<?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="2009-07-24 23:20:33"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C12HBa0110O22-CAyFw/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C12HBa0110O22-CAyFw/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-C12HBa0110O22-CAyFw/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U592141" ref_strand="+" ref_description="SGN-U592141 Tomato 200607#2 [1 ESTs aligned] ">
      <seq>ctggcactgaatagatatcatcgcccaactcaaaatagaaatcaatatatatcaagnattatcataaaatcaactatgatactcaacatgtagcaacaacaagcactatatcattaacaattaccgtcacgttcacacatgaggactcaagcctcaataccatactcatttgggaatcatgttcattagatttagtatattaacatctttcaagattcattatctttatttctcttgtgacggaacatgacattccgctccctcatattcattaatcctcttgtgtgaacacatgacactccgatcccctaaatctacatgacagttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0110O22-CAyFw/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0110O22.1" temp_strand="-" temp_description="C12HBa0110O22.1  AC235578.2 htgs_phase:2 submitted_to_sgn_as:gi|238909031|gb|AC235578.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-110O22, WORKING DRAFT SEQUENCE, 5 ordered pieces">
        <position start="11226" stop="10303"/>
      </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="10926" g_stop="10602" g_length="325"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="328" r_length="328" r_score="0.902"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0110O22.1" gen_strand="-" ref_id="SGN-U592141" ref_strand="+">
        <total_alignment_score>0.902</total_alignment_score>
        <cumulative_length_of_scored_exons>325</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0110O22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U592141" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="10926" e_stop="10602"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGGTACTGAGTAGATATCATCGGCCAACTCAAAATAGAAATCAATATATATCAAGTAATATCATAAAATCAACTATGATACTCAACATGTAG---CAACAAGTACTATATCATTAACAATTACCGTCAAGTTCACACATGAGGACTCAAGCCTAAATACCATACTCATTTGGGAATTATGTTCGTTAGATTGAGTATATTAACATCTTTCAAGATTCATTATCTTTATTTCTCTTGTGTCGGTACGTGACACTCCGCTCCCTCATATTCATTAGTCCTCTTGTGTCGGTACGTGACACTCCGATCCCCTAAATCTACGTGTCGGTTC</genome_strand>
        <mrna_strand>CTGGCACTGAATAGATATCATCGCCCAACTCAAAATAGAAATCAATATATATCAAGNATTATCATAAAATCAACTATGATACTCAACATGTAGCAACAACAAGCACTATATCATTAACAATTACCGTCACGTTCACACATGAGGACTCAAGCCTCAATACCATACTCATTTGGGAATCATGTTCATTAGATTTAGTATATTAACATCTTTCAAGATTCATTATCTTTATTTCTCTTGTGACGGAACATGACATTCCGCTCCCTCATATTCATTAATCCTCTTGTGTGAACACATGACACTCCGATCCCCTAAATCTACATGACAGTTT</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-C12HBa0110O22-CAyFw/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U570274" ref_strand="+" ref_description="SGN-U570274 Tomato 200607#2 [2 ESTs aligned] ">
      <seq>gccctaaaaacttccccttttctcttcagccgcaacacttaactttcatctataaatccataaattatccacttttttccactcaaatcgccttaaatcagctcaatttagctttttcacggctgaaatctgatcaatttgaagttttttcgatgaaaaatgatgagtttgagagtttttgtgagggttttgttcggtggagaacagtgaggtgatggaagctttgaaaggacctgttttggttgatgtggatgtgtctaagcttatgggatcggaaagttttagtggcggtgctaggaaattggagaggccttctgttgcgattgcgccttctattggaaggatcagtggttcagtcagacgaaaagagcaagctttttggagtaagatgccccagaatgaatttgctggtcagcaatccagacatcatgttgaggatgcttcagaagaccacagtgtcgggaagacgagtactgttcttccactgacgcttgggctagaggctgcacagtcacatcggaactgtgggaaagtggggagaaatagtacttctaattctaagagatcaaggataatgcagatggatgctcctgtaaataaaaccggtgaagacggaaaaggcctttctactgagatttccgcaaatcttacaaattgcaaaaatggaggattcacagtggcatggaacaggttgagctcatggttttattgtttctgaacatcactacagtcctatgataccctgtgttagttatgcttgaaaacttcaaagaaagcaacacattagtttgagaaaaattagaattccaaaagtttccctttcaaaagtgcacttctttctgattaagttggaattagtttgagaagaaagctattgggacacttcccccatgccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0110O22-CAyFw/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0110O22.1" temp_strand="+" temp_description="C12HBa0110O22.1  AC235578.2 htgs_phase:2 submitted_to_sgn_as:gi|238909031|gb|AC235578.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-110O22, WORKING DRAFT SEQUENCE, 5 ordered pieces">
        <position start="16559" stop="19154"/>
      </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="16859" g_stop="17226" g_length="368"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="368" r_length="368" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="17227" i_stop="18021" i_length="795">
            <donor d_prob="0.902" d_score="1.00"/>
            <acceptor a_prob="0.967" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="18022" g_stop="18321" g_length="300"/>
          <reference_exon_boundary r_type="cDNA" r_start="369" r_stop="668" r_length="300" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="18322" i_stop="18625" i_length="304">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.966" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="18626" g_stop="18854" g_length="229"/>
          <reference_exon_boundary r_type="cDNA" r_start="669" r_stop="897" r_length="229" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0110O22.1" gen_strand="+" ref_id="SGN-U570274" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>897</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0110O22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U570274" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16859" e_stop="17226"/>
