<?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="2009-01-18 06:01:35"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C11HBa0249E07-l3oFl/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C11HBa0249E07-l3oFl/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-C11HBa0249E07-l3oFl/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8150-3" ref_strand="+" ref_description="SGN-M8150-3 C2_At4g01560-3 [cosii_markers]">
      <seq>gcccactccaaaaccttcttcacttttgctcttctccattagctccgccgcggagatcctttgtattacactttctatggggagaaaacggaacttgagcgaagatggtggcagggaagacgaagaagagaagccgatgaaagagagaagggtgaaagagaagcaggagggaagagaaagtatgcggccttcaatgattaagaacaaggagaaaagagcagttgtacatgctaagttgaagcagcagaagaaggttgataagaggaagaaggttaaagctcgtgaagctgctgagaaaaaagcgcttgagctaggggaggagcctccaccgaagatggtaccccgtacgattgaaaatacaagggagtcagatgagactgtctgtttacctgatgatgaagagctatttgctggcaacgatgttgatgaatttagtgcagttctgaagaatgagcgtagtccgaaaatattgattacaacatcccgttataactctacaagaggaccagcatttatttccgatcttatttctgtgattcctaatgctcattactataaacgaggaacatatgacctgaaaaagatcgtccaatatgcaaatgagaaggaatttacttctgttattgtagtccacaccaatcgccgtgaaccagatgcccttcttgtcattggtttacctgatggacctactgctcatttcaagctctcaaagctcatgctacggaaggatatcaagaatcatggaaagccaaccagtcacaagcctgagctggttttgaccaacttcacaacacgtttggggcatcgagttgggaggatgatacagtcacttttcccacaagatcccgaatttcgtggacgtcgagttgtgaccttccacaaccagcgtgatttcatattttttcgccatcatcgctacatttttgaaaccaaagagagcaaacagaaagaatcaaaaggtaataaaagcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C11HBa0249E07-l3oFl/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C11HBa0249E07.1" temp_strand="-" temp_description="C11HBa0249E07.1  AC220059.1 htgs_phase:3 submitted_to_sgn_as:gi|170933589|gb|AC220059.1| sequenced_by:ivf-caas upload_account_name:china11 Solanum lycopersicum chromosome 11 clone C11HBa0249E07, complete sequence">
        <position start="9375" stop="3930"/>
      </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="9079" g_stop="8757" g_length="323"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="322" r_length="322" r_score="0.954"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8756" i_stop="7114" i_length="1643">
            <donor d_prob="0.961" d_score="0.98"/>
            <acceptor a_prob="0.991" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="7113" g_stop="7033" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="323" r_stop="403" r_length="81" r_score="0.963"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="7032" i_stop="6920" i_length="113">
            <donor d_prob="0.984" d_score="0.96"/>
            <acceptor a_prob="0.441" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6919" g_stop="6824" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="404" r_stop="499" r_length="96" r_score="0.969"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="6823" i_stop="6732" i_length="92">
            <donor d_prob="0.697" d_score="0.96"/>
            <acceptor a_prob="0.967" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="6731" g_stop="6648" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="500" r_stop="583" r_length="84" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="6647" i_stop="6511" i_length="137">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="6510" g_stop="6441" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="584" r_stop="653" r_length="70" r_score="0.986"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="6440" i_stop="6302" i_length="139">
            <donor d_prob="0.848" d_score="0.98"/>
            <acceptor a_prob="0.985" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="6301" g_stop="6219" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="654" r_stop="736" r_length="83" r_score="0.988"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="6218" i_stop="4793" i_length="1426">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="4792" g_stop="4713" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="737" r_stop="816" r_length="80" r_score="0.975"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="4712" i_stop="4490" i_length="223">
            <donor d_prob="0.975" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="4489" g_stop="4391" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="817" r_stop="915" r_length="99" r_score="0.990"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="4390" i_stop="4287" i_length="104">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.951" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="4286" g_stop="4230" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="916" r_stop="972" r_length="57" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C11HBa0249E07.1" gen_strand="-" ref_id="SGN-M8150-3" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>973</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C11HBa0249E07.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8150-3" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="9079" e_stop="8757"/>
