACAGAGCATTAGACAACATAAAGATGTTGTGAGCTGCATTTCAGGTAATTTTCATGATTGAAAGATGTGACAGCTTGTGTTTGGAGCTTCTAGCTAACAAATTTACACACTTCATTGATTCTCTGGAAAAATGAAGGCTGAATGCAGATAATTCTTGTGATATAGTAATTAAATTAACGGAACTGATAGCATCAACATTGAACTGACTTGAGCGCTCCAGAGAATCTATTTGTTGTGCGAGGATGTAAAATATAAATCTTGTTGTCCATTTAAAATTGTTTGCTAACAGCAGACGTCTTGACTGTTCGGTGCTCAATGCTCATAGTGTCTTTCGGTTGAATATTGGTGCAAGGCAACATGTCAATTTTTTTTTCTTTTGTAATTGGTGAAGTTGTATTCCTCAGCATTAAGGATATGCTGGAGACCTCACGTGTCAAAAAATGTTTAAATAAATAACGGTGCAGCAGGTATTTTGCTTGGTACTCCTGGTTCTTGATACTCTTGCTTAGCTCTTACTATTTTTTGTCATAGAGAAAAAGCAAACACAGAAAGTAGGGGCTTCTCATTCTATAGCTGAAAATTATTTTGAGTTCTGGGAGAACTGCAGAAAACAACTGAAAAGCTGTTTCTGAATTTTTGTCAGCACATTTTGTCATCTCTGCCAAGCTTCTTGATTTCCCACTTAAATCTTCTTTCACAACGCAAAAGACCTTCTAACGTTAACCTCCACCCCGCATCTATGTTAAATTATAAGGATCCATAGAGAGAGAGAGGAGACTCGTGAGCTTTCTAAAAAGTGAAATTTAATATTTTGGGAACTAGGACTTCAAATCAAGAAGGCAAAGCTTTCATCACACCTGATTACAGTATTTATGTACTTATATTACATGTTTATTGCTTATAGTGTTGTGAATCAGTTCGAGACTAACAATTTGTCTACCAGTATCAGTAAATACTCCTACATGGTTTGAGTGTCTGTGTGAGATAGGTCATGTTTTTATGCCAAATTTGAGGGCGGGGTGGTGGTTCCTGTCACGTCGATACAGTTAATTGATAACCTTTTGACGTTGAAGAATACCAAAATATCAGATACTTGTGGTTCAACCTAGGCAAGGAGGAATAATAAATGTGTAGTATAGCCCTGTACCTATTTTTTTTTTTTGAAAAAGTTAAAGTTGCAAGTATAGCTCTGTAACTATTGAAGGTGGTGTTCAATTTTTTTTAAAAAAAAACAATTGAAGGTGGTGTATGTGTGTCTGCATTTATTTATTTTTTTGTTTTTTCCCTCTTGAGAGGTGGTAGGAATTGTCCAGATGAGGGACAATATTCATTGCTACGAGCAGGATGGGGCACAATTCTGAAACCTTTTTTTTTCTTTTTGGTCTTTCCATGGCTTCCTATAGGAATGGTCACAGATGAGGGCCAACTTTCATTACCACAGTTGGAATGTCAACTTTGTATCTCTTTCTTTTATGACTTTTAGATCTTCATAGACTGTCTAGGATGAATATTATCAGAAAATAAGCATGTACTGGCCTCGATATTTGATGCAAGTCATCAGAGTTTTCCATAAGCATCCTACCCATCTAAAAAGAAAAATGGAAAATAGTGTTGATGATTTTTGGATTTTGTTAGCTCCCTTATATTAGCATAGGTATAGTTTTGCAGCTAGCCTTTTGCTGTTGACAGTTTTTTTTTTAAAAAAAACTTTTAGCTCCTTCTAGGAATTGTACTGGAGCCAGCCTTTTGACCCTTATGTAATTGGGCTTCTACATTTTTTGCCCGTCAGCCGAACTTAGTTATGGCCGCTAGCCCAAATATCCAAAATCTATACATTGATCATGTATATTATACTTAAATACACAAAACTTGTACATTTGATAACTATTTTGTAAACTAGATCTCCCAAAAACCTCCATCTTCTTGATGCCTTAACTAAGGCAATTTACTTTATAAAAAAAGGAACAAGAAACCTTCTTTTGTTTTGTTTCTTTAAATATCCTGTCTTTTGTAGACAACCATATTTTGGGATAGGTTCTCTGCTTCTTTGGTTATACTTCCTGTATGCCGGAGTTTTCTTCTTCCAACATCAATAAAATTGTTTACTTTATCAAAATGTACTGCCTGGTTACAGCACTGGAAAGACATATTTCTTAGTTATTCTATATTTTACAGTAATGCTAAGCCATTTTTGATTGTTGCAGTTACATCTGATGGAAGCATCCTGGCTACTGGAAGTTACGACACAACAGTAATGATCTGGGAGATTGTGCGCATTAGAACCTCTGAAAAGCGAGTAAAGCACACTCAAGCAGAGGTTCCTCGAAAAGATTGTATCATTGCTGAAGCCCCTTTCCATATTTTGTGTGGTCATGATGACGTTATTACATGCTTGTATGCAAGTATTGAGCTTGATATAGTTATAAGTGGATCAAAAGATGGAACTTGTGTTTTCCATACGCTACGGGATGGGAGATACGTTAGATCCCTACAACATCCATCTGGCAGTCCACTGTCAAAGCTTGTTGCATCACGTCATGGAAGGATTGTTCTTTATTCTGATGATGATCTTAGTTTGCACCTCTACTCTATAAATGGCAAACACATTTCATCTTCTGAATCCAATGGCCGCCTAAACTGTCTTGAACTCAGTAGCTGCGGAGAGTTCTTGGTTTGTGCTGGAGATCAAGGGCTAATCATCGTACGCTCTATGAACTCACTT</genome_strand>
