<?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="2009-03-05 23:43:13"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C12HBa0120H06-WVRty/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C12HBa0120H06-WVRty/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" 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-C12HBa0120H06-WVRty/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U335935" ref_strand="+" ref_description="SGN-U335935        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: gi|49533772|gb|AAT66771.1| putative polyprotein [Solanum demissum] (evalue: 2e-78, score=295)">
      <seq>tcaatgcgaggaagaggatacttgttcttaatagttaccttgttcagttgtctgtagtctatgcacattctaaaacttccatccttcttcttcacaaataaaactggagcaccccaaggagatgcacttggtctaatgaagaccttgctcaacaactcttgaagttgagcctttaactctcttaattcggcgggagccattctataagggggtatagaaatggggcgtgtgcctggttcaagatcgatacagaagtcaatatccctatctggtggcataccaggaagatctgcaggaaacacgtccaaaaactcgcggactaccgaaaccgactcaattgagggtacttgagtagtgtcatccttgagatgtgccaagaaagctgaacaccctttactaaccattttcttagcacgaagaaaggatatgatacgcaccagattggaagtgtagtcaccctcccacactaacggatctgtcccaggcttggctaacgtcaccgttttagcattacaatccaagatcgcaaaatttggagaaagccaagtcatacccagaattacatcaatgtcacccatttctaaaaaaccaaatctacataagtgttgctccccacgaaattcnacaaaacagaactatgtaccttttcaactaccac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0120H06-WVRty/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0120H06.1" temp_strand="+" temp_description="C12HBa0120H06.1  htgs_phase:2 submitted_to_sgn_as:C12HBa0120H06">
        <position start="26" stop="1267"/>
      </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="326" g_stop="984" g_length="659"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="658" r_length="658" r_score="0.901"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0120H06.1" gen_strand="+" ref_id="SGN-U335935" ref_strand="+">
        <total_alignment_score>0.901</total_alignment_score>
        <cumulative_length_of_scored_exons>659</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0120H06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U335935" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="326" e_stop="984"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAATGCGGGGAAGATGATACTTGTTCTTTATGGTTACCTTGTTTAGTTGTCTGTAGTCTATACACATTCGAAAACTCCCATCCTTCTTCTTTACAAACAAAACCAGAGCACCCCAAGGAGATGCACTTGGTCTAATAAAGCCTTTGTTCAATAACTCTTGAAGTTGTGCCTTTAACTCTCTTAACTTTGCGGGAGCCATTCTATAAGAGGGTATAGAAATGGGGCGTGTGCCCGGTTCGAGATCGATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGAAGATCTGCAGGGAACACATCCAGAAACTCACGGACTACTGAAACCGACTCAATCGAAGGCACTTGGGTAGTGTCATCCTTGAGATGTGCCAAGAAAGCTAAACACCCTTTACTAACCATTTTCTTAGAACGAAGAAAGGAGATGATACGCACCGGATTGGAAGTGTAGTCACCCTCCCACACCAACGGATTTTTCCCAGGCTTGGCTAACGTCACCGTTTTAGCATTACAATCCAAGATCGCAAATTGCGGAGAAAGCCAAGTCATACCTAGAATCACATCAAAATCGACCATTTCTAAGATAACCAAGTCTACATAAGTATTGCTCCCCACAAAAGT-TACAAGACAAGACCTATACACCCTTTCAACTATCAC</genome_strand>
        <mrna_strand>TCAATGCGAGGAAGAGGATACTTGTTCTTAATAGTTACCTTGTTCAGTTGTCTGTAGTCTATGCACATTCTAAAACTTCCATCCTTCTTCTTCACAAATAAAACTGGAGCACCCCAAGGAGATGCACTTGGTCTAATGAAGACCTTGCTCAACAACTCTTGAAGTTGAGCCTTTAACTCTCTTAATTCGGCGGGAGCCATTCTATAAGGGGGTATAGAAATGGGGCGTGTGCCTGGTTCAAGATCGATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGAAGATCTGCAGGAAACACGTCCAAAAACTCGCGGACTACCGAAACCGACTCAATTGAGGGTACTTGAGTAGTGTCATCCTTGAGATGTGCCAAGAAAGCTGAACACCCTTTACTAACCATTTTCTTAGCACGAAGAAAGGATATGATACGCACCAGATTGGAAGTGTAGTCACCCTCCCACACTAACGGATCTGTCCCAGGCTTGGCTAACGTCACCGTTTTAGCATTACAATCCAAGATCGCAAAATTTGGAGAAAGCCAAGTCATACCCAGAATTACATCAATGTCACCCATTTCTAA-AAAACCAAATCTACATAAGTGTTGCTCCCCACGAAATTCNACAAAAC-AGAACTATGTACCTTTTCAACTACCAC</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-C12HBa0120H06-WVRty/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U335938" ref_strand="-" ref_description="SGN-U335938        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: gi|49533772|gb|AAT66771.1| putative polyprotein [Solanum demissum] (evalue: 4e-59, score=231)">
      <seq>gcaaggtaggatgtaggtcaatgcatatgaggctaagtttcgtgcactatccagatatgccactcaactttgtttcagtccacaagagaggattcgtcgttttgtgaaagggttgaggtcagagttgcggatttcagcgttacaggtagcggctacggcaaaatccttgcaagaaatggttgacttcgatgtaattctgggtatgacttggctttctccaaattttgcaatcttggattgtaatgctaaaaccgtgacgttagccaagcctgggacagatctgttagtgtaggagggtgactacacttccaatccggtgcgtatcatctcctttcttcgtgctaagaaaatggttagtaaagggtgtttagctttcttggcacatctcaaggataacactacccaagtaccttcgattgactcagtttcagtagttcgtgagtttatggatgtgttccctgcagatcatcctggtatgccaccggatagggatattgacttctgtattgatctcgaaccgggcacacgccccatttttatacccccttatagaatggctcccgcagagttaagagagttaaaggcacaacttcaagagttattgaacaaaggcttcattagaccaagtgcatctccttggggtgctccggttttgttgtaaagatcggcagtttttgaatgtgcatagactaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0120H06-WVRty/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0120H06.1" temp_strand="-" temp_description="C12HBa0120H06.1  htgs_phase:2 submitted_to_sgn_as:C12HBa0120H06">
        <position start="2121" stop="114"/>
      </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="1821" g_stop="1649" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="173" r_length="173" r_score="0.890"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1648" i_stop="906" i_length="743">
            <donor d_prob="0.000" d_score="0.88"/>
            <acceptor a_prob="0.000" a_score="0.84"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="905" g_stop="378" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="174" r_stop="694" r_length="521" r_score="0.920"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0120H06.1" gen_strand="-" ref_id="SGN-U335938" ref_strand="-">
        <total_alignment_score>0.913</total_alignment_score>
        <cumulative_length_of_scored_exons>701</cumulative_length_of_scored_exons>