          <exon e_start="7113" e_stop="7033"/>
          <exon e_start="6919" e_stop="6824"/>
          <exon e_start="6731" e_stop="6648"/>
          <exon e_start="6510" e_stop="6441"/>
          <exon e_start="6301" e_stop="6219"/>
          <exon e_start="4792" e_stop="4713"/>
          <exon e_start="4489" e_stop="4391"/>
          <exon e_start="4286" e_stop="4230"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTCACTACAAAACCTTCTTCCATTTTGCTCTTCTCCATTAGCTCCGCCGCCGACATCCTCTGCACTACACTTTCTATGGGGAGAAAACGGAACTTGAGCGAAGATGGTGGCGGGGAAGACGAAGAAGAGAGGCCGATGAAAGAGAGAAGGGTGAAAGAGAAGCAGGAGGGAAGAGAAAGTATGCGGCCTTCAATGATTAAGAACAAGGAGAAAAGAGCAGCTGTACATGCTAAGTTGAAGCAGCAGAAGAAGGTTGAGAAGAGGAAGAAGGTTAAAGCTCGTGAAGCTGCTGAGAAAAAAGCACTTGAGCTAGGGGAGGAGGTAAAGCGTCTACTGAAATTTACAATTTTTACGGATTTGGGGTTTAGGGTTGATTTTGTGAATTGACATAATGGGGTTGTTTATTTGTGGGAATTGATTGATGGGTCGATGTGTTTTTTGTTCAAATTTAAAAAATATCTGGTTCTTAGGGTGTAGTGTTTTGATTCTTGATTGTGAGGTTGGGCATTGTGGGATTGTTTCTTAATGCTACTTAATTAATGGTTAGATGATGTTTTGGATTGTTTAACAAATAACAACAACATATGGTTGTATTTAATTACCAGTAGCAAATCATTGCAATTCAAGCTGCCAACACAGCATGCTTGGTTCTTAGATGGATCACACAGTGTACTAGAGCTCTAACATGTCTCTATTGCTCAGTACTTATAGCTAAGTAAAACTTTTCTAATGCTAGGTTGGGATCTAACAATAGTTATGTAGGCTAACTCTTTGGCCATACTTTCGACATGTCTACTCTTATTCACAAATACTCTATTGTTCCTTTTAATATACAGCCCATACACACATTTGGCCAAAATATTTTTTAAAGATTTGAGCTTGCTGCGAATTCCCTTTCCCATGTTGAATACTCCCTTGTAGAGAATGGGCCCAATCTGAAAATGGAAAGGCGTGCTGCTGGATCCACATAAGCAATTTGTTCCACAGGTATATGGAGAATGGGCGTTGCACAAATAAGTGCTCAATAGATTCTTCCTTACTCTGGCAAAATACACATATTTTAGGTACATCCAGACCCCATTTAGTTAGTCTATCTGTTGTTGCCAACTTCCTATGCAGCATGAGCCACATAATAAAGCACGCTTTAGGTCTGGCTCCATTTTGAACACAAGGCATTTCCATCCTATTCTGGGTTGGTCCACTACAGAAATAAGTATATTTTGTCTGATCAAGCTCCCCTTCCTGTTATCTCTTTGTTGCATTTGATCAACTATATTTGTCCGCCCGTAATCTTTCTGGTCATCCAGCTCGCTTGACTATGGGGAGTCCATGGAGTCTGGGAAGGTGATGCAGCCCTACTCCTATCTTACCTTCAGAACGTAAGTTTAAGTATGTGGAGCAAATACAGTAGCAAAGAAACCATGTTGAAAACAATTAAGAAGAGAACAAGTAGCGACAACAAATAACACGATAACTGATGCAAACGGGAACTAAACAAATGCTTTACTGCCTATCAATTAAAAACCAAACCGCAGAGCAAAAAGTTAAAAATCTTACCTGTTAAGCAACTCAGTCATTTGGCCCATAAAGTATTCATGATACTAAAGAGTCTCCCCATAACATTGCTCATGCATATCCCATGGAGAATGGTACAAACCCAGTTCCAGACTATCATGGGAATTAATTAATGGGTGGATGTTGTTTTTTGCCGTCACGTCTAAAATTTGAAAATATTTGGTTCTTAGGGTGTAATGTTTTGATTATTGATTATGCAGTTGAACATTTTGGGATTGTTTGTTAAGGGTATTTAGTTAATGGGTGAATGATATTTTTGTGAACTGGCTGCCTAAATTTCCAATATCCAGTTCTTAGGGTTTAAGGTTTTTGATTGTTGATTGTCTGATTGAGCATTTTAGTTCCTTTTTCCAAACTGCTTAACGGGTCGATGCTCTTTTTGTGAACAGCCTCCAGCGAAGATGGTACCCCGTACGATTGAGAATACAAGGGAATCAGATGAGACTGTCTGTTTACCTGATGATGAAGAGGTTTTCGATTATTCTTGTTTGATTCTTCAAGTTAATAGTGAAATATATGTAGTTTTATCACTGGAGGTTTGGCCATTAAATATTCTGGTGTTCCTCCTGATTTGTGTTTGAAGCTATTTGCTGGCAACGATGTTGATGAGTTTAGTGCAGTTCTGAAGAACGAGCGTAGTCCAAAAATATTGATTACAACATCCCGTTATAACTCTACAGTAAGCTTGTATAATTTGTGCTTCCCTATTGCTTTGATTATTGTTGACTTTGAATTTAATTCCACAAATAATTTCGTTATTCCATTCTTCAGAGAGGACCAGCATTTATTTCCGATCTTATTTCTGTGATTCCTAATGCTCATTACTATAAACGAGGAACATATGACCTGAAAAAGGTTCTTTCTTGCCTTCTCTTTTCTCATTCCTTTTATGTTTCTTGGTGATATGAATGAATGCCCTCATATTATTCAAATTCAAGGAGTTTTTCCATTGTACTAGTTCGAAATGTTCATTGCTTTTCTAACTTTTGCAGATCGTCCAATATGCAAATGAGAAGGAATTTACTTCTGTTATTGTAGTCCACACCAATCGCCGTGAGCCAGGTCATATTCTTGAACACATAGCTTTTTTTGATTCCTCTAAAAATAGCTATGGATTGTGTTCTTGCATTCATTCACCTTTCCAGTTTCTTTGTTGGTCTGAATTGCCAGCTTGATCATTTTTTTCATTTTCTTTCTTTAGATGCTCTTCTTGTCATTGGTTTACCTGATGGACCTACTGCTCATTTCAAGCTCTCAAAGCTCATGCTACGGAAGGATATCAAGGTTCGATAGTTCTCCTTCTAAATAGATCTTTCTCCCCCACCTTCACTGAAAAAATGCAGGGAAAGAAAAGGAACGTAGTAAGGGAACTTACAACTTATGCTGTTGTCTAATTGCTTCTGGTTGATGCATTTTACACTAAACATTACAGTTTTATTAATTCCTGCAAAAAGAATCAAATGAGAATGAGCTTGTCTTGAAGTCAGCTGAGTTGTATGAATTAAATCAACAGTCGAAGTTATTTGGTTCTCTTAGAAATTACTAATGTTTTCAAATAGATGATGTTGTGTCTGACTTTTTTGTGGAAATTTCATCCTATTGCATTGCCTCGTGCCATATTAACAATTAGTTTGGTTTTCCTCTACATTTTTTGTGAGTGATTTGCACGTATGTCATGCTGTCTTTGTACTATGATAATCAATCAGGTATCAAGAAGTTGTATTATGCAGGACAAGATTAAGTGCTACTCCCTACATTTCAAATTAATTGAAAATCAGTGAAATGTTGATGTGTTCCAACAAGGGAGTGAAGGTTAGGCTGCTAAAATTGAGATGTGAATGCTAAGATGGATGTACCGACATACGAGATTATATAAGATAAAAAATGATCACATTCGCCACAAAGTGCAAACAGCACACATTGAGGATACGATGAAAGAAAATCGTTTTGAGATGATTTGGTCATGTGCTGCGTTGACACCAGATACACCACAGTAAGTGAAGGTGATAAAATAGAAGAGATGGACCTAAACTTAAACGGAAGAAAGTTGTCTACAAAGACCTATGGTATCTTGAAATGAATGCTGAATTTGTGAAAGATATAACACAACAGTAGAGAAATATTTATATAGGTGAATATAAATTAATTGAGAATATATATTCTTTCCTTGGGGCCAACGCTTAGGACCATCTGCAGCCTTTGAACCTCGAGGATAATGGACTAAAATATGACCTCAACTAATAGCTTTCATGACTTGGTTCAAGTGACGAAGGTTGAGTGACTTGTGAGTTGTGACTTAGGTCAGAAGTTCAAGTCGCACGCCAATTCTAACCAAGCCTGGTACTTAAGTGGAGAAGGATGGAAAAACATACTTTAGTGTCAGCGGAATCACTAGGACATGCTCATTTTATTTTTTTGATACTAGACATGCTCATTTTAGCAAAAGTGAAAAAGTCTGTCTGGGATTATTTTTAAAAGGAGTCCACTTGAGAAGGTGAAAGCTGTGCGTTCTCTTCTTGGAGAGAGAAGCCTAATTTATTGCAAGTTAACCACCATTCAGAAAATTCCTTTTTCATAATGGTTCTAATGCTAATGCTGCTGTGTGTATCTATGTATAACTCAGCATAAGATGTTGTAAGTTAAAGCAATCAATCAATGAGGTTAATATGAATAGTAGATATTCAAGTAACGACTCCTTTTTTGCTTGCAGAATCATGGAAAGCCAACTAGTCACAAGCCTGAGCTGGTTTTGACCAACTTCACAACACGTTTGGGTCATCGAGTTGGGAGGTAGAGCCACTATGATTTTGCTGGATTACTGTAATTCTTGTAATTATTTCCAGCGACCAAGTATCTGAGACATTTTATACATTAATAAAAGTTGACACCATTTACTGATGGAGAGATAGAAATAAGATGAAAATCTATCTTTAACTTATAGCTCCTCTTTGAGAAACTTATGTTACAAGTGATTATCTAAGATAATAAATGTCTGCTGATTTTGTTCATGCAGGATGATACAGTCACTTTTTCCACAAGATCCCGAATTTCGTGGACGTCGAGTTGTGACCTTCCACAACCAGCGTGATTTCATATTTTTTCGCCATCATCGGTATGCCCTCATTAAACCTTGTGTTTTCCGCTTCTGTTTCTAAATTTGAATAGTAGGACTCTTACTAACATGTTCTGCTGATGTACTTGTTCGCTTTTGTGAAGCTACATTTTTGAAACCAAAGAGAGCAAACAGAAAGAATCAAAAGGTAAAAAAAGCAA</genome_strand>
        <mrna_strand>GC-CCACTCCAAAACCTTCTTCACTTTTGCTCTTCTCCATTAGCTCCGCCGCGGAGATCCTTTGTATTACACTTTCTATGGGGAGAAAACGGAACTTGAGCGAAGATGGTGGCAGGGAAGACGAAGAAGAGAAGCCGATGAAAGAGAGAAGGGTGAAAGAGAAGCAGGAGGGAAGAGAAAGTATGCGGCCTTCAATGATTAAGAACAAGGAGAAAAGAGCAGTTGTACATGCTAAGTTGAAGCAGCAGAAGAAGGTTGATAAGAGGAAGAAGGTTAAAGCTCGTGAAGCTGCTGAGAAAAAAGCGCTTGAGCTAGGGGAGGAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCTCCACCGAAGATGGTACCCCGTACGATTGAAAATACAAGGGAGTCAGATGAGACTGTCTGTTTACCTGATGATGAAGAG.................................................................................................................CTATTTGCTGGCAACGATGTTGATGAATTTAGTGCAGTTCTGAAGAATGAGCGTAGTCCGAAAATATTGATTACAACATCCCGTTATAACTCTACA............................................................................................AGAGGACCAGCATTTATTTCCGATCTTATTTCTGTGATTCCTAATGCTCATTACTATAAACGAGGAACATATGACCTGAAAAAG.........................................................................................................................................ATCGTCCAATATGCAAATGAGAAGGAATTTACTTCTGTTATTGTAGTCCACACCAATCGCCGTGAACCAG...........................................................................................................................................ATGCCCTTCTTGTCATTGGTTTACCTGATGGACCTACTGCTCATTTCAAGCTCTCAAAGCTCATGCTACGGAAGGATATCAAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATCATGGAAAGCCAACCAGTCACAAGCCTGAGCTGGTTTTGACCAACTTCACAACACGTTTGGGGCATCGAGTTGGGAG...............................................................................................................................................................................................................................GATGATACAGTCACTTTTCCCACAAGATCCCGAATTTCGTGGACGTCGAGTTGTGACCTTCCACAACCAGCGTGATTTCATATTTTTTCGCCATCATCG........................................................................................................CTACATTTTTGAAACCAAAGAGAGCAAACAGAAAGAATCAAAAGGTAATAAAAGCAA</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-C11HBa0249E07-l3oFl/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8150-2" ref_strand="+" ref_description="SGN-M8150-2 C2_At4g01560-2 [cosii_markers]">
      <seq>gccgtttagcttcactacaaaaccttcttccattttgctcttctccattagctccgccgccgacatcctctgcactacactttctatggggagaaaacggaacttgagcgaagatggtggcggggaagacgaagaagagaggccgatgaaagagagaagggtgaaagagaagcaggagggaagagaaagtatgcggccttcaatgattaagaacaaggagaaaagagcagctgtacatgctaagttgaagcagcagaagaaggttgagaagaggaagaaggttaaagctcgtgaagctgctgagaaaaaagcacttgagctaggggaggagcctccagcgaagatggtaccccgtacgattgagaatacaagggaatcagatgagactgtctgtttacctgatgatgaagagctatttgctggcaacgatgttgatgagtttagtgcagttctgaagaacgagcgtagtccaaaaatattgattacaacatcccgttataactctacaagaggaccagcatttatttccgatcttatttctgtgattcctaatgctcattactataaacgaggaacatatgacctgaaaaagatcgtccaatatgcaaatgagaaggaatttacttctgttattgtagtccacaccaatcgccgtgagccagatgctcttcttgtcattggtttacctgatggacctactgctcatttcaagctctcaaagctcatgctacggaaggatatcaagaatcatggaaagccaactagtcacaagcctgagctggttttgaccaacttcacaacacgtttgggtcatcgagttgggaggatgatacagtcactttttccacaagatcccgaatttcgtggacgtcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C11HBa0249E07-l3oFl/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C11HBa0249E07.1" temp_strand="-" temp_description="C11HBa0249E07.1  AC220059.1 htgs_phase:3 submitted_to_sgn_as:gi|170933589|gb|AC220059.1| sequenced_by:ivf-caas upload_account_name:china11 Solanum lycopersicum chromosome 11 clone C11HBa0249E07, complete sequence">
        <position start="9387" stop="4142"/>
      </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="9087" g_stop="8757" g_length="331"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="331" r_length="331" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8756" i_stop="7114" i_length="1643">