          <exon e_start="18022" e_stop="18321"/>
          <exon e_start="18626" e_stop="18854"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCCTAAAAACTTCCCCTTTTCTCTTCAGCCGCAACACTTTACTTTCATCTATAAATCCATAAATTATCCACTTTTTTCCACTCAAATCGCCTTAAATCAGCTCAATTTAGCTTTTTCACGGCTGAAATCTGATCAATTTGAAGTTTTTTCGATGAAAAATGATGAGTTTGAGAGTTTTTGTGAGGGTTTTGTTCGGTGGAGTACAGTGAGGTGATGGAAGCTTTGAAAGGACCTGTTTTGGTTGATGTGGATGTGTCTAAGCTTATGGGATCGGAAAGTTTTAGTGGCGGTGCTAGGAAATTGGAGAGGCCTTCTGTTGCGATTGCGCCTTCTATTGGAAGGATCAGTGGTTCAGTCAGACGAAAAGGTATCATTTCCCCTTTTTTAATAACTCTTGGCCGGAATTAACCATGAAGAGATTTTTACACTGTTTGTCTGGTAAGGCCGGTTTTCCTTATACTGGGTCACCTCCCATCATTTCTAGGTTAATTGTGTAAAAAAGAGGAAAGTTTCTTTTTCAGGGTTGAATATGGCTTATTTACTCTTTACCAGTAAGAACTGACATTTCTTTTTTAATTTTTTGTCATAAAAGTTAGCTTTGGTTGTTATGACAGTTTATGGAGGTTTAGTGTAGTGTAAGATTTTATGGGTAGATAGATGTTATAATTTGGATATTCTCTTGAACTAACTGAAATTGCTATAGACGGTTAATGGCAAGTTAAGATGTTGAAGTTTCTTGAGATGATTTTTACTCTTGATATACCCAGTCTTTAAGGGGAAATTGTTTTGATCTGAATGATATCACTTACTGTTAATAGCTGGATACGGTCAACTATCTGAAAAAAAAAGGTCTGGGTACAGTGTACACTGTTGTGGAAGTTACTAACTGGTGAATTATGTAGTTCATCACAGGACAGTATGAACTTATGAATGGGAAAGGTGATTTTCTAGTAAAAAGATGTCATATGTGTTCTTAGAATGGTTTACGTTGAAACCATTGAACATGTGTATATGTTGTTTTGGTATTTTTTCTGCAACACTAAAGCAGGTAAATGTACAGACCTGAAAACATGTTATGTTATACTGCTAGTGTTGCATCCTATTTAACTCTCTATTCCAAATATGGTTATGTGAGATGTGATTTGTGCTGTTGAAACCTCAGAGCAAGCTTTTTGGAGTAAGATGCCCCAGAATGAATTTGCTGGTCAGCAATCCAGACATCATGTTGAGGATGCTTCAGAAGACCACAGTGTCGGGAAGACGAGTACTGTTCTTCCACTGACGCTTGGGCTAGAGGCTGCACAGTCACATCGGAACTGTGGGAAAGTGGGGAGAAATAGTACTTCTAATTCTAAGAGATCAAGGATAATGCAGATGGATGCTCCTGTAAATAAAACCGGTGAAGACGGAAAAGGCCTTTCTACTGAGATTTCCGCAAATCTTACAAATTGCAAAAATGGAGGTAATACCAATTATATATGTATGTTCTTCAATATAGTTATCCAGTCTTGACTTCAGTTGTGATAGACATTCACAGATGACACTGGAATAAATGCTTATGGTTCATGTATCTTGGTTTGATTTCAAATGTGTCTCCTAGTTGATGATATTTTTTGGTCAAAATCTACTCTATTATAGTGACACATATGGTCAATAGCTTGCAACAGAAATCATGTGTCCAGTATTTTCAGTGCGCACCTATTTGGATAGAGCTATTATTCCTCGGCTTTTCCTTTTTCATTTTTCCTTCAATAATGCGTTTTCAGGATTCACAGTGGCATGGAACAGGTTGAGCTCATGGTTTTATTGTTTCTGAACATCACTACAGTCCTATGATACCCTGTGTTAGTTATGCTTGAAAACTTCAAAGAAAGCAACACATTAGTTTGAGAAAATTAAGAATTCCAAAAGTTTCCCTTTCAAAAAGTGCACTTCTTTCTGATTAAGTTGGAATTAGTTTGAGAAGAAGGCTATT-GGACACTTCCCCCATGCCAT</genome_strand>
        <mrna_strand>GCCCTAAAAACTTCCCCTTTTCTCTTCAGCCGCAACACTTAACTTTCATCTATAAATCCATAAATTATCCACTTTTTTCCACTCAAATCGCCTTAAATCAGCTCAATTTAGCTTTTTCACGGCTGAAATCTGATCAATTTGAAGTTTTTTCGATGAAAAATGATGAGTTTGAGAGTTTTTGTGAGGGTTTTGTTCGGTGGAGAACAGTGAGGTGATGGAAGCTTTGAAAGGACCTGTTTTGGTTGATGTGGATGTGTCTAAGCTTATGGGATCGGAAAGTTTTAGTGGCGGTGCTAGGAAATTGGAGAGGCCTTCTGTTGCGATTGCGCCTTCTATTGGAAGGATCAGTGGTTCAGTCAGACGAAAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAAGCTTTTTGGAGTAAGATGCCCCAGAATGAATTTGCTGGTCAGCAATCCAGACATCATGTTGAGGATGCTTCAGAAGACCACAGTGTCGGGAAGACGAGTACTGTTCTTCCACTGACGCTTGGGCTAGAGGCTGCACAGTCACATCGGAACTGTGGGAAAGTGGGGAGAAATAGTACTTCTAATTCTAAGAGATCAAGGATAATGCAGATGGATGCTCCTGTAAATAAAACCGGTGAAGACGGAAAAGGCCTTTCTACTGAGATTTCCGCAAATCTTACAAATTGCAAAAATGGAG................................................................................................................................................................................................................................................................................................................GATTCACAGTGGCATGGAACAGGTTGAGCTCATGGTTTTATTGTTTCTGAACATCACTACAGTCCTATGATACCCTGTGTTAGTTATGCTTGAAAACTTCAAAGAAAGCAACACATTAGTTTGAGAAAAATTAGAATTCCAAAAGTTTCCCTTTC-AAAAGTGCACTTCTTTCTGATTAAGTTGGAATTAGTTTGAGAAGAAAGCTATTGGGACACTTCCCCCATGCCAT</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-C12HBa0110O22-CAyFw/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U600983" ref_strand="+" ref_description="SGN-U600983 Tomato 200607#2 [1 ESTs aligned] ">
      <seq>cagctgaatcaataagatcaactcctgtcaaatcttctaaggaatctgacggtttcagtaacagctttgtaaataaaccatgtacgacgtccccatatacaagggtgatggataaggtttatagtagtagcgaccagaagccgaggaaggtagccaatggagcggagccaaggagatgacagaatgttgaagagcgaactgattatgcagtgaatcagacaagaactgttactgttgcatttgtctattccttctaactgctgttcgacatgcaaaatatggtagaatctgtatagcctgtcacatggaagaaatgaatgttgtaatcttatgctgggctgggtgacttgggatcattgtgcttgtaccattacatgttacatggatgccagacacatcgatacgctttcagcattgcctcagtgtacatcattgatgaggcaatatggtagaaaagttctctatgtagtctctggtattccggaggtattcgttacgtgtgtgtaaatgtattcattatgtgatatctatggtcaggacattttcatactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0110O22-CAyFw/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0110O22.1" temp_strand="+" temp_description="C12HBa0110O22.1  AC235578.2 htgs_phase:2 submitted_to_sgn_as:gi|238909031|gb|AC235578.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-110O22, WORKING DRAFT SEQUENCE, 5 ordered pieces">
        <position start="25258" stop="26409"/>
