<?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="2008-02-20 11:21:06"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C09SLe0017M14-DWdrt/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/cxgn-bacpublish-resources-R6wouW/sgn_marker_seqs" 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/cxgn-bacpublish-resources-R6wouW/sgn_marker_seqs" ref_id="SGN-M7680-2" ref_strand="+" ref_description="SGN-M7680-2 C2_At3g09925-2 [cosii_markers]">
      <seq>ctttagagaaattaagtgagaataatgaaaatgaaggttgttttcatagtttcattgattttggtgttttctaatttcattgaagcctcagatggaatggatgtcatgcatattgctggcaaagttctttgccaagattgtactcaaggatggaatgaatgggttgatggtgctaaagccatcaaaggtagcatagtatctctgacgtgtctggatgagagaagaagagtgatgtattacggaagtgacctcacggatgaagttggaattttcgacttaattgttaaccaaacttgtcatggcaaaacaattaagccacaaaattgctttgtgagattggtttcttcacctgaccctgtttgcaatattgccaccgacttcgccggaggaaaatccggtgtaaagctccaccgtccgacggtggtgtaccgggacttgctcaaatatgtgcttagccctttctactacacaactcccatgtgtgatgaacctaatattaatgatgatgataatttggagactaatgatgataaaaatcaaaacaactattaaattaagttcttgatttttttaatgtttgttttaaatttcccattttgcaaatggaaaatgacaatttatctatgttggatgagttgataattttattttgtactattaattacgtgcaaaggacatgtataagtttgaattataaagtctctcttagtttcaactaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09SLe0017M14-DWdrt/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09SLe0017M14.1" temp_strand="-" temp_description="C09SLe0017M14.1  AC216721.1 htgs_phase:1 submitted_to_sgn_as:gnl|gbrgsp|C09SLe0017M14 upload_account_name:spain (1 - 103916)">
        <position start="75109" stop="71927"/>
      </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="74810" g_stop="74624" g_length="187"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="187" r_length="187" r_score="0.925"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="74623" i_stop="74115" i_length="509">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="74114" g_stop="73837" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="188" r_stop="465" r_length="278" r_score="0.964"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="73836" i_stop="72499" i_length="1338">
            <donor d_prob="0.000" d_score="0.98"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="72498" g_stop="72227" g_length="272"/>
          <reference_exon_boundary r_type="cDNA" r_start="466" r_stop="724" r_length="259" r_score="0.912"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09SLe0017M14.1" gen_strand="-" ref_id="SGN-M7680-2" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>737</cumulative_length_of_scored_exons>
        <coverage percentage="1.018" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09SLe0017M14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M7680-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="74810" e_stop="74624"/>
          <exon e_start="74114" e_stop="73837"/>
          <exon e_start="72498" e_stop="72227"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTAGAGAAATAAAGTGAGAATTATGAAAATGAATATAGTTTTTATAGCCTCATTAATTTTGGTGTTTTCTAATTTTATTGAAGCCTCAGATGGAATGGATGTTATGCATATTTCTGGCAAAGTTCTTTGCCAAGATTGTACTCAAGGATGGAATGAATGGGTTGATGGTGCCAAAGCCATCAAAGGTATGTAATTTATCGTAACAAAATTCAGAATTTAGACGTTATAAATTTTGAACTAATATAGAGAATAGATTCATAAATCATAAATGTATAACTTAACTCTATCTACGTAATGTCTAAACACGTCTATCTATGTCAGATGAACACAATATATGAAATTAAACACATCTATGTAAGACAGACTGAAATTATCAAATTGTGATATGGGGATGAATAGAAGTGAATAATATTATAGTTGTGTGAATTGTATTATGATCCATTGGTTAACTTATTTTTACTTATTTATATTAAACTTTGAATTTATAATATATTTAGTTGTTCACTCAAAAAATTGTTGGCAAATGTATAATATATGTATATATTATGTATACTGCCGAGAGGCTATAAATATTTTTGGCCGAAGCAACGACATACAATAACTTATTTATAAATTCAATCCATTTTGATCCGTCTTATCATATTTAACATATAAGATCACATTCATTGTGTAACTTGCATCGAATCTCGTGCAGGTAGCATCGTATCTCTGACGTGCCTGGACGAGAGAAGAAGAGTGATGTATTACGGAAGTGACCTCACAGATGAAGCTGGAATTTTCGATTTGATTGTTAACCAAACTTGTCATGGCAAAACAATTAAGCCACAAAATTGCTTTGTGAGATTGGTTTCTTCACCTGATCCTGTTTGTAATATTGCCACCGACTTCGCCGGAGGAAAATCCGGTGTAAAGCTCCACCGTCCGACGGTGGTTTACCGGGACTTGCTCAAATATGTGCTTAGCCCTTTCTACTACACAACTCTGATGAATCCCCTAATGATTTTTATCAAAATCATTAAGTTAAGGTAGATACACATCTTGTCATATGATCAAATGGTTTCGCCAAAAATCAATAATCAGACAACAAAATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAATTACACTTAAAACGACTCAACAGCTTAACGTTGGCTTGCCACGCCTTACTTGACTGTAAAACTCTCACTCTTACCGAACTTGGCCGTAACCTGCCAACCAAAGCGAGAACAAAACATAACATCAAACGAATCGACCGATTGTTAGGTAATCGTCACCTCCACAAAGAGCGACTCGCTGTATACCGTTGGCATGCTAGCTTTATCTGTTCGGGCAATACGATGCCCATTGTACTTGTTGACTGGTCTGATATCCGTGAGCAAAAACGGCTTATGGTATTGCGAGCTTCAGTCGCACTACACGGTCGTTCTGTTACTCTTTATGAGAAAGCGTTCCCGCTTTCAGAGCAATGTTCAAAGAAAGCTCATGACCAATTTCTAGCCGACCTTGCGAGCATTCTACCGAGTAACACCACACCGCTCATTGTCAGTGATGCTGGCTTTAAAGTGCCATGGTATAAATCCGTTGAGAAGCTGGGTTGGTACTGGTTAAGTCGAGTAAGAGGAAAAGTACAATATGCAGACCTAGGAGCGGAAAACTGGAAACCTATCAGCAACTTACATGATATGTCATCTAGTCACTCAAAGACTTTAGGCTATAAGAGGCTGACTAAAAGCAATCCAATCTCATGCCAAATTCTATTGTATAAATCTCGCTCTAAAGGCCGAAAAAATCAGCGCTCGACACGGACTCATTGTCACCACCCGTCACCTAAAATCTACTCAGCGTCGGCAAAGGAGCCATGGATTCTAGCAACTAACTTACCTGTTGAAATTCGAACACCCAAACAACTTGTTAATATCTATTCGAAGCGAATGCAGATTGAAGAAACCTTCCGAGACTTGAAAAGTCCTGCCTACGGACTAGGCCTACGCCATAGCCGAACGAGCAGCTCAGAGCGTTTTGATATCATGCTGCTAATCGCCCTGATGCTTCAACTAACATGTTGGCTTGCGGGCGTTCATGCTCAGAAACAAGGTTGGGACAAGCACTTCCAGGCTAACACAGTCAGAAATCGAAACGTACTCTCAACAGTTCGCTTAGGCATGGAAGTTTTGCGGCATTCTGGCTACACAATAACAAGGGAAGACTTACTCGTGGCTGCAACCCTACTAGCTCAAAATTTATTCACACATGGTTACGCTTTGGGGAAATTATGAGGGGATCTCTCAGTACACAACTCCCATGTGTGATGAACCTAATATTAATGATGATGATAATTTGGAGACTAATGATGATAAAAATCAAAACAATTATTAAATTAAGTTCTTATTTTTAATTTTTTCTTCTTCTAATGTTTGTGTTTAATTTCCCATTTTGTAAATGGAAAATGACAATTTATCTATGTTGGATGAGTTGATGATTTTATTTTGTACTATTAATTACGTGCAAAGGACATATATAAGTTTGAATTTTAAAGTCTCTCTTAGTTTCAACTATATATA</genome_strand>
        <mrna_strand>CTTTAGAGAAATTAAGTGAGAATAATGAAAATGAAGGTTGTTTTCATAGTTTCATTGATTTTGGTGTTTTCTAATTTCATTGAAGCCTCAGATGGAATGGATGTCATGCATATTGCTGGCAAAGTTCTTTGCCAAGATTGTACTCAAGGATGGAATGAATGGGTTGATGGTGCTAAAGCCATCAAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAGCATAGTATCTCTGACGTGTCTGGATGAGAGAAGAAGAGTGATGTATTACGGAAGTGACCTCACGGATGAAGTTGGAATTTTCGACTTAATTGTTAACCAAACTTGTCATGGCAAAACAATTAAGCCACAAAATTGCTTTGTGAGATTGGTTTCTTCACCTGACCCTGTTTGCAATATTGCCACCGACTTCGCCGGAGGAAAATCCGGTGTAAAGCTCCACCGTCCGACGGTGGTGTACCGGGACTTGCTCAAATATGTGCTTAGCCCTTTCTAC..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TACACAACTCCCATGTGTGATGAACCTAATATTAATGATGATGATAATTTGGAGACTAATGATGATAAAAATCAAAACAACTATTAAATTAAGTTC------TTGA----TT-TT-TT-TAATGTTTGTTTTAAATTTCCCATTTTGCAAATGGAAAATGACAATTTATCTATGTTGGATGAGTTGATAATTTTATTTTGTACTATTAATTACGTGCAAAGGACATGTATAAGTTTGAATTATAAAGTCTCTCTTAGTTTCAACTAAAAAAA</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/cxgn-bacpublish-resources-R6wouW/sgn_marker_seqs" ref_id="SGN-M7680" ref_strand="+" ref_description="SGN-M7680 C2_At3g09925 [cosii_markers]">