            <donor d_prob="0.961" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="7113" g_stop="7033" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="332" r_stop="412" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="7032" i_stop="6920" i_length="113">
            <donor d_prob="0.984" d_score="1.00"/>
            <acceptor a_prob="0.441" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6919" g_stop="6824" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="413" r_stop="508" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="6823" i_stop="6732" i_length="92">
            <donor d_prob="0.697" d_score="1.00"/>
            <acceptor a_prob="0.967" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="6731" g_stop="6648" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="509" r_stop="592" r_length="84" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="6647" i_stop="6511" i_length="137">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="6510" g_stop="6441" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="593" r_stop="662" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="6440" i_stop="6302" i_length="139">
            <donor d_prob="0.848" d_score="1.00"/>
            <acceptor a_prob="0.985" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="6301" g_stop="6219" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="663" r_stop="745" r_length="83" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="6218" i_stop="4793" i_length="1426">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="4792" g_stop="4713" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="746" r_stop="825" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="4712" i_stop="4490" i_length="223">
            <donor d_prob="0.975" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="4489" g_stop="4442" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="826" r_stop="873" r_length="48" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C11HBa0249E07.1" gen_strand="-" ref_id="SGN-M8150-2" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>873</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C11HBa0249E07.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8150-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="9087" e_stop="8757"/>
          <exon e_start="7113" e_stop="7033"/>
          <exon e_start="6919" e_stop="6824"/>
          <exon e_start="6731" e_stop="6648"/>
          <exon e_start="6510" e_stop="6441"/>
          <exon e_start="6301" e_stop="6219"/>
          <exon e_start="4792" e_stop="4713"/>
          <exon e_start="4489" e_stop="4442"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCGTTTAGCTTCACTACAAAACCTTCTTCCATTTTGCTCTTCTCCATTAGCTCCGCCGCCGACATCCTCTGCACTACACTTTCTATGGGGAGAAAACGGAACTTGAGCGAAGATGGTGGCGGGGAAGACGAAGAAGAGAGGCCGATGAAAGAGAGAAGGGTGAAAGAGAAGCAGGAGGGAAGAGAAAGTATGCGGCCTTCAATGATTAAGAACAAGGAGAAAAGAGCAGCTGTACATGCTAAGTTGAAGCAGCAGAAGAAGGTTGAGAAGAGGAAGAAGGTTAAAGCTCGTGAAGCTGCTGAGAAAAAAGCACTTGAGCTAGGGGAGGAGGTAAAGCGTCTACTGAAATTTACAATTTTTACGGATTTGGGGTTTAGGGTTGATTTTGTGAATTGACATAATGGGGTTGTTTATTTGTGGGAATTGATTGATGGGTCGATGTGTTTTTTGTTCAAATTTAAAAAATATCTGGTTCTTAGGGTGTAGTGTTTTGATTCTTGATTGTGAGGTTGGGCATTGTGGGATTGTTTCTTAATGCTACTTAATTAATGGTTAGATGATGTTTTGGATTGTTTAACAAATAACAACAACATATGGTTGTATTTAATTACCAGTAGCAAATCATTGCAATTCAAGCTGCCAACACAGCATGCTTGGTTCTTAGATGGATCACACAGTGTACTAGAGCTCTAACATGTCTCTATTGCTCAGTACTTATAGCTAAGTAAAACTTTTCTAATGCTAGGTTGGGATCTAACAATAGTTATGTAGGCTAACTCTTTGGCCATACTTTCGACATGTCTACTCTTATTCACAAATACTCTATTGTTCCTTTTAATATACAGCCCATACACACATTTGGCCAAAATATTTTTTAAAGATTTGAGCTTGCTGCGAATTCCCTTTCCCATGTTGAATACTCCCTTGTAGAGAATGGGCCCAATCTGAAAATGGAAAGGCGTGCTGCTGGATCCACATAAGCAATTTGTTCCACAGGTATATGGAGAATGGGCGTTGCACAAATAAGTGCTCAATAGATTCTTCCTTACTCTGGCAAAATACACATATTTTAGGTACATCCAGACCCCATTTAGTTAGTCTATCTGTTGTTGCCAACTTCCTATGCAGCATGAGCCACATAATAAAGCACGCTTTAGGTCTGGCTCCATTTTGAACACAAGGCATTTCCATCCTATTCTGGGTTGGTCCACTACAGAAATAAGTATATTTTGTCTGATCAAGCTCCCCTTCCTGTTATCTCTTTGTTGCATTTGATCAACTATATTTGTCCGCCCGTAATCTTTCTGGTCATCCAGCTCGCTTGACTATGGGGAGTCCATGGAGTCTGGGAAGGTGATGCAGCCCTACTCCTATCTTACCTTCAGAACGTAAGTTTAAGTATGTGGAGCAAATACAGTAGCAAAGAAACCATGTTGAAAACAATTAAGAAGAGAACAAGTAGCGACAACAAATAACACGATAACTGATGCAAACGGGAACTAAACAAATGCTTTACTGCCTATCAATTAAAAACCAAACCGCAGAGCAAAAAGTTAAAAATCTTACCTGTTAAGCAACTCAGTCATTTGGCCCATAAAGTATTCATGATACTAAAGAGTCTCCCCATAACATTGCTCATGCATATCCCATGGAGAATGGTACAAACCCAGTTCCAGACTATCATGGGAATTAATTAATGGGTGGATGTTGTTTTTTGCCGTCACGTCTAAAATTTGAAAATATTTGGTTCTTAGGGTGTAATGTTTTGATTATTGATTATGCAGTTGAACATTTTGGGATTGTTTGTTAAGGGTATTTAGTTAATGGGTGAATGATATTTTTGTGAACTGGCTGCCTAAATTTCCAATATCCAGTTCTTAGGGTTTAAGGTTTTTGATTGTTGATTGTCTGATTGAGCATTTTAGTTCCTTTTTCCAAACTGCTTAACGGGTCGATGCTCTTTTTGTGAACAGCCTCCAGCGAAGATGGTACCCCGTACGATTGAGAATACAAGGGAATCAGATGAGACTGTCTGTTTACCTGATGATGAAGAGGTTTTCGATTATTCTTGTTTGATTCTTCAAGTTAATAGTGAAATATATGTAGTTTTATCACTGGAGGTTTGGCCATTAAATATTCTGGTGTTCCTCCTGATTTGTGTTTGAAGCTATTTGCTGGCAACGATGTTGATGAGTTTAGTGCAGTTCTGAAGAACGAGCGTAGTCCAAAAATATTGATTACAACATCCCGTTATAACTCTACAGTAAGCTTGTATAATTTGTGCTTCCCTATTGCTTTGATTATTGTTGACTTTGAATTTAATTCCACAAATAATTTCGTTATTCCATTCTTCAGAGAGGACCAGCATTTATTTCCGATCTTATTTCTGTGATTCCTAATGCTCATTACTATAAACGAGGAACATATGACCTGAAAAAGGTTCTTTCTTGCCTTCTCTTTTCTCATTCCTTTTATGTTTCTTGGTGATATGAATGAATGCCCTCATATTATTCAAATTCAAGGAGTTTTTCCATTGTACTAGTTCGAAATGTTCATTGCTTTTCTAACTTTTGCAGATCGTCCAATATGCAAATGAGAAGGAATTTACTTCTGTTATTGTAGTCCACACCAATCGCCGTGAGCCAGGTCATATTCTTGAACACATAGCTTTTTTTGATTCCTCTAAAAATAGCTATGGATTGTGTTCTTGCATTCATTCACCTTTCCAGTTTCTTTGTTGGTCTGAATTGCCAGCTTGATCATTTTTTTCATTTTCTTTCTTTAGATGCTCTTCTTGTCATTGGTTTACCTGATGGACCTACTGCTCATTTCAAGCTCTCAAAGCTCATGCTACGGAAGGATATCAAGGTTCGATAGTTCTCCTTCTAAATAGATCTTTCTCCCCCACCTTCACTGAAAAAATGCAGGGAAAGAAAAGGAACGTAGTAAGGGAACTTACAACTTATGCTGTTGTCTAATTGCTTCTGGTTGATGCATTTTACACTAAACATTACAGTTTTATTAATTCCTGCAAAAAGAATCAAATGAGAATGAGCTTGTCTTGAAGTCAGCTGAGTTGTATGAATTAAATCAACAGTCGAAGTTATTTGGTTCTCTTAGAAATTACTAATGTTTTCAAATAGATGATGTTGTGTCTGACTTTTTTGTGGAAATTTCATCCTATTGCATTGCCTCGTGCCATATTAACAATTAGTTTGGTTTTCCTCTACATTTTTTGTGAGTGATTTGCACGTATGTCATGCTGTCTTTGTACTATGATAATCAATCAGGTATCAAGAAGTTGTATTATGCAGGACAAGATTAAGTGCTACTCCCTACATTTCAAATTAATTGAAAATCAGTGAAATGTTGATGTGTTCCAACAAGGGAGTGAAGGTTAGGCTGCTAAAATTGAGATGTGAATGCTAAGATGGATGTACCGACATACGAGATTATATAAGATAAAAAATGATCACATTCGCCACAAAGTGCAAACAGCACACATTGAGGATACGATGAAAGAAAATCGTTTTGAGATGATTTGGTCATGTGCTGCGTTGACACCAGATACACCACAGTAAGTGAAGGTGATAAAATAGAAGAGATGGACCTAAACTTAAACGGAAGAAAGTTGTCTACAAAGACCTATGGTATCTTGAAATGAATGCTGAATTTGTGAAAGATATAACACAACAGTAGAGAAATATTTATATAGGTGAATATAAATTAATTGAGAATATATATTCTTTCCTTGGGGCCAACGCTTAGGACCATCTGCAGCCTTTGAACCTCGAGGATAATGGACTAAAATATGACCTCAACTAATAGCTTTCATGACTTGGTTCAAGTGACGAAGGTTGAGTGACTTGTGAGTTGTGACTTAGGTCAGAAGTTCAAGTCGCACGCCAATTCTAACCAAGCCTGGTACTTAAGTGGAGAAGGATGGAAAAACATACTTTAGTGTCAGCGGAATCACTAGGACATGCTCATTTTATTTTTTTGATACTAGACATGCTCATTTTAGCAAAAGTGAAAAAGTCTGTCTGGGATTATTTTTAAAAGGAGTCCACTTGAGAAGGTGAAAGCTGTGCGTTCTCTTCTTGGAGAGAGAAGCCTAATTTATTGCAAGTTAACCACCATTCAGAAAATTCCTTTTTCATAATGGTTCTAATGCTAATGCTGCTGTGTGTATCTATGTATAACTCAGCATAAGATGTTGTAAGTTAAAGCAATCAATCAATGAGGTTAATATGAATAGTAGATATTCAAGTAACGACTCCTTTTTTGCTTGCAGAATCATGGAAAGCCAACTAGTCACAAGCCTGAGCTGGTTTTGACCAACTTCACAACACGTTTGGGTCATCGAGTTGGGAGGTAGAGCCACTATGATTTTGCTGGATTACTGTAATTCTTGTAATTATTTCCAGCGACCAAGTATCTGAGACATTTTATACATTAATAAAAGTTGACACCATTTACTGATGGAGAGATAGAAATAAGATGAAAATCTATCTTTAACTTATAGCTCCTCTTTGAGAAACTTATGTTACAAGTGATTATCTAAGATAATAAATGTCTGCTGATTTTGTTCATGCAGGATGATACAGTCACTTTTTCCACAAGATCCCGAATTTCGTGGACGTCG</genome_strand>
        <mrna_strand>GCCGTTTAGCTTCACTACAAAACCTTCTTCCATTTTGCTCTTCTCCATTAGCTCCGCCGCCGACATCCTCTGCACTACACTTTCTATGGGGAGAAAACGGAACTTGAGCGAAGATGGTGGCGGGGAAGACGAAGAAGAGAGGCCGATGAAAGAGAGAAGGGTGAAAGAGAAGCAGGAGGGAAGAGAAAGTATGCGGCCTTCAATGATTAAGAACAAGGAGAAAAGAGCAGCTGTACATGCTAAGTTGAAGCAGCAGAAGAAGGTTGAGAAGAGGAAGAAGGTTAAAGCTCGTGAAGCTGCTGAGAAAAAAGCACTTGAGCTAGGGGAGGAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCTCCAGCGAAGATGGTACCCCGTACGATTGAGAATACAAGGGAATCAGATGAGACTGTCTGTTTACCTGATGATGAAGAG.................................................................................................................CTATTTGCTGGCAACGATGTTGATGAGTTTAGTGCAGTTCTGAAGAACGAGCGTAGTCCAAAAATATTGATTACAACATCCCGTTATAACTCTACA............................................................................................AGAGGACCAGCATTTATTTCCGATCTTATTTCTGTGATTCCTAATGCTCATTACTATAAACGAGGAACATATGACCTGAAAAAG.........................................................................................................................................ATCGTCCAATATGCAAATGAGAAGGAATTTACTTCTGTTATTGTAGTCCACACCAATCGCCGTGAGCCAG...........................................................................................................................................ATGCTCTTCTTGTCATTGGTTTACCTGATGGACCTACTGCTCATTTCAAGCTCTCAAAGCTCATGCTACGGAAGGATATCAAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATCATGGAAAGCCAACTAGTCACAAGCCTGAGCTGGTTTTGACCAACTTCACAACACGTTTGGGTCATCGAGTTGGGAG...............................................................................................................................................................................................................................GATGATACAGTCACTTTTTCCACAAGATCCCGAATTTCGTGGACGTCG</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-C11HBa0249E07-l3oFl/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M2159" ref_strand="+" ref_description="SGN-M2159 T1648 [cos_markers]">