      </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="25558" g_stop="26109" g_length="552"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="552" r_length="552" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0110O22.1" gen_strand="+" ref_id="SGN-U600983" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>552</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0110O22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U600983" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25558" e_stop="26109"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGCTGAATCAATAAGATCAACTCCTGTCAAATCTTCTAAGGAATCTGACGGTTTCAGTAACAGCTTTGTAAATAAACCATGTACGACGTCCCCATATACAAGGGTGATGGATAAGGTTTATAGTAGTAGCGACCAGAAGCCGAGGAAGGTAGCCAATGGAGCGGAGCCAAGGAGATGACAGAATGTTGAAGAGCGAACTGATTATGCAGTGAATCAGACAAGAACTGTTACTGTTGCATTTGTCTATTCCTTCTAACTGCTGTTCGACATGCAAAATATGGTAGAATCTGTATAGCCTGTCACATGGAAGAAATGAATGTTGTAATCTTATGCTGGGCTGGGTGACTTGGGATCATTGTGCTTGTACCATTACATGTTACATGGATGCCAGACACATCGATACGCTTTCAGCATTGCCTCAGTGTACATCATTGATGAGGCAATATGGTAGAAAAGTTCTCTATGTAGTCTCTGGTATTCCGGAGGTATTCGTTACGTGTGTGTAAATGTATTCATTATGTGATATCTATGGTCAGGACATTTTCATACTC</genome_strand>
        <mrna_strand>CAGCTGAATCAATAAGATCAACTCCTGTCAAATCTTCTAAGGAATCTGACGGTTTCAGTAACAGCTTTGTAAATAAACCATGTACGACGTCCCCATATACAAGGGTGATGGATAAGGTTTATAGTAGTAGCGACCAGAAGCCGAGGAAGGTAGCCAATGGAGCGGAGCCAAGGAGATGACAGAATGTTGAAGAGCGAACTGATTATGCAGTGAATCAGACAAGAACTGTTACTGTTGCATTTGTCTATTCCTTCTAACTGCTGTTCGACATGCAAAATATGGTAGAATCTGTATAGCCTGTCACATGGAAGAAATGAATGTTGTAATCTTATGCTGGGCTGGGTGACTTGGGATCATTGTGCTTGTACCATTACATGTTACATGGATGCCAGACACATCGATACGCTTTCAGCATTGCCTCAGTGTACATCATTGATGAGGCAATATGGTAGAAAAGTTCTCTATGTAGTCTCTGGTATTCCGGAGGTATTCGTTACGTGTGTGTAAATGTATTCATTATGTGATATCTATGGTCAGGACATTTTCATACTC</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-C12HBa0110O22-CAyFw/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U566049" ref_strand="+" ref_description="SGN-U566049 Tomato 200607#2 [2 ESTs aligned] (*GB) gi|157358237|emb|CAO65874.1| (e_value=2e-19) unnamed; (*ATH) AT5G41610.1 (e_value=2e-16) | Symbol: None | cation/hydrogen exchanger, putative (CHX18), monovalent cation:proton antiporter family 2 (CPA2) member, PMID:11500563 | chr5:16655598-16658956 REVERSE | Aliases: MBK23.12, MBK23_12; ">
      <seq>cgacagttccatcaaatacgaagagaagactattagaaatgtgtcggaaacaattactatcctacgtgattacagtcgttgcagtttgtttctggttggtcgaaggcctaatggcgttgtacctcttgcattgagccagaggactgattgtcctgaactcgggccagtcgggagtttgttgacttcacaggaatacgccacaacagcatcagttctggtggtgcaacagtattatgataagttatatgcaactaatccacatcagagggatgtagcttcagttccagagaactaattaggggctctttcattgatctttgaatcataatgactgtttttcattcttgacagtttgatataaactatnctttttgagctgtaatcatcacttttttaaatacaggattctggttgctttttttaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0110O22-CAyFw/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0110O22.1" temp_strand="-" temp_description="C12HBa0110O22.1  AC235578.2 htgs_phase:2 submitted_to_sgn_as:gi|238909031|gb|AC235578.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-110O22, WORKING DRAFT SEQUENCE, 5 ordered pieces">
        <position start="28983" stop="27964"/>
      </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="28683" g_stop="28259" g_length="425"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="427" r_length="427" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0110O22.1" gen_strand="-" ref_id="SGN-U566049" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>425</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0110O22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U566049" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="28683" e_stop="28259"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGACAGTTCCATCAAATACGAAGAGAAGACTATTAGAAATGTGTCGGAAACAATTACTATCCTACGTGATTACAGTCGTTGCAGTTTGTTTCTGGTTGGTCGAAGGCCTAATGGCGTTGTACCTCTTGCATTGAGCCAGAGGACTGATTGTCCTGAACTCGGGCCAGTCGGGAGTTTGTTGACTTCACAGGAATACGCCACAACAGCATCAGTTCTGGTGGTGCAACAGTATTATGATAAGTTATATGCAACTAATCCACATCAGAGGGATGTAGCTTCAGTTCCAGAGAACTAATTAGGGGCTCTTTCATTGATCTTTGAATCATAATGACTGTTTTTCATTCTTGACAGTTTGATAT-AACTAT-CTTTTTGAGCTGTAATCATCAC-TTTTTAAATACAAGGATTCTGGTTGCTTTTTTTGTGGA</genome_strand>
        <mrna_strand>CGACAGTTCCATCAAATACGAAGAGAAGACTATTAGAAATGTGTCGGAAACAATTACTATCCTACGTGATTACAGTCGTTGCAGTTTGTTTCTGGTTGGTCGAAGGCCTAATGGCGTTGTACCTCTTGCATTGAGCCAGAGGACTGATTGTCCTGAACTCGGGCCAGTCGGGAGTTTGTTGACTTCACAGGAATACGCCACAACAGCATCAGTTCTGGTGGTGCAACAGTATTATGATAAGTTATATGCAACTAATCCACATCAGAGGGATGTAGCTTCAGTTCCAGAGAACTAATTAGGGGCTCTTTCATTGATCTTTGAATCATAATGACTGTTTTTCATTCTTGACAGTTTGATATAAACTATNCTTTTTGAGCTGTAATCATCACTTTTTTAAATAC-AGGATTCTGGTTGCTTTTTTTAAAAA</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-C12HBa0110O22-CAyFw/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U567481" ref_strand="+" ref_description="SGN-U567481 Tomato 200607#2 [2 ESTs aligned] (*GB) gi|157358237|emb|CAO65874.1| (e_value=5e-60) unnamed; (*ATH) AT5G41610.1 (e_value=1e-60) | Symbol: None | cation/hydrogen exchanger, putative (CHX18), monovalent cation:proton antiporter family 2 (CPA2) member, PMID:11500563 | chr5:16655598-16658956 REVERSE | Aliases: MBK23.12, MBK23_12; (*SWP) sp|P40309|KHA1_YEAST (e_value=1e-16) K(+)/H(+) antiporter 1 OS=Saccharomyces cerevisiae GN=KHA1; ">
      <seq>ggtatattgtactgtcagattgtactttcattcattctcggacttttaacactgttttgggggactgaaagctacttgttcacactccaatctatccttattttggtgtttgattttttttattagttcgcaaatctcgcgttacaaggactagtttggagaggcatacagtaaaactatggatcagcattgtccatctccaatgaaggctacgtctaacggcatttttcagggtgataatcccctggattttgcacttccgttggccattttacagatatgtttagttcttgtcgtcacgagaggtcttgcctttttgctgcggccgctaagacaaccacgtgtaattgctgaagttattggaggtatattgctgggaccatcagctcttggtcgaaacaaaggctatttgaatgcagtattcccaccgaagagcatcaccgtcttagactttggcaaatgttggtctcctgttctttttatttctagctggcctagaactagatgttaagtcattgcgtcagagtgggaaaaaagtccttgccattgctattacaggaattactcttccgtttgttttgggagtaggcacttcatttattcttcgaggaactataaaccaaggtgtaaatactactgcatttcttgtattcatgggtgtagcgctttccataactgcatttcctgttctggcacgcattttggccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0110O22-CAyFw/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0110O22.1" temp_strand="-" temp_description="C12HBa0110O22.1  AC235578.2 htgs_phase:2 submitted_to_sgn_as:gi|238909031|gb|AC235578.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-110O22, WORKING DRAFT SEQUENCE, 5 ordered pieces">