      <seq>tttgaacaaatattatttagagaaataaagtgagaattatgaaaatgaatatagtttttatagcctcattaattttggtgttttctaattttattgaagcctcagatggaatggatgttatgcatatttctggcaaagttctttgccaagattgtactcaaggatggaatgaatgggttgatggtgccaaagccatcaaaggtagcatcgtatctctgacgtgcctggacgagagaagaagagtgatgtattacggaagtgacctcacagatgaagctggaattttcgatttgattgttaaccaaacttgtcatggcaaaacaattaagccacaaaattgctttgtgagattggtttcttcacctgatcctgtttgtaatattgccaccgacttcgccggaggaaaatccggtgtaaagctccaccgtccgacggtggtttaccgggacttgctcaaatatgtgcttagccctttctactacacaactcccatgtgtgatgaacctaatattaatgatgatgataatttggagactaatgatgataaaaatcaaaacaattattaaattaagttcttatttttaattttttcttcttctaatgtttgtgtttaatttcccattttgtaaatggaaaatgacaatttatctatgttggatgagttgatgattttattttgtactattaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09SLe0017M14-DWdrt/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09SLe0017M14.1" temp_strand="-" temp_description="C09SLe0017M14.1  AC216721.1 htgs_phase:1 submitted_to_sgn_as:gnl|gbrgsp|C09SLe0017M14 upload_account_name:spain (1 - 103916)">
        <position start="75124" stop="71990"/>
      </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="74824" g_stop="74624" g_length="201"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="201" r_length="201" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="74623" i_stop="74115" i_length="509">
            <donor d_prob="1.000" 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="74114" g_stop="73837" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="202" r_stop="479" r_length="278" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="73836" i_stop="72499" i_length="1338">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="72498" g_stop="72280" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="480" r_stop="698" r_length="219" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09SLe0017M14.1" gen_strand="-" ref_id="SGN-M7680" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>698</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09SLe0017M14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M7680" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="74824" e_stop="74624"/>
          <exon e_start="74114" e_stop="73837"/>
          <exon e_start="72498" e_stop="72280"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGAACAAATATTATTTAGAGAAATAAAGTGAGAATTATGAAAATGAATATAGTTTTTATAGCCTCATTAATTTTGGTGTTTTCTAATTTTATTGAAGCCTCAGATGGAATGGATGTTATGCATATTTCTGGCAAAGTTCTTTGCCAAGATTGTACTCAAGGATGGAATGAATGGGTTGATGGTGCCAAAGCCATCAAAGGTATGTAATTTATCGTAACAAAATTCAGAATTTAGACGTTATAAATTTTGAACTAATATAGAGAATAGATTCATAAATCATAAATGTATAACTTAACTCTATCTACGTAATGTCTAAACACGTCTATCTATGTCAGATGAACACAATATATGAAATTAAACACATCTATGTAAGACAGACTGAAATTATCAAATTGTGATATGGGGATGAATAGAAGTGAATAATATTATAGTTGTGTGAATTGTATTATGATCCATTGGTTAACTTATTTTTACTTATTTATATTAAACTTTGAATTTATAATATATTTAGTTGTTCACTCAAAAAATTGTTGGCAAATGTATAATATATGTATATATTATGTATACTGCCGAGAGGCTATAAATATTTTTGGCCGAAGCAACGACATACAATAACTTATTTATAAATTCAATCCATTTTGATCCGTCTTATCATATTTAACATATAAGATCACATTCATTGTGTAACTTGCATCGAATCTCGTGCAGGTAGCATCGTATCTCTGACGTGCCTGGACGAGAGAAGAAGAGTGATGTATTACGGAAGTGACCTCACAGATGAAGCTGGAATTTTCGATTTGATTGTTAACCAAACTTGTCATGGCAAAACAATTAAGCCACAAAATTGCTTTGTGAGATTGGTTTCTTCACCTGATCCTGTTTGTAATATTGCCACCGACTTCGCCGGAGGAAAATCCGGTGTAAAGCTCCACCGTCCGACGGTGGTTTACCGGGACTTGCTCAAATATGTGCTTAGCCCTTTCTACTACACAACTCTGATGAATCCCCTAATGATTTTTATCAAAATCATTAAGTTAAGGTAGATACACATCTTGTCATATGATCAAATGGTTTCGCCAAAAATCAATAATCAGACAACAAAATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAATTACACTTAAAACGACTCAACAGCTTAACGTTGGCTTGCCACGCCTTACTTGACTGTAAAACTCTCACTCTTACCGAACTTGGCCGTAACCTGCCAACCAAAGCGAGAACAAAACATAACATCAAACGAATCGACCGATTGTTAGGTAATCGTCACCTCCACAAAGAGCGACTCGCTGTATACCGTTGGCATGCTAGCTTTATCTGTTCGGGCAATACGATGCCCATTGTACTTGTTGACTGGTCTGATATCCGTGAGCAAAAACGGCTTATGGTATTGCGAGCTTCAGTCGCACTACACGGTCGTTCTGTTACTCTTTATGAGAAAGCGTTCCCGCTTTCAGAGCAATGTTCAAAGAAAGCTCATGACCAATTTCTAGCCGACCTTGCGAGCATTCTACCGAGTAACACCACACCGCTCATTGTCAGTGATGCTGGCTTTAAAGTGCCATGGTATAAATCCGTTGAGAAGCTGGGTTGGTACTGGTTAAGTCGAGTAAGAGGAAAAGTACAATATGCAGACCTAGGAGCGGAAAACTGGAAACCTATCAGCAACTTACATGATATGTCATCTAGTCACTCAAAGACTTTAGGCTATAAGAGGCTGACTAAAAGCAATCCAATCTCATGCCAAATTCTATTGTATAAATCTCGCTCTAAAGGCCGAAAAAATCAGCGCTCGACACGGACTCATTGTCACCACCCGTCACCTAAAATCTACTCAGCGTCGGCAAAGGAGCCATGGATTCTAGCAACTAACTTACCTGTTGAAATTCGAACACCCAAACAACTTGTTAATATCTATTCGAAGCGAATGCAGATTGAAGAAACCTTCCGAGACTTGAAAAGTCCTGCCTACGGACTAGGCCTACGCCATAGCCGAACGAGCAGCTCAGAGCGTTTTGATATCATGCTGCTAATCGCCCTGATGCTTCAACTAACATGTTGGCTTGCGGGCGTTCATGCTCAGAAACAAGGTTGGGACAAGCACTTCCAGGCTAACACAGTCAGAAATCGAAACGTACTCTCAACAGTTCGCTTAGGCATGGAAGTTTTGCGGCATTCTGGCTACACAATAACAAGGGAAGACTTACTCGTGGCTGCAACCCTACTAGCTCAAAATTTATTCACACATGGTTACGCTTTGGGGAAATTATGAGGGGATCTCTCAGTACACAACTCCCATGTGTGATGAACCTAATATTAATGATGATGATAATTTGGAGACTAATGATGATAAAAATCAAAACAATTATTAAATTAAGTTCTTATTTTTAATTTTTTCTTCTTCTAATGTTTGTGTTTAATTTCCCATTTTGTAAATGGAAAATGACAATTTATCTATGTTGGATGAGTTGATGATTTTATTTTGTACTATTAATTACGTGCAA</genome_strand>
        <mrna_strand>TTTGAACAAATATTATTTAGAGAAATAAAGTGAGAATTATGAAAATGAATATAGTTTTTATAGCCTCATTAATTTTGGTGTTTTCTAATTTTATTGAAGCCTCAGATGGAATGGATGTTATGCATATTTCTGGCAAAGTTCTTTGCCAAGATTGTACTCAAGGATGGAATGAATGGGTTGATGGTGCCAAAGCCATCAAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAGCATCGTATCTCTGACGTGCCTGGACGAGAGAAGAAGAGTGATGTATTACGGAAGTGACCTCACAGATGAAGCTGGAATTTTCGATTTGATTGTTAACCAAACTTGTCATGGCAAAACAATTAAGCCACAAAATTGCTTTGTGAGATTGGTTTCTTCACCTGATCCTGTTTGTAATATTGCCACCGACTTCGCCGGAGGAAAATCCGGTGTAAAGCTCCACCGTCCGACGGTGGTTTACCGGGACTTGCTCAAATATGTGCTTAGCCCTTTCTAC..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TACACAACTCCCATGTGTGATGAACCTAATATTAATGATGATGATAATTTGGAGACTAATGATGATAAAAATCAAAACAATTATTAAATTAAGTTCTTATTTTTAATTTTTTCTTCTTCTAATGTTTGTGTTTAATTTCCCATTTTGTAAATGGAAAATGACAATTTATCTATGTTGGATGAGTTGATGATTTTATTTTGTACTATTAAAAAAAAAAAA</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/cxgn-bacpublish-resources-R6wouW/sgn_marker_seqs" ref_id="SGN-M2181" ref_strand="+" ref_description="SGN-M2181 T1673 [cos_markers]">
      <seq>ttgaacaaatattatttagagaaataaagtgagaattatgaaaatgaatatagtttttatagcctcattaattttggtgttttctaattttattgaagcctcagatggaatggatgttatgcatatttctggcaaagttctttgccaagattgtactcaaggatggaatgaatgggttgatggtgccaaagccatcaaaggtagcatcgtatctctgacgtgcctggacgagagaagaagagtgatgtattacggaagtgacctcacagatgaagctggaattttcgatttgattgttaaccaaacttgtcatggcaaaacaattaagccacaaaattgctttgtgagattggtttcttcacctgatcctgtttgtaatattgccaccgacttcgccggaggaaaatccggtgtaaagctccaccgtccgacggtggtttaccgggacttgctcaaatatgtgcttagccctttctactacacaactcccatgtgtgatgaacctaatattaatgatgatgataatttggagactaatgatgataaaaatcaaaacaattattaaattaagttcttatttttaattttttcttcttcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09SLe0017M14-DWdrt/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09SLe0017M14.1" temp_strand="-" temp_description="C09SLe0017M14.1  AC216721.1 htgs_phase:1 submitted_to_sgn_as:gnl|gbrgsp|C09SLe0017M14 upload_account_name:spain (1 - 103916)">
        <position start="75123" stop="72078"/>
      </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="74823" g_stop="74624" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="200" r_length="200" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="74623" i_stop="74115" i_length="509">
            <donor d_prob="1.000" 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="74114" g_stop="73837" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="201" r_stop="478" r_length="278" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="73836" i_stop="72499" i_length="1338">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="72498" g_stop="72378" g_length="121"/>
          <reference_exon_boundary r_type="cDNA" r_start="479" r_stop="599" r_length="121" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09SLe0017M14.1" gen_strand="-" ref_id="SGN-M2181" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>599</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09SLe0017M14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M2181" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="74823" e_stop="74624"/>
          <exon e_start="74114" e_stop="73837"/>
          <exon e_start="72498" e_stop="72378"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGAACAAATATTATTTAGAGAAATAAAGTGAGAATTATGAAAATGAATATAGTTTTTATAGCCTCATTAATTTTGGTGTTTTCTAATTTTATTGAAGCCTCAGATGGAATGGATGTTATGCATATTTCTGGCAAAGTTCTTTGCCAAGATTGTACTCAAGGATGGAATGAATGGGTTGATGGTGCCAAAGCCATCAAAGGTATGTAATTTATCGTAACAAAATTCAGAATTTAGACGTTATAAATTTTGAACTAATATAGAGAATAGATTCATAAATCATAAATGTATAACTTAACTCTATCTACGTAATGTCTAAACACGTCTATCTATGTCAGATGAACACAATATATGAAATTAAACACATCTATGTAAGACAGACTGAAATTATCAAATTGTGATATGGGGATGAATAGAAGTGAATAATATTATAGTTGTGTGAATTGTATTATGATCCATTGGTTAACTTATTTTTACTTATTTATATTAAACTTTGAATTTATAATATATTTAGTTGTTCACTCAAAAAATTGTTGGCAAATGTATAATATATGTATATATTATGTATACTGCCGAGAGGCTATAAATATTTTTGGCCGAAGCAACGACATACAATAACTTATTTATAAATTCAATCCATTTTGATCCGTCTTATCATATTTAACATATAAGATCACATTCATTGTGTAACTTGCATCGAATCTCGTGCAGGTAGCATCGTATCTCTGACGTGCCTGGACGAGAGAAGAAGAGTGATGTATTACGGAAGTGACCTCACAGATGAAGCTGGAATTTTCGATTTGATTGTTAACCAAACTTGTCATGGCAAAACAATTAAGCCACAAAATTGCTTTGTGAGATTGGTTTCTTCACCTGATCCTGTTTGTAATATTGCCACCGACTTCGCCGGAGGAAAATCCGGTGTAAAGCTCCACCGTCCGACGGTGGTTTACCGGGACTTGCTCAAATATGTGCTTAGCCCTTTCTACTACACAACTCTGATGAATCCCCTAATGATTTTTATCAAAATCATTAAGTTAAGGTAGATACACATCTTGTCATATGATCAAATGGTTTCGCCAAAAATCAATAATCAGACAACAAAATGTGCGAACTCGATATTTTACACGACTCTCTTTACCAATTCTGCCCCGAATTACACTTAAAACGACTCAACAGCTTAACGTTGGCTTGCCACGCCTTACTTGACTGTAAAACTCTCACTCTTACCGAACTTGGCCGTAACCTGCCAACCAAAGCGAGAACAAAACATAACATCAAACGAATCGACCGATTGTTAGGTAATCGTCACCTCCACAAAGAGCGACTCGCTGTATACCGTTGGCATGCTAGCTTTATCTGTTCGGGCAATACGATGCCCATTGTACTTGTTGACTGGTCTGATATCCGTGAGCAAAAACGGCTTATGGTATTGCGAGCTTCAGTCGCACTACACGGTCGTTCTGTTACTCTTTATGAGAAAGCGTTCCCGCTTTCAGAGCAATGTTCAAAGAAAGCTCATGACCAATTTCTAGCCGACCTTGCGAGCATTCTACCGAGTAACACCACACCGCTCATTGTCAGTGATGCTGGCTTTAAAGTGCCATGGTATAAATCCGTTGAGAAGCTGGGTTGGTACTGGTTAAGTCGAGTAAGAGGAAAAGTACAATATGCAGACCTAGGAGCGGAAAACTGGAAACCTATCAGCAACTTACATGATATGTCATCTAGTCACTCAAAGACTTTAGGCTATAAGAGGCTGACTAAAAGCAATCCAATCTCATGCCAAATTCTATTGTATAAATCTCGCTCTAAAGGCCGAAAAAATCAGCGCTCGACACGGACTCATTGTCACCACCCGTCACCTAAAATCTACTCAGCGTCGGCAAAGGAGCCATGGATTCTAGCAACTAACTTACCTGTTGAAATTCGAACACCCAAACAACTTGTTAATATCTATTCGAAGCGAATGCAGATTGAAGAAACCTTCCGAGACTTGAAAAGTCCTGCCTACGGACTAGGCCTACGCCATAGCCGAACGAGCAGCTCAGAGCGTTTTGATATCATGCTGCTAATCGCCCTGATGCTTCAACTAACATGTTGGCTTGCGGGCGTTCATGCTCAGAAACAAGGTTGGGACAAGCACTTCCAGGCTAACACAGTCAGAAATCGAAACGTACTCTCAACAGTTCGCTTAGGCATGGAAGTTTTGCGGCATTCTGGCTACACAATAACAAGGGAAGACTTACTCGTGGCTGCAACCCTACTAGCTCAAAATTTATTCACACATGGTTACGCTTTGGGGAAATTATGAGGGGATCTCTCAGTACACAACTCCCATGTGTGATGAACCTAATATTAATGATGATGATAATTTGGAGACTAATGATGATAAAAATCAAAACAATTATTAAATTAAGTTCTTATTTTTAATTTTTTCTTCTTCTA</genome_strand>
        <mrna_strand>TTGAACAAATATTATTTAGAGAAATAAAGTGAGAATTATGAAAATGAATATAGTTTTTATAGCCTCATTAATTTTGGTGTTTTCTAATTTTATTGAAGCCTCAGATGGAATGGATGTTATGCATATTTCTGGCAAAGTTCTTTGCCAAGATTGTACTCAAGGATGGAATGAATGGGTTGATGGTGCCAAAGCCATCAAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAGCATCGTATCTCTGACGTGCCTGGACGAGAGAAGAAGAGTGATGTATTACGGAAGTGACCTCACAGATGAAGCTGGAATTTTCGATTTGATTGTTAACCAAACTTGTCATGGCAAAACAATTAAGCCACAAAATTGCTTTGTGAGATTGGTTTCTTCACCTGATCCTGTTTGTAATATTGCCACCGACTTCGCCGGAGGAAAATCCGGTGTAAAGCTCCACCGTCCGACGGTGGTTTACCGGGACTTGCTCAAATATGTGCTTAGCCCTTTCTAC..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TACACAACTCCCATGTGTGATGAACCTAATATTAATGATGATGATAATTTGGAGACTAATGATGATAAAAATCAAAACAATTATTAAATTAAGTTCTTATTTTTAATTTTTTCTTCTTCTA</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/cxgn-bacpublish-resources-R6wouW/sgn_marker_seqs" ref_id="SGN-M8654-2" ref_strand="+" ref_description="SGN-M8654-2 C2_At5g11560-2 [cosii_markers]">
      <seq>ctgatgactactgttttgaatccagtgacctttggtctgttatattcccctcagattcagaaaagatcattgcaacttcaaccagaaaattaagtgaggttgttcatacgcaagctaaagttaacgctgaccaggatgtattgtataaatatatatctaagaatttgttgtttctggccactgttactcctaaagcaatgggtgacattggatcagtgacccctgaagattcctggctttttgtttatcttgttgacacaataactggccgagtgctgctccgtatgtctcatcatggctgtcagggacctgtacatgcagtatttagcgaaaattgggttgtctatcactacttcaacctgcgtgcacacagatatgagatgtctgtcgttgagatctacgaccagtctcgcgcggacaacaaagatgtcttgaagcttgttcttggaaagcataatcttagtgcgcctgtctcttcctactcgcgtcctgaaatcatgaccaagtctcaatcttactttttcacacatagtgtgaaagcagtagcagttacctcaacagcaaaaggcatcacttccaaacaactgcttattggcacaattggtgatcaggttttggcacttgacaagcgttttcttgatcctcgtcgaacactgaaccctactcaagctgaaaaggaggaagggattatgcctcttactgatacattgccaatcatgccacaggctttcgttacacacgcccttaaagtggaaggccttagaagcataatagctataccggcaaagctagagtcaaccaccctcatctttgctcacggagttgatctctttttcactcggcttgctccttcaaagacatatgactctctcaccgatgatttcaattatgctttgcttctccttaccatagttgccctagttatatcaattttcgtaacgtggatttggtctgagaggaaagatttacaggagaagtggaggtgagcctttcaatcaacaaagtggaggcgagtccaaagccattacacttccttcaatcgttgtattgttttagtactcaaaccaaattttttttggcactttaacttaatcttcttagattagggagttaggctaagttgtacttttagtaattttgtaaaattggccctcgtttagttttttctacatggaagaaaatttgtgacattgatatttcattttggtggcaagagatacaaaatttcacacataagtagcttgacaacagtaataatctatgaact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09SLe0017M14-DWdrt/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09SLe0017M14.1" temp_strand="-" temp_description="C09SLe0017M14.1  AC216721.1 htgs_phase:1 submitted_to_sgn_as:gnl|gbrgsp|C09SLe0017M14 upload_account_name:spain (1 - 103916)">
        <position start="98587" stop="94605"/>
      </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="98287" g_stop="98190" g_length="98"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="98" r_length="98" r_score="0.969"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="98189" i_stop="98040" i_length="150">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="98039" g_stop="97818" g_length="222"/>
          <reference_exon_boundary r_type="cDNA" r_start="99" r_stop="320" r_length="222" r_score="0.973"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="97817" i_stop="97688" i_length="130">
            <donor d_prob="0.996" d_score="0.98"/>
            <acceptor a_prob="0.827" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="97687" g_stop="97592" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="321" r_stop="416" r_length="96" r_score="0.969"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="97591" i_stop="97496" i_length="96">
            <donor d_prob="0.998" d_score="0.98"/>
            <acceptor a_prob="0.998" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="97495" g_stop="97301" g_length="195"/>
          <reference_exon_boundary r_type="cDNA" r_start="417" r_stop="611" r_length="195" r_score="0.985"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="97300" i_stop="97168" i_length="133">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="97167" g_stop="97054" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="612" r_stop="725" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="97053" i_stop="95443" i_length="1611">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="95442" g_stop="94905" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="726" r_stop="1267" r_length="542" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09SLe0017M14.1" gen_strand="-" ref_id="SGN-M8654-2" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>1263</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09SLe0017M14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8654-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="98287" e_stop="98190"/>
          <exon e_start="98039" e_stop="97818"/>
          <exon e_start="97687" e_stop="97592"/>
          <exon e_start="97495" e_stop="97301"/>
          <exon e_start="97167" e_stop="97054"/>
          <exon e_start="95442" e_stop="94905"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGATGACTACTGTTTTGAGTCCAGTGACCTTTGGTCTGTTATAATCCCCTCAGATTCAGAAAAGATCATTGCAACTTCAACCAGAAAATTTAGTGAGGTAATCCTTTGCTCTTCTTTAAAAGATCATTGTAACTTGAGCAAAGAAAAATTAAGAGAGCTGTCTTGGTAAAAGTTACCACAGATTGTGCTGCTGAACCTTGAGATTGTAGTTTTATATTCTTATTTTTTCTGCTTCTCGTTTTTTCAGGTTGTTCACACGCAAGCTAAAGTTAACGCTGACCAGAATGTGTTGTATAAATATATATCTAAGAATTTGTTGTTTCTGGCCACTGTTACTCCTAAAGCAATGGGTGACATTGGATCAGTGATCCCTGATGATTCCTGGCTTTTTGTTTATCTTGTTGACACAATAACTGGCCGAGTGCTGCTCCGTATGTCTCATCATGGCTGCCAGGGACCTGTACATGCAGTAAGTTTTCCTTGACTCAGACCCTGTACTGCTAAAATAATTTTTGCTTGTAAAGATAATAGTCTTTTATCTCGATGTTCTTTTCTACTATTAAGTTACCAAGTATTGTTACACGCCTCTCTATGTGAAGGTATTTAGTGAAAATTGGGTCGTCTATCACTACTTCAACCTGCGTGCACACAGATATGAGATGTCTGTTGTTGAGATCTACGACCAGTCTCGCGCGGTACATTTTTTCACCAATTGTTATCTTTCAGTTTGTTCTCTATAGACCTTATTTTTCATTCTGTAACCCTTGTTTACCATACTTAAATATTTGTAGGACAACAAAGATGTCCTGAAGCTTGTTCTTGGAAAGCATAATCTTAGTGCGCCTGTCTCTTCCTACTCGCGTCCTGAAATCATGACCAAGTCTCAATCTTACTTCTTCACACACAGTGTGAAAGCAGTAGCAGTTACCTCAACAGCAAAAGGCATCACTTCCAAACAACTGCTTATTGGCACAATTGGTGATCAGGTCAGATTTGCCTATCTCTTGTCCAAACACTAATAGCTTTACTTTCATGCTATTCTCTTGGTTAATGGAGTTGTCATTTGTTATTTTGCTTGTATCTTAGACATATCATGCTCCATATGTTGGTATAATGCAGGTTTTGGCACTTGACAAGCGTTTTCTTGATCCTCGTCGATCACTGAACCCTACTCAAGCTGAAAAGGAGGAAGGGATTATGCCTCTTACTGATACATTGCCAATCATGCCACAGGTGAGAGCTTTTTAATCTTGCTGCAAAGGAAAAACACATTACATTTTGTTGAATAAAGAAATAGTCCTTTACATCAAGGGAGAGTTTTGATGGAAGGAACGGCACGGTAACGAAATAATTCCTTTATGTGCATTTATATGCATAGAGAAATTGATTGAAATGATAAATTTGGCCAATTTGTATTTCTTGATCTATGTATGCATTTGTTTGATTGGAGTAAAAACAGGAGGGGCAGGAGGAGGGGTAAAAATGGTGAGTATGGACCATTTCAGTGTAGGTAAGAGAGTAAATGATTGAGTACCTTTTTTTTTTCTCGTTAAATAGTTGGGTACTCTTTTATGTCAGATTTTTCAATAACTGAATGGGAAGGGAGTGTATTATATTTGATTCAGTAGTTCAATTTCAACTTTACCAAAATACTGCAAAGAAAATCATCAATAATTCACCAAGGGGAAGTAAATCATTTCCTCTCTCCTCCCATTTTGAAACCAAAGATTAAGCGATTATGTTTTCCATTGGCTAATTAATAATGTTTATTAGTGGCAGTTCTACTCAGAAACGTAGAGTTCTGTAACCAAATTTGTTAGCATATTTCCTTTATAGAGCCTTTTGGCTATAATCTCATAACGGGGCCAGTCTAGAGGCCTTAGTGATCATAATAATCCTAGTTAGTGGTGTTTCTAAGATAAGAGCATTTGATATTAAATCTACTTCTAGAACTTATGAGCTTGTCTTTTTTGAAGCATTTAATATTAAATCTACTTCTAGAACATATGAGCTAGTTTTTTTGAAGCTTTTGATGGTAAAGCTAGTTCTAGACTAGGAATACTAATGTGTAGTACCATATTGCATCAAGAACGTGTAGGAAACTACTCCAGGTTGGTTTCTCTATTGAGAGAAATAATCACATCAATTGAAGGAACCTGGCATCTTTTTCACTCTAGACCATGAAACTTGTTTTGGTCTTGGTGATGCTTTCACTCTTTTAAATTTTAAGACTTCGTTAAACTTTTACGCCTTTAATGGCATTTTTTTTTGGCTAGGATTGAGAGTAGATTGAGTCTCGTGTTTGTCAGTTGGCACATAGGTGATCTTATATGCTGATATATGAAAGGACTTTGATCAAACAGAGATTTGTATTCTCACGTTTTTGTTCTTTGTGTAGCTCTCATTACCATTTTGAATTTTTATATAGGGTTACATACTCACATGTATACGAGTTGAAATTAGTTAAACTAAGTTTTGATGGGATATCTTAAATGCTAGTATAAGTTCCTCTGATCAAACAGACTCATTTGCATGTGTTTCTAAAGAACTTGTGTTATTCTTCTCATTTCTCTGGATTTATTTCATGGTAATGTTTTTTACATGCATCTTACAATATTTTATATAGGAATAAGAAATGAGAAAATACATCTCCCTCTCTTGTATCATATGTTGGTCTGGAAAACAGAGTTGTCCTTCGAGATAGTTGAATTGAATGCTTGCAGAATTCAGACCTGCTAACTCTTAAGAACAAAAGGCATATCATAAATCGTTATCTGAGTCTTGTATTCTATATGGTAGAACTATTAACAGTTGGTTCTTCATACTGACTTGATGGTTCTGCAGGCTTTCGTCACACACGCCCTTAAAGTGGAAGGCCTTAGAAGCATAATAGCTATACCAGCAAAGCTAGAGTCAACCACCCTCGTCTTTGCCCACGGAGTTGATCTCTTTTTCACACGGCTTGCTCCTTCAAAGACATACGACTCTCTCACCGATGATTTCAATTATGCTTTGCTTCTCCTTACCATAGTTGCCCTAGTTATATCAATTTTCGTGACGTGGATTTGGTCCGAGAGGAAAGATTTACAGGAGAAGTGGAGGTGAGCCTTTCAATCAACAAAGTGGAGGCGAGTCCAAAGCCATTACA----CTTCAGTCGTTGTACTGTTTTAGTACTCAAAACCTTCTTTTTTTTTGGCACTTTAACTTAATCTTCTTAGATTAGGGAGTTAGGCTAAGTTGTATTTTTAGTAACATTGTAAAATTGGCCCTCGTTTAGTTTTTTCTACAGGGAAGAAAATTTGTGACATTGATATTTGATTTTGGTGGCAAGAGATAAAAAATTT--CACATAAGTAGCTTGACAACAGTACCAATTTATGAACT</genome_strand>
        <mrna_strand>CTGATGACTACTGTTTTGAATCCAGTGACCTTTGGTCTGTTATATTCCCCTCAGATTCAGAAAAGATCATTGCAACTTCAACCAGAAAATTAAGTGAG......................................................................................................................................................GTTGTTCATACGCAAGCTAAAGTTAACGCTGACCAGGATGTATTGTATAAATATATATCTAAGAATTTGTTGTTTCTGGCCACTGTTACTCCTAAAGCAATGGGTGACATTGGATCAGTGACCCCTGAAGATTCCTGGCTTTTTGTTTATCTTGTTGACACAATAACTGGCCGAGTGCTGCTCCGTATGTCTCATCATGGCTGTCAGGGACCTGTACATGCA..................................................................................................................................GTATTTAGCGAAAATTGGGTTGTCTATCACTACTTCAACCTGCGTGCACACAGATATGAGATGTCTGTCGTTGAGATCTACGACCAGTCTCGCGCG................................................................................................GACAACAAAGATGTCTTGAAGCTTGTTCTTGGAAAGCATAATCTTAGTGCGCCTGTCTCTTCCTACTCGCGTCCTGAAATCATGACCAAGTCTCAATCTTACTTTTTCACACATAGTGTGAAAGCAGTAGCAGTTACCTCAACAGCAAAAGGCATCACTTCCAAACAACTGCTTATTGGCACAATTGGTGATCAG.....................................................................................................................................GTTTTGGCACTTGACAAGCGTTTTCTTGATCCTCGTCGAACACTGAACCCTACTCAAGCTGAAAAGGAGGAAGGGATTATGCCTCTTACTGATACATTGCCAATCATGCCACAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTTTCGTTACACACGCCCTTAAAGTGGAAGGCCTTAGAAGCATAATAGCTATACCGGCAAAGCTAGAGTCAACCACCCTCATCTTTGCTCACGGAGTTGATCTCTTTTTCACTCGGCTTGCTCCTTCAAAGACATATGACTCTCTCACCGATGATTTCAATTATGCTTTGCTTCTCCTTACCATAGTTGCCCTAGTTATATCAATTTTCGTAACGTGGATTTGGTCTGAGAGGAAAGATTTACAGGAGAAGTGGAGGTGAGCCTTTCAATCAACAAAGTGGAGGCGAGTCCAAAGCCATTACACTTCCTTCAATCGTTGTATTGTTTTAGTACTC-AAACC-AAATTTTTTTTGGCACTTTAACTTAATCTTCTTAGATTAGGGAGTTAGGCTAAGTTGTACTTTTAGTAATTTTGTAAAATTGGCCCTCGTTTAGTTTTTTCTACATGGAAGAAAATTTGTGACATTGATATTTCATTTTGGTGGCAAGAGATACAAAATTTCACACATAAGTAGCTTGACAACAGTAATAATCTATGAACT</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/cxgn-bacpublish-resources-R6wouW/sgn_marker_seqs" ref_id="SGN-M8654" ref_strand="+" ref_description="SGN-M8654 C2_At5g11560 [cosii_markers]">
      <seq>actcctgatgatgtagcagcggttcagagaataatgttacaaagtgctgagaaaagtaagatgacgcgagaccacaatggatttaggaagctactcattgtacttacacgagcagggaaactttttgcacttcacacaggtgatggccgaattgtttggtctcgactactgaatgctttccataaatcaggaacttgtgaaagtccaagggggatcaagttacatcagtggcaggtgccgcatcatcatgcattagatgagaacccatcagtccttgtagttggaacatgtggacataattcagatgcgtctggtattctctcctttgttgatgcatacaaaggagaggagcttaattacttagctcctgttcattccattacgcaaattattcctctgccatttactgattcaactgagcagcgtctacatctaataatagattctgaggggtacggccacctgtaccctagaactcctgaggcagttgacatttttcaaaaggagttgggaaacatatattggtattcagttgatataaacaataatctcttaaaggggcatgtggtgaagaaaaattgcaaagaggagatatctgatgactactgttttgagtccattgacctttggtctgttataatcccctcagattcagaaaagatcattgcaacttcaaccagaaaatttagtgaggttgttcacacgcaagctaaagttaacgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09SLe0017M14-DWdrt/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C09SLe0017M14.1" temp_strand="-" temp_description="C09SLe0017M14.1  AC216721.1 htgs_phase:1 submitted_to_sgn_as:gnl|gbrgsp|C09SLe0017M14 upload_account_name:spain (1 - 103916)">
        <position start="99182" stop="97710"/>
      </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="98882" g_stop="98190" g_length="693"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="693" r_length="693" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="98189" i_stop="98040" i_length="150">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="98039" g_stop="98010" g_length="30"/>
          <reference_exon_boundary r_type="cDNA" r_start="694" r_stop="723" r_length="30" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09SLe0017M14.1" gen_strand="-" ref_id="SGN-M8654" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>723</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09SLe0017M14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8654" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="98882" e_stop="98190"/>
          <exon e_start="98039" e_stop="98010"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTCCTGATGATGTAGCAGCAGTTCAGAGAATAAGGTTACAAAGTGCTGAGAAAAGTAAGATGACGCGAGACCACAATGGATTTAGGAAGCTACTCATTGTACTTACACGAGCAGGGAAACTTTTTGCACTTCACACAGGTGATGGCCGAATTGTTTGGTCTCGACTACTGAATGCTTTCCATAAATCAGGAACTTGTGAAAGTCCAAGGGGGATCAAGTTACATCAGTGGCAGGTGCCGCATCATCATGCATTAGATGAGAACCCATCAGTCCTTGTAGTTGGAACATGTGGACATAATTCAGATGCGTCTGGTATTCTCTCCTTTGTTGATGCATACAAAGGAGAGGAGCTTAATTACTTAGCTCCTGTTCATTCCATTACGCAAATTATTCCTCTGCCATTTACTGATTCAACTGAGCAGCGTCTACATCTAATAATAGATTCTGAGGGGTACGGCCACCTGTACCCTAGAACTCCTGAGGCAGTTGACATTTTTCAAAAGGAGTTGGGAAACATATATTGGTATTCAGTTGATATAAACAATAATCTCTTAAAGGGGCATGTGGTGAAGAAAAATTGCAAAGAGGAGATATCTGATGACTACTGTTTTGAGTCCAGTGACCTTTGGTCTGTTATAATCCCCTCAGATTCAGAAAAGATCATTGCAACTTCAACCAGAAAATTTAGTGAGGTAATCCTTTGCTCTTCTTTAAAAGATCATTGTAACTTGAGCAAAGAAAAATTAAGAGAGCTGTCTTGGTAAAAGTTACCACAGATTGTGCTGCTGAACCTTGAGATTGTAGTTTTATATTCTTATTTTTTCTGCTTCTCGTTTTTTCAGGTTGTTCACACGCAAGCTAAAGTTAACGCT</genome_strand>
        <mrna_strand>ACTCCTGATGATGTAGCAGCGGTTCAGAGAATAATGTTACAAAGTGCTGAGAAAAGTAAGATGACGCGAGACCACAATGGATTTAGGAAGCTACTCATTGTACTTACACGAGCAGGGAAACTTTTTGCACTTCACACAGGTGATGGCCGAATTGTTTGGTCTCGACTACTGAATGCTTTCCATAAATCAGGAACTTGTGAAAGTCCAAGGGGGATCAAGTTACATCAGTGGCAGGTGCCGCATCATCATGCATTAGATGAGAACCCATCAGTCCTTGTAGTTGGAACATGTGGACATAATTCAGATGCGTCTGGTATTCTCTCCTTTGTTGATGCATACAAAGGAGAGGAGCTTAATTACTTAGCTCCTGTTCATTCCATTACGCAAATTATTCCTCTGCCATTTACTGATTCAACTGAGCAGCGTCTACATCTAATAATAGATTCTGAGGGGTACGGCCACCTGTACCCTAGAACTCCTGAGGCAGTTGACATTTTTCAAAAGGAGTTGGGAAACATATATTGGTATTCAGTTGATATAAACAATAATCTCTTAAAGGGGCATGTGGTGAAGAAAAATTGCAAAGAGGAGATATCTGATGACTACTGTTTTGAGTCCATTGACCTTTGGTCTGTTATAATCCCCTCAGATTCAGAAAAGATCATTGCAACTTCAACCAGAAAATTTAGTGAG......................................................................................................................................................GTTGTTCACACGCAAGCTAAAGTTAACGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>5</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="74824" PGL_stop="72227"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="74824" e_stop="74624"/>
            <exon e_start="74114" e_stop="73837"/>
            <exon e_start="72498" e_stop="72227"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <exon-only e_score="0.912"/>
        </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="74824" e_stop="74624" e_length="201"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.999">
            <gDNA_intron_boundary i_start="74623" i_stop="74115" i_length="509"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="74114" e_stop="73837" e_length="278"/>
          </exon>
          <intron i_serial="2" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="73836" i_stop="72499" i_length="1338"/>
          </intron>
          <exon e_serial="3" e_score="0.912">
            <gDNA_exon_boundary e_start="72498" e_stop="72227" e_length="272"/>
          </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="74824" stop="74624"/>
              <exon start="74114" stop="73837"/>
              <exon start="72498" stop="72280"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M7680" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="74823" stop="74624"/>
              <exon start="74114" stop="73837"/>
              <exon start="72498" stop="72378"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M2181" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="74810" stop="74624"/>
              <exon start="74114" stop="73837"/>
              <exon start="72498" stop="72227"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M7680-2" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTTGAACAAATATTATTTAGAGAAATAAAGTGAGAATTATGAAAATGAATATAGTTTTTATAGCCTCATTAATTTTGGTGTTTTCTAATTTTATTGAAGCCTCAGATGGAATGGATGTTATGCATATTTCTGGCAAAGTTCTTTGCCAAGATTGTACTCAAGGATGGAATGAATGGGTTGATGGTGCCAAAGCCATCAAAG : GTAGCATCGTATCTCTGACGTGCCTGGACGAGAGAAGAAGAGTGATGTATTACGGAAGTGACCTCACAGATGAAGCTGGAATTTTCGATTTGATTGTTAACCAAACTTGTCATGGCAAAACAATTAAGCCACAAAATTGCTTTGTGAGATTGGTTTCTTCACCTGATCCTGTTTGTAATATTGCCACCGACTTCGCCGGAGGAAAATCCGGTGTAAAGCTCCACCGTCCGACGGTGGTTTACCGGGACTTGCTCAAATATGTGCTTAGCCCTTTCTAC : TACACAACTCCCATGTGTGATGAACCTAATATTAATGATGATGATAATTTGGAGACTAATGATGATAAAAATCAAAACAATTATTAAATTAAGTTCTTATTTTTAATTTTTTCTTCTTCTAATGTTTGTGTTTAATTTCCCATTTTGTAAATGGAAAATGACAATTTATCTATGTTGGATGAGTTGATGATTTTATTTTGTACTATTAATTACGTGCAAAGGACATATATAAGTTTGAATTTTAAAGTCTCTCTTAGTTTCAACTATATATA</gDNA_template>
            <first_frame> F  E  Q  I  L  F  R  E  I  K  *  E  L  *  K  *  I  *  F  L  *  P  H  *  F  W  C  F  L  I  L  L  K  P  Q  M  E  W  M  L  C  I  F  L  A  K  F  F  A  K  I  V  L  K  D  G  M  N  G  L  M  V  P  K  P  S  K  :  V  A  S  Y  L  *  R  A  W  T  R  E  E  E  *  C  I  T  E  V  T  S  Q  M  K  L  E  F  S  I  *  L  L  T  K  L  V  M  A  K  Q  L  S  H  K  I  A  L  *  D  W  F  L  H  L  I  L  F  V  I  L  P  P  T  S  P  E  E  N  P  V  *  S  S  T  V  R  R  W  F  T  G  T  C  S  N  M  C  L  A  L  S  T :   T  Q  L  P  C  V  M  N  L  I  L  M  M  M  I  I  W  R  L  M  M  I  K  I  K  T  I  I  K  L  S  S  Y  F  *  F  F  L  L  L  M  F  V  F  N  F  P  F  C  K  W  K  M  T  I  Y  L  C  W  M  S  *  *  F  Y  F  V  L  L  I  T  C  K  G  H  I  *  V  *  I  L  K  S  L  L  V  S  T  I  Y  </first_frame>
            <second_frame>  L  N  K  Y  Y  L  E  K  *  S  E  N  Y  E  N  E  Y  S  F  Y  S  L  I  N  F  G  V  F  *  F  Y  *  S  L  R  W  N  G  C  Y  A  Y  F  W  Q  S  S  L  P  R  L  Y  S  R  M  E  *  M  G  *  W  C  Q  S  H  Q  R :   *  H  R  I  S  D  V  P  G  R  E  K  K  S  D  V  L  R  K  *  P  H  R  *  S  W  N  F  R  F  D  C  *  P  N  L  S  W  Q  N  N  *  A  T  K  L  L  C  E  I  G  F  F  T  *  S  C  L  *  Y  C  H  R  L  R  R  R  K  I  R  C  K  A  P  P  S  D  G  G  L  P  G  L  A  Q  I  C  A  *  P  F  L   : L  H  N  S  H  V  *  *  T  *  Y  *  *  *  *  *  F  G  D  *  *  *  *  K  S  K  Q  L  L  N  *  V  L  I  F  N  F  F  F  F  *  C  L  C  L  I  S  H  F  V  N  G  K  *  Q  F  I  Y  V  G  *  V  D  D  F  I  L  Y  Y  *  L  R  A  K  D  I  Y  K  F  E  F  *  S  L  S  *  F  Q  L  Y  I </second_frame>
            <third_frame>   *  T  N  I  I  *  R  N  K  V  R  I  M  K  M  N  I  V  F  I  A  S  L  I  L  V  F  S  N  F  I  E  A  S  D  G  M  D  V  M  H  I  S  G  K  V  L  C  Q  D  C  T  Q  G  W  N  E  W  V  D  G  A  K  A  I  K   : G  S  I  V  S  L  T  C  L  D  E  R  R  R  V  M  Y  Y  G  S  D  L  T  D  E  A  G  I  F  D  L  I  V  N  Q  T  C  H  G  K  T  I  K  P  Q  N  C  F  V  R  L  V  S  S  P  D  P  V  C  N  I  A  T  D  F  A  G  G  K  S  G  V  K  L  H  R  P  T  V  V  Y  R  D  L  L  K  Y  V  L  S  P  F  Y  :  Y  T  T  P  M  C  D  E  P  N  I  N  D  D  D  N  L  E  T  N  D  D  K  N  Q  N  N  Y  *  I  K  F  L  F  L  I  F  S  S  S  N  V  C  V  *  F  P  I  L  *  M  E  N  D  N  L  S  M  L  D  E  L  M  I  L  F  C  T  I  N  Y  V  Q  R  T  Y  I  S  L  N  F  K  V  S  L  S  F  N  Y  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="C09SLe0017M14.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="74804" stop="74624"/>
                    <exon start="74114" stop="73837"/>
                    <exon start="72498" stop="72412"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>543</number_coding_nucleotides>
                  <number_encoded_amino_acids>181</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RNKVRIMKMNIVFIASLILVFSNFIEASDGMDVMHISGKVLCQDCTQGWNEWVDGAKAIKGSIVSLTCLDERRRVMYYGSDLTDEAGIFDLIVNQTCHGKTIKPQNCFVRLVSSPDPVCNIATDFAGGKSGVKLHRPTVVYRDLLKYVLSPFYYTTPMCDEPNINDDDNLETNDDKNQNNY*</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="98882" PGL_stop="94905"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="98882" e_stop="98190"/>
            <exon e_start="98039" e_stop="97818"/>
            <exon e_start="97687" e_stop="97592"/>
            <exon e_start="97495" e_stop="97301"/>
            <exon e_start="97167" e_stop="97054"/>
            <exon e_start="95442" e_stop="94905"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="1.000" e_score="0.996"/>
          <exon-intron don_prob="0.996" acc_prob="0.827" e_score="0.973"/>
          <exon-intron don_prob="0.998" acc_prob="0.998" e_score="0.969"/>
          <exon-intron don_prob="0.997" acc_prob="0.999" e_score="0.985"/>
          <exon-intron don_prob="0.999" acc_prob="0.993" e_score="0.991"/>
          <exon-only e_score="0.933"/>
        </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="98882" e_stop="98190" e_length="693"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="1.000">
            <gDNA_intron_boundary i_start="98189" i_stop="98040" i_length="150"/>
          </intron>
          <exon e_serial="2" e_score="0.973">
            <gDNA_exon_boundary e_start="98039" e_stop="97818" e_length="222"/>
          </exon>
          <intron i_serial="2" don_prob="0.996" acc_prob="0.827">
            <gDNA_intron_boundary i_start="97817" i_stop="97688" i_length="130"/>
          </intron>
          <exon e_serial="3" e_score="0.969">
            <gDNA_exon_boundary e_start="97687" e_stop="97592" e_length="96"/>
          </exon>
          <intron i_serial="3" don_prob="0.998" acc_prob="0.998">
            <gDNA_intron_boundary i_start="97591" i_stop="97496" i_length="96"/>
          </intron>
          <exon e_serial="4" e_score="0.985">
            <gDNA_exon_boundary e_start="97495" e_stop="97301" e_length="195"/>
          </exon>
          <intron i_serial="4" don_prob="0.997" acc_prob="0.999">
            <gDNA_intron_boundary i_start="97300" i_stop="97168" i_length="133"/>
          </intron>
          <exon e_serial="5" e_score="0.991">
            <gDNA_exon_boundary e_start="97167" e_stop="97054" e_length="114"/>
          </exon>
          <intron i_serial="5" don_prob="0.999" acc_prob="0.993">
            <gDNA_intron_boundary i_start="97053" i_stop="95443" i_length="1611"/>
          </intron>
          <exon e_serial="6" e_score="0.933">
            <gDNA_exon_boundary e_start="95442" e_stop="94905" e_length="538"/>
          </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="98882" stop="98190"/>
              <exon start="98039" stop="98010"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8654" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="98287" stop="98190"/>
              <exon start="98039" stop="97818"/>
              <exon start="97687" stop="97592"/>
              <exon start="97495" stop="97301"/>
              <exon start="97167" stop="97054"/>
              <exon start="95442" stop="94905"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8654-2" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="2" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ACTCCTGATGATGTAGCAGCAGTTCAGAGAATAAGGTTACAAAGTGCTGAGAAAAGTAAGATGACGCGAGACCACAATGGATTTAGGAAGCTACTCATTGTACTTACACGAGCAGGGAAACTTTTTGCACTTCACACAGGTGATGGCCGAATTGTTTGGTCTCGACTACTGAATGCTTTCCATAAATCAGGAACTTGTGAAAGTCCAAGGGGGATCAAGTTACATCAGTGGCAGGTGCCGCATCATCATGCATTAGATGAGAACCCATCAGTCCTTGTAGTTGGAACATGTGGACATAATTCAGATGCGTCTGGTATTCTCTCCTTTGTTGATGCATACAAAGGAGAGGAGCTTAATTACTTAGCTCCTGTTCATTCCATTACGCAAATTATTCCTCTGCCATTTACTGATTCAACTGAGCAGCGTCTACATCTAATAATAGATTCTGAGGGGTACGGCCACCTGTACCCTAGAACTCCTGAGGCAGTTGACATTTTTCAAAAGGAGTTGGGAAACATATATTGGTATTCAGTTGATATAAACAATAATCTCTTAAAGGGGCATGTGGTGAAGAAAAATTGCAAAGAGGAGATATCTGATGACTACTGTTTTGAGTCCAGTGACCTTTGGTCTGTTATAATCCCCTCAGATTCAGAAAAGATCATTGCAACTTCAACCAGAAAATTTAGTGAG : GTTGTTCACACGCAAGCTAAAGTTAACGCTGACCAGAATGTGTTGTATAAATATATATCTAAGAATTTGTTGTTTCTGGCCACTGTTACTCCTAAAGCAATGGGTGACATTGGATCAGTGATCCCTGATGATTCCTGGCTTTTTGTTTATCTTGTTGACACAATAACTGGCCGAGTGCTGCTCCGTATGTCTCATCATGGCTGCCAGGGACCTGTACATGCA : GTATTTAGTGAAAATTGGGTCGTCTATCACTACTTCAACCTGCGTGCACACAGATATGAGATGTCTGTTGTTGAGATCTACGACCAGTCTCGCGCG : GACAACAAAGATGTCCTGAAGCTTGTTCTTGGAAAGCATAATCTTAGTGCGCCTGTCTCTTCCTACTCGCGTCCTGAAATCATGACCAAGTCTCAATCTTACTTCTTCACACACAGTGTGAAAGCAGTAGCAGTTACCTCAACAGCAAAAGGCATCACTTCCAAACAACTGCTTATTGGCACAATTGGTGATCAG : GTTTTGGCACTTGACAAGCGTTTTCTTGATCCTCGTCGATCACTGAACCCTACTCAAGCTGAAAAGGAGGAAGGGATTATGCCTCTTACTGATACATTGCCAATCATGCCACAG : GCTTTCGTCACACACGCCCTTAAAGTGGAAGGCCTTAGAAGCATAATAGCTATACCAGCAAAGCTAGAGTCAACCACCCTCGTCTTTGCCCACGGAGTTGATCTCTTTTTCACACGGCTTGCTCCTTCAAAGACATACGACTCTCTCACCGATGATTTCAATTATGCTTTGCTTCTCCTTACCATAGTTGCCCTAGTTATATCAATTTTCGTGACGTGGATTTGGTCCGAGAGGAAAGATTTACAGGAGAAGTGGAGGTGAGCCTTTCAATCAACAAAGTGGAGGCGAGTCCAAAGCCATTACACTTCAGTCGTTGTACTGTTTTAGTACTCAAAACCTTCTTTTTTTTTGGCACTTTAACTTAATCTTCTTAGATTAGGGAGTTAGGCTAAGTTGTATTTTTAGTAACATTGTAAAATTGGCCCTCGTTTAGTTTTTTCTACAGGGAAGAAAATTTGTGACATTGATATTTGATTTTGGTGGCAAGAGATAAAAAATTTCACATAAGTAGCTTGACAACAGTACCAATTTATGAACT</gDNA_template>
            <first_frame> T  P  D  D  V  A  A  V  Q  R  I  R  L  Q  S  A  E  K  S  K  M  T  R  D  H  N  G  F  R  K  L  L  I  V  L  T  R  A  G  K  L  F  A  L  H  T  G  D  G  R  I  V  W  S  R  L  L  N  A  F  H  K  S  G  T  C  E  S  P  R  G  I  K  L  H  Q  W  Q  V  P  H  H  H  A  L  D  E  N  P  S  V  L  V  V  G  T  C  G  H  N  S  D  A  S  G  I  L  S  F  V  D  A  Y  K  G  E  E  L  N  Y  L  A  P  V  H  S  I  T  Q  I  I  P  L  P  F  T  D  S  T  E  Q  R  L  H  L  I  I  D  S  E  G  Y  G  H  L  Y  P  R  T  P  E  A  V  D  I  F  Q  K  E  L  G  N  I  Y  W  Y  S  V  D  I  N  N  N  L  L  K  G  H  V  V  K  K  N  C  K  E  E  I  S  D  D  Y  C  F  E  S  S  D  L  W  S  V  I  I  P  S  D  S  E  K  I  I  A  T  S  T  R  K  F  S  E  :  V  V  H  T  Q  A  K  V  N  A  D  Q  N  V  L  Y  K  Y  I  S  K  N  L  L  F  L  A  T  V  T  P  K  A  M  G  D  I  G  S  V  I  P  D  D  S  W  L  F  V  Y  L  V  D  T  I  T  G  R  V  L  L  R  M  S  H  H  G  C  Q  G  P  V  H  A  :  V  F  S  E  N  W  V  V  Y  H  Y  F  N  L  R  A  H  R  Y  E  M  S  V  V  E  I  Y  D  Q  S  R  A  :  D  N  K  D  V  L  K  L  V  L  G  K  H  N  L  S  A  P  V  S  S  Y  S  R  P  E  I  M  T  K  S  Q  S  Y  F  F  T  H  S  V  K  A  V  A  V  T  S  T  A  K  G  I  T  S  K  Q  L  L  I  G  T  I  G  D  Q  :  V  L  A  L  D  K  R  F  L  D  P  R  R  S  L  N  P  T  Q  A  E  K  E  E  G  I  M  P  L  T  D  T  L  P  I  M  P  Q  :  A  F  V  T  H  A  L  K  V  E  G  L  R  S  I  I  A  I  P  A  K  L  E  S  T  T  L  V  F  A  H  G  V  D  L  F  F  T  R  L  A  P  S  K  T  Y  D  S  L  T  D  D  F  N  Y  A  L  L  L  L  T  I  V  A  L  V  I  S  I  F  V  T  W  I  W  S  E  R  K  D  L  Q  E  K  W  R  *  A  F  Q  S  T  K  W  R  R  V  Q  S  H  Y  T  S  V  V  V  L  F  *  Y  S  K  P  S  F  F  L  A  L  *  L  N  L  L  R  L  G  S  *  A  K  L  Y  F  *  *  H  C  K  I  G  P  R  L  V  F  S  T  G  K  K  I  C  D  I  D  I  *  F  W  W  Q  E  I  K  N  F  T  *  V  A  *  Q  Q  Y  Q  F  M  N  </first_frame>
            <second_frame>  L  L  M  M  *  Q  Q  F  R  E  *  G  Y  K  V  L  R  K  V  R  *  R  E  T  T  M  D  L  G  S  Y  S  L  Y  L  H  E  Q  G  N  F  L  H  F  T  Q  V  M  A  E  L  F  G  L  D  Y  *  M  L  S  I  N  Q  E  L  V  K  V  Q  G  G  S  S  Y  I  S  G  R  C  R  I  I  M  H  *  M  R  T  H  Q  S  L  *  L  E  H  V  D  I  I  Q  M  R  L  V  F  S  P  L  L  M  H  T  K  E  R  S  L  I  T  *  L  L  F  I  P  L  R  K  L  F  L  C  H  L  L  I  Q  L  S  S  V  Y  I  *  *  *  I  L  R  G  T  A  T  C  T  L  E  L  L  R  Q  L  T  F  F  K  R  S  W  E  T  Y  I  G  I  Q  L  I  *  T  I  I  S  *  R  G  M  W  *  R  K  I  A  K  R  R  Y  L  M  T  T  V  L  S  P  V  T  F  G  L  L  *  S  P  Q  I  Q  K  R  S  L  Q  L  Q  P  E  N  L  V  R :   L  F  T  R  K  L  K  L  T  L  T  R  M  C  C  I  N  I  Y  L  R  I  C  C  F  W  P  L  L  L  L  K  Q  W  V  T  L  D  Q  *  S  L  M  I  P  G  F  L  F  I  L  L  T  Q  *  L  A  E  C  C  S  V  C  L  I  M  A  A  R  D  L  Y  M  Q :   Y  L  V  K  I  G  S  S  I  T  T  S  T  C  V  H  T  D  M  R  C  L  L  L  R  S  T  T  S  L  A  R :   T  T  K  M  S  *  S  L  F  L  E  S  I  I  L  V  R  L  S  L  P  T  R  V  L  K  S  *  P  S  L  N  L  T  S  S  H  T  V  *  K  Q  *  Q  L  P  Q  Q  Q  K  A  S  L  P  N  N  C  L  L  A  Q  L  V  I  R :   F  W  H  L  T  S  V  F  L  I  L  V  D  H  *  T  L  L  K  L  K  R  R  K  G  L  C  L  L  L  I  H  C  Q  S  C  H  R :   L  S  S  H  T  P  L  K  W  K  A  L  E  A  *  *  L  Y  Q  Q  S  *  S  Q  P  P  S  S  L  P  T  E  L  I  S  F  S  H  G  L  L  L  Q  R  H  T  T  L  S  P  M  I  S  I  M  L  C  F  S  L  P  *  L  P  *  L  Y  Q  F  S  *  R  G  F  G  P  R  G  K  I  Y  R  R  S  G  G  E  P  F  N  Q  Q  S  G  G  E  S  K  A  I  T  L  Q  S  L  Y  C  F  S  T  Q  N  L  L  F  F  W  H  F  N  L  I  F  L  D  *  G  V  R  L  S  C  I  F  S  N  I  V  K  L  A  L  V  *  F  F  L  Q  G  R  K  F  V  T  L  I  F  D  F  G  G  K  R  *  K  I  S  H  K  *  L  D  N  S  T  N  L  *  T </second_frame>
            <third_frame>   S  *  *  C  S  S  S  S  E  N  K  V  T  K  C  *  E  K  *  D  D  A  R  P  Q  W  I  *  E  A  T  H  C  T  Y  T  S  R  E  T  F  C  T  S  H  R  *  W  P  N  C  L  V  S  T  T  E  C  F  P  *  I  R  N  L  *  K  S  K  G  D  Q  V  T  S  V  A  G  A  A  S  S  C  I  R  *  E  P  I  S  P  C  S  W  N  M  W  T  *  F  R  C  V  W  Y  S  L  L  C  *  C  I  Q  R  R  G  A  *  L  L  S  S  C  S  F  H  Y  A  N  Y  S  S  A  I  Y  *  F  N  *  A  A  S  T  S  N  N  R  F  *  G  V  R  P  P  V  P  *  N  S  *  G  S  *  H  F  S  K  G  V  G  K  H  I  L  V  F  S  *  Y  K  Q  *  S  L  K  G  A  C  G  E  E  K  L  Q  R  G  D  I  *  *  L  L  F  *  V  Q  *  P  L  V  C  Y  N  P  L  R  F  R  K  D  H  C  N  F  N  Q  K  I  *  *   : G  C  S  H  A  S  *  S  *  R  *  P  E  C  V  V  *  I  Y  I  *  E  F  V  V  S  G  H  C  Y  S  *  S  N  G  *  H  W  I  S  D  P  *  *  F  L  A  F  C  L  S  C  *  H  N  N  W  P  S  A  A  P  Y  V  S  S  W  L  P  G  T  C  T  C   : S  I  *  *  K  L  G  R  L  S  L  L  Q  P  A  C  T  Q  I  *  D  V  C  C  *  D  L  R  P  V  S  R   : G  Q  Q  R  C  P  E  A  C  S  W  K  A  *  S  *  C  A  C  L  F  L  L  A  S  *  N  H  D  Q  V  S  I  L  L  L  H  T  Q  C  E  S  S  S  S  Y  L  N  S  K  R  H  H  F  Q  T  T  A  Y  W  H  N  W  *  S   : G  F  G  T  *  Q  A  F  S  *  S  S  S  I  T  E  P  Y  S  S  *  K  G  G  R  D  Y  A  S  Y  *  Y  I  A  N  H  A  T   : G  F  R  H  T  R  P  *  S  G  R  P  *  K  H  N  S  Y  T  S  K  A  R  V  N  H  P  R  L  C  P  R  S  *  S  L  F  H  T  A  C  S  F  K  D  I  R  L  S  H  R  *  F  Q  L  C  F  A  S  P  Y  H  S  C  P  S  Y  I  N  F  R  D  V  D  L  V  R  E  E  R  F  T  G  E  V  E  V  S  L  S  I  N  K  V  E  A  S  P  K  P  L  H  F  S  R  C  T  V  L  V  L  K  T  F  F  F  F  G  T  L  T  *  S  S  *  I  R  E  L  G  *  V  V  F  L  V  T  L  *  N  W  P  S  F  S  F  F  Y  R  E  E  N  L  *  H  *  Y  L  I  L  V  A  R  D  K  K  F  H  I  S  S  L  T  T  V  P  I  Y  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="C09SLe0017M14.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="98882" stop="98190"/>
                    <exon start="98039" stop="97818"/>
                    <exon start="97687" stop="97592"/>
                    <exon start="97495" stop="97301"/>
                    <exon start="97167" stop="97054"/>
                    <exon start="95442" stop="95182"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1578</number_coding_nucleotides>
                  <number_encoded_amino_acids>526</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TPDDVAAVQRIRLQSAEKSKMTRDHNGFRKLLIVLTRAGKLFALHTGDGRIVWSRLLNAFHKSGTCESPRGIKLHQWQVPHHHALDENPSVLVVGTCGHNSDASGILSFVDAYKGEELNYLAPVHSITQIIPLPFTDSTEQRLHLIIDSEGYGHLYPRTPEAVDIFQKELGNIYWYSVDINNNLLKGHVVKKNCKEEISDDYCFESSDLWSVIIPSDSEKIIATSTRKFSEVVHTQAKVNADQNVLYKYISKNLLFLATVTPKAMGDIGSVIPDDSWLFVYLVDTITGRVLLRMSHHGCQGPVHAVFSENWVVYHYFNLRAHRYEMSVVEIYDQSRADNKDVLKLVLGKHNLSAPVSSYSRPEIMTKSQSYFFTHSVKAVAVTSTAKGITSKQLLIGTIGDQVLALDKRFLDPRRSLNPTQAEKEEGIMPLTDTLPIMPQAFVTHALKVEGLRSIIAIPAKLESTTLVFAHGVDLFFTRLAPSKTYDSLTDDFNYALLLLTIVALVISIFVTWIWSERKDLQEKWR*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 17 chains have been computed
$ 
$ memory statistics:
$ 11912 bytes spliced alignments in total
$ 5 spliced alignments have been stored
$ 2382 bytes was the average size of a spliced alignment
$ 6928 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3464 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 20 backtrace matrices have been allocated
$ 
$ date finished: 2008-02-20 11:21:12
-->