      <seq>taccattaaaacaactttttggattttatatccaaacaattattatggaattccttctttatttacttttatttttcttactcaattcaagattaatcaattctcaaagtcccccttcacctggctactatcctagttctagggcacaatctataggatttaaccaaagttttagaaacctttggggtcctcaacatcaatcattggaccaaagtaccttaactatatggcttgataaaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C11HBa0249E07-l3oFl/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C11HBa0249E07.1" temp_strand="-" temp_description="C11HBa0249E07.1  AC220059.1 htgs_phase:3 submitted_to_sgn_as:gi|170933589|gb|AC220059.1| sequenced_by:ivf-caas upload_account_name:china11 Solanum lycopersicum chromosome 11 clone C11HBa0249E07, complete sequence">
        <position start="17251" stop="16410"/>
      </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="16951" g_stop="16710" g_length="242"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="242" r_length="242" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C11HBa0249E07.1" gen_strand="-" ref_id="SGN-M2159" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>242</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C11HBa0249E07.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M2159" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16951" e_stop="16710"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACCATTAAAACAACTTTTTGGATTTTATATCCAAACAATTATTATGGAATTCCTTCTTTATTTACTTTTATTTTTCTTACTCAATTCAAGATTAATCAATGCTCAAGGTCCCCCTTCACCTGGCTACTATCCTAGTTCTAGGGCACAATCTATAGGATTTAACCAAGGTTTTAGAAACCTTTGGGGTCCTCAACATCAATCATTGGACCAAAGTACCTTAACTATATGGCTTGATAAAAAT</genome_strand>
        <mrna_strand>TACCATTAAAACAACTTTTTGGATTTTATATCCAAACAATTATTATGGAATTCCTTCTTTATTTACTTTTATTTTTCTTACTCAATTCAAGATTAATCAATTCTCAAAGTCCCCCTTCACCTGGCTACTATCCTAGTTCTAGGGCACAATCTATAGGATTTAACCAAAGTTTTAGAAACCTTTGGGGTCCTCAACATCAATCATTGGACCAAAGTACCTTAACTATATGGCTTGATAAAAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>3</total_number_ESTs_reported>
    </alignment_module>
  <PGL_module xmlns="http://www.genomethreader.org/GTH_output/PGL_module/">
    <predicted_gene_location>
      <PGL_line PGL_serial="1" PGL_strand="-" PGL_start="9087" PGL_stop="4230"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="9087" e_stop="8757"/>
            <exon e_start="7113" e_stop="7033"/>
            <exon e_start="6919" e_stop="6824"/>
            <exon e_start="6731" e_stop="6648"/>
            <exon e_start="6510" e_stop="6441"/>
            <exon e_start="6301" e_stop="6219"/>
            <exon e_start="4792" e_stop="4713"/>
            <exon e_start="4489" e_stop="4391"/>
            <exon e_start="4286" e_stop="4230"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.961" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="0.984" acc_prob="0.441" e_score="1.000"/>
          <exon-intron don_prob="0.697" acc_prob="0.967" e_score="1.000"/>
          <exon-intron don_prob="0.992" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.848" acc_prob="0.985" e_score="1.000"/>
          <exon-intron don_prob="0.973" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.975" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.951" e_score="0.990"/>
          <exon-only e_score="0.982"/>
        </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="9087" e_stop="8757" e_length="331"/>
          </exon>
          <intron i_serial="1" don_prob="0.961" acc_prob="0.991">
            <gDNA_intron_boundary i_start="8756" i_stop="7114" i_length="1643"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="7113" e_stop="7033" e_length="81"/>
          </exon>
          <intron i_serial="2" don_prob="0.984" acc_prob="0.441">
            <gDNA_intron_boundary i_start="7032" i_stop="6920" i_length="113"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="6919" e_stop="6824" e_length="96"/>
          </exon>
          <intron i_serial="3" don_prob="0.697" acc_prob="0.967">
            <gDNA_intron_boundary i_start="6823" i_stop="6732" i_length="92"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="6731" e_stop="6648" e_length="84"/>
          </exon>
          <intron i_serial="4" don_prob="0.992" acc_prob="0.997">
            <gDNA_intron_boundary i_start="6647" i_stop="6511" i_length="137"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="6510" e_stop="6441" e_length="70"/>
          </exon>
          <intron i_serial="5" don_prob="0.848" acc_prob="0.985">
            <gDNA_intron_boundary i_start="6440" i_stop="6302" i_length="139"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="6301" e_stop="6219" e_length="83"/>
          </exon>
          <intron i_serial="6" don_prob="0.973" acc_prob="0.995">
            <gDNA_intron_boundary i_start="6218" i_stop="4793" i_length="1426"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="4792" e_stop="4713" e_length="80"/>
          </exon>