        <position start="32612" stop="30007"/>
      </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="32312" g_stop="32165" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="148" r_length="148" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="32164" i_stop="31433" i_length="732">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="31432" g_stop="31220" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="149" r_stop="361" r_length="213" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="31219" i_stop="30656" i_length="564">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="30655" g_stop="30307" g_length="349"/>
          <reference_exon_boundary r_type="cDNA" r_start="362" r_stop="708" r_length="347" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0110O22.1" gen_strand="-" ref_id="SGN-U567481" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>710</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0110O22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U567481" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="32312" e_stop="32165"/>
          <exon e_start="31432" e_stop="31220"/>
          <exon e_start="30655" e_stop="30307"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTATATTGTACTGTCAGATTGTACTTTCATTCATTCTCGGACTTTTAAAACTGTTTTGGGGGACTGAAAGCTACTTGTTCACACTCCAATCTATCCTTATTTTGGTGTTTGATTTTTTTTATTAGTTCGCAAATCTCGCGTTACAAGGTATGATTTTTCTATTTGTTTATCATCCAAATATTTCTGTTTAATTTGGTATATTGATAATAATAATAATAATAATAATAATAATATAAAAGATCAGTCATAAGTCTGATAAACAAGTACTGATATAGATCCTTTGATCTGGATATTTTTTTCCCGAATTTCAATGAATATTTTTTGTTTTGTGCAAAAATAGTATTTTTTTAAGAATTGGTGTCAGTGAATTGATTGATATTTGTACGACAATAACATATTCCGTATAGTTTCGAGTCTAGAGAAGACGGTGAATTGTATGAATACCACCCTAGGATAGAGAATTTGTTTCTGATAAACGTTTGACTCAAGAAAATCATTTTTTTTTGTTAAGGATTGGTGCTGATTGAATTTGTAGTGCCCTTAGGTATCTATGTCAATTTGTGGATATCTTGACTCATGTAGTGACAGATTACTAATGCTCACTTTAAGTGTTGTAGTCAGCTGTGGATTAAGTGTCACGTTTAACGTGAACTCAGTAGCTTCTGCTTAAATTTTATATTTTTATTATAGGAACCTATAAACTCGAGTTTGTTGTAGCAACTCATAGACTTTAAATCCTGAATCCACCTTTGGTTGTAGCTCTGGTTGTGGGGGAGCAATCCTGGATGCTAATAAAAGATTTTCATGTTGATCCTCCTTTTTATAATTTTGAGTTGAAATTGGAAGTGTAATAGCTATTTTACAGTATTGTGTTTACAGGACTAGTTTGGAGAGGCATACAGTAAAACTATGGATCAGCATTGTCCATCTCCAATGAAGGCTACGTCTAACGGCATTTTTCAGGGTGATAATCCCCTGGATTTTGCACTTCCGTTGGCCATTTTACAGATATGTTTAGTTCTTGTCGTCACGAGAGGTCTTGCCTTTTTGCTGCGGCCGCTAAGACAACCACGTGTAATTGCTGAAGTTATTGTAAGTTGTTTCTCCTACCACCATCTCAAAGAAAACTTGGTTCATTGTCTGTAATTGTGTATCAGCCGACAGTTATTTTCTCTATGGTGCCTTGTTGTCTTCATTTGCTGAGGGTTTATCGGAAATAGCCTCTCTACCGTGAAGTAGGGGTAAGGTCTCGTACACTCTACCCTCCACAGATCCCACTTTGTAGGATTACATTGGGTATGTTGTTGTTTCCCTATTGTCTTCGTTTAGTTTTTCTTTACCATTTTATTTCTCTGCTAGCTGAAAGTAAATTATCTGCTCTTTCTAACTATTTTGTTTGATCATCATTTATAAGTCATCAAAAAGCTCCCTCTTTTTTGTTTTCTTGAATCACGTGTTTTCTTCTCCTCGTTATAGTATAGTAGACTTCGATGATCAACTTCTGTGATACGATCCTCTAGTCTTGCTTTTCGTTCATCTTCATGGAACGTTCTTTTGGTGGAAGAAAGAACAATTACACCTTTTATATTGAATTACAGGAGTGCTACAAAGCCAAGAAATTTTTTAATGTTATCTGGAACTTCATTCTGTTTACAGGGAGGTATATTGCTGGGACCATCAGCTCTTGGTCGAAACAAAGGCTATTTGAATGCAGTATTCCCACCGAAGAGCATCACCGTCTTAGACACTTTGGCAAATGTTGGTCTCCTGTTCTTTTTATTTCTAGCTGGCCTAGAACTAGATGTTAAGTCATTGCGTCAGAGTGGGAAAAAAGTCCTTGCCATTGCTATTACAGGAATTACTCTTCCATTTGTTTTGGGAGTAGGCACTTCATTTATTCTTCGAGGAACTATAAACCAAGGTGTAAATGCTACCGCATTTCTTGTATTCATGGGTGTAGCGCTTTCCATAACTGCATTTCCTGTTCTGGCACGCATTTTGGCCG</genome_strand>
        <mrna_strand>GGTATATTGTACTGTCAGATTGTACTTTCATTCATTCTCGGACTTTTAACACTGTTTTGGGGGACTGAAAGCTACTTGTTCACACTCCAATCTATCCTTATTTTGGTGTTTGATTTTTTTTATTAGTTCGCAAATCTCGCGTTACAAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTAGTTTGGAGAGGCATACAGTAAAACTATGGATCAGCATTGTCCATCTCCAATGAAGGCTACGTCTAACGGCATTTTTCAGGGTGATAATCCCCTGGATTTTGCACTTCCGTTGGCCATTTTACAGATATGTTTAGTTCTTGTCGTCACGAGAGGTCTTGCCTTTTTGCTGCGGCCGCTAAGACAACCACGTGTAATTGCTGAAGTTATT....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGAGGTATATTGCTGGGACCATCAGCTCTTGGTCGAAACAAAGGCTATTTGAATGCAGTATTCCCACCGAAGAGCATCACCGTCTTAG--ACTTTGGCAAATGTTGGTCTCCTGTTCTTTTTATTTCTAGCTGGCCTAGAACTAGATGTTAAGTCATTGCGTCAGAGTGGGAAAAAAGTCCTTGCCATTGCTATTACAGGAATTACTCTTCCGTTTGTTTTGGGAGTAGGCACTTCATTTATTCTTCGAGGAACTATAAACCAAGGTGTAAATACTACTGCATTTCTTGTATTCATGGGTGTAGCGCTTTCCATAACTGCATTTCCTGTTCTGGCACGCATTTTGGCCG</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-C12HBa0110O22-CAyFw/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U602410" ref_strand="-" ref_description="SGN-U602410 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|56784057|dbj|BAD81294.1| (e_value=2e-32) hypothetical; ">
      <seq>agtagggcacagctataatttgatagacacaaggactcgaaggattttgaacgttgaaactgcatcgagaaatcgaatttcagttcgtgaaattggagaaactccattcttccatgctaacatgtatctgcatcttcaagtaaagcaggcaagtacacttgcctaagctatcagtgcattttaatccatcatagaatgtaatgtttcttcttcttattgacgtttactgctagttatcttttaggtgatttgataacgtaatacactcttgtctgtattttggctaatgaaggcacaagatgagaactctttgagcaggcaaacaagagcttcttctttagcaaaggaatcaaaaagtgattttttagcacttgttggtgacatgaacaatgagaagtatcctatttacatgacaggtccattgttgtacacactttgcacagctgtgatagatttggatgaaaaaattctatcaattatagaagggaatccaaaggaaaaacaagaatcatatgtcttctcattgtcctaaaagaagggaaacttttacttgttcaaataacaattaaggtgaagcagggtcaggaagaacgagatccccattttgcaagttagttattatggatagtttttacaaagaattggactaatggtgtatacgatattggagttaccgatgtagatgcttcatagctggttctcattctttagagactacgagtgtaataagagcatatgttagatagttctatttctcaatctttcgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0110O22-CAyFw/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0110O22.1" temp_strand="-" temp_description="C12HBa0110O22.1  AC235578.2 htgs_phase:2 submitted_to_sgn_as:gi|238909031|gb|AC235578.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-110O22, WORKING DRAFT SEQUENCE, 5 ordered pieces">
        <position start="38849" stop="37398"/>
      </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="38549" g_stop="38134" g_length="416"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="416" r_length="416" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38133" i_stop="38048" i_length="86">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="38047" g_stop="37697" g_length="351"/>
          <reference_exon_boundary r_type="cDNA" r_start="417" r_stop="767" r_length="351" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0110O22.1" gen_strand="-" ref_id="SGN-U602410" ref_strand="-">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>767</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0110O22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U602410" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="38549" e_stop="38134"/>
          <exon e_start="38047" e_stop="37697"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTAGGGCACAGCTATAATTTGATAGACACAAGGACTCGAAGGATTTTGAACGTTGAAACTGCATCGAGAAATCGAATTTCAGTTCGTGAAATTGGAGAAACTCCATTCTTCCATGCTAACATGTATCTGCATCTTCAAGTAAAGCAGGCAAGTACACTTGCCTAAGCTATCAGTGCATTTTAATCCATCATAGAATGTAATGTTTCTTCTTCTTATTGACGTTTACTGCTAGTTATCTTTTAGGTGATTTGATAACGTAATACACTCTTGTCTGTATTTTGGCTAATGAAGGCACAAGATGAGAACTCTTTGAGCAGGCAAACAAGAGCTTCTTCTTTAGCAAAGGAATCAAAAAGTGATTTTTTAGCACTTGTTGGTGACATGAACAATGAGAAGTATCCTATTTACATGACAGGTGCTTAATTTAATTCATCAAAAATATTGCACATTGATATCCATTTTATTAAAAAAAAAAATTATGCATCTTTAATCTTATTTCAGGTCCATTGTTGTACACACTTTGCACAGCTGTGATAGATTTGGATGAAAAAATTCTATCAATTATAGAAGGGAATCCAAAGGAAAAACAAGAATCATATGTCTTCTCATTGTCCTAAAAGAAGGGAAACTTTTACTTGTTCAAATAACAATTAAGGTGAAGCAGGGTCAGGAAGAACGAGATCCCCATTTTGCAAGTTAGTTATTATGGATAGTTTTTACAAAGAATTGGACTAATGGTGTATACGATATTGGAGTTACCGATGTAGATGCTTCATAGCTGGTTCTCATTCTTTAGAGACTACGAGTGTAATAAGAGCATATGTTAGATAGTTCTATTTCTCAATCTTTCGA</genome_strand>
        <mrna_strand>AGTAGGGCACAGCTATAATTTGATAGACACAAGGACTCGAAGGATTTTGAACGTTGAAACTGCATCGAGAAATCGAATTTCAGTTCGTGAAATTGGAGAAACTCCATTCTTCCATGCTAACATGTATCTGCATCTTCAAGTAAAGCAGGCAAGTACACTTGCCTAAGCTATCAGTGCATTTTAATCCATCATAGAATGTAATGTTTCTTCTTCTTATTGACGTTTACTGCTAGTTATCTTTTAGGTGATTTGATAACGTAATACACTCTTGTCTGTATTTTGGCTAATGAAGGCACAAGATGAGAACTCTTTGAGCAGGCAAACAAGAGCTTCTTCTTTAGCAAAGGAATCAAAAAGTGATTTTTTAGCACTTGTTGGTGACATGAACAATGAGAAGTATCCTATTTACATGACAG......................................................................................GTCCATTGTTGTACACACTTTGCACAGCTGTGATAGATTTGGATGAAAAAATTCTATCAATTATAGAAGGGAATCCAAAGGAAAAACAAGAATCATATGTCTTCTCATTGTCCTAAAAGAAGGGAAACTTTTACTTGTTCAAATAACAATTAAGGTGAAGCAGGGTCAGGAAGAACGAGATCCCCATTTTGCAAGTTAGTTATTATGGATAGTTTTTACAAAGAATTGGACTAATGGTGTATACGATATTGGAGTTACCGATGTAGATGCTTCATAGCTGGTTCTCATTCTTTAGAGACTACGAGTGTAATAAGAGCATATGTTAGATAGTTCTATTTCTCAATCTTTCGC</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-C12HBa0110O22-CAyFw/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U576868" ref_strand="+" ref_description="SGN-U576868 Tomato 200607#2 [4 ESTs aligned] (*GB) gi|157358229|emb|CAO65866.1| (e_value=5e-55) unnamed; ">
      <seq>gcaataatggccatgggaagcacaaatttggaacccaacaagttagaaatgtatgaatttggcccttttgaagaagatgagggtttccaaattgggtttttgataggccaaaaattctccaaattaatacaaaacaggttatctactgaccttattcttcaaaatcaattactcccttttgctcaactcccaaattctcaaacacttatacatactttatctcaaacaaacaagaacaagttcccaaattattggaatgaactcaaaggaattgctcaaggaagtggtgtcccctttctcaatattttattattgaattttaggaaagaaatattgcctttcattccaaagacagaggaatgtcccaaggaggaagacattaatgatgactgttctgatattcttgttgttagtaattccatggctatggcagttcataatgaggatgcaaatgttgctcttgtcggacacacttatttggttaaggtgacattatctaatggaacaacattcactgcttatacatatgctggagaacttccaagttgtgcatttggatttaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0110O22-CAyFw/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12HBa0110O22.1" temp_strand="-" temp_description="C12HBa0110O22.1  AC235578.2 htgs_phase:2 submitted_to_sgn_as:gi|238909031|gb|AC235578.2| upload_account_name:italy Solanum lycopersicum chromosome 12 clone LE_HBa-110O22, WORKING DRAFT SEQUENCE, 5 ordered pieces">
        <position start="41263" stop="39098"/>