        <coverage percentage="1.010" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0120H06.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U335938" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="1821" e_stop="1649"/>
          <exon e_start="905" e_stop="378"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAAGGTAGGATGTCGGTCAATACATATGAGGCTAAGTTTCGTGCATTATCCCGGTATGCCAACCAACTGTGTTTCAGTCCACAAGAGCGAATTCGCCGGTTTGTGAAGGGGTTGAGGTCAGAATTGCGGATTTCGGCCTTACAGATAGCGGCAACGGCAAAATCCTTCCAAGAGGTGGTAGACTTTGTGATAAAAGTGGAAGGAGTGAAGCCAGATGACTTCACTACGACATCGACATCAAAAAGGTTTCAAAAGGGAGGTGAGTTTAATGGTGCTTACACTAGAGGACAGGGTTCGGGAAGTTACTCAGTCCGACCAATTCATTCTTCACTACAGACTGTAGTTGGGGGACCACCTCAGACCGGTCAACACTTCTCCGAGAGACCTATGCTTGACTCCAGAGAGTGTTACGGATGTGGGCAGACAGGACATATTAGGAGGAATTTTCAAAAACAGAGTTACAGACCCCCAATAGCTAGAGGTAGAGGTGGTCATGGTAGAGGCCGTTTTTCTGGAGGGCGTGGTGGTCGAGGAAATGGTGGTCACCAAAACGGCCGAGGTGATGGGCAGACTGGATCCACTACATCACAACATGGTAGGGGCAACGGACAGACGAACGATAGGGCCCATTGTTACACTTTCCCTGGGCGGTCTGAGTGGAGGCATCTGATGTTGTCATCACAGGTAATCTTTTGGTTTGTGATTGCATGACTTCTGTATTATTTGATCCCGGATCCACATTTTCTTATGTATCTTCCGCATTTGCTAATGGTCTTAATTTACATTGTGAATTGCTTGACATACCTATTCGTGTTTCTACTCCGGTGGGTGAGCCTGTGATAGTTGAAAGGGTGTATAGGTCTTGTCTTGTAACTTTTGTGGGGAGCAATACTTATGTAGACTTGGTTATCTTAGAAATGGTCGATTTTGATGTGATTCTAGGTATGACTTGGCTTTCTCCGCAATTTGCGATCTTGGATTGTAATGCTAAAACGGTGACGTTAGCCAAGCCTGGGAAAAATCCGTTGGTGTGGGAGGGTGACTACACTTCCAATCCGGTGCGTATCATCTCCTTTCTTCGTTCTAAGAAAATGGTTAGTAAAGGGTGTTTAGCTTTCTTGGCACATCTCAAGGATGACACTACCCAAGTGCCTTCGATTGAGTCGGTTTCAGTAGTCCGTGAGTTTCTGGATGTGTTCCCTGCAGATCTTCCTGGTATGCCACCAGATAGGGATATTGACTTCTGTATCGATCTCGAACCGGGCACACGCCCCATTTCTATACCCTCTTATAGAATGGCTCCCGCAAAGTTAAGAGAGTTAAAGGCACAACTTCAAGAGTTATTGAACAAAGGCTTTATTAGACCAAGTGCATCTCCTTGGGGTGCTCTGGTTTTGTTTGTAAAGAAGAAGGATGGGAGTTTTCGAATGTGTATAGACTACA</genome_strand>
        <mrna_strand>GCAAGGTAGGATGTAGGTCAATGCATATGAGGCTAAGTTTCGTGCACTATCCAGATATGCCACTCAACTTTGTTTCAGTCCACAAGAGAGGATTCGTCGTTTTGTGAAAGGGTTGAGGTCAGAGTTGCGGATTTCAGCGTTACAGGTAGCGGCTACGGCAAAATCCTTGCAAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAATGGTTGACTTCGATGTAATTCTGGGTATGACTTGGCTTTCTCCAAATTTTGCAATCTTGGATTGTAATGCTAAAACCGTGACGTTAGCCAAGCCTGGGACAGATCTGTTAGTGTAGGAGGGTGACTACACTTCCAATCCGGTGCGTATCATCTCCTTTCTTCGTGCTAAGAAAATGGTTAGTAAAGGGTGTTTAGCTTTCTTGGCACATCTCAAGGATAACACTACCCAAGTACCTTCGATTGACTCAGTTTCAGTAGTTCGTGAGTTTATGGATGTGTTCCCTGCAGATCATCCTGGTATGCCACCGGATAGGGATATTGACTTCTGTATTGATCTCGAACCGGGCACACGCCCCATTTTTATACCCCCTTATAGAATGGCTCCCGCAGAGTTAAGAGAGTTAAAGGCACAACTTCAAGAGTTATTGAACAAAGGCTTCATTAGACCAAGTGCATCTCCTTGGGGTGCTCCGGTTTTG-TTGT--A-AAG-A--TCGGCAGTTTTTGAATGTGCATAGACTACA</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-C12HBa0120H06-WVRty/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U317065" ref_strand="+" ref_description="SGN-U317065        Tomato 200607 #1 [3 ESTs aligned] genbank/nr: gi|49533772|gb|AAT66771.1| putative polyprotein [Solanum demissum] (evalue: 3e-84, score=314)">
      <seq>cggaaactcccatccttcttcttcacaaacaaaatcggagcaccccaaggagatgcacttggtctaatgaaacctttgctcaacaactcttgaagttgggcctttaactctcttaactctacgggagccattctataagggggtatagaaatggggcgtgtgcccggttcaagatcgatacagaagtcaatatccctatctggtggcataccaggaagatctgcagggaacacatccaaaaactcacagactataaaaaccgactcaatcgaaggtacttgggtagtgtcatccttgagatgtgccaagaaagctaaacaccctttactaaccattttcttagcacgaagaaaggagatgatgcacaccggattggaagtgtagtcaccctcccacactaacggatctgtcccaggcttggctaatgtcaccgttttagcattacaatccaagatcgcaaattgcggagaaagccaagtcatacccagaattacatcaaaatcaaccatttctaagataaccaaatctacataagtgttgctccccacaaagttcaccaaacaagacctatataccttttcaactaccacagactcacccaccggagtagaaacacgaataggcatatcaagtaattcacaatgtaaatttagaccgttagcaaatgaggaagatacantagaaaacgtggatcccaggatcaacaatacagaagccatgcaatcacaatcgaaagattacctgtgatgacagcatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0120H06-WVRty/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0120H06.1" temp_strand="+" temp_description="C12HBa0120H06.1  htgs_phase:2 submitted_to_sgn_as:C12HBa0120H06">
        <position start="95" stop="1452"/>
      </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="395" g_stop="1152" g_length="758"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="757" r_length="757" r_score="0.922"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0120H06.1" gen_strand="+" ref_id="SGN-U317065" ref_strand="+">
        <total_alignment_score>0.922</total_alignment_score>
        <cumulative_length_of_scored_exons>758</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0120H06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U317065" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="395" e_stop="1152"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAAAACTCCCATCCTTCTTCTTTACAAACAAAACCAGAGCACCCCAAGGAGATGCACTTGGTCTAATAAAGCCTTTGTTCAATAACTCTTGAAGTTGTGCCTTTAACTCTCTTAACTTTGCGGGAGCCATTCTATAAGAGGGTATAGAAATGGGGCGTGTGCCCGGTTCGAGATCGATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGAAGATCTGCAGGGAACACATCCAGAAACTCACGGACTACTGAAACCGACTCAATCGAAGGCACTTGGGTAGTGTCATCCTTGAGATGTGCCAAGAAAGCTAAACACCCTTTACTAACCATTTTCTTAGAACGAAGAAAGGAGATGATACGCACCGGATTGGAAGTGTAGTCACCCTCCCACACCAACGGATTTTTCCCAGGCTTGGCTAACGTCACCGTTTTAGCATTACAATCCAAGATCGCAAATTGCGGAGAAAGCCAAGTCATACCTAGAATCACATCAAAATCGACCATTTCTAAGATAACCAAGTCTACATAAGTATTGCTCCCCACAAAAGTTACAAGACAAGACCTATACACCCTTTCAACTATCACAGGCTCACCCACCGGAGTAGAAACACGAATAGGTATGTCAAGCAATTCACAATGTAAATTAAGACCATTAGCAAATGCGGAAGATACATAAGAAAATGTGGAT-CCGGGATCAAATAATACAGAAGTCATGCAATCACAAACCAAAAGATTACCTGTGATGACAACATC</genome_strand>