        <mrna_strand>GTTCTGATATCCTTCCGCCTCGGAAAATTGGGAGTCCTCTGGCTGAAAATATCGAGCTTGGAGCACAATGCTTTGGAACATTATCAACACCATCTGAAAGTTTTTTGATAACATGTGGTACCTGTGAAAACAGCTTTCAGGTTATTTCGCTAACTGATGGAAGAATGGTACAGAGCATTAGACAACATAAAGATGTTGTGAGCTGCATTTCAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTACATCTGATGGAAGCATCCTGGCTACTGGAAGTTACGACACAACAGTAATGATCTGGGAGATTGTTCGCATCAGAACCTCTGAAAAGCGAGTAAAGCACACTCAAGCAGAGGTTCCTCGGAAAGATTGTATCATTGCTGAAGCCCCTTTCCATATTTTGTGTGGTCATGATGACGTTATTACGTGCTTGTATGCAAGTATTGAGCTTGATATAGTTATAAGTGGATCAAAAGATGGAACTTGTGTTTTCCATACGCTACGGGATGGGAGATACGTTAGATCCCTACGACATCCATCTGGCAGTCCACTGTCAAAGCTTGTTGCATCACGTCATGGAAGGATTGTTCTTTATTCTGATGATGATCTTAGTTTGCACCTCTACTCTATAAATGGCAAACACATTTCATCTTCTGAATCCAATGGCCGCCTAAACTGTCTTGAACTCAGTAGCTGCGGAGAGTTCTTGGTTTGTGCTGGAGATCAAGGGCTGATCATCGTACGCTCTATGAACTCACTT</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-C04SLm0129D14-J8ZjL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M1918" ref_strand="+" ref_description="SGN-M1918 T1314 [cos_markers]">
      <seq>ctgagtcctctctgtgtgtgtgcgaaaaaaaggaaaaaatgcacggaagaccacgcaaagctccaactctagaagagcaagaagcttttagtgtcaaagcttccaaattacggtctctacaatcacaatttctccaatttcatcacgccaaaatatatacaaaggaagctttagatgtaagtgcaaagttgttagagtcgaatcctgagtattatactgcttggaattatagaaaacttgctgtccagcataatttgaatctacctgaggtggagaacaatgaggagtctgttaagtcaattctcgatgaagaactcagattggtagagaatgcgttgaggaggaatttcaagtcttacggagcatggcatcaccgtaaatgggtgctgagcaaaggtcattcttccacagacaaggaattgttgcttctgggtaagttccagaaggcagactcccgcaattttcatgcatggaattatagaaggttcgtcacaacattgaaggacataccaaatgagaaggagctagaatacactaccgacatgatatatgataat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0129D14-J8ZjL/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04SLm0129D14.1" temp_strand="-" temp_description="C04SLm0129D14.1  CU041360.9 htgs_phase:3 submitted_to_sgn_as:C04SLm0129D14 sequenced_by:sanger upload_account_name:uk">
        <position start="119945" stop="117502"/>
      </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="119645" g_stop="119493" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="154" r_length="154" r_score="0.974"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="119492" i_stop="119401" i_length="92">
            <donor d_prob="0.875" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="119400" g_stop="119232" g_length="169"/>
          <reference_exon_boundary r_type="cDNA" r_start="155" r_stop="323" r_length="169" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="119231" i_stop="118115" i_length="1117">