          <intron i_serial="7" don_prob="0.975" acc_prob="0.999">
            <gDNA_intron_boundary i_start="4712" i_stop="4490" i_length="223"/>
          </intron>
          <exon e_serial="8" e_score="0.990">
            <gDNA_exon_boundary e_start="4489" e_stop="4391" e_length="99"/>
          </exon>
          <intron i_serial="8" don_prob="0.994" acc_prob="0.951">
            <gDNA_intron_boundary i_start="4390" i_stop="4287" i_length="104"/>
          </intron>
          <exon e_serial="9" e_score="0.982">
            <gDNA_exon_boundary e_start="4286" e_stop="4230" e_length="57"/>
          </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="9087" stop="8757"/>
              <exon start="7113" stop="7033"/>
              <exon start="6919" stop="6824"/>
              <exon start="6731" stop="6648"/>
              <exon start="6510" stop="6441"/>
              <exon start="6301" stop="6219"/>
              <exon start="4792" stop="4713"/>
              <exon start="4489" stop="4442"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8150-2" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="9079" stop="8757"/>
              <exon start="7113" stop="7033"/>
              <exon start="6919" stop="6824"/>
              <exon start="6731" stop="6648"/>
              <exon start="6510" stop="6441"/>
              <exon start="6301" stop="6219"/>
              <exon start="4792" stop="4713"/>
              <exon start="4489" stop="4391"/>
              <exon start="4286" stop="4230"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8150-3" 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>GCCGTTTAGCTTCACTACAAAACCTTCTTCCATTTTGCTCTTCTCCATTAGCTCCGCCGCCGACATCCTCTGCACTACACTTTCTATGGGGAGAAAACGGAACTTGAGCGAAGATGGTGGCGGGGAAGACGAAGAAGAGAGGCCGATGAAAGAGAGAAGGGTGAAAGAGAAGCAGGAGGGAAGAGAAAGTATGCGGCCTTCAATGATTAAGAACAAGGAGAAAAGAGCAGCTGTACATGCTAAGTTGAAGCAGCAGAAGAAGGTTGAGAAGAGGAAGAAGGTTAAAGCTCGTGAAGCTGCTGAGAAAAAAGCACTTGAGCTAGGGGAGGAG : CCTCCAGCGAAGATGGTACCCCGTACGATTGAGAATACAAGGGAATCAGATGAGACTGTCTGTTTACCTGATGATGAAGAG : CTATTTGCTGGCAACGATGTTGATGAGTTTAGTGCAGTTCTGAAGAACGAGCGTAGTCCAAAAATATTGATTACAACATCCCGTTATAACTCTACA : AGAGGACCAGCATTTATTTCCGATCTTATTTCTGTGATTCCTAATGCTCATTACTATAAACGAGGAACATATGACCTGAAAAAG : ATCGTCCAATATGCAAATGAGAAGGAATTTACTTCTGTTATTGTAGTCCACACCAATCGCCGTGAGCCAG : ATGCTCTTCTTGTCATTGGTTTACCTGATGGACCTACTGCTCATTTCAAGCTCTCAAAGCTCATGCTACGGAAGGATATCAAG : AATCATGGAAAGCCAACTAGTCACAAGCCTGAGCTGGTTTTGACCAACTTCACAACACGTTTGGGTCATCGAGTTGGGAG : GATGATACAGTCACTTTTTCCACAAGATCCCGAATTTCGTGGACGTCGAGTTGTGACCTTCCACAACCAGCGTGATTTCATATTTTTTCGCCATCATCG : CTACATTTTTGAAACCAAAGAGAGCAAACAGAAAGAATCAAAAGGTAAAAAAAGCAA</gDNA_template>
            <first_frame> A  V  *  L  H  Y  K  T  F  F  H  F  A  L  L  H  *  L  R  R  R  H  P  L  H  Y  T  F  Y  G  E  K  T  E  L  E  R  R  W  W  R  G  R  R  R  R  E  A  D  E  R  E  K  G  E  R  E  A  G  G  K  R  K  Y  A  A  F  N  D  *  E  Q  G  E  K  S  S  C  T  C  *  V  E  A  A  E  E  G  *  E  E  E  E  G  *  S  S  *  S  C  *  E  K  S  T  *  A  R  G  G   : A  S  S  E  D  G  T  P  Y  D  *  E  Y  K  G  I  R  *  D  C  L  F  T  *  *  *  R   : A  I  C  W  Q  R  C  *  *  V  *  C  S  S  E  E  R  A  *  S  K  N  I  D  Y  N  I  P  L  *  L  Y   : K  R  T  S  I  Y  F  R  S  Y  F  C  D  S  *  C  S  L  L  *  T  R  N  I  *  P  E  K   : D  R  P  I  C  K  *  E  G  I  Y  F  C  Y  C  S  P  H  Q  S  P  *  A  R :   C  S  S  C  H  W  F  T  *  W  T  Y  C  S  F  Q  A  L  K  A  H  A  T  E  G  Y  Q   : E  S  W  K  A  N  *  S  Q  A  *  A  G  F  D  Q  L  H  N  T  F  G  S  S  S  W  E  :  D  D  T  V  T  F  S  T  R  S  R  I  S  W  T  S  S  C  D  L  P  Q  P  A  *  F  H  I  F  S  P  S  S  :  L  H  F  *  N  Q  R  E  Q  T  E  R  I  K  R  *  K  K  Q </first_frame>
            <second_frame>  P  F  S  F  T  T  K  P  S  S  I  L  L  F  S  I  S  S  A  A  D  I  L  C  T  T  L  S  M  G  R  K  R  N  L  S  E  D  G  G  G  E  D  E  E  E  R  P  M  K  E  R  R  V  K  E  K  Q  E  G  R  E  S  M  R  P  S  M  I  K  N  K  E  K  R  A  A  V  H  A  K  L  K  Q  Q  K  K  V  E  K  R  K  K  V  K  A  R  E  A  A  E  K  K  A  L  E  L  G  E  E  :  P  P  A  K  M  V  P  R  T  I  E  N  T  R  E  S  D  E  T  V  C  L  P  D  D  E  E  :  L  F  A  G  N  D  V  D  E  F  S  A  V  L  K  N  E  R  S  P  K  I  L  I  T  T  S  R  Y  N  S  T  :  R  G  P  A  F  I  S  D  L  I  S  V  I  P  N  A  H  Y  Y  K  R  G  T  Y  D  L  K  K  :  I  V  Q  Y  A  N  E  K  E  F  T  S  V  I  V  V  H  T  N  R  R  E  P   : D  A  L  L  V  I  G  L  P  D  G  P  T  A  H  F  K  L  S  K  L  M  L  R  K  D  I  K  :  N  H  G  K  P  T  S  H  K  P  E  L  V  L  T  N  F  T  T  R  L  G  H  R  V  G  R :   M  I  Q  S  L  F  P  Q  D  P  E  F  R  G  R  R  V  V  T  F  H  N  Q  R  D  F  I  F  F  R  H  H  R :   Y  I  F  E  T  K  E  S  K  Q  K  E  S  K  G  K  K  S   </second_frame>