        <mrna_strand>CGGAAACTCCCATCCTTCTTCTTCACAAACAAAATCGGAGCACCCCAAGGAGATGCACTTGGTCTAATGAAACCTTTGCTCAACAACTCTTGAAGTTGGGCCTTTAACTCTCTTAACTCTACGGGAGCCATTCTATAAGGGGGTATAGAAATGGGGCGTGTGCCCGGTTCAAGATCGATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGAAGATCTGCAGGGAACACATCCAAAAACTCACAGACTATAAAAACCGACTCAATCGAAGGTACTTGGGTAGTGTCATCCTTGAGATGTGCCAAGAAAGCTAAACACCCTTTACTAACCATTTTCTTAGCACGAAGAAAGGAGATGATGCACACCGGATTGGAAGTGTAGTCACCCTCCCACACTAACGGATCTGTCCCAGGCTTGGCTAATGTCACCGTTTTAGCATTACAATCCAAGATCGCAAATTGCGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTCTAAGATAACCAAATCTACATAAGTGTTGCTCCCCACAAAGTTCACCAAACAAGACCTATATACCTTTTCAACTACCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCATATCAAGTAATTCACAATGTAAATTTAGACCGTTAGCAAATGAGGAAGATACANTAGAAAACGTGGATCCCAGGATC-AACAATACAGAAGCCATGCAATCAC-AATCGAAAGATTACCTGTGATGACAGCATC</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-C12HBa0120H06-WVRty/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U335937" ref_strand="+" ref_description="SGN-U335937        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: beta-galactosidase(evalue: 3e-30, score=135)">
      <seq>gatctgtcccaggcttggctaacgtcacagttttagcattacaatccaagattgcaaaatttggagaaagccaagtcatacccagaattacatcaaaatcaaccatttctaagataaccaagtctacataagtattgctccccacaaaagtcaccagaccagacctatatactttttcaactatcacagactcacccaccggagtagaaacacgaataggcatgtcaagcaattcataatttaatttaagaccagtagcaaatgaggaagatacatatgaaaatgtggatccagggtcaaataatacaaaagccatgcaatcacaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0120H06-WVRty/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0120H06.1" temp_strand="+" temp_description="C12HBa0120H06.1  htgs_phase:2 submitted_to_sgn_as:C12HBa0120H06">
        <position start="498" stop="1428"/>
      </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="798" g_stop="1128" g_length="331"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="331" r_length="331" r_score="0.909"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0120H06.1" gen_strand="+" ref_id="SGN-U335937" ref_strand="+">
        <total_alignment_score>0.909</total_alignment_score>
        <cumulative_length_of_scored_exons>331</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0120H06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U335937" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="798" e_stop="1128"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTTTTCCCAGGCTTGGCTAACGTCACCGTTTTAGCATTACAATCCAAGATCGCAAATTGCGGAGAAAGCCAAGTCATACCTAGAATCACATCAAAATCGACCATTTCTAAGATAACCAAGTCTACATAAGTATTGCTCCCCACAAAAGTTACAAGACAAGACCTATACACCCTTTCAACTATCACAGGCTCACCCACCGGAGTAGAAACACGAATAGGTATGTCAAGCAATTCACAATGTAAATTAAGACCATTAGCAAATGCGGAAGATACATAAGAAAATGTGGATCCGGGATCAAATAATACAGAAGTCATGCAATCACAAACCAA</genome_strand>
        <mrna_strand>GATCTGTCCCAGGCTTGGCTAACGTCACAGTTTTAGCATTACAATCCAAGATTGCAAAATTTGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTCTAAGATAACCAAGTCTACATAAGTATTGCTCCCCACAAAAGTCACCAGACCAGACCTATATACTTTTTCAACTATCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCATGTCAAGCAATTCATAATTTAATTTAAGACCAGTAGCAAATGAGGAAGATACATATGAAAATGTGGATCCAGGGTCAAATAATACAAAAGCCATGCAATCACAAAAAAA</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-C12HBa0120H06-WVRty/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U335930" ref_strand="+" ref_description="SGN-U335930        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: hypothetical(evalue: 7e-35, score=150)">
      <seq>aaacacgaataggcatatcaagtaattcacaatgtaaagttagaccattagcaaatgaggaagatacataagaaaatgtggatccaggatcaaacaatacagaagccatgcaatcacaaaccaaaagattacctgtgatgacaacatcagattcctccgcttcagaccgcccagggaaagcgtaacaatgggccctatcattcttatgtctgttgcccctaccatgttgtgatgtagtggctccagtttgcccatcacctcggccgttttggtgaccaccatttcctcgaccgccacgtcctccagaataacggactctgccatgaccacctctacctctaacctttggaggtctgtaactctgttttggacaatatctcttaatatgtccaatctccccacacccatagcactctctgggttcatgcataagtctctcagagaagtgttgaccggtcgaaggtggacccccaactacagtctgtagtgaagactgaattggtcggactgagtaacttcccgaaccctgtcctctagtgtaagcaccattaaactcacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0120H06-WVRty/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0120H06.1" temp_strand="+" temp_description="C12HBa0120H06.1  htgs_phase:2 submitted_to_sgn_as:C12HBa0120H06">
        <position start="705" stop="1862"/>
      </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="1005" g_stop="1562" g_length="558"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="559" r_length="559" r_score="0.912"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0120H06.1" gen_strand="+" ref_id="SGN-U335930" ref_strand="+">
        <total_alignment_score>0.912</total_alignment_score>
        <cumulative_length_of_scored_exons>558</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0120H06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U335930" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1005" e_stop="1562"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACGAATAGGTATGTCAAGCAATTCACAATGTAAATTAAGACCATTAGCAAATGCGGAAGATACATAAGAAAATGTGGATCCGGGATCAAATAATACAGAAGTCATGCAATCACAAACCAAAAGATTACCTGTGATGACAACATCAGATGCCTCCAC-TCAGACCGCCCAGGGAAAGTGTAACAATGGGCCCTATCGTTCGTCTGTCCGTTGCCCCTACCATGTTGTGATGTAGTGGATCCAGTCTGCCCATCACCTCGGCCGTTTTGGTGACCACCATTTCCTCGACCACCACGCCCTCCAGAAAAACGGCCTCTACCATGACCACCTCTACCTCTAGCTATTGGGGGTCTGTAACTCTGTTTTTGAAAATTCCTCCTAATATGTCCTGTCTGCCCACATCCGTAACACTCTCTGGAGTCAAGCATAGGTCTCTCGGAGAAGTGTTGACCGGTCTGAGGTGGTCCCCCAACTACAGTCTGTAGTGAAGAATGAATTGGTCGGACTGAGTAACTTCCCGAACCCTGTCCTCTAGTGTAAGCACCATTAAACTCACC</genome_strand>
        <mrna_strand>AAACACGAATAGGCATATCAAGTAATTCACAATGTAAAGTTAGACCATTAGCAAATGAGGAAGATACATAAGAAAATGTGGATCCAGGATCAAACAATACAGAAGCCATGCAATCACAAACCAAAAGATTACCTGTGATGACAACATCAGATTCCTCCGCTTCAGACCGCCCAGGGAAAGCGTAACAATGGGCCCTATCATTCTTATGTCTGTTGCCCCTACCATGTTGTGATGTAGTGGCTCCAGTTTGCCCATCACCTCGGCCGTTTTGGTGACCACCATTTCCTCGACCGCCACGTCCTCCAGAATAACGGACTCTGCCATGACCACCTCTACCTCTAACCTTTGGAGGTCTGTAACTCTGTTTTGGACAATATCTCTTAATATGTCCAATCTCCCCACACCCATAGCACTCTCTGGGTTCATGCATAAGTCTCTCAGAGAAGTGTTGACCGGTCGAAGGTGGACCCCCAACTACAGTCTGTAGTGAAGACTGAATTGGTCGGACTGAGTAACTTCCCGAACCCTGTCCTCTAGTGTAAGCACCATTAAACTCACC</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-C12HBa0120H06-WVRty/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U317064" ref_strand="+" ref_description="SGN-U317064        Tomato 200607 #1 [6 ESTs aligned] genbank/nr: gi|47824972|gb|AAT38745.1| putative polyprotein, 3'-partial [Solanum demissum] (evalue: 5e-64, score=248)">
      <seq>acgaataggcatatcaagaaattcacaatgtaaatttagaccattagcaaatgaggaagatacataagaaaacgtggatccaggatcaaacaatacggaagccatgcaatcacaaactagaagattacctgtgatgacagcatcagatgcctccgcttcagaccgcccagggaaagcgtaacaatgggccctatcgtttgtctgcccattgcccctaccatgttgtgatgtagtggccccagtttgcccattacctctgccgttttggtgaccaccattacctcgaccaccacgtcctccagaataacggcctctaccatgaccacctctacctctagctattgggggtctataacttggtccgggacaatttatcctaatatgtccaatctccccacatccataacattctctggagtcactcataggccccttggagaagtgttgaccggtctgaggtggacccccaactacagtctgtagtgaagactgaatgggtcgagctgagtaacctccggaaccttgtcctctagagtaagaacccttaaactcacctccctttcgaaacctctttgatgtcgatgtcgtggtgaagtcgtctggcttcactccttccacttctatcacaaagtctaccacttcttggaaggattttgccgttgccgctacctgtaaggacgaaatccgcaattctgacctcaaccccttcacaaaccggcgaatccgctcttgaggactgaaacagagttgagtggcatatctggatagtgcacgaaacttagcctcataagcattaactgacaccctaccttgctctaggctcaagaactcatcccttttcttatccctcaaagtccgggggatatacttctccataaacaaactatagaatgaggcccaagtcataggtgatgcctctattggttgacactcgatatgtgaccgccaccacatttgggcgttcccttgaaactgataagtcacaaactccacaccaaaccgttctactatacccatcttgtgtagtagctcgtgacagtcaaccagaaaatcataagcatcctccgattcagcacccttgaagaccggaggtttcaatttcaagaacttactgaaaagttcatgctgatcatttgtcattatagggacagtagtcaaacgtggaaatgtgcctatgtccaatggaacatccatgcggggagccatagtagccgcatgttgtacttctgaaaccggaggtgttggcgcagaaaacactggaggtgcttgaccttgatcagataacccgctaagataagccagaacctgattgatcatctctggggtaggttggggtggcatttcctcattttgcacttgttcagtttccccatccctccctttctctattacttcctcagtcagtggaagagtcactgccctagtatcagatgggct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0120H06-WVRty/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0120H06.1" temp_strand="+" temp_description="C12HBa0120H06.1  htgs_phase:2 submitted_to_sgn_as:C12HBa0120H06">
        <position start="709" stop="2744"/>
      </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="1009" g_stop="2444" g_length="1436"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="1437" r_length="1437" r_score="0.912"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0120H06.1" gen_strand="+" ref_id="SGN-U317064" ref_strand="+">
        <total_alignment_score>0.912</total_alignment_score>
        <cumulative_length_of_scored_exons>1436</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0120H06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U317064" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1009" e_stop="2444"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACGAATAGGTATGTCAAGCAATTCACAATGTAAATTAAGACCATTAGCAAATGCGGAAGATACATAAGAAAATGTGGATCCGGGATCAAATAATACAGAAGTCATGCAATCACAAACCAAAAGATTACCTGTGATGACAACATCAGATGCCTCCAC-TCAGACCGCCCAGGGAAAGTGTAACAATGGGCCCTATCGTTCGTCTGTCCGTTGCCCCTACCATGTTGTGATGTAGTGGATCCAGTCTGCCCATCACCTCGGCCGTTTTGGTGACCACCATTTCCTCGACCACCACGCCCTCCAGAAAAACGGCCTCTACCATGACCACCTCTACCTCTAGCTATTGGGGGTCTGTAACTCTGTTTTTGAAAATTCCTCCTAATATGTCCTGTCTGCCCACATCCGTAACACTCTCTGGAGTCAAGCATAGGTCTCTCGGAGAAGTGTTGACCGGTCTGAGGTGGTCCCCCAACTACAGTCTGTAGTGAAGAATGAATTGGTCGGACTGAGTAACTTCCCGAACCCTGTCCTCTAGTGTAAGCACCATTAAACTCACCTCCCTTTTGAAACCTTTTTGATGTCGATGTCGTAGTGAAGTCATCTGGCTTCACTCCTTCCACTTTTATCACAAAGTCTACCACCTCTTGGAAGGATTTTGCCGTTGCCGCTATCTGTAAGGCCGAAATCCGCAATTCTGACCTCAACCCCTTCACAAACCGGCGAATTCGCTCTTGTGGACTGAAACACAGTTGGTTGGCATACCGGGATAATGCACGAAACTTAGCCTCATATGTATTGACCGACATCCTACCTTGCTCTAGGCTCAAGAACTCATCCCTTTTCCTATCCCTCAAAGTTCGGGGGATATACTTCTCCATAAACAAGCTAGAGAATGAGGCCCAAGTCATAGGTGGTGCCTCTGTTGGTTGACACTCAATATGTGACCGCCACCACATTTTGGCGTTCCCTTGAAACTGATAAGTCACAAACTCCACACCAAACCGTTCTACTATACCCATCTTGTGCATTAGCTCGTGACAGTCAACCAGAAAATCATAAGCATCCTCCGATTCAGCACCCTTGAAGACCGGAGGTTTCAATTTCAAGAACTTACTGAAAAGTTCATGCTGATCATTTGTCATTATAGGCCCAGTAGTCAGACGTGGAAACGTGCCTATGTCCAATGAGGCATCCATACGAGGAGCCATAGTGGCTGCATGTTGTACCTCTGAAACCGGAGGTGTTGGTGCAGAAAACACTGGAGGTGCCTGACCCTGATCGGACAACCCACTAAGATAAGCGAGTACTTGATTTATCATCTCTGGGGTAGGCTGGGGTTGCAATCCCTCATTCTGCACTTGTTCATTTTCCCCAT-CCTCCCCTTCTCTTATTACCTCCTCATTCGGTGGAGGAGTCACTGCCCTAGTATCAGATGGGCT</genome_strand>
        <mrna_strand>ACGAATAGGCATATCAAGAAATTCACAATGTAAATTTAGACCATTAGCAAATGAGGAAGATACATAAGAAAACGTGGATCCAGGATCAAACAATACGGAAGCCATGCAATCACAAACTAGAAGATTACCTGTGATGACAGCATCAGATGCCTCCGCTTCAGACCGCCCAGGGAAAGCGTAACAATGGGCCCTATCGTTTGTCTGCCCATTGCCCCTACCATGTTGTGATGTAGTGGCCCCAGTTTGCCCATTACCTCTGCCGTTTTGGTGACCACCATTACCTCGACCACCACGTCCTCCAGAATAACGGCCTCTACCATGACCACCTCTACCTCTAGCTATTGGGGGTCTATAACTTGGTCCGGGACAATTTATCCTAATATGTCCAATCTCCCCACATCCATAACATTCTCTGGAGTCACTCATAGGCCCCTTGGAGAAGTGTTGACCGGTCTGAGGTGGACCCCCAACTACAGTCTGTAGTGAAGACTGAATGGGTCGAGCTGAGTAACCTCCGGAACCTTGTCCTCTAGAGTAAGAACCCTTAAACTCACCTCCCTTTCGAAACCTCTTTGATGTCGATGTCGTGGTGAAGTCGTCTGGCTTCACTCCTTCCACTTCTATCACAAAGTCTACCACTTCTTGGAAGGATTTTGCCGTTGCCGCTACCTGTAAGGACGAAATCCGCAATTCTGACCTCAACCCCTTCACAAACCGGCGAATCCGCTCTTGAGGACTGAAACAGAGTTGAGTGGCATATCTGGATAGTGCACGAAACTTAGCCTCATAAGCATTAACTGACACCCTACCTTGCTCTAGGCTCAAGAACTCATCCCTTTTCTTATCCCTCAAAGTCCGGGGGATATACTTCTCCATAAACAAACTATAGAATGAGGCCCAAGTCATAGGTGATGCCTCTATTGGTTGACACTCGATATGTGACCGCCACCACATTTGGGCGTTCCCTTGAAACTGATAAGTCACAAACTCCACACCAAACCGTTCTACTATACCCATCTTGTGTAGTAGCTCGTGACAGTCAACCAGAAAATCATAAGCATCCTCCGATTCAGCACCCTTGAAGACCGGAGGTTTCAATTTCAAGAACTTACTGAAAAGTTCATGCTGATCATTTGTCATTATAGGGACAGTAGTCAAACGTGGAAATGTGCCTATGTCCAATGGAACATCCATGCGGGGAGCCATAGTAGCCGCATGTTGTACTTCTGAAACCGGAGGTGTTGGCGCAGAAAACACTGGAGGTGCTTGACCTTGATCAGATAACCCGCTAAGATAAGCCAGAACCTGATTGATCATCTCTGGGGTAGGTTGGGGTGGCATTTCCTCATTTTGCACTTGTTCAGTTTCCCCATCCCTCCCTTTCTC-TATTACTTCCTCAGTCAGTGGAAGAGTCACTGCCCTAGTATCAGATGGGCT</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-C12HBa0120H06-WVRty/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U335932" ref_strand="+" ref_description="SGN-U335932        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: gi|2190718|gb|AAB64397.1| beta-galactosidase [unidentified cloning vector](evalue: 3e-14, score=80.1)">
      <seq>cccttgaagaccggaggtttcaatttcaagaacttactgaaaagttcatgctgatcatttgtcattataggcccagtagtcaaacgtggaaatgtacctatgtgcaatggaacatccatgcggggagccatagtagccgcatgttgtacttctgaaaccggaggtgttggcgcagaaaacactggaggtgcttgaccttgatcagataaaccgctaagataagccagaacctgattgatcatctctggggtaggttggggtggcatttcctcattttgcacttgttcagtttccccatcctccccttctcttattacttcctcagtcggtggaggagtcaccgccctagtaccagatgggctcggttctcgttctcttcctctagatgacgtcctcccacgacctctaccacggccccttgccgctgttctcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0120H06-WVRty/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0120H06.1" temp_strand="+" temp_description="C12HBa0120H06.1  htgs_phase:2 submitted_to_sgn_as:C12HBa0120H06">
        <position start="1783" stop="2816"/>
      </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="2083" g_stop="2515" g_length="433"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="433" r_length="433" r_score="0.908"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0120H06.1" gen_strand="+" ref_id="SGN-U335932" ref_strand="+">
        <total_alignment_score>0.908</total_alignment_score>
        <cumulative_length_of_scored_exons>433</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0120H06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U335932" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2083" e_stop="2515"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCTTGAAGACCGGAGGTTTCAATTTCAAGAACTTACTGAAAAGTTCATGCTGATCATTTGTCATTATAGGCCCAGTAGTCAGACGTGGAAACGTGCCTATGTCCAATGAGGCATCCATACGAGGAGCCATAGTGGCTGCATGTTGTACCTCTGAAACCGGAGGTGTTGGTGCAGAAAACACTGGAGGTGCCTGACCCTGATCGGACAACCCACTAAGATAAGCGAGTACTTGATTTATCATCTCTGGGGTAGGCTGGGGTTGCAATCCCTCATTCTGCACTTGTTCATTTTCCCCATCCTCCCCTTCTCTTATTACCTCCTCATTCGGTGGAGGAGTCACTGCCCTAGTATCAGATGGGCTAGGTGCTCATCCTCTTCCCCTAGACGACGTCCTCCCACGACCTCTACCACGGCCCCTTGCCGCTGTTCTTC</genome_strand>
        <mrna_strand>CCCTTGAAGACCGGAGGTTTCAATTTCAAGAACTTACTGAAAAGTTCATGCTGATCATTTGTCATTATAGGCCCAGTAGTCAAACGTGGAAATGTACCTATGTGCAATGGAACATCCATGCGGGGAGCCATAGTAGCCGCATGTTGTACTTCTGAAACCGGAGGTGTTGGCGCAGAAAACACTGGAGGTGCTTGACCTTGATCAGATAAACCGCTAAGATAAGCCAGAACCTGATTGATCATCTCTGGGGTAGGTTGGGGTGGCATTTCCTCATTTTGCACTTGTTCAGTTTCCCCATCCTCCCCTTCTCTTATTACTTCCTCAGTCGGTGGAGGAGTCACCGCCCTAGTACCAGATGGGCTCGGTTCTCGTTCTCTTCCTCTAGATGACGTCCTCCCACGACCTCTACCACGGCCCCTTGCCGCTGTTCTCC</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-C12HBa0120H06-WVRty/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U335073" ref_strand="+" ref_description="SGN-U335073        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: beta-galactosidase(evalue: 3e-30, score=135)">
      <seq>ttaggttcgttggtctcatcacacaagaacaggtctagtagagtctttaggaacggtagggggacgcctttacttttctttgagaggctataagactttaggaaaatttcaccctttcattctttctttcgtgctactacttgagtccaattggtatctaggcgatacaaattggtatctgaccatcttcactctcttttgcagatggttagaactagagcaacgaccacgtcaacaccaacaccggccagacaagaaacaactgagccagccactggggctgtgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0120H06-WVRty/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0120H06.1" temp_strand="-" temp_description="C12HBa0120H06.1  htgs_phase:2 submitted_to_sgn_as:C12HBa0120H06">
        <position start="3103" stop="2222"/>
      </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="2803" g_stop="2522" g_length="282"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="286" r_length="286" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0120H06.1" gen_strand="-" ref_id="SGN-U335073" ref_strand="+">
        <total_alignment_score>0.933</total_alignment_score>
        <cumulative_length_of_scored_exons>282</cumulative_length_of_scored_exons>
        <coverage percentage="0.986" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0120H06.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U335073" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2803" e_stop="2522"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAGGTTCGTTGGTCTCATCACACAAGAACGAGTCTAGTAGAGTCTTAAGGAACGGTAGGGGGACGCCTTTACTTTTCTTTGAGAGGCTACAAGACTTTAGGAAAA-TT---CCATTCTTTCTTTCTTTCGTGCTACTACTTGAGTCCAATTGGTATCTAGGCGATACGAATTGGTATCTGACCATCTTCACTTTCTTTTGCAGATGGTTAGAACTAGAGCAACGACTACGCCAACACCAACACCGGCAAGACAAGAAACAACTGAGCCAGCCACTGGGGCTGTGG</genome_strand>
        <mrna_strand>TTAGGTTCGTTGGTCTCATCACACAAGAACAGGTCTAGTAGAGTCTTTAGGAACGGTAGGGGGACGCCTTTACTTTTCTTTGAGAGGCTATAAGACTTTAGGAAAATTTCACCCTTTCATTCTTTCTTTCGTGCTACTACTTGAGTCCAATTGGTATCTAGGCGATACAAATTGGTATCTGACCATCTTCACTCTCTTTTGCAGATGGTTAGAACTAGAGCAACGACCACGTCAACACCAACACCGGCCAGACAAGAAACAACTGAGCCAGCCACTGGGGCTGTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>8</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="326" PGL_stop="2515"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="326" e_stop="2515"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="0.912">
            <gDNA_exon_boundary e_start="326" e_stop="2515" e_length="2190"/>
          </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="326" stop="984"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U335935" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="395" stop="1152"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U317065" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="798" stop="1128"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U335937" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1005" stop="1562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U335930" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1009" stop="2444"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U317064" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2083" stop="2515"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U335932" 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>TCAATGCGGGGAAGATGATACTTGTTCTTTATGGTTACCTTGTTTAGTTGTCTGTAGTCTATACACATTCGAAAACTCCCATCCTTCTTCTTTACAAACAAAACCAGAGCACCCCAAGGAGATGCACTTGGTCTAATAAAGCCTTTGTTCAATAACTCTTGAAGTTGTGCCTTTAACTCTCTTAACTTTGCGGGAGCCATTCTATAAGAGGGTATAGAAATGGGGCGTGTGCCCGGTTCGAGATCGATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGAAGATCTGCAGGGAACACATCCAGAAACTCACGGACTACTGAAACCGACTCAATCGAAGGCACTTGGGTAGTGTCATCCTTGAGATGTGCCAAGAAAGCTAAACACCCTTTACTAACCATTTTCTTAGAACGAAGAAAGGAGATGATACGCACCGGATTGGAAGTGTAGTCACCCTCCCACACCAACGGATTTTTCCCAGGCTTGGCTAACGTCACCGTTTTAGCATTACAATCCAAGATCGCAAATTGCGGAGAAAGCCAAGTCATACCTAGAATCACATCAAAATCGACCATTTCTAAGATAACCAAGTCTACATAAGTATTGCTCCCCACAAAAGTTACAAGACAAGACCTATACACCCTTTCAACTATCACAGGCTCACCCACCGGAGTAGAAACACGAATAGGTATGTCAAGCAATTCACAATGTAAATTAAGACCATTAGCAAATGCGGAAGATACATAAGAAAATGTGGATCCGGGATCAAATAATACAGAAGTCATGCAATCACAAACCAAAAGATTACCTGTGATGACAACATCAGATGCCTCCACTCAGACCGCCCAGGGAAAGTGTAACAATGGGCCCTATCGTTCGTCTGTCCGTTGCCCCTACCATGTTGTGATGTAGTGGATCCAGTCTGCCCATCACCTCGGCCGTTTTGGTGACCACCATTTCCTCGACCACCACGCCCTCCAGAAAAACGGCCTCTACCATGACCACCTCTACCTCTAGCTATTGGGGGTCTGTAACTCTGTTTTTGAAAATTCCTCCTAATATGTCCTGTCTGCCCACATCCGTAACACTCTCTGGAGTCAAGCATAGGTCTCTCGGAGAAGTGTTGACCGGTCTGAGGTGGTCCCCCAACTACAGTCTGTAGTGAAGAATGAATTGGTCGGACTGAGTAACTTCCCGAACCCTGTCCTCTAGTGTAAGCACCATTAAACTCACCTCCCTTTTGAAACCTTTTTGATGTCGATGTCGTAGTGAAGTCATCTGGCTTCACTCCTTCCACTTTTATCACAAAGTCTACCACCTCTTGGAAGGATTTTGCCGTTGCCGCTATCTGTAAGGCCGAAATCCGCAATTCTGACCTCAACCCCTTCACAAACCGGCGAATTCGCTCTTGTGGACTGAAACACAGTTGGTTGGCATACCGGGATAATGCACGAAACTTAGCCTCATATGTATTGACCGACATCCTACCTTGCTCTAGGCTCAAGAACTCATCCCTTTTCCTATCCCTCAAAGTTCGGGGGATATACTTCTCCATAAACAAGCTAGAGAATGAGGCCCAAGTCATAGGTGGTGCCTCTGTTGGTTGACACTCAATATGTGACCGCCACCACATTTTGGCGTTCCCTTGAAACTGATAAGTCACAAACTCCACACCAAACCGTTCTACTATACCCATCTTGTGCATTAGCTCGTGACAGTCAACCAGAAAATCATAAGCATCCTCCGATTCAGCACCCTTGAAGACCGGAGGTTTCAATTTCAAGAACTTACTGAAAAGTTCATGCTGATCATTTGTCATTATAGGCCCAGTAGTCAGACGTGGAAACGTGCCTATGTCCAATGAGGCATCCATACGAGGAGCCATAGTGGCTGCATGTTGTACCTCTGAAACCGGAGGTGTTGGTGCAGAAAACACTGGAGGTGCCTGACCCTGATCGGACAACCCACTAAGATAAGCGAGTACTTGATTTATCATCTCTGGGGTAGGCTGGGGTTGCAATCCCTCATTCTGCACTTGTTCATTTTCCCCATCCTCCCCTTCTCTTATTACCTCCTCATTCGGTGGAGGAGTCACTGCCCTAGTATCAGATGGGCTAGGTGCTCATCCTCTTCCCCTAGACGACGTCCTCCCACGACCTCTACCACGGCCCCTTGCCGCTGTTCTTC</gDNA_template>
            <first_frame> S  M  R  G  R  *  Y  L  F  F  M  V  T  L  F  S  C  L  *  S  I  H  I  R  K  L  P  S  F  F  F  T  N  K  T  R  A  P  Q  G  D  A  L  G  L  I  K  P  L  F  N  N  S  *  S  C  A  F  N  S  L  N  F  A  G  A  I  L  *  E  G  I  E  M  G  R  V  P  G  S  R  S  I  Q  K  S  I  S  L  S  G  G  I  P  G  R  S  A  G  N  T  S  R  N  S  R  T  T  E  T  D  S  I  E  G  T  W  V  V  S  S  L  R  C  A  K  K  A  K  H  P  L  L  T  I  F  L  E  R  R  K  E  M  I  R  T  G  L  E  V  *  S  P  S  H  T  N  G  F  F  P  G  L  A  N  V  T  V  L  A  L  Q  S  K  I  A  N  C  G  E  S  Q  V  I  P  R  I  T  S  K  S  T  I  S  K  I  T  K  S  T  *  V  L  L  P  T  K  V  T  R  Q  D  L  Y  T  L  S  T  I  T  G  S  P  T  G  V  E  T  R  I  G  M  S  S  N  S  Q  C  K  L  R  P  L  A  N  A  E  D  T  *  E  N  V  D  P  G  S  N  N  T  E  V  M  Q  S  Q  T  K  R  L  P  V  M  T  T  S  D  A  S  T  Q  T  A  Q  G  K  C  N  N  G  P  Y  R  S  S  V  R  C  P  Y  H  V  V  M  *  W  I  Q  S  A  H  H  L  G  R  F  G  D  H  H  F  L  D  H  H  A  L  Q  K  N  G  L  Y  H  D  H  L  Y  L  *  L  L  G  V  C  N  S  V  F  E  N  S  S  *  Y  V  L  S  A  H  I  R  N  T  L  W  S  Q  A  *  V  S  R  R  S  V  D  R  S  E  V  V  P  Q  L  Q  S  V  V  K  N  E  L  V  G  L  S  N  F  P  N  P  V  L  *  C  K  H  H  *  T  H  L  P  F  E  T  F  L  M  S  M  S  *  *  S  H  L  A  S  L  L  P  L  L  S  Q  S  L  P  P  L  G  R  I  L  P  L  P  L  S  V  R  P  K  S  A  I  L  T  S  T  P  S  Q  T  G  E  F  A  L  V  D  *  N  T  V  G  W  H  T  G  I  M  H  E  T  *  P  H  M  Y  *  P  T  S  Y  L  A  L  G  S  R  T  H  P  F  S  Y  P  S  K  F  G  G  Y  T  S  P  *  T  S  *  R  M  R  P  K  S  *  V  V  P  L  L  V  D  T  Q  Y  V  T  A  T  T  F  W  R  S  L  E  T  D  K  S  Q  T  P  H  Q  T  V  L  L  Y  P  S  C  A  L  A  R  D  S  Q  P  E  N  H  K  H  P  P  I  Q  H  P  *  R  P  E  V  S  I  S  R  T  Y  *  K  V  H  A  D  H  L  S  L  *  A  Q  *  S  D  V  E  T  C  L  C  P  M  R  H  P  Y  E  E  P  *  W  L  H  V  V  P  L  K  P  E  V  L  V  Q  K  T  L  E  V  P  D  P  D  R  T  T  H  *  D  K  R  V  L  D  L  S  S  L  G  *  A  G  V  A  I  P  H  S  A  L  V  H  F  P  H  P  P  L  L  L  L  P  P  H  S  V  E  E  S  L  P  *  Y  Q  M  G  *  V  L  I  L  F  P  *  T  T  S  S  H  D  L  Y  H  G  P  L  P  L  F  F </first_frame>
            <second_frame>  Q  C  G  E  D  D  T  C  S  L  W  L  P  C  L  V  V  C  S  L  Y  T  F  E  N  S  H  P  S  S  L  Q  T  K  P  E  H  P  K  E  M  H  L  V  *  *  S  L  C  S  I  T  L  E  V  V  P  L  T  L  L  T  L  R  E  P  F  Y  K  R  V  *  K  W  G  V  C  P  V  R  D  R  Y  R  S  Q  Y  P  Y  L  V  A  Y  Q  E  D  L  Q  G  T  H  P  E  T  H  G  L  L  K  P  T  Q  S  K  A  L  G  *  C  H  P  *  D  V  P  R  K  L  N  T  L  Y  *  P  F  S  *  N  E  E  R  R  *  Y  A  P  D  W  K  C  S  H  P  P  T  P  T  D  F  S  Q  A  W  L  T  S  P  F  *  H  Y  N  P  R  S  Q  I  A  E  K  A  K  S  Y  L  E  S  H  Q  N  R  P  F  L  R  *  P  S  L  H  K  Y  C  S  P  Q  K  L  Q  D  K  T  Y  T  P  F  Q  L  S  Q  A  H  P  P  E  *  K  H  E  *  V  C  Q  A  I  H  N  V  N  *  D  H  *  Q  M  R  K  I  H  K  K  M  W  I  R  D  Q  I  I  Q  K  S  C  N  H  K  P  K  D  Y  L  *  *  Q  H  Q  M  P  P  L  R  P  P  R  E  S  V  T  M  G  P  I  V  R  L  S  V  A  P  T  M  L  *  C  S  G  S  S  L  P  I  T  S  A  V  L  V  T  T  I  S  S  T  T  T  P  S  R  K  T  A  S  T  M  T  T  S  T  S  S  Y  W  G  S  V  T  L  F  L  K  I  P  P  N  M  S  C  L  P  T  S  V  T  L  S  G  V  K  H  R  S  L  G  E  V  L  T  G  L  R  W  S  P  N  Y  S  L  *  *  R  M  N  W  S  D  *  V  T  S  R  T  L  S  S  S  V  S  T  I  K  L  T  S  L  L  K  P  F  *  C  R  C  R  S  E  V  I  W  L  H  S  F  H  F  Y  H  K  V  Y  H  L  L  E  G  F  C  R  C  R  Y  L  *  G  R  N  P  Q  F  *  P  Q  P  L  H  K  P  A  N  S  L  L  W  T  E  T  Q  L  V  G  I  P  G  *  C  T  K  L  S  L  I  C  I  D  R  H  P  T  L  L  *  A  Q  E  L  I  P  F  P  I  P  Q  S  S  G  D  I  L  L  H  K  Q  A  R  E  *  G  P  S  H  R  W  C  L  C  W  L  T  L  N  M  *  P  P  P  H  F  G  V  P  L  K  L  I  S  H  K  L  H  T  K  P  F  Y  Y  T  H  L  V  H  *  L  V  T  V  N  Q  K  I  I  S  I  L  R  F  S  T  L  E  D  R  R  F  Q  F  Q  E  L  T  E  K  F  M  L  I  I  C  H  Y  R  P  S  S  Q  T  W  K  R  A  Y  V  Q  *  G  I  H  T  R  S  H  S  G  C  M  L  Y  L  *  N  R  R  C  W  C  R  K  H  W  R  C  L  T  L  I  G  Q  P  T  K  I  S  E  Y  L  I  Y  H  L  W  G  R  L  G  L  Q  S  L  I  L  H  L  F  I  F  P  I  L  P  F  S  Y  Y  L  L  I  R  W  R  S  H  C  P  S  I  R  W  A  R  C  S  S  S  S  P  R  R  R  P  P  T  T  S  T  T  A  P  C  R  C  S   </second_frame>
            <third_frame>   N  A  G  K  M  I  L  V  L  Y  G  Y  L  V  *  L  S  V  V  Y  T  H  S  K  T  P  I  L  L  L  Y  K  Q  N  Q  S  T  P  R  R  C  T  W  S  N  K  A  F  V  Q  *  L  L  K  L  C  L  *  L  S  *  L  C  G  S  H  S  I  R  G  Y  R  N  G  A  C  A  R  F  E  I  D  T  E  V  N  I  P  I  W  W  H  T  R  K  I  C  R  E  H  I  Q  K  L  T  D  Y  *  N  R  L  N  R  R  H  L  G  S  V  I  L  E  M  C  Q  E  S  *  T  P  F  T  N  H  F  L  R  T  K  K  G  D  D  T  H  R  I  G  S  V  V  T  L  P  H  Q  R  I  F  P  R  L  G  *  R  H  R  F  S  I  T  I  Q  D  R  K  L  R  R  K  P  S  H  T  *  N  H  I  K  I  D  H  F  *  D  N  Q  V  Y  I  S  I  A  P  H  K  S  Y  K  T  R  P  I  H  P  F  N  Y  H  R  L  T  H  R  S  R  N  T  N  R  Y  V  K  Q  F  T  M  *  I  K  T  I  S  K  C  G  R  Y  I  R  K  C  G  S  G  I  K  *  Y  R  S  H  A  I  T  N  Q  K  I  T  C  D  D  N  I  R  C  L  H  S  D  R  P  G  K  V  *  Q  W  A  L  S  F  V  C  P  L  P  L  P  C  C  D  V  V  D  P  V  C  P  S  P  R  P  F  W  *  P  P  F  P  R  P  P  R  P  P  E  K  R  P  L  P  *  P  P  L  P  L  A  I  G  G  L  *  L  C  F  *  K  F  L  L  I  C  P  V  C  P  H  P  *  H  S  L  E  S  S  I  G  L  S  E  K  C  *  P  V  *  G  G  P  P  T  T  V  C  S  E  E  *  I  G  R  T  E  *  L  P  E  P  C  P  L  V  *  A  P  L  N  S  P  P  F  *  N  L  F  D  V  D  V  V  V  K  S  S  G  F  T  P  S  T  F  I  T  K  S  T  T  S  W  K  D  F  A  V  A  A  I  C  K  A  E  I  R  N  S  D  L  N  P  F  T  N  R  R  I  R  S  C  G  L  K  H  S  W  L  A  Y  R  D  N  A  R  N  L  A  S  Y  V  L  T  D  I  L  P  C  S  R  L  K  N  S  S  L  F  L  S  L  K  V  R  G  I  Y  F  S  I  N  K  L  E  N  E  A  Q  V  I  G  G  A  S  V  G  *  H  S  I  C  D  R  H  H  I  L  A  F  P  *  N  *  *  V  T  N  S  T  P  N  R  S  T  I  P  I  L  C  I  S  S  *  Q  S  T  R  K  S  *  A  S  S  D  S  A  P  L  K  T  G  G  F  N  F  K  N  L  L  K  S  S  C  *  S  F  V  I  I  G  P  V  V  R  R  G  N  V  P  M  S  N  E  A  S  I  R  G  A  I  V  A  A  C  C  T  S  E  T  G  G  V  G  A  E  N  T  G  G  A  *  P  *  S  D  N  P  L  R  *  A  S  T  *  F  I  I  S  G  V  G  W  G  C  N  P  S  F  C  T  C  S  F  S  P  S  S  P  S  L  I  T  S  S  F  G  G  G  V  T  A  L  V  S  D  G  L  G  A  H  P  L  P  L  D  D  V  L  P  R  P  L  P  R  P  L  A  A  V  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0120H06.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="1573" stop="1935"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>360</number_coding_nucleotides>
                  <number_encoded_amino_acids>120</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NLFDVDVVVKSSGFTPSTFITKSTTSWKDFAVAAICKAEIRNSDLNPFTNRRIRSCGLKHSWLAYRDNARNLASYVLTDILPCSRLKNSSLFLSLKVRGIYFSINKLENEAQVIGGASVG*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0120H06.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="2238" stop="2513"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>276</number_coding_nucleotides>
                  <number_encoded_amino_acids>92</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NRRCWCRKHWRCLTLIGQPTKISEYLIYHLWGRLGLQSLILHLFIFPILPFSYYLLIRWRSHCPSIRWARCSSSSPRRRPPTTSTTAPCRCS</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0120H06.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="3"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="1236" stop="1490"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>252</number_coding_nucleotides>
                  <number_encoded_amino_acids>84</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>CSGSSLPITSAVLVTTISSTTTPSRKTASTMTTSTSSYWGSVTLFLKIPPNMSCLPTSVTLSGVKHRSLGEVLTGLRWSPNYSL*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0120H06.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="4"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="533" stop="778"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>243</number_coding_nucleotides>
                  <number_encoded_amino_acids>81</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EGIEMGRVPGSRSIQKSISLSGGIPGRSAGNTSRNSRTTETDSIEGTWVVSSLRCAKKAKHPLLTIFLERRKEMIRTGLEV*</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="1821" PGL_stop="378"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="1821" e_stop="1649"/>
            <exon e_start="905" e_stop="378"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.890"/>
          <exon-only e_score="0.920"/>
        </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="0.890">
            <gDNA_exon_boundary e_start="1821" e_stop="1649" e_length="173"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="1648" i_stop="906" i_length="743"/>
          </intron>
          <exon e_serial="2" e_score="0.920">
            <gDNA_exon_boundary e_start="905" e_stop="378" e_length="528"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1821" stop="1649"/>
              <exon start="905" stop="378"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U335938" 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>GCAAGGTAGGATGTCGGTCAATACATATGAGGCTAAGTTTCGTGCATTATCCCGGTATGCCAACCAACTGTGTTTCAGTCCACAAGAGCGAATTCGCCGGTTTGTGAAGGGGTTGAGGTCAGAATTGCGGATTTCGGCCTTACAGATAGCGGCAACGGCAAAATCCTTCCAAG : AAATGGTCGATTTTGATGTGATTCTAGGTATGACTTGGCTTTCTCCGCAATTTGCGATCTTGGATTGTAATGCTAAAACGGTGACGTTAGCCAAGCCTGGGAAAAATCCGTTGGTGTGGGAGGGTGACTACACTTCCAATCCGGTGCGTATCATCTCCTTTCTTCGTTCTAAGAAAATGGTTAGTAAAGGGTGTTTAGCTTTCTTGGCACATCTCAAGGATGACACTACCCAAGTGCCTTCGATTGAGTCGGTTTCAGTAGTCCGTGAGTTTCTGGATGTGTTCCCTGCAGATCTTCCTGGTATGCCACCAGATAGGGATATTGACTTCTGTATCGATCTCGAACCGGGCACACGCCCCATTTCTATACCCTCTTATAGAATGGCTCCCGCAAAGTTAAGAGAGTTAAAGGCACAACTTCAAGAGTTATTGAACAAAGGCTTTATTAGACCAAGTGCATCTCCTTGGGGTGCTCTGGTTTTGTTTGTAAAGAAGAAGGATGGGAGTTTTCGAATGTGTATAGACTACA</gDNA_template>
            <first_frame> A  R  *  D  V  G  Q  Y  I  *  G  *  V  S  C  I  I  P  V  C  Q  P  T  V  F  Q  S  T  R  A  N  S  P  V  C  E  G  V  E  V  R  I  A  D  F  G  L  T  D  S  G  N  G  K  I  L  P  R :   N  G  R  F  *  C  D  S  R  Y  D  L  A  F  S  A  I  C  D  L  G  L  *  C  *  N  G  D  V  S  Q  A  W  E  K  S  V  G  V  G  G  *  L  H  F  Q  S  G  A  Y  H  L  L  S  S  F  *  E  N  G  *  *  R  V  F  S  F  L  G  T  S  Q  G  *  H  Y  P  S  A  F  D  *  V  G  F  S  S  P  *  V  S  G  C  V  P  C  R  S  S  W  Y  A  T  R  *  G  Y  *  L  L  Y  R  S  R  T  G  H  T  P  H  F  Y  T  L  L  *  N  G  S  R  K  V  K  R  V  K  G  T  T  S  R  V  I  E  Q  R  L  Y  *  T  K  C  I  S  L  G  C  S  G  F  V  C  K  E  E  G  W  E  F  S  N  V  Y  R  L   </first_frame>
            <second_frame>  Q  G  R  M  S  V  N  T  Y  E  A  K  F  R  A  L  S  R  Y  A  N  Q  L  C  F  S  P  Q  E  R  I  R  R  F  V  K  G  L  R  S  E  L  R  I  S  A  L  Q  I  A  A  T  A  K  S  F  Q   : E  M  V  D  F  D  V  I  L  G  M  T  W  L  S  P  Q  F  A  I  L  D  C  N  A  K  T  V  T  L  A  K  P  G  K  N  P  L  V  W  E  G  D  Y  T  S  N  P  V  R  I  I  S  F  L  R  S  K  K  M  V  S  K  G  C  L  A  F  L  A  H  L  K  D  D  T  T  Q  V  P  S  I  E  S  V  S  V  V  R  E  F  L  D  V  F  P  A  D  L  P  G  M  P  P  D  R  D  I  D  F  C  I  D  L  E  P  G  T  R  P  I  S  I  P  S  Y  R  M  A  P  A  K  L  R  E  L  K  A  Q  L  Q  E  L  L  N  K  G  F  I  R  P  S  A  S  P  W  G  A  L  V  L  F  V  K  K  K  D  G  S  F  R  M  C  I  D  Y  </second_frame>
            <third_frame>   K  V  G  C  R  S  I  H  M  R  L  S  F  V  H  Y  P  G  M  P  T  N  C  V  S  V  H  K  S  E  F  A  G  L  *  R  G  *  G  Q  N  C  G  F  R  P  Y  R  *  R  Q  R  Q  N  P  S  K  :  K  W  S  I  L  M  *  F  *  V  *  L  G  F  L  R  N  L  R  S  W  I  V  M  L  K  R  *  R  *  P  S  L  G  K  I  R  W  C  G  R  V  T  T  L  P  I  R  C  V  S  S  P  F  F  V  L  R  K  W  L  V  K  G  V  *  L  S  W  H  I  S  R  M  T  L  P  K  C  L  R  L  S  R  F  Q  *  S  V  S  F  W  M  C  S  L  Q  I  F  L  V  C  H  Q  I  G  I  L  T  S  V  S  I  S  N  R  A  H  A  P  F  L  Y  P  L  I  E  W  L  P  Q  S  *  E  S  *  R  H  N  F  K  S  Y  *  T  K  A  L  L  D  Q  V  H  L  L  G  V  L  W  F  C  L  *  R  R  R  M  G  V  F  E  C  V  *  T  T </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="C12HBa0120H06.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="1820" stop="1649"/>
                    <exon start="905" stop="379"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>699</number_coding_nucleotides>
                  <number_encoded_amino_acids>233</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QGRMSVNTYEAKFRALSRYANQLCFSPQERIRRFVKGLRSELRISALQIAATAKSFQEMVDFDVILGMTWLSPQFAILDCNAKTVTLAKPGKNPLVWEGDYTSNPVRIISFLRSKKMVSKGCLAFLAHLKDDTTQVPSIESVSVVREFLDVFPADLPGMPPDRDIDFCIDLEPGTRPISIPSYRMAPAKLRELKAQLQELLNKGFIRPSASPWGALVLFVKKKDGSFRMCIDY</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="2803" PGL_stop="2522"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="2803" e_stop="2522"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="0.933">
            <gDNA_exon_boundary e_start="2803" e_stop="2522" e_length="282"/>
          </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="2803" stop="2522"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U335073" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTAGGTTCGTTGGTCTCATCACACAAGAACGAGTCTAGTAGAGTCTTAAGGAACGGTAGGGGGACGCCTTTACTTTTCTTTGAGAGGCTACAAGACTTTAGGAAAATTCCATTCTTTCTTTCTTTCGTGCTACTACTTGAGTCCAATTGGTATCTAGGCGATACGAATTGGTATCTGACCATCTTCACTTTCTTTTGCAGATGGTTAGAACTAGAGCAACGACTACGCCAACACCAACACCGGCAAGACAAGAAACAACTGAGCCAGCCACTGGGGCTGTGG</gDNA_template>
            <first_frame> L  G  S  L  V  S  S  H  K  N  E  S  S  R  V  L  R  N  G  R  G  T  P  L  L  F  F  E  R  L  Q  D  F  R  K  I  P  F  F  L  S  F  V  L  L  L  E  S  N  W  Y  L  G  D  T  N  W  Y  L  T  I  F  T  F  F  C  R  W  L  E  L  E  Q  R  L  R  Q  H  Q  H  R  Q  D  K  K  Q  L  S  Q  P  L  G  L  W </first_frame>
            <second_frame>  *  V  R  W  S  H  H  T  R  T  S  L  V  E  S  *  G  T  V  G  G  R  L  Y  F  S  L  R  G  Y  K  T  L  G  K  F  H  S  F  F  L  S  C  Y  Y  L  S  P  I  G  I  *  A  I  R  I  G  I  *  P  S  S  L  S  F  A  D  G  *  N  *  S  N  D  Y  A  N  T  N  T  G  K  T  R  N  N  *  A  S  H  W  G  C   </second_frame>
            <third_frame>   R  F  V  G  L  I  T  Q  E  R  V  *  *  S  L  K  E  R  *  G  D  A  F  T  F  L  *  E  A  T  R  L  *  E  N  S  I  L  S  F  F  R  A  T  T  *  V  Q  L  V  S  R  R  Y  E  L  V  S  D  H  L  H  F  L  L  Q  M  V  R  T  R  A  T  T  T  P  T  P  T  P  A  R  Q  E  T  T  E  P  A  T  G  A  V  </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="C12HBa0120H06.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="2803" stop="2522"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>282</number_coding_nucleotides>
                  <number_encoded_amino_acids>94</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LGSLVSSHKNESSRVLRNGRGTPLLFFERLQDFRKIPFFLSFVLLLESNWYLGDTNWYLTIFTFFCRWLELEQRLRQHQHRQDKKQLSQPLGLW</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 66 chains have been computed
$ 
$ memory statistics:
$ 18608 bytes spliced alignments in total
$ 8 spliced alignments have been stored
$ 2326 bytes was the average size of a spliced alignment
$ 7912 bytes predicted gene locations in total
$ 3 predicted gene locations have been stored
$ 2637 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 85 backtrace matrices have been allocated
$ 
$ date finished: 2009-03-05 23:44:12
-->