      </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="40964" g_stop="40662" g_length="303"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="303" r_length="303" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="40661" i_stop="39989" i_length="673">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.958" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39988" g_stop="39819" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="304" r_stop="473" r_length="170" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39818" i_stop="39489" i_length="330">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.909" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39488" g_stop="39398" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="474" r_stop="564" r_length="91" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0110O22.1" gen_strand="-" ref_id="SGN-U576868" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>564</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0110O22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U576868" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40964" e_stop="40662"/>
          <exon e_start="39988" e_stop="39819"/>
          <exon e_start="39488" e_stop="39398"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAATAATGGCCATGGGAAGCACAAATTTGGAACCCAACAAGTTAGAAATGTATGAATTTGGCCCTTTTGAAGAAGATGAGGGTTTCCAAATTGGGTTTTTGATAGGCCAAAAATTCTCCAAATTAATACAAAACAGGTTATCTACTGACCTTATTCTTCAAAATCAATTACTCCCTTTTGCTCAACTCCCAAATTCTCAAACACTTATACATACTTTATCTCAAACAAACAAGAACAAGTTCCCAAATTATTGGAATGAACTCAAAGGAATTGCTCAAGGAAGTGGTGTCCCCTTTCTCAATGTGAACTTCCTAACTTACCCTTCTTCCTTTTTTTTCGTATTTTATATTCTGACTAATTTAAATTTGTATCGTGTAGGATTTATTAATAGATTTAGGGGCCTAAAGTTTGTCTAAACAAAGATTTTGAGCTTATGGGCTCTGTATTCTAAAAAGTAATGTTGTTTGATTTGACATAAAAATTAAGAAACAGAAGTGTTGTCTAAAACAAGTCACAAGTGTTTGTGTGAATATAAATCATCACTTTAAAGTTAAATTGTTATCAAATAGCAAAACATGTCATTTTTTTCGACTAATTTGAAAGAAATGTGTGTCATATAATTTAGGACAGAAAGAATACTAAGTTTGATTTTTGAGCCAAAGCTAATATGTTATGTTGAACCTGAACAAATGTTGTAGCTCCACTCTAGACTATATATATGAAGTTGTATTATGGCAAATGTTGAGTCCCCTTGACTTTCTTTTGTGCTTTTGCGTATTGAAAATTTTGATTTTGCTACTTATAAGATTCGTTACATTAAACGAGAAGCACCTTGTACGAGTTTTTTGTACTTCTAAAACTTTTAATTAAGGGAGGAGGGATATTATCGACCCCACGAAAGGACTTTATTGTCCATACTTCTTCTATTAAGTAGATAAATTAACAAACTGACATTGTTTTCTTTTGGTTCTTCAGATTTTATTATTGAATTTTAGGAAAGAAATATTGCCTTTCATTCCAAAGACAGAGGAATGTCCCAAGGAGGAAGACATTAATGATGACTGTTCTGATATTCTTGTTGTTAGTAATTCCATGGCTATGGCAGTTCATAATGAGGATGCAAATGTTGCTCTTGTCGGACACACGTAAATTATCTTCTTCTTTTTTTTCCGACATAATAACTAAACAGTCATTCAAACTTGGCTTCAGCTAGCAAGTATACACATTCTAGACACCTCAACTCGTCTTCACTGTGTTAGTTGAACCTCCAACTTCTATACATCTTCATGTGTCACTTTAGCATCGCGCATCCACGAGACATAGTGGGAATGGTTTGGTTGTCAGTTGAAACCAAGTTGAGTAGTGCATTTCAAAGTTGAAGTGCTTACTTGCCAGCTGAAGCCAAGTTTGAGCGCTTGTTTTATATCTGGTGCTTTTGGAAAATATGACCCTTTTCTGTTTACATTATACTGCAGTTATTTGGTTAAGGTGACATTATCTAATGGAACAACATTCACTGCTTATACATATGCTGGAGAACTTCCAAGTTGTGCATTTGGATTTAAT</genome_strand>
        <mrna_strand>GCAATAATGGCCATGGGAAGCACAAATTTGGAACCCAACAAGTTAGAAATGTATGAATTTGGCCCTTTTGAAGAAGATGAGGGTTTCCAAATTGGGTTTTTGATAGGCCAAAAATTCTCCAAATTAATACAAAACAGGTTATCTACTGACCTTATTCTTCAAAATCAATTACTCCCTTTTGCTCAACTCCCAAATTCTCAAACACTTATACATACTTTATCTCAAACAAACAAGAACAAGTTCCCAAATTATTGGAATGAACTCAAAGGAATTGCTCAAGGAAGTGGTGTCCCCTTTCTCAAT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTTTATTATTGAATTTTAGGAAAGAAATATTGCCTTTCATTCCAAAGACAGAGGAATGTCCCAAGGAGGAAGACATTAATGATGACTGTTCTGATATTCTTGTTGTTAGTAATTCCATGGCTATGGCAGTTCATAATGAGGATGCAAATGTTGCTCTTGTCGGACACAC..........................................................................................................................................................................................................................................................................................................................................TTATTTGGTTAAGGTGACATTATCTAATGGAACAACATTCACTGCTTATACATATGCTGGAGAACTTCCAAGTTGTGCATTTGGATTTAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>7</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="10926" PGL_stop="10602"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="10926" e_stop="10602"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.902"/>
        </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="0.902">
            <gDNA_exon_boundary e_start="10926" e_stop="10602" e_length="325"/>
          </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="10926" stop="10602"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U592141" 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>CGGGTACTGAGTAGATATCATCGGCCAACTCAAAATAGAAATCAATATATATCAAGTAATATCATAAAATCAACTATGATACTCAACATGTAGCAACAAGTACTATATCATTAACAATTACCGTCAAGTTCACACATGAGGACTCAAGCCTAAATACCATACTCATTTGGGAATTATGTTCGTTAGATTGAGTATATTAACATCTTTCAAGATTCATTATCTTTATTTCTCTTGTGTCGGTACGTGACACTCCGCTCCCTCATATTCATTAGTCCTCTTGTGTCGGTACGTGACACTCCGATCCCCTAAATCTACGTGTCGGTTC</gDNA_template>
            <first_frame> R  V  L  S  R  Y  H  R  P  T  Q  N  R  N  Q  Y  I  S  S  N  I  I  K  S  T  M  I  L  N  M  *  Q  Q  V  L  Y  H  *  Q  L  P  S  S  S  H  M  R  T  Q  A  *  I  P  Y  S  F  G  N  Y  V  R  *  I  E  Y  I  N  I  F  Q  D  S  L  S  L  F  L  L  C  R  Y  V  T  L  R  S  L  I  F  I  S  P  L  V  S  V  R  D  T  P  I  P  *  I  Y  V  S  V  </first_frame>
            <second_frame>  G  Y  *  V  D  I  I  G  Q  L  K  I  E  I  N  I  Y  Q  V  I  S  *  N  Q  L  *  Y  S  T  C  S  N  K  Y  Y  I  I  N  N  Y  R  Q  V  H  T  *  G  L  K  P  K  Y  H  T  H  L  G  I  M  F  V  R  L  S  I  L  T  S  F  K  I  H  Y  L  Y  F  S  C  V  G  T  *  H  S  A  P  S  Y  S  L  V  L  L  C  R  Y  V  T  L  R  S  P  K  S  T  C  R  F </second_frame>
