<?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="2009-01-17 23:33:58"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C09HBa0080D01-qWcjV/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C09HBa0080D01-qWcjV/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-C09HBa0080D01-qWcjV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8177" ref_strand="+" ref_description="SGN-M8177 C2_At4g03090 [cosii_markers]">
      <seq>gaccgaaggtcaatcaagtgaggctgggacaaaaggtgaaatgacagaacacgaaagatttatagctacatctatagatatgaaggatattgagactcagaatgtggaaacgagtgggtccgattccagctccacgcgaagtaggcacccaacagatcaagttgggaaagttgggcaaataaattgcaatggtcctggagaggttagagaggacgaaacagttgaagctcagcatgaagagaagcaacaaaggaaacggaagcgaaccataatgaatgatacgcagatatcacttgttgagaaggcccttatgggggagcctgatatgcagcgaaataaaaccttattagaaaagtgggctgtaaaattaagtgatcatggatcagaggttacaaaatcacagctcaagaattggctaaacaatcggaaagcaaggttggctcgtgctgcgaaggatgggcgtatgttatctgaaggggataatcttgacaaacaaggtgggttgctcactctgcttccttctgactcacctggaagtcctgtcgaggatgttggtatcctctctgctgctagagaaaatgcaccgaggctaactggcctggcaccgagcagcacttgtcttacagaaaacacaactgctgtgcctgcagcttcatcagacaggcaaagtgtgtgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0080D01-qWcjV/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09HBa0080D01.1" temp_strand="-" temp_description="C09HBa0080D01.1  AC214463.1 htgs_phase:3 submitted_to_sgn_as:gb|AC214463.1| upload_account_name:spain (1 - 102374)">
        <position start="42106" stop="40251"/>
      </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="41806" g_stop="41429" g_length="378"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="379" r_length="379" r_score="0.958"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="41428" i_stop="41333" i_length="96">
            <donor d_prob="0.807" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="41332" g_stop="41298" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="380" r_stop="414" r_length="35" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="41297" i_stop="40814" i_length="484">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.971" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="40813" g_stop="40551" g_length="263"/>
          <reference_exon_boundary r_type="cDNA" r_start="415" r_stop="676" r_length="262" r_score="0.951"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0080D01.1" gen_strand="-" ref_id="SGN-M8177" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>676</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0080D01.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8177" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41806" e_stop="41429"/>
          <exon e_start="41332" e_stop="41298"/>
          <exon e_start="40813" e_stop="40551"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GA-CGCAGGTCAATCAGGTGAGGCTGGGACAAAAGGTGAAATGATAGAACACGAAAGATTTATAGCTACATGTATAGAGATGAAGGATATTGAGACTCAGAATGTGGAAACAAGTGGGTCAGATTCCAGCTCCACGCGAAGTAGGCACCCAACAGATCAAGTTGGGAAAGTTGAGCAAATAAATTGCAATGGTCCTGGAGAGGTTAGAGAAGACGAAACAGTTGAAGCTCAGCATGAAGAGAAGCAACAAAGGAAACGGAAGCGGACCATAATGAATGATAAGCAGATATCACTGGTCGAGAAGGCCCTTATGGGGGAGCCTGATATGCAGCGAAATAAAAACTTATTAGAAAAGTGGGCTGTAAAATTAAGTGATCATGTATGTCACAAGCCCCATGCACTTTGTTTTTGTTTCTGCTCTTTTCTATCAACTAATTAGTCTTTTCTCCCTAATATGTTCCTGCTTTGTTTCCAGGGATCAGAGGTTACAAAATCACAGCTCAAGAATTGGTAAGGCGATATTTCTTTTATTTTCTTAACAACTTTAAATAGTTTATCTAGATCTATTCTACTGTCAGAAGGGTGTGGGTCTAAATATGTTTATTACGAGGCTAAATGATTTATTCTTTTTAGTTTATACACCTGTGTACTGCTTTCCCATATGAGTGTCAGCATCCATGAAAGCCCAAGTTACTGTTACACCTCCTATTATCTTGTGAAAGATAGATGTCAGTCCAATGGCATGTTGAGTCGACAAAATTATCTAAGAGCCTATCAGAGTTCTACTGGTGTATCGAACTGCAACTTTGTTTTGCTGCATGTACTCCTATCTAATAAGTGTGCCGTTTATTGAGAAAATGCACGAATAAGTCACTTATTCTCCGAGAGATAACAAAAGAAAAGAAGACATACAAATAGGTTTCAATCTGATTTAATGAGGTATGTCTCTATCTTGTCGTCATGCTGAAGAATCATTTCCATTTTGAACACACAGGCTAAACAATCGGAAAGCAAGGTTAGCTCGTGCTGCAAAGGATGGGCGTGTGTTGTCTGAAGGGGATAGTCTTGACAAACAAGGTGGGTTGCTCACTCTGCTACCTTGTGGCTCACCTGGAAGTCCTGTCGAGGATGTTGGTATCCTCTCTGCTGCTAGAGAAAATGCACCGAGGCTAACTGGCCTGGCACCGAGCAGCACTTGTCTTACAGAAAACACAACCGCTGTGCCTGCAGCTTCATCAGAACCGGCAGTGTGTGTGG</genome_strand>