            <third_frame>   R  L  A  S  L  Q  N  L  L  P  F  C  S  S  P  L  A  P  P  P  T  S  S  A  L  H  F  L  W  G  E  N  G  T  *  A  K  M  V  A  G  K  T  K  K  R  G  R  *  K  R  E  G  *  K  R  S  R  R  E  E  K  V  C  G  L  Q  *  L  R  T  R  R  K  E  Q  L  Y  M  L  S  *  S  S  R  R  R  L  R  R  G  R  R  L  K  L  V  K  L  L  R  K  K  H  L  S  *  G  R  S :   L  Q  R  R  W  Y  P  V  R  L  R  I  Q  G  N  Q  M  R  L  S  V  Y  L  M  M  K  S :   Y  L  L  A  T  M  L  M  S  L  V  Q  F  *  R  T  S  V  V  Q  K  Y  *  L  Q  H  P  V  I  T  L  Q :   E  D  Q  H  L  F  P  I  L  F  L  *  F  L  M  L  I  T  I  N  E  E  H  M  T  *  K  R :   S  S  N  M  Q  M  R  R  N  L  L  L  L  L  *  S  T  P  I  A  V  S  Q  :  M  L  F  L  S  L  V  Y  L  M  D  L  L  L  I  S  S  S  Q  S  S  C  Y  G  R  I  S  R :   I  M  E  S  Q  L  V  T  S  L  S  W  F  *  P  T  S  Q  H  V  W  V  I  E  L  G   : G  *  Y  S  H  F  F  H  K  I  P  N  F  V  D  V  E  L  *  P  S  T  T  S  V  I  S  Y  F  F  A  I  I   : A  T  F  L  K  P  K  R  A  N  R  K  N  Q  K  V  K  K  A  </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="C11HBa0249E07.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="9086" stop="8757"/>
                    <exon start="7113" stop="7033"/>
                    <exon start="6919" stop="6824"/>
                    <exon start="6731" stop="6648"/>
                    <exon start="6510" stop="6441"/>
                    <exon start="6301" stop="6219"/>
                    <exon start="4792" stop="4713"/>
                    <exon start="4489" stop="4391"/>
                    <exon start="4286" stop="4232"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>978</number_coding_nucleotides>
                  <number_encoded_amino_acids>326</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PFSFTTKPSSILLFSISSAADILCTTLSMGRKRNLSEDGGGEDEEERPMKERRVKEKQEGRESMRPSMIKNKEKRAAVHAKLKQQKKVEKRKKVKAREAAEKKALELGEEPPAKMVPRTIENTRESDETVCLPDDEELFAGNDVDEFSAVLKNERSPKILITTSRYNSTRGPAFISDLISVIPNAHYYKRGTYDLKKIVQYANEKEFTSVIVVHTNRREPDALLVIGLPDGPTAHFKLSKLMLRKDIKNHGKPTSHKPELVLTNFTTRLGHRVGRMIQSLFPQDPEFRGRRVVTFHNQRDFIFFRHHRYIFETKESKQKESKGKKS</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="16951" PGL_stop="16710"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="16951" e_stop="16710"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.988"/>
        </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="0.988">
            <gDNA_exon_boundary e_start="16951" e_stop="16710" e_length="242"/>
          </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="16951" stop="16710"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M2159" 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>TACCATTAAAACAACTTTTTGGATTTTATATCCAAACAATTATTATGGAATTCCTTCTTTATTTACTTTTATTTTTCTTACTCAATTCAAGATTAATCAATGCTCAAGGTCCCCCTTCACCTGGCTACTATCCTAGTTCTAGGGCACAATCTATAGGATTTAACCAAGGTTTTAGAAACCTTTGGGGTCCTCAACATCAATCATTGGACCAAAGTACCTTAACTATATGGCTTGATAAAAAT</gDNA_template>
            <first_frame> Y  H  *  N  N  F  L  D  F  I  S  K  Q  L  L  W  N  S  F  F  I  Y  F  Y  F  S  Y  S  I  Q  D  *  S  M  L  K  V  P  L  H  L  A  T  I  L  V  L  G  H  N  L  *  D  L  T  K  V  L  E  T  F  G  V  L  N  I  N  H  W  T  K  V  P  *  L  Y  G  L  I  K   </first_frame>
            <second_frame>  T  I  K  T  T  F  W  I  L  Y  P  N  N  Y  Y  G  I  P  S  L  F  T  F  I  F  L  T  Q  F  K  I  N  Q  C  S  R  S  P  F  T  W  L  L  S  *  F  *  G  T  I  Y  R  I  *  P  R  F  *  K  P  L  G  S  S  T  S  I  I  G  P  K  Y  L  N  Y  M  A  *  *  K  </second_frame>
            <third_frame>   P  L  K  Q  L  F  G  F  Y  I  Q  T  I  I  M  E  F  L  L  Y  L  L  L  F  F  L  L  N  S  R  L  I  N  A  Q  G  P  P  S  P  G  Y  Y  P  S  S  R  A  Q  S  I  G  F  N  Q  G  F  R  N  L  W  G  P  Q  H  Q  S  L  D  Q  S  T  L  T  I  W  L  D  K  N </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C11HBa0249E07.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="16949" stop="16710"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>240</number_coding_nucleotides>
                  <number_encoded_amino_acids>80</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PLKQLFGFYIQTIIMEFLLYLLLFFLLNSRLINAQGPPSPGYYPSSRAQSIGFNQGFRNLWGPQHQSLDQSTLTIWLDKN</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 38 chains have been computed
$ 
$ memory statistics:
$ 6856 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 2285 bytes was the average size of a spliced alignment
$ 6960 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3480 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 39 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-18 06:01:43
-->