            <third_frame>   G  T  E  *  I  S  S  A  N  S  K  *  K  S  I  Y  I  K  *  Y  H  K  I  N  Y  D  T  Q  H  V  A  T  S  T  I  S  L  T  I  T  V  K  F  T  H  E  D  S  S  L  N  T  I  L  I  W  E  L  C  S  L  D  *  V  Y  *  H  L  S  R  F  I  I  F  I  S  L  V  S  V  R  D  T  P  L  P  H  I  H  *  S  S  C  V  G  T  *  H  S  D  P  L  N  L  R  V  G   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C12HBa0110O22.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="16859" PGL_stop="18854"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="16859" e_stop="17226"/>
            <exon e_start="18022" e_stop="18321"/>
            <exon e_start="18626" e_stop="18854"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.902" acc_prob="0.967" e_score="0.995"/>
          <exon-intron don_prob="0.996" acc_prob="0.966" e_score="1.000"/>
          <exon-only e_score="0.974"/>
        </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="0.995">
            <gDNA_exon_boundary e_start="16859" e_stop="17226" e_length="368"/>
          </exon>
          <intron i_serial="1" don_prob="0.902" acc_prob="0.967">
            <gDNA_intron_boundary i_start="17227" i_stop="18021" i_length="795"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="18022" e_stop="18321" e_length="300"/>
          </exon>
          <intron i_serial="2" don_prob="0.996" acc_prob="0.966">
            <gDNA_intron_boundary i_start="18322" i_stop="18625" i_length="304"/>
          </intron>
          <exon e_serial="3" e_score="0.974">
            <gDNA_exon_boundary e_start="18626" e_stop="18854" e_length="229"/>
          </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="16859" stop="17226"/>
              <exon start="18022" stop="18321"/>
              <exon start="18626" stop="18854"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U570274" 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>GCCCTAAAAACTTCCCCTTTTCTCTTCAGCCGCAACACTTTACTTTCATCTATAAATCCATAAATTATCCACTTTTTTCCACTCAAATCGCCTTAAATCAGCTCAATTTAGCTTTTTCACGGCTGAAATCTGATCAATTTGAAGTTTTTTCGATGAAAAATGATGAGTTTGAGAGTTTTTGTGAGGGTTTTGTTCGGTGGAGTACAGTGAGGTGATGGAAGCTTTGAAAGGACCTGTTTTGGTTGATGTGGATGTGTCTAAGCTTATGGGATCGGAAAGTTTTAGTGGCGGTGCTAGGAAATTGGAGAGGCCTTCTGTTGCGATTGCGCCTTCTATTGGAAGGATCAGTGGTTCAGTCAGACGAAAAG : AGCAAGCTTTTTGGAGTAAGATGCCCCAGAATGAATTTGCTGGTCAGCAATCCAGACATCATGTTGAGGATGCTTCAGAAGACCACAGTGTCGGGAAGACGAGTACTGTTCTTCCACTGACGCTTGGGCTAGAGGCTGCACAGTCACATCGGAACTGTGGGAAAGTGGGGAGAAATAGTACTTCTAATTCTAAGAGATCAAGGATAATGCAGATGGATGCTCCTGTAAATAAAACCGGTGAAGACGGAAAAGGCCTTTCTACTGAGATTTCCGCAAATCTTACAAATTGCAAAAATGGAG : GATTCACAGTGGCATGGAACAGGTTGAGCTCATGGTTTTATTGTTTCTGAACATCACTACAGTCCTATGATACCCTGTGTTAGTTATGCTTGAAAACTTCAAAGAAAGCAACACATTAGTTTGAGAAAATTAAGAATTCCAAAAGTTTCCCTTTCAAAAAGTGCACTTCTTTCTGATTAAGTTGGAATTAGTTTGAGAAGAAGGCTATTGGACACTTCCCCCATGCCAT</gDNA_template>
            <first_frame> A  L  K  T  S  P  F  L  F  S  R  N  T  L  L  S  S  I  N  P  *  I  I  H  F  F  P  L  K  S  P  *  I  S  S  I  *  L  F  H  G  *  N  L  I  N  L  K  F  F  R  *  K  M  M  S  L  R  V  F  V  R  V  L  F  G  G  V  Q  *  G  D  G  S  F  E  R  T  C  F  G  *  C  G  C  V  *  A  Y  G  I  G  K  F  *  W  R  C  *  E  I  G  E  A  F  C  C  D  C  A  F  Y  W  K  D  Q  W  F  S  Q  T  K  R :   A  S  F  L  E  *  D  A  P  E  *  I  C  W  S  A  I  Q  T  S  C  *  G  C  F  R  R  P  Q  C  R  E  D  E  Y  C  S  S  T  D  A  W  A  R  G  C  T  V  T  S  E  L  W  E  S  G  E  K  *  Y  F  *  F  *  E  I  K  D  N  A  D  G  C  S  C  K  *  N  R  *  R  R  K  R  P  F  Y  *  D  F  R  K  S  Y  K  L  Q  K  W  R :   I  H  S  G  M  E  Q  V  E  L  M  V  L  L  F  L  N  I  T  T  V  L  *  Y  P  V  L  V  M  L  E  N  F  K  E  S  N  T  L  V  *  E  N  *  E  F  Q  K  F  P  F  Q  K  V  H  F  F  L  I  K  L  E  L  V  *  E  E  G  Y  W  T  L  P  P  C  H </first_frame>
            <second_frame>  P  *  K  L  P  L  F  S  S  A  A  T  L  Y  F  H  L  *  I  H  K  L  S  T  F  F  H  S  N  R  L  K  S  A  Q  F  S  F  F  T  A  E  I  *  S  I  *  S  F  F  D  E  K  *  *  V  *  E  F  L  *  G  F  C  S  V  E  Y  S  E  V  M  E  A  L  K  G  P  V  L  V  D  V  D  V  S  K  L  M  G  S  E  S  F  S  G  G  A  R  K  L  E  R  P  S  V  A  I  A  P  S  I  G  R  I  S  G  S  V  R  R  K   : E  Q  A  F  W  S  K  M  P  Q  N  E  F  A  G  Q  Q  S  R  H  H  V  E  D  A  S  E  D  H  S  V  G  K  T  S  T  V  L  P  L  T  L  G  L  E  A  A  Q  S  H  R  N  C  G  K  V  G  R  N  S  T  S  N  S  K  R  S  R  I  M  Q  M  D  A  P  V  N  K  T  G  E  D  G  K  G  L  S  T  E  I  S  A  N  L  T  N  C  K  N  G   : G  F  T  V  A  W  N  R  L  S  S  W  F  Y  C  F  *  T  S  L  Q  S  Y  D  T  L  C  *  L  C  L  K  T  S  K  K  A  T  H  *  F  E  K  I  K  N  S  K  S  F  P  F  K  K  C  T  S  F  *  L  S  W  N  *  F  E  K  K  A  I  G  H  F  P  H  A   </second_frame>
            <third_frame>   P  K  N  F  P  F  S  L  Q  P  Q  H  F  T  F  I  Y  K  S  I  N  Y  P  L  F  S  T  Q  I  A  L  N  Q  L  N  L  A  F  S  R  L  K  S  D  Q  F  E  V  F  S  M  K  N  D  E  F  E  S  F  C  E  G  F  V  R  W  S  T  V  R  *  W  K  L  *  K  D  L  F  W  L  M  W  M  C  L  S  L  W  D  R  K  V  L  V  A  V  L  G  N  W  R  G  L  L  L  R  L  R  L  L  L  E  G  S  V  V  Q  S  D  E  K  :  S  K  L  F  G  V  R  C  P  R  M  N  L  L  V  S  N  P  D  I  M  L  R  M  L  Q  K  T  T  V  S  G  R  R  V  L  F  F  H  *  R  L  G  *  R  L  H  S  H  I  G  T  V  G  K  W  G  E  I  V  L  L  I  L  R  D  Q  G  *  C  R  W  M  L  L  *  I  K  P  V  K  T  E  K  A  F  L  L  R  F  P  Q  I  L  Q  I  A  K  M  E  :  D  S  Q  W  H  G  T  G  *  A  H  G  F  I  V  S  E  H  H  Y  S  P  M  I  P  C  V  S  Y  A  *  K  L  Q  R  K  Q  H  I  S  L  R  K  L  R  I  P  K  V  S  L  S  K  S  A  L  L  S  D  *  V  G  I  S  L  R  R  R  L  L  D  T  S  P  M  P  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0110O22.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="17043" stop="17226"/>