        <mrna_strand>GACCGAAGGTCAATCAAGTGAGGCTGGGACAAAAGGTGAAATGACAGAACACGAAAGATTTATAGCTACATCTATAGATATGAAGGATATTGAGACTCAGAATGTGGAAACGAGTGGGTCCGATTCCAGCTCCACGCGAAGTAGGCACCCAACAGATCAAGTTGGGAAAGTTGGGCAAATAAATTGCAATGGTCCTGGAGAGGTTAGAGAGGACGAAACAGTTGAAGCTCAGCATGAAGAGAAGCAACAAAGGAAACGGAAGCGAACCATAATGAATGATACGCAGATATCACTTGTTGAGAAGGCCCTTATGGGGGAGCCTGATATGCAGCGAAATAAAACCTTATTAGAAAAGTGGGCTGTAAAATTAAGTGATCAT................................................................................................GGATCAGAGGTTACAAAATCACAGCTCAAGAATTG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTAAACAATCGGAAAGCAAGGTTGGCTCGTGCTGCGAAGGATGGGCGTATGTTATCTGAAGGGGATAATCTTGACAAACAAGGTGGGTTGCTCACTCTGCTTCCTTCTGACTCACCTGGAAGTCCTGTCGAGGATGTTGGTATCCTCTCTGCTGCTAGAGAAAATGCACCGAGGCTAACTGGCCTGGCACCGAGCAGCACTTGTCTTACAGAAAACACAACTGCTGTGCCTGCAGCTTCATCAG-ACAGGCAAAGTGTGTGG</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-C09HBa0080D01-qWcjV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M358-F" ref_strand="+" ref_description="SGN-M358-F TG558-F [rflp_markers_forward]">
      <seq>aatgaagttcagttgataagctaaatggtggaaatactaattttaattgacagtaactttgcatttcaaggtccataccaaaacatttgctaacaccagttgctttgtcaacgaaaaccttggcactcaaaaccctaccaaaaggctgaaatgcatttgcaagctcttgatcaccaaattcttgaggaatatggtaaataaatagattagcaccaggtggacctgtaaacagcaaaatcgtttttgataagtacaggtttatttctacatgttcaactaccactgccaagtacactagttcaagtgacatctccaccacttaattgcataaagctttaccaacgacaaatataacaaacttgtgcaagtaatttgagttcctgtctatacagtccagaatctccatatgctgctcatctcacaatgttggttaaggaaatttgtcaagtaaagttcaaatcaacatgctgtaagactatacttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0080D01-qWcjV/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09HBa0080D01.1" temp_strand="+" temp_description="C09HBa0080D01.1  AC214463.1 htgs_phase:3 submitted_to_sgn_as:gb|AC214463.1| upload_account_name:spain (1 - 102374)">
        <position start="87032" stop="88119"/>
      </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="87332" g_stop="87819" g_length="488"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="487" r_length="487" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0080D01.1" gen_strand="+" ref_id="SGN-M358-F" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>488</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0080D01.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M358-F" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="87332" e_stop="87819"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGAAGTTCAGTTGATAAGCTAAATGGTGGAAATACTAATTTTGATTGACAGTAACTTTGCATTTCAAGGTCCATACCAAAACATTTGCTAACACCAGTTGCTTTGTCAACGAAAACCTTGGCACTCAAAACCCTACCAAAAGGCTGAAATGCATTTGCAAGCTCTTGATCACCAAATTCTTGAGGAATATGGTAAATAAATAGATTAGCACCAGGTGGACCTGTAAACAACAAAATCGTTTTTGATAAGTACAGGTTTAATTTCTACATGTTCAACTACCACTGCCAAGTATACTAGTTCAAGTGACATCTCCACCACTTAATTGCATAAAGCTTTACCAACGACAAATATAACAAACTTGTGCAAGTAATTTGAGTTCCTGTCTATATAGTCCAGAATCTCCATATGCTGCTCATCTCACAAGGTTGGTTAAGGAAATTTTTCAAGTAAAGTTCAAATCAACATGCTGTAAGACTATACTTGCTG</genome_strand>
        <mrna_strand>AATGAAGTTCAGTTGATAAGCTAAATGGTGGAAATACTAATTTTAATTGACAGTAACTTTGCATTTCAAGGTCCATACCAAAACATTTGCTAACACCAGTTGCTTTGTCAACGAAAACCTTGGCACTCAAAACCCTACCAAAAGGCTGAAATGCATTTGCAAGCTCTTGATCACCAAATTCTTGAGGAATATGGTAAATAAATAGATTAGCACCAGGTGGACCTGTAAACAGCAAAATCGTTTTTGATAAGTACAGGTTT-ATTTCTACATGTTCAACTACCACTGCCAAGTACACTAGTTCAAGTGACATCTCCACCACTTAATTGCATAAAGCTTTACCAACGACAAATATAACAAACTTGTGCAAGTAATTTGAGTTCCTGTCTATACAGTCCAGAATCTCCATATGCTGCTCATCTCACAATGTTGGTTAAGGAAATTTGTCAAGTAAAGTTCAAATCAACATGCTGTAAGACTATACTTGCTG</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-C09HBa0080D01-qWcjV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M193-F" ref_strand="+" ref_description="SGN-M193-F TG551-F [rflp_markers_forward]">
      <seq>aatgaagttcagttgataagctaaatggtggaaatactaattttaattgacagtaactttgcatttcaaggtccataccaaaacatttgctaacaccagttgctttgtcaacgaaaaccttggcactcaaaaccctaccaaaaggctgaaatgcatttgcaagctcttgatcaccaaattcttgaggaatatggtaaataaatagattagcaccaggtggacctgtaaacagcaaaatcgtttttgataagtacaggtttatttctacatgttcaactaccactgccaagtacactagttcaagtgacatctccaccacttaattgcataaagctttaccaacgacaaatataacaaacttgtgcaagtaatttgagttcctgtctatacagtccagaatctccatatgctgctcatctcacaatgttggttaaggaaatttgtcaagtaaagttcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0080D01-qWcjV/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09HBa0080D01.1" temp_strand="+" temp_description="C09HBa0080D01.1  AC214463.1 htgs_phase:3 submitted_to_sgn_as:gb|AC214463.1| upload_account_name:spain (1 - 102374)">
        <position start="87032" stop="88090"/>
      </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="87332" g_stop="87790" g_length="459"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="458" r_length="458" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0080D01.1" gen_strand="+" ref_id="SGN-M193-F" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>459</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0080D01.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M193-F" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="87332" e_stop="87790"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGAAGTTCAGTTGATAAGCTAAATGGTGGAAATACTAATTTTGATTGACAGTAACTTTGCATTTCAAGGTCCATACCAAAACATTTGCTAACACCAGTTGCTTTGTCAACGAAAACCTTGGCACTCAAAACCCTACCAAAAGGCTGAAATGCATTTGCAAGCTCTTGATCACCAAATTCTTGAGGAATATGGTAAATAAATAGATTAGCACCAGGTGGACCTGTAAACAACAAAATCGTTTTTGATAAGTACAGGTTTAATTTCTACATGTTCAACTACCACTGCCAAGTATACTAGTTCAAGTGACATCTCCACCACTTAATTGCATAAAGCTTTACCAACGACAAATATAACAAACTTGTGCAAGTAATTTGAGTTCCTGTCTATATAGTCCAGAATCTCCATATGCTGCTCATCTCACAAGGTTGGTTAAGGAAATTTTTCAAGTAAAGTTCAA</genome_strand>
        <mrna_strand>AATGAAGTTCAGTTGATAAGCTAAATGGTGGAAATACTAATTTTAATTGACAGTAACTTTGCATTTCAAGGTCCATACCAAAACATTTGCTAACACCAGTTGCTTTGTCAACGAAAACCTTGGCACTCAAAACCCTACCAAAAGGCTGAAATGCATTTGCAAGCTCTTGATCACCAAATTCTTGAGGAATATGGTAAATAAATAGATTAGCACCAGGTGGACCTGTAAACAGCAAAATCGTTTTTGATAAGTACAGGTTT-ATTTCTACATGTTCAACTACCACTGCCAAGTACACTAGTTCAAGTGACATCTCCACCACTTAATTGCATAAAGCTTTACCAACGACAAATATAACAAACTTGTGCAAGTAATTTGAGTTCCTGTCTATACAGTCCAGAATCTCCATATGCTGCTCATCTCACAATGTTGGTTAAGGAAATTTGTCAAGTAAAGTTCAA</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-C09HBa0080D01-qWcjV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M358-R" ref_strand="+" ref_description="SGN-M358-R TG558-R [rflp_markers_reverse]">
      <seq>ggagacagcttgcatgcctgcagcatcttcaagtgtcagttcaagtacagggggtcaggttgaaggttgttgaacatttattttgtgacctttttagctctagaatttctgtagctaatcaagtacagtcccataacctaggggctgttagggttttctgctgaatgaggctgcttgtctttattttggttaattattttctggaaattgttcctcgtcatagagaatagaagtagaagaagaagaagatagtataatctattatatttgttttttacttaatttataaagattccataaatgcatgtgatctttgatcaatgatatcttatacaagtgtatcactagaatctattatatttggatttacttattttatataggatttcataaacgcatgtgatctctgactaatgatatctaatacatgtgtgtcatagcaagtatcaaaaaggctatgtagctattcctaagtgttgcagcaagtatagtcttacagcatgttgatttgaactttacttgacaaatttccttaaccaacattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0080D01-qWcjV/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09HBa0080D01.1" temp_strand="-" temp_description="C09HBa0080D01.1  AC214463.1 htgs_phase:3 submitted_to_sgn_as:gb|AC214463.1| upload_account_name:spain (1 - 102374)">
        <position start="88571" stop="87453"/>
      </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="88370" g_stop="88352" g_length="19"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="18" r_length="18" r_score="0.737"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="88351" i_stop="88271" i_length="81">
            <donor d_prob="0.900" d_score="0.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="88270" g_stop="87753" g_length="518"/>
          <reference_exon_boundary r_type="cDNA" r_start="19" r_stop="546" r_length="528" r_score="0.940"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0080D01.1" gen_strand="-" ref_id="SGN-M358-R" ref_strand="+">
        <total_alignment_score>0.940</total_alignment_score>
        <cumulative_length_of_scored_exons>537</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0080D01.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M358-R" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="88370" e_stop="88352"/>
          <exon e_start="88270" e_stop="87753"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATTCAGTATTCCATGCCATATCCTGGAGGTGTTATGAATACCAGACCACCAAGTGGTTCTCCTGGTTCAATTCCCCCTAGTACGACCAACAGTCATTCTGCAGCATCTTCAAGTGTCAGTTCAAGTACAGGGGGTCAGGTTGAAGGTTGTTGAACATTTATTTTGTGACCTTTTTAGCTCTAGAA-TTCTGTAGCTAATCAAGTACAGTCCCATAACTTGGGGGCTGTTAGGGTTTTCTGCTGAATGAGGCTGCTTGTCTTTATTTTGGTTAATTGTTTTCTGGAAATTGTTCCTCGTCATAGAGAATAGAAGTAGAAGAAGAAGAAGATAGTATAATCTATTATATTTGTTTTTTACTTAATTTATAAAGTATTCCATAAATGCATGTGATCTTTGATCAATGATATTTTATACAAGTGTATCACTAGAATCTATTATATTTGGATTTACTTATTTTATATAGGATTTCATAAATGCATGTGATCTCTGACTAATGATATCTAATACA--TGTGTCATAGCAAGTATCGAAAAGGCTATGTAGCTA--------TGTTGCAGCAAGTATAGTCTTACAGCATGTTGATTTGAACTTTACTTGAAAAATTTCCTTAACCAACCTTGT</genome_strand>
        <mrna_strand>GGAGACAG-CTTGCATGCC.................................................................................TGCAGCATCTTCAAGTGTCAGTTCAAGTACAGGGGGTCAGGTTGAAGGTTGTTGAACATTTATTTTGTGACCTTTTTAGCTCTAGAATTTCTGTAGCTAATCAAGTACAGTCCCATAACCTAGGGGCTGTTAGGGTTTTCTGCTGAATGAGGCTGCTTGTCTTTATTTTGGTTAATTATTTTCTGGAAATTGTTCCTCGTCATAGAGAATAGAAGTAGAAGAAGAAGAAGATAGTATAATCTATTATATTTGTTTTTTACTTAATTTATAAAG-ATTCCATAAATGCATGTGATCTTTGATCAATGATATCTTATACAAGTGTATCACTAGAATCTATTATATTTGGATTTACTTATTTTATATAGGATTTCATAAACGCATGTGATCTCTGACTAATGATATCTAATACATGTGTGTCATAGCAAGTATCAAAAAGGCTATGTAGCTATTCCTAAGTGTTGCAGCAAGTATAGTCTTACAGCATGTTGATTTGAACTTTACTTGACAAATTTCCTTAACCAACATTGT</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-C09HBa0080D01-qWcjV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M193-R" ref_strand="+" ref_description="SGN-M193-R TG551-R [rflp_markers_reverse]">
      <seq>catcttcaagtgtcagctcaagtacagggggtcaggttgaaggttgttgaacatttattttgtgacctttttagctctagaatttctgtagctaatcaagtacagtcccataacctaggggctgttagggttttctgctgaatgaggctgcttgtctttattttggttaattattttctggaaattgttcctcgtcatagagaatagaagtagaagaagaagaagatagtataatctattatatttgttttttacttaatttataaagattccataaatgcatgtgatctttgatcaatgatatcttatacaagtgtatcactagaatctattatatttggatttacttattttatataggatttcataaacgcatgtgatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0080D01-qWcjV/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09HBa0080D01.1" temp_strand="-" temp_description="C09HBa0080D01.1  AC214463.1 htgs_phase:3 submitted_to_sgn_as:gb|AC214463.1| upload_account_name:spain (1 - 102374)">
        <position start="88565" stop="87584"/>
      </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="88265" g_stop="87884" g_length="382"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="382" r_length="382" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0080D01.1" gen_strand="-" ref_id="SGN-M193-R" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>382</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0080D01.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M193-R" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="88265" e_stop="87884"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATCTTCAAGTGTCAGTTCAAGTACAGGGGGTCAGGTTGAAGGTTGTTGAACATTTATTTTGTGACCTTTTTAGCTCTAGAA-TTCTGTAGCTAATCAAGTACAGTCCCATAACTTGGGGGCTGTTAGGGTTTTCTGCTGAATGAGGCTGCTTGTCTTTATTTTGGTTAATTGTTTTCTGGAAATTGTTCCTCGTCATAGAGAATAGAAGTAGAAGAAGAAGAAGATAGTATAATCTATTATATTTGTTTTTTACTTAATTTATAAAGTATTCCATAAATGCATGTGATCTTTGATCAATGATATTTTATACAAGTGTATCACTAGAATCTATTATATTTGGATTTACTTATTTTATATAGGATTTCATAAATGCATGTGATC</genome_strand>
        <mrna_strand>CATCTTCAAGTGTCAGCTCAAGTACAGGGGGTCAGGTTGAAGGTTGTTGAACATTTATTTTGTGACCTTTTTAGCTCTAGAATTTCTGTAGCTAATCAAGTACAGTCCCATAACCTAGGGGCTGTTAGGGTTTTCTGCTGAATGAGGCTGCTTGTCTTTATTTTGGTTAATTATTTTCTGGAAATTGTTCCTCGTCATAGAGAATAGAAGTAGAAGAAGAAGAAGATAGTATAATCTATTATATTTGTTTTTTACTTAATTTATAAAG-ATTCCATAAATGCATGTGATCTTTGATCAATGATATCTTATACAAGTGTATCACTAGAATCTATTATATTTGGATTTACTTATTTTATATAGGATTTCATAAACGCATGTGATC</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-C09HBa0080D01-qWcjV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M200-R" ref_strand="+" ref_description="SGN-M200-R TG35-R [rflp_markers_reverse]">
      <seq>ggctgagatgctttgctgattgaagaccatagcttctatattctttctcagtgaggaaacgaggttcactgtcaacctctctaggcatgataaggcggcctgcatgctgctgcctttccctttcatgaccatatgatgaaaaattctcacctgatttgttccttccgtattgcaatccaacatgctccctggaaagttccttgctaggtaaaggtgatgctgatgggggcagactaactggatatgacacagaatgtttaaaagttggatgtagccatggtgctggcgtaaacagctttttcaactgccctacctgctcaaaggcgaaaaacaaggccacaaaattgaaatcaaatgctaggtaaataacaaactatctccaagtagaacttgtcaatgagaattgtgttgttacctgcttaaatgtcaactcagtcttgaacttgtgagttctttcgtcataattctcttgaattgctctcttgaacaaattctccgtcaatggaaggcagtccttgaaaatcctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0080D01-qWcjV/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09HBa0080D01.1" temp_strand="+" temp_description="C09HBa0080D01.1  AC214463.1 htgs_phase:3 submitted_to_sgn_as:gb|AC214463.1| upload_account_name:spain (1 - 102374)">
        <position start="101335" stop="102374"/>
      </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="101635" g_stop="102162" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="527" r_length="527" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0080D01.1" gen_strand="+" ref_id="SGN-M200-R" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>528</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0080D01.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M200-R" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="101635" e_stop="102162"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCTGCAGATGCTTTGCTGATTGAAGACCATAGCTTCTATATTCTTTCTCAGTGAGGAAACGAGGTTCACTGTCAACCTCTCTAGGCATGATAAGGCGGCCTGCATGCTGCTGCCTTTCCCTTTCATGACCATATGATGAAAAATTCTCACCTGATTTGTTCCTTCCGTATTGCAATCCAACATGCTCCCTGGAAAGTTCCTTGCTAGGTAAAGGTGATGCTGATGGGGGCAGACTAACTGGATATGACACAGAATGTTTAAAAGTTGGATGTAGCCATGGTGCTGGCGTAAACAGCTTTTTCAACTGCCCTACCTGCTCAAAGGCGAAAAACAAGGCCACAAAATTGAAATCAAATGCTAGGTAAATAACAAACTATCTCCAAGTAGAACTTGTCAATGAGAATTGTGTTGTTACCTGCTTAAATGTCAACTCAGTCTTGAACTTGTGAGTTCTTTCGTCATAATTCTCTTGAATTGCTCTCTTGAACAAATTCTCCGTCAATGGAAGGCAGTCCTTGAAAATCCTG</genome_strand>
        <mrna_strand>GGCTG-AGATGCTTTGCTGATTGAAGACCATAGCTTCTATATTCTTTCTCAGTGAGGAAACGAGGTTCACTGTCAACCTCTCTAGGCATGATAAGGCGGCCTGCATGCTGCTGCCTTTCCCTTTCATGACCATATGATGAAAAATTCTCACCTGATTTGTTCCTTCCGTATTGCAATCCAACATGCTCCCTGGAAAGTTCCTTGCTAGGTAAAGGTGATGCTGATGGGGGCAGACTAACTGGATATGACACAGAATGTTTAAAAGTTGGATGTAGCCATGGTGCTGGCGTAAACAGCTTTTTCAACTGCCCTACCTGCTCAAAGGCGAAAAACAAGGCCACAAAATTGAAATCAAATGCTAGGTAAATAACAAACTATCTCCAAGTAGAACTTGTCAATGAGAATTGTGTTGTTACCTGCTTAAATGTCAACTCAGTCTTGAACTTGTGAGTTCTTTCGTCATAATTCTCTTGAATTGCTCTCTTGAACAAATTCTCCGTCAATGGAAGGCAGTCCTTGAAAATCCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>6</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="41806" PGL_stop="40551"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="41806" e_stop="41429"/>
            <exon e_start="41332" e_stop="41298"/>
            <exon e_start="40813" e_stop="40551"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.807" acc_prob="0.999" e_score="0.958"/>
          <exon-intron don_prob="0.999" acc_prob="0.971" e_score="1.000"/>
          <exon-only e_score="0.951"/>
        </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="0.958">
            <gDNA_exon_boundary e_start="41806" e_stop="41429" e_length="378"/>
          </exon>
          <intron i_serial="1" don_prob="0.807" acc_prob="0.999">
            <gDNA_intron_boundary i_start="41428" i_stop="41333" i_length="96"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="41332" e_stop="41298" e_length="35"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.971">
            <gDNA_intron_boundary i_start="41297" i_stop="40814" i_length="484"/>
          </intron>
          <exon e_serial="3" e_score="0.951">
            <gDNA_exon_boundary e_start="40813" e_stop="40551" e_length="263"/>
          </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="41806" stop="41429"/>
              <exon start="41332" stop="41298"/>
              <exon start="40813" stop="40551"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8177" 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>GACGCAGGTCAATCAGGTGAGGCTGGGACAAAAGGTGAAATGATAGAACACGAAAGATTTATAGCTACATGTATAGAGATGAAGGATATTGAGACTCAGAATGTGGAAACAAGTGGGTCAGATTCCAGCTCCACGCGAAGTAGGCACCCAACAGATCAAGTTGGGAAAGTTGAGCAAATAAATTGCAATGGTCCTGGAGAGGTTAGAGAAGACGAAACAGTTGAAGCTCAGCATGAAGAGAAGCAACAAAGGAAACGGAAGCGGACCATAATGAATGATAAGCAGATATCACTGGTCGAGAAGGCCCTTATGGGGGAGCCTGATATGCAGCGAAATAAAAACTTATTAGAAAAGTGGGCTGTAAAATTAAGTGATCAT : GGATCAGAGGTTACAAAATCACAGCTCAAGAATTG : GCTAAACAATCGGAAAGCAAGGTTAGCTCGTGCTGCAAAGGATGGGCGTGTGTTGTCTGAAGGGGATAGTCTTGACAAACAAGGTGGGTTGCTCACTCTGCTACCTTGTGGCTCACCTGGAAGTCCTGTCGAGGATGTTGGTATCCTCTCTGCTGCTAGAGAAAATGCACCGAGGCTAACTGGCCTGGCACCGAGCAGCACTTGTCTTACAGAAAACACAACCGCTGTGCCTGCAGCTTCATCAGAACCGGCAGTGTGTGTGG</gDNA_template>
            <first_frame> D  A  G  Q  S  G  E  A  G  T  K  G  E  M  I  E  H  E  R  F  I  A  T  C  I  E  M  K  D  I  E  T  Q  N  V  E  T  S  G  S  D  S  S  S  T  R  S  R  H  P  T  D  Q  V  G  K  V  E  Q  I  N  C  N  G  P  G  E  V  R  E  D  E  T  V  E  A  Q  H  E  E  K  Q  Q  R  K  R  K  R  T  I  M  N  D  K  Q  I  S  L  V  E  K  A  L  M  G  E  P  D  M  Q  R  N  K  N  L  L  E  K  W  A  V  K  L  S  D  H  :  G  S  E  V  T  K  S  Q  L  K  N  W :   L  N  N  R  K  A  R  L  A  R  A  A  K  D  G  R  V  L  S  E  G  D  S  L  D  K  Q  G  G  L  L  T  L  L  P  C  G  S  P  G  S  P  V  E  D  V  G  I  L  S  A  A  R  E  N  A  P  R  L  T  G  L  A  P  S  S  T  C  L  T  E  N  T  T  A  V  P  A  A  S  S  E  P  A  V  C  V  </first_frame>
            <second_frame>  T  Q  V  N  Q  V  R  L  G  Q  K  V  K  *  *  N  T  K  D  L  *  L  H  V  *  R  *  R  I  L  R  L  R  M  W  K  Q  V  G  Q  I  P  A  P  R  E  V  G  T  Q  Q  I  K  L  G  K  L  S  K  *  I  A  M  V  L  E  R  L  E  K  T  K  Q  L  K  L  S  M  K  R  S  N  K  G  N  G  S  G  P  *  *  M  I  S  R  Y  H  W  S  R  R  P  L  W  G  S  L  I  C  S  E  I  K  T  Y  *  K  S  G  L  *  N  *  V  I  M :   D  Q  R  L  Q  N  H  S  S  R  I   : G  *  T  I  G  K  Q  G  *  L  V  L  Q  R  M  G  V  C  C  L  K  G  I  V  L  T  N  K  V  G  C  S  L  C  Y  L  V  A  H  L  E  V  L  S  R  M  L  V  S  S  L  L  L  E  K  M  H  R  G  *  L  A  W  H  R  A  A  L  V  L  Q  K  T  Q  P  L  C  L  Q  L  H  Q  N  R  Q  C  V  W </second_frame>
            <third_frame>   R  R  S  I  R  *  G  W  D  K  R  *  N  D  R  T  R  K  I  Y  S  Y  M  Y  R  D  E  G  Y  *  D  S  E  C  G  N  K  W  V  R  F  Q  L  H  A  K  *  A  P  N  R  S  S  W  E  S  *  A  N  K  L  Q  W  S  W  R  G  *  R  R  R  N  S  *  S  S  A  *  R  E  A  T  K  E  T  E  A  D  H  N  E  *  *  A  D  I  T  G  R  E  G  P  Y  G  G  A  *  Y  A  A  K  *  K  L  I  R  K  V  G  C  K  I  K  *  S   : W  I  R  G  Y  K  I  T  A  Q  E  L  :  A  K  Q  S  E  S  K  V  S  S  C  C  K  G  W  A  C  V  V  *  R  G  *  S  *  Q  T  R  W  V  A  H  S  A  T  L  W  L  T  W  K  S  C  R  G  C  W  Y  P  L  C  C  *  R  K  C  T  E  A  N  W  P  G  T  E  Q  H  L  S  Y  R  K  H  N  R  C  A  C  S  F  I  R  T  G  S  V  C   </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="C09HBa0080D01.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="41806" stop="41429"/>
                    <exon start="41332" stop="41298"/>
                    <exon start="40813" stop="40552"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>675</number_coding_nucleotides>
                  <number_encoded_amino_acids>225</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DAGQSGEAGTKGEMIEHERFIATCIEMKDIETQNVETSGSDSSSTRSRHPTDQVGKVEQINCNGPGEVREDETVEAQHEEKQQRKRKRTIMNDKQISLVEKALMGEPDMQRNKNLLEKWAVKLSDHGSEVTKSQLKNWLNNRKARLARAAKDGRVLSEGDSLDKQGGLLTLLPCGSPGSPVEDVGILSAARENAPRLTGLAPSSTCLTENTTAVPAASSEPAVCV</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="87332" PGL_stop="87819"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="87332" e_stop="87819"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="0.986">
            <gDNA_exon_boundary e_start="87332" e_stop="87819" e_length="488"/>
          </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="87332" stop="87819"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M358-F" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="87332" stop="87790"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M193-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="2" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>AATGAAGTTCAGTTGATAAGCTAAATGGTGGAAATACTAATTTTGATTGACAGTAACTTTGCATTTCAAGGTCCATACCAAAACATTTGCTAACACCAGTTGCTTTGTCAACGAAAACCTTGGCACTCAAAACCCTACCAAAAGGCTGAAATGCATTTGCAAGCTCTTGATCACCAAATTCTTGAGGAATATGGTAAATAAATAGATTAGCACCAGGTGGACCTGTAAACAACAAAATCGTTTTTGATAAGTACAGGTTTAATTTCTACATGTTCAACTACCACTGCCAAGTATACTAGTTCAAGTGACATCTCCACCACTTAATTGCATAAAGCTTTACCAACGACAAATATAACAAACTTGTGCAAGTAATTTGAGTTCCTGTCTATATAGTCCAGAATCTCCATATGCTGCTCATCTCACAAGGTTGGTTAAGGAAATTTTTCAAGTAAAGTTCAAATCAACATGCTGTAAGACTATACTTGCTG</gDNA_template>
            <first_frame> N  E  V  Q  L  I  S  *  M  V  E  I  L  I  L  I  D  S  N  F  A  F  Q  G  P  Y  Q  N  I  C  *  H  Q  L  L  C  Q  R  K  P  W  H  S  K  P  Y  Q  K  A  E  M  H  L  Q  A  L  D  H  Q  I  L  E  E  Y  G  K  *  I  D  *  H  Q  V  D  L  *  T  T  K  S  F  L  I  S  T  G  L  I  S  T  C  S  T  T  T  A  K  Y  T  S  S  S  D  I  S  T  T  *  L  H  K  A  L  P  T  T  N  I  T  N  L  C  K  *  F  E  F  L  S  I  *  S  R  I  S  I  C  C  S  S  H  K  V  G  *  G  N  F  S  S  K  V  Q  I  N  M  L  *  D  Y  T  C   </first_frame>
            <second_frame>  M  K  F  S  *  *  A  K  W  W  K  Y  *  F  *  L  T  V  T  L  H  F  K  V  H  T  K  T  F  A  N  T  S  C  F  V  N  E  N  L  G  T  Q  N  P  T  K  R  L  K  C  I  C  K  L  L  I  T  K  F  L  R  N  M  V  N  K  *  I  S  T  R  W  T  C  K  Q  Q  N  R  F  *  *  V  Q  V  *  F  L  H  V  Q  L  P  L  P  S  I  L  V  Q  V  T  S  P  P  L  N  C  I  K  L  Y  Q  R  Q  I  *  Q  T  C  A  S  N  L  S  S  C  L  Y  S  P  E  S  P  Y  A  A  H  L  T  R  L  V  K  E  I  F  Q  V  K  F  K  S  T  C  C  K  T  I  L  A  </second_frame>
            <third_frame>   *  S  S  V  D  K  L  N  G  G  N  T  N  F  D  *  Q  *  L  C  I  S  R  S  I  P  K  H  L  L  T  P  V  A  L  S  T  K  T  L  A  L  K  T  L  P  K  G  *  N  A  F  A  S  S  *  S  P  N  S  *  G  I  W  *  I  N  R  L  A  P  G  G  P  V  N  N  K  I  V  F  D  K  Y  R  F  N  F  Y  M  F  N  Y  H  C  Q  V  Y  *  F  K  *  H  L  H  H  L  I  A  *  S  F  T  N  D  K  Y  N  K  L  V  Q  V  I  *  V  P  V  Y  I  V  Q  N  L  H  M  L  L  I  S  Q  G  W  L  R  K  F  F  K  *  S  S  N  Q  H  A  V  R  L  Y  L  L </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C09HBa0080D01.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="88370" PGL_stop="87753"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="88370" e_stop="88352"/>
            <exon e_start="88270" e_stop="87753"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.900" acc_prob="0.000" e_score="0.737"/>
          <exon-only e_score="0.940"/>
        </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="0.737">
            <gDNA_exon_boundary e_start="88370" e_stop="88352" e_length="19"/>
          </exon>
          <intron i_serial="1" don_prob="0.900" acc_prob="0.000">
            <gDNA_intron_boundary i_start="88351" i_stop="88271" i_length="81"/>
          </intron>
          <exon e_serial="2" e_score="0.940">
            <gDNA_exon_boundary e_start="88270" e_stop="87753" e_length="518"/>
          </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="88370" stop="88352"/>
              <exon start="88270" stop="87753"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M358-R" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="88265" stop="87884"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M193-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="3" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GGATTCAGTATTCCATGCC : TGCAGCATCTTCAAGTGTCAGTTCAAGTACAGGGGGTCAGGTTGAAGGTTGTTGAACATTTATTTTGTGACCTTTTTAGCTCTAGAATTCTGTAGCTAATCAAGTACAGTCCCATAACTTGGGGGCTGTTAGGGTTTTCTGCTGAATGAGGCTGCTTGTCTTTATTTTGGTTAATTGTTTTCTGGAAATTGTTCCTCGTCATAGAGAATAGAAGTAGAAGAAGAAGAAGATAGTATAATCTATTATATTTGTTTTTTACTTAATTTATAAAGTATTCCATAAATGCATGTGATCTTTGATCAATGATATTTTATACAAGTGTATCACTAGAATCTATTATATTTGGATTTACTTATTTTATATAGGATTTCATAAATGCATGTGATCTCTGACTAATGATATCTAATACATGTGTCATAGCAAGTATCGAAAAGGCTATGTAGCTATGTTGCAGCAAGTATAGTCTTACAGCATGTTGATTTGAACTTTACTTGAAAAATTTCCTTAACCAACCTTGT</gDNA_template>
            <first_frame> G  F  S  I  P  C   : L  Q  H  L  Q  V  S  V  Q  V  Q  G  V  R  L  K  V  V  E  H  L  F  C  D  L  F  S  S  R  I  L  *  L  I  K  Y  S  P  I  T  W  G  L  L  G  F  S  A  E  *  G  C  L  S  L  F  W  L  I  V  F  W  K  L  F  L  V  I  E  N  R  S  R  R  R  R  R  *  Y  N  L  L  Y  L  F  F  T  *  F  I  K  Y  S  I  N  A  C  D  L  *  S  M  I  F  Y  T  S  V  S  L  E  S  I  I  F  G  F  T  Y  F  I  *  D  F  I  N  A  C  D  L  *  L  M  I  S  N  T  C  V  I  A  S  I  E  K  A  M  *  L  C  C  S  K  Y  S  L  T  A  C  *  F  E  L  Y  L  K  N  F  L  N  Q  P  C </first_frame>
            <second_frame>  D  S  V  F  H  A  :  C  S  I  F  K  C  Q  F  K  Y  R  G  S  G  *  R  L  L  N  I  Y  F  V  T  F  L  A  L  E  F  C  S  *  S  S  T  V  P  *  L  G  G  C  *  G  F  L  L  N  E  A  A  C  L  Y  F  G  *  L  F  S  G  N  C  S  S  S  *  R  I  E  V  E  E  E  E  D  S  I  I  Y  Y  I  C  F  L  L  N  L  *  S  I  P  *  M  H  V  I  F  D  Q  *  Y  F  I  Q  V  Y  H  *  N  L  L  Y  L  D  L  L  I  L  Y  R  I  S  *  M  H  V  I  S  D  *  *  Y  L  I  H  V  S  *  Q  V  S  K  R  L  C  S  Y  V  A  A  S  I  V  L  Q  H  V  D  L  N  F  T  *  K  I  S  L  T  N  L   </second_frame>
            <third_frame>   I  Q  Y  S  M  P :   A  A  S  S  S  V  S  S  S  T  G  G  Q  V  E  G  C  *  T  F  I  L  *  P  F  *  L  *  N  S  V  A  N  Q  V  Q  S  H  N  L  G  A  V  R  V  F  C  *  M  R  L  L  V  F  I  L  V  N  C  F  L  E  I  V  P  R  H  R  E  *  K  *  K  K  K  K  I  V  *  S  I  I  F  V  F  Y  L  I  Y  K  V  F  H  K  C  M  *  S  L  I  N  D  I  L  Y  K  C  I  T  R  I  Y  Y  I  W  I  Y  L  F  Y  I  G  F  H  K  C  M  *  S  L  T  N  D  I  *  Y  M  C  H  S  K  Y  R  K  G  Y  V  A  M  L  Q  Q  V  *  S  Y  S  M  L  I  *  T  L  L  E  K  F  P  *  P  T  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C09HBa0080D01.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="+" PGL_start="101635" PGL_stop="102162"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="101635" e_stop="102162"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.996"/>
        </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="0.996">
            <gDNA_exon_boundary e_start="101635" e_stop="102162" e_length="528"/>
          </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="101635" stop="102162"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M200-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="4" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GCCTGCAGATGCTTTGCTGATTGAAGACCATAGCTTCTATATTCTTTCTCAGTGAGGAAACGAGGTTCACTGTCAACCTCTCTAGGCATGATAAGGCGGCCTGCATGCTGCTGCCTTTCCCTTTCATGACCATATGATGAAAAATTCTCACCTGATTTGTTCCTTCCGTATTGCAATCCAACATGCTCCCTGGAAAGTTCCTTGCTAGGTAAAGGTGATGCTGATGGGGGCAGACTAACTGGATATGACACAGAATGTTTAAAAGTTGGATGTAGCCATGGTGCTGGCGTAAACAGCTTTTTCAACTGCCCTACCTGCTCAAAGGCGAAAAACAAGGCCACAAAATTGAAATCAAATGCTAGGTAAATAACAAACTATCTCCAAGTAGAACTTGTCAATGAGAATTGTGTTGTTACCTGCTTAAATGTCAACTCAGTCTTGAACTTGTGAGTTCTTTCGTCATAATTCTCTTGAATTGCTCTCTTGAACAAATTCTCCGTCAATGGAAGGCAGTCCTTGAAAATCCTG</gDNA_template>
            <first_frame> A  C  R  C  F  A  D  *  R  P  *  L  L  Y  S  F  S  V  R  K  R  G  S  L  S  T  S  L  G  M  I  R  R  P  A  C  C  C  L  S  L  S  *  P  Y  D  E  K  F  S  P  D  L  F  L  P  Y  C  N  P  T  C  S  L  E  S  S  L  L  G  K  G  D  A  D  G  G  R  L  T  G  Y  D  T  E  C  L  K  V  G  C  S  H  G  A  G  V  N  S  F  F  N  C  P  T  C  S  K  A  K  N  K  A  T  K  L  K  S  N  A  R  *  I  T  N  Y  L  Q  V  E  L  V  N  E  N  C  V  V  T  C  L  N  V  N  S  V  L  N  L  *  V  L  S  S  *  F  S  *  I  A  L  L  N  K  F  S  V  N  G  R  Q  S  L  K  I  L </first_frame>
            <second_frame>  P  A  D  A  L  L  I  E  D  H  S  F  Y  I  L  S  Q  *  G  N  E  V  H  C  Q  P  L  *  A  *  *  G  G  L  H  A  A  A  F  P  F  H  D  H  M  M  K  N  S  H  L  I  C  S  F  R  I  A  I  Q  H  A  P  W  K  V  P  C  *  V  K  V  M  L  M  G  A  D  *  L  D  M  T  Q  N  V  *  K  L  D  V  A  M  V  L  A  *  T  A  F  S  T  A  L  P  A  Q  R  R  K  T  R  P  Q  N  *  N  Q  M  L  G  K  *  Q  T  I  S  K  *  N  L  S  M  R  I  V  L  L  P  A  *  M  S  T  Q  S  *  T  C  E  F  F  R  H  N  S  L  E  L  L  S  *  T  N  S  P  S  M  E  G  S  P  *  K  S   </second_frame>
            <third_frame>   L  Q  M  L  C  *  L  K  T  I  A  S  I  F  F  L  S  E  E  T  R  F  T  V  N  L  S  R  H  D  K  A  A  C  M  L  L  P  F  P  F  M  T  I  *  *  K  I  L  T  *  F  V  P  S  V  L  Q  S  N  M  L  P  G  K  F  L  A  R  *  R  *  C  *  W  G  Q  T  N  W  I  *  H  R  M  F  K  S  W  M  *  P  W  C  W  R  K  Q  L  F  Q  L  P  Y  L  L  K  G  E  K  Q  G  H  K  I  E  I  K  C  *  V  N  N  K  L  S  P  S  R  T  C  Q  *  E  L  C  C  Y  L  L  K  C  Q  L  S  L  E  L  V  S  S  F  V  I  I  L  L  N  C  S  L  E  Q  I  L  R  Q  W  K  A  V  L  E  N  P  </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="C09HBa0080D01.1" strand="+"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="101764" stop="102000"/>
                  </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>PYDEKFSPDLFLPYCNPTCSLESSLLGKGDADGGRLTGYDTECLKVGCSHGAGVNSFFNCPTCSKAKNKATKLKSNAR*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 9 chains have been computed
$ 
$ memory statistics:
$ 12976 bytes spliced alignments in total
$ 6 spliced alignments have been stored
$ 2162 bytes was the average size of a spliced alignment
$ 9152 bytes predicted gene locations in total
$ 4 predicted gene locations have been stored
$ 2288 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: 2009-01-17 23:34:03
-->