            <donor d_prob="0.996" d_score="0.96"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="118114" g_stop="117954" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="324" r_stop="484" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="117953" i_stop="117875" i_length="79">
            <donor d_prob="0.142" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="117874" g_stop="117802" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="485" r_stop="557" r_length="73" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0129D14.1" gen_strand="-" ref_id="SGN-M1918" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>556</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0129D14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M1918" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="119645" e_stop="119493"/>
          <exon e_start="119400" e_stop="119232"/>
          <exon e_start="118114" e_stop="117954"/>
          <exon e_start="117874" e_stop="117802"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGAGTCCTCTGTGTGTGTGTGAG-AAAAAAGGAAAAAATGCACGGAAGACCACGCAAAGCTCCAACTCTAGAAGAGCAAGAAGCTTTTAGTGTCAAAGCTTCCAAATTACGGTCTCTACAATCACAATTTCTCCAATTTCATCACGCCAAAATGTAATTTTTTTAAATTTTTTGTGTTCTTGATTTTACAGAAAAGATCAAAAATTTTGATGTTGTTTGCTAATTTGTTTGTGGGGTTGTTTCAGATATACAAAGGAAGCTTTAGATGTAAGTGCAAAGTTGTTAGAGTCGAACCCTGAGTATTATACTGCTTGGAATTATAGAAAACTTGCTGTCCAGCATAATTTGAATCTACCTGAGGTGGAGAACAATGAGGAGACTGTTAAGTCAATTCTTGATGAAGAACTCAGATTGGTAAGTTGTTTTTTTTTTTTGGATAAAAATGATATCTTTCTAAATGGGTCGGATTGAATATTGAGGATTTATGTTTAGTATATTCTTGATGGGAGGTTTTGTGGGAAGAGAAAGAAATGCTCAATTTTCTATTCTTTAAAGGGGCTGTTTGTTCTTTTTCTTTTTTTCTCTGCCCACCCCTTTGCCTTTTCTGATAAATCCTGTGCTCAAGTCCAAAAAGATTCTAAGCTGGTTTTTGACATATTTTCTCTTGTTATGAATGATGTTATATGGTATTGCTTTGAAGTGTGTTGATAACAATCCTTAGACAAAACCTAATGTGGCTCTTTTGTCTGACTGAGTAAGAAGGATTGGGCCCCTTATAGGACGGAATAGCTATAGAAGATTTGTACTTGACTATGAATCTTCTACCAAATGGATCTGCATCGAATGTGTAATGAAACTTCAAGTATATTTTCACTTATTATGCTGTTGTGCTCTGTGTTGTCAAAGGAGCACTCAACTCCTGAAGCAAGGTGCAAAACTTGTTGGTGCTTTAGTGTCGTCATCCAGGCTCTAAGACATACTTTACCTTGCCAATGAGTGTAATCCCGAAGAGCCGACATGCACCCAAGGGTGTGGCAGTGATCAATGAACTAGTTGAGAGTCATGAGGATCAATTCCCACGGGAGACCAAAAATACTAGGTAATTTTTCCCATATGTGCTGGTGGGAGGTGGCAGGTATCCCGTGGAATTTAAATGAGGTGAGCAAAAACTGGCCTGGACACCACAGTCATAAAAAAAATCCTGAATAGGCAACGCTGAACAATTGATATTTCACTTTATCCTGATCTTTTCTTGATTTTTGTTGTCCATAAATTTGTTATTCACAATCATACTTATAATTAGTAGTCTTGAACTACACATATATATTTGCATTTTTTTCTCCATTTGTGTCTTTCTCCATTAAAGGCCTGGCTTGAAACCCCAACAGACCTTTAGATTTTTTGTTTGTTGTTCGCCTTTGATACCTCTGTTCTTAGTTGGTTTAACTAAGAACAAAGCTTGTTATCATCACCAATTAATTTTCTGTGTGGTTTTATCTGTGATTCAGCTAAAATTTTGCATGTTGATTAGGTAGAGAATGCGTTGAGGAGGAATTTCAAGTCTTACGGAGCATGGCATCACCGTAAATGGGTGCTGAGCAAAGGTCATTCTTCCACAGACAAGGAATTGTTGCTTCTGGGTAAGTTCCAGAAGGCAGACTCCCGCAATTTTCATGCATGGAATTATAGAAGGTGATGACCTGGATTAAGCTGAACGCAAATTACTGGACTGTTGCATTCTGCTAACACTTCTTTTTGGCAACTCTTTCAGGTTCGTCACAACATTGAAGAACATACCAAATGAGAAGGAGCTAGAATACACTACCGACATGATATATGATAAT</genome_strand>
        <mrna_strand>CTGAGTCCTCTCTGTGTGTGTGCGAAAAAAAGGAAAAAATGCACGGAAGACCACGCAAAGCTCCAACTCTAGAAGAGCAAGAAGCTTTTAGTGTCAAAGCTTCCAAATTACGGTCTCTACAATCACAATTTCTCCAATTTCATCACGCCAAAAT............................................................................................ATATACAAAGGAAGCTTTAGATGTAAGTGCAAAGTTGTTAGAGTCGAATCCTGAGTATTATACTGCTTGGAATTATAGAAAACTTGCTGTCCAGCATAATTTGAATCTACCTGAGGTGGAGAACAATGAGGAGTCTGTTAAGTCAATTCTCGATGAAGAACTCAGATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAGAGAATGCGTTGAGGAGGAATTTCAAGTCTTACGGAGCATGGCATCACCGTAAATGGGTGCTGAGCAAAGGTCATTCTTCCACAGACAAGGAATTGTTGCTTCTGGGTAAGTTCCAGAAGGCAGACTCCCGCAATTTTCATGCATGGAATTATAGAAG...............................................................................GTTCGTCACAACATTGAAGGACATACCAAATGAGAAGGAGCTAGAATACACTACCGACATGATATATGATAAT</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="47041" PGL_stop="43455"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="47041" e_stop="46829"/>
            <exon e_start="44668" e_stop="43903"/>
            <exon e_start="43572" e_stop="43455"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.832" acc_prob="0.999" e_score="0.977"/>
          <exon-intron don_prob="0.980" acc_prob="0.935" e_score="0.998"/>
          <exon-only e_score="0.992"/>
        </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="0.977">
            <gDNA_exon_boundary e_start="47041" e_stop="46829" e_length="213"/>
          </exon>
          <intron i_serial="1" don_prob="0.832" acc_prob="0.999">
            <gDNA_intron_boundary i_start="46828" i_stop="44669" i_length="2160"/>
          </intron>
          <exon e_serial="2" e_score="0.998">
            <gDNA_exon_boundary e_start="44668" e_stop="43903" e_length="766"/>
          </exon>
          <intron i_serial="2" don_prob="0.980" acc_prob="0.935">
            <gDNA_intron_boundary i_start="43902" i_stop="43573" i_length="330"/>
          </intron>
          <exon e_serial="3" e_score="0.992">
            <gDNA_exon_boundary e_start="43572" e_stop="43455" e_length="118"/>
          </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="47041" stop="46829"/>
              <exon start="44668" stop="44151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M6900-2" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="44529" stop="43903"/>
              <exon start="43572" stop="43455"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M6900" 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>GTTCTGATATCCTTCCTCCTCGGAAAATCGGGAGTCCTCTGGCTGAAAATATCGAGCTTGGAGCACAATGCTTTGGAACATTATCAACACCGTCTGAAAATTTTTTGATAACATGTGGTACCTGCGAAAACAGCTTTCAGGTTATTTCGCTAACTGATGGAAGAATGGTACAGAGCATTAGACAACATAAAGATGTTGTGAGCTGCATTTCAG : TTACATCTGATGGAAGCATCCTGGCTACTGGAAGTTACGACACAACAGTAATGATCTGGGAGATTGTGCGCATTAGAACCTCTGAAAAGCGAGTAAAGCACACTCAAGCAGAGGTTCCTCGAAAAGATTGTATCATTGCTGAAGCCCCTTTCCATATTTTGTGTGGTCATGATGACGTTATTACATGCTTGTATGCAAGTATTGAGCTTGATATAGTTATAAGTGGATCAAAAGATGGAACTTGTGTTTTCCATACGCTACGGGATGGGAGATACGTTAGATCCCTACAACATCCATCTGGCAGTCCACTGTCAAAGCTTGTTGCATCACGTCATGGAAGGATTGTTCTTTATTCTGATGATGATCTTAGTTTGCACCTCTACTCTATAAATGGCAAACACATTTCATCTTCTGAATCCAATGGCCGCCTAAACTGTCTTGAACTCAGTAGCTGCGGAGAGTTCTTGGTTTGTGCTGGAGATCAAGGGCTAATCATCGTACGCTCTATGAACTCACTTGAGATTGTGGGGAAGTACAATGGTATTGGGAAAATAGTAACTTCACTAACTGTGACACCGGAAGAATGCTTTATAGCTGGGACTAAGGATGGAAGTCTTCTTGTTTATTCAATAGAAAACCCTCAACTTCGTAAAACTAGCATCCCGAGGAATTCAAAATCCAAAACCTCTATGACATAGTGAATTTGCTGTTCTGGGCTGTGGTGTAAATTTAACAATACCATCACTGGAAGTGATGCTGAATTGAG : GGTGAAATGAAGCATAATTATGTCATCAAAAAGTGAGATATATTATGGAGTATGAGCACCTGATTGGTGTTTCATTTTTGAAGAGGAAAATATGGATGTCCCTTCAGTAGCTATTATA</gDNA_template>
            <first_frame> V  L  I  S  F  L  L  G  K  S  G  V  L  W  L  K  I  S  S  L  E  H  N  A  L  E  H  Y  Q  H  R  L  K  I  F  *  *  H  V  V  P  A  K  T  A  F  R  L  F  R  *  L  M  E  E  W  Y  R  A  L  D  N  I  K  M  L  *  A  A  F  Q  :  L  H  L  M  E  A  S  W  L  L  E  V  T  T  Q  Q  *  *  S  G  R  L  C  A  L  E  P  L  K  S  E  *  S  T  L  K  Q  R  F  L  E  K  I  V  S  L  L  K  P  L  S  I  F  C  V  V  M  M  T  L  L  H  A  C  M  Q  V  L  S  L  I  *  L  *  V  D  Q  K  M  E  L  V  F  S  I  R  Y  G  M  G  D  T  L  D  P  Y  N  I  H  L  A  V  H  C  Q  S  L  L  H  H  V  M  E  G  L  F  F  I  L  M  M  I  L  V  C  T  S  T  L  *  M  A  N  T  F  H  L  L  N  P  M  A  A  *  T  V  L  N  S  V  A  A  E  S  S  W  F  V  L  E  I  K  G  *  S  S  Y  A  L  *  T  H  L  R  L  W  G  S  T  M  V  L  G  K  *  *  L  H  *  L  *  H  R  K  N  A  L  *  L  G  L  R  M  E  V  F  L  F  I  Q  *  K  T  L  N  F  V  K  L  A  S  R  G  I  Q  N  P  K  P  L  *  H  S  E  F  A  V  L  G  C  G  V  N  L  T  I  P  S  L  E  V  M  L  N  *   : G  *  N  E  A  *  L  C  H  Q  K  V  R  Y  I  M  E  Y  E  H  L  I  G  V  S  F  L  K  R  K  I  W  M  S  L  Q  *  L  L   </first_frame>
            <second_frame>  F  *  Y  P  S  S  S  E  N  R  E  S  S  G  *  K  Y  R  A  W  S  T  M  L  W  N  I  I  N  T  V  *  K  F  F  D  N  M  W  Y  L  R  K  Q  L  S  G  Y  F  A  N  *  W  K  N  G  T  E  H  *  T  T  *  R  C  C  E  L  H  F  S :   Y  I  *  W  K  H  P  G  Y  W  K  L  R  H  N  S  N  D  L  G  D  C  A  H  *  N  L  *  K  A  S  K  A  H  S  S  R  G  S  S  K  R  L  Y  H  C  *  S  P  F  P  Y  F  V  W  S  *  *  R  Y  Y  M  L  V  C  K  Y  *  A  *  Y  S  Y  K  W  I  K  R  W  N  L  C  F  P  Y  A  T  G  W  E  I  R  *  I  P  T  T  S  I  W  Q  S  T  V  K  A  C  C  I  T  S  W  K  D  C  S  L  F  *  *  *  S  *  F  A  P  L  L  Y  K  W  Q  T  H  F  I  F  *  I  Q  W  P  P  K  L  S  *  T  Q  *  L  R  R  V  L  G  L  C  W  R  S  R  A  N  H  R  T  L  Y  E  L  T  *  D  C  G  E  V  Q  W  Y  W  E  N  S  N  F  T  N  C  D  T  G  R  M  L  Y  S  W  D  *  G  W  K  S  S  C  L  F  N  R  K  P  S  T  S  *  N  *  H  P  E  E  F  K  I  Q  N  L  Y  D  I  V  N  L  L  F  W  A  V  V  *  I  *  Q  Y  H  H  W  K  *  C  *  I  E  :  G  E  M  K  H  N  Y  V  I  K  K  *  D  I  L  W  S  M  S  T  *  L  V  F  H  F  *  R  G  K  Y  G  C  P  F  S  S  Y  Y  </second_frame>
            <third_frame>   S  D  I  L  P  P  R  K  I  G  S  P  L  A  E  N  I  E  L  G  A  Q  C  F  G  T  L  S  T  P  S  E  N  F  L  I  T  C  G  T  C  E  N  S  F  Q  V  I  S  L  T  D  G  R  M  V  Q  S  I  R  Q  H  K  D  V  V  S  C  I  S   : V  T  S  D  G  S  I  L  A  T  G  S  Y  D  T  T  V  M  I  W  E  I  V  R  I  R  T  S  E  K  R  V  K  H  T  Q  A  E  V  P  R  K  D  C  I  I  A  E  A  P  F  H  I  L  C  G  H  D  D  V  I  T  C  L  Y  A  S  I  E  L  D  I  V  I  S  G  S  K  D  G  T  C  V  F  H  T  L  R  D  G  R  Y  V  R  S  L  Q  H  P  S  G  S  P  L  S  K  L  V  A  S  R  H  G  R  I  V  L  Y  S  D  D  D  L  S  L  H  L  Y  S  I  N  G  K  H  I  S  S  S  E  S  N  G  R  L  N  C  L  E  L  S  S  C  G  E  F  L  V  C  A  G  D  Q  G  L  I  I  V  R  S  M  N  S  L  E  I  V  G  K  Y  N  G  I  G  K  I  V  T  S  L  T  V  T  P  E  E  C  F  I  A  G  T  K  D  G  S  L  L  V  Y  S  I  E  N  P  Q  L  R  K  T  S  I  P  R  N  S  K  S  K  T  S  M  T  *  *  I  C  C  S  G  L  W  C  K  F  N  N  T  I  T  G  S  D  A  E  L  R :   V  K  *  S  I  I  M  S  S  K  S  E  I  Y  Y  G  V  *  A  P  D  W  C  F  I  F  E  E  E  N  M  D  V  P  S  V  A  I  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="C04SLm0129D14.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="47039" stop="46829"/>
                    <exon start="44668" stop="43971"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>906</number_coding_nucleotides>
                  <number_encoded_amino_acids>302</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SDILPPRKIGSPLAENIELGAQCFGTLSTPSENFLITCGTCENSFQVISLTDGRMVQSIRQHKDVVSCISVTSDGSILATGSYDTTVMIWEIVRIRTSEKRVKHTQAEVPRKDCIIAEAPFHILCGHDDVITCLYASIELDIVISGSKDGTCVFHTLRDGRYVRSLQHPSGSPLSKLVASRHGRIVLYSDDDLSLHLYSINGKHISSSESNGRLNCLELSSCGEFLVCAGDQGLIIVRSMNSLEIVGKYNGIGKIVTSLTVTPEECFIAGTKDGSLLVYSIENPQLRKTSIPRNSKSKTSMT*</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="119645" PGL_stop="117802"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="119645" e_stop="119493"/>
            <exon e_start="119400" e_stop="119232"/>
            <exon e_start="118114" e_stop="117954"/>
            <exon e_start="117874" e_stop="117802"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.875" acc_prob="1.000" e_score="0.974"/>
          <exon-intron don_prob="0.996" acc_prob="0.997" e_score="0.982"/>
          <exon-intron don_prob="0.142" acc_prob="0.996" e_score="1.000"/>
          <exon-only e_score="0.986"/>
        </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="0.974">
            <gDNA_exon_boundary e_start="119645" e_stop="119493" e_length="153"/>
          </exon>
          <intron i_serial="1" don_prob="0.875" acc_prob="1.000">
            <gDNA_intron_boundary i_start="119492" i_stop="119401" i_length="92"/>
          </intron>
          <exon e_serial="2" e_score="0.982">
            <gDNA_exon_boundary e_start="119400" e_stop="119232" e_length="169"/>
          </exon>
          <intron i_serial="2" don_prob="0.996" acc_prob="0.997">
            <gDNA_intron_boundary i_start="119231" i_stop="118115" i_length="1117"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="118114" e_stop="117954" e_length="161"/>
          </exon>
          <intron i_serial="3" don_prob="0.142" acc_prob="0.996">
            <gDNA_intron_boundary i_start="117953" i_stop="117875" i_length="79"/>
          </intron>
          <exon e_serial="4" e_score="0.986">
            <gDNA_exon_boundary e_start="117874" e_stop="117802" e_length="73"/>
          </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="119645" stop="119493"/>
              <exon start="119400" stop="119232"/>
              <exon start="118114" stop="117954"/>
              <exon start="117874" stop="117802"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M1918" 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>CTGAGTCCTCTGTGTGTGTGTGAGAAAAAAGGAAAAAATGCACGGAAGACCACGCAAAGCTCCAACTCTAGAAGAGCAAGAAGCTTTTAGTGTCAAAGCTTCCAAATTACGGTCTCTACAATCACAATTTCTCCAATTTCATCACGCCAAAAT : ATATACAAAGGAAGCTTTAGATGTAAGTGCAAAGTTGTTAGAGTCGAACCCTGAGTATTATACTGCTTGGAATTATAGAAAACTTGCTGTCCAGCATAATTTGAATCTACCTGAGGTGGAGAACAATGAGGAGACTGTTAAGTCAATTCTTGATGAAGAACTCAGATTG : GTAGAGAATGCGTTGAGGAGGAATTTCAAGTCTTACGGAGCATGGCATCACCGTAAATGGGTGCTGAGCAAAGGTCATTCTTCCACAGACAAGGAATTGTTGCTTCTGGGTAAGTTCCAGAAGGCAGACTCCCGCAATTTTCATGCATGGAATTATAGAAG : GTTCGTCACAACATTGAAGAACATACCAAATGAGAAGGAGCTAGAATACACTACCGACATGATATATGATAAT</gDNA_template>
            <first_frame> L  S  P  L  C  V  C  E  K  K  G  K  N  A  R  K  T  T  Q  S  S  N  S  R  R  A  R  S  F  *  C  Q  S  F  Q  I  T  V  S  T  I  T  I  S  P  I  S  S  R  Q  N  :  I  Y  K  G  S  F  R  C  K  C  K  V  V  R  V  E  P  *  V  L  Y  C  L  E  L  *  K  T  C  C  P  A  *  F  E  S  T  *  G  G  E  Q  *  G  D  C  *  V  N  S  *  *  R  T  Q  I   : G  R  E  C  V  E  E  E  F  Q  V  L  R  S  M  A  S  P  *  M  G  A  E  Q  R  S  F  F  H  R  Q  G  I  V  A  S  G  *  V  P  E  G  R  L  P  Q  F  S  C  M  E  L  *  K  :  V  R  H  N  I  E  E  H  T  K  *  E  G  A  R  I  H  Y  R  H  D  I  *  *  </first_frame>
            <second_frame>  *  V  L  C  V  C  V  R  K  K  E  K  M  H  G  R  P  R  K  A  P  T  L  E  E  Q  E  A  F  S  V  K  A  S  K  L  R  S  L  Q  S  Q  F  L  Q  F  H  H  A  K  I :   Y  T  K  E  A  L  D  V  S  A  K  L  L  E  S  N  P  E  Y  Y  T  A  W  N  Y  R  K  L  A  V  Q  H  N  L  N  L  P  E  V  E  N  N  E  E  T  V  K  S  I  L  D  E  E  L  R  L  :  V  E  N  A  L  R  R  N  F  K  S  Y  G  A  W  H  H  R  K  W  V  L  S  K  G  H  S  S  T  D  K  E  L  L  L  L  G  K  F  Q  K  A  D  S  R  N  F  H  A  W  N  Y  R  R :   F  V  T  T  L  K  N  I  P  N  E  K  E  L  E  Y  T  T  D  M  I  Y  D  N </second_frame>
            <third_frame>   E  S  S  V  C  V  *  E  K  R  K  K  C  T  E  D  H  A  K  L  Q  L  *  K  S  K  K  L  L  V  S  K  L  P  N  Y  G  L  Y  N  H  N  F  S  N  F  I  T  P  K   : Y  I  Q  R  K  L  *  M  *  V  Q  S  C  *  S  R  T  L  S  I  I  L  L  G  I  I  E  N  L  L  S  S  I  I  *  I  Y  L  R  W  R  T  M  R  R  L  L  S  Q  F  L  M  K  N  S  D  W :   *  R  M  R  *  G  G  I  S  S  L  T  E  H  G  I  T  V  N  G  C  *  A  K  V  I  L  P  Q  T  R  N  C  C  F  W  V  S  S  R  R  Q  T  P  A  I  F  M  H  G  I  I  E   : G  S  S  Q  H  *  R  T  Y  Q  M  R  R  S  *  N  T  L  P  T  *  Y  M  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="C04SLm0129D14.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="119641" stop="119493"/>
                    <exon start="119400" stop="119232"/>
                    <exon start="118114" stop="117954"/>
                    <exon start="117874" stop="117802"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>552</number_coding_nucleotides>
                  <number_encoded_amino_acids>184</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VLCVCVRKKEKMHGRPRKAPTLEEQEAFSVKASKLRSLQSQFLQFHHAKIYTKEALDVSAKLLESNPEYYTAWNYRKLAVQHNLNLPEVENNEETVKSILDEELRLVENALRRNFKSYGAWHHRKWVLSKGHSSTDKELLLLGKFQKADSRNFHAWNYRRFVTTLKNIPNEKELEYTTDMIYDN</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 8 chains have been computed
$ 
$ memory statistics:
$ 6840 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 2280 bytes was the average size of a spliced alignment
$ 6864 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3432 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 8 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-15 23:52:57
-->