                    <exon start="18022" stop="18321"/>
                    <exon start="18626" stop="18675"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>531</number_coding_nucleotides>
                  <number_encoded_amino_acids>177</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GFCSVEYSEVMEALKGPVLVDVDVSKLMGSESFSGGARKLERPSVAIAPSIGRISGSVRRKEQAFWSKMPQNEFAGQQSRHHVEDASEDHSVGKTSTVLPLTLGLEAAQSHRNCGKVGRNSTSNSKRSRIMQMDAPVNKTGEDGKGLSTEISANLTNCKNGGFTVAWNRLSSWFYCF*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0110O22.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="16861" stop="17073"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>210</number_coding_nucleotides>
                  <number_encoded_amino_acids>70</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PKNFPFSLQPQHFTFIYKSINYPLFSTQIALNQLNLAFSRLKSDQFEVFSMKNDEFESFCEGFVRWSTVR*</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="25558" PGL_stop="26109"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="25558" e_stop="26109"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="1.000"/>
        </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="25558" e_stop="26109" e_length="552"/>
          </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="25558" stop="26109"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U600983" 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>CAGCTGAATCAATAAGATCAACTCCTGTCAAATCTTCTAAGGAATCTGACGGTTTCAGTAACAGCTTTGTAAATAAACCATGTACGACGTCCCCATATACAAGGGTGATGGATAAGGTTTATAGTAGTAGCGACCAGAAGCCGAGGAAGGTAGCCAATGGAGCGGAGCCAAGGAGATGACAGAATGTTGAAGAGCGAACTGATTATGCAGTGAATCAGACAAGAACTGTTACTGTTGCATTTGTCTATTCCTTCTAACTGCTGTTCGACATGCAAAATATGGTAGAATCTGTATAGCCTGTCACATGGAAGAAATGAATGTTGTAATCTTATGCTGGGCTGGGTGACTTGGGATCATTGTGCTTGTACCATTACATGTTACATGGATGCCAGACACATCGATACGCTTTCAGCATTGCCTCAGTGTACATCATTGATGAGGCAATATGGTAGAAAAGTTCTCTATGTAGTCTCTGGTATTCCGGAGGTATTCGTTACGTGTGTGTAAATGTATTCATTATGTGATATCTATGGTCAGGACATTTTCATACTC</gDNA_template>
            <first_frame> Q  L  N  Q  *  D  Q  L  L  S  N  L  L  R  N  L  T  V  S  V  T  A  L  *  I  N  H  V  R  R  P  H  I  Q  G  *  W  I  R  F  I  V  V  A  T  R  S  R  G  R  *  P  M  E  R  S  Q  G  D  D  R  M  L  K  S  E  L  I  M  Q  *  I  R  Q  E  L  L  L  L  H  L  S  I  P  S  N  C  C  S  T  C  K  I  W  *  N  L  Y  S  L  S  H  G  R  N  E  C  C  N  L  M  L  G  W  V  T  W  D  H  C  A  C  T  I  T  C  Y  M  D  A  R  H  I  D  T  L  S  A  L  P  Q  C  T  S  L  M  R  Q  Y  G  R  K  V  L  Y  V  V  S  G  I  P  E  V  F  V  T  C  V  *  M  Y  S  L  C  D  I  Y  G  Q  D  I  F  I  L </first_frame>
            <second_frame>  S  *  I  N  K  I  N  S  C  Q  I  F  *  G  I  *  R  F  Q  *  Q  L  C  K  *  T  M  Y  D  V  P  I  Y  K  G  D  G  *  G  L  *  *  *  R  P  E  A  E  E  G  S  Q  W  S  G  A  K  E  M  T  E  C  *  R  A  N  *  L  C  S  E  S  D  K  N  C  Y  C  C  I  C  L  F  L  L  T  A  V  R  H  A  K  Y  G  R  I  C  I  A  C  H  M  E  E  M  N  V  V  I  L  C  W  A  G  *  L  G  I  I  V  L  V  P  L  H  V  T  W  M  P  D  T  S  I  R  F  Q  H  C  L  S  V  H  H  *  *  G  N  M  V  E  K  F  S  M  *  S  L  V  F  R  R  Y  S  L  R  V  C  K  C  I  H  Y  V  I  S  M  V  R  T  F  S  Y   </second_frame>
            <third_frame>   A  E  S  I  R  S  T  P  V  K  S  S  K  E  S  D  G  F  S  N  S  F  V  N  K  P  C  T  T  S  P  Y  T  R  V  M  D  K  V  Y  S  S  S  D  Q  K  P  R  K  V  A  N  G  A  E  P  R  R  *  Q  N  V  E  E  R  T  D  Y  A  V  N  Q  T  R  T  V  T  V  A  F  V  Y  S  F  *  L  L  F  D  M  Q  N  M  V  E  S  V  *  P  V  T  W  K  K  *  M  L  *  S  Y  A  G  L  G  D  L  G  S  L  C  L  Y  H  Y  M  L  H  G  C  Q  T  H  R  Y  A  F  S  I  A  S  V  Y  I  I  D  E  A  I  W  *  K  S  S  L  C  S  L  W  Y  S  G  G  I  R  Y  V  C  V  N  V  F  I  M  *  Y  L  W  S  G  H  F  H  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="C12HBa0110O22.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="25843" stop="26064"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>219</number_coding_nucleotides>
                  <number_encoded_amino_acids>73</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NLYSLSHGRNECCNLMLGWVTWDHCACTITCYMDARHIDTLSALPQCTSLMRQYGRKVLYVVSGIPEVFVTCV*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="28683" PGL_stop="28259"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="28683" e_stop="28259"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.974"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.974">
            <gDNA_exon_boundary e_start="28683" e_stop="28259" e_length="425"/>
          </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="28683" stop="28259"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U566049" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CGACAGTTCCATCAAATACGAAGAGAAGACTATTAGAAATGTGTCGGAAACAATTACTATCCTACGTGATTACAGTCGTTGCAGTTTGTTTCTGGTTGGTCGAAGGCCTAATGGCGTTGTACCTCTTGCATTGAGCCAGAGGACTGATTGTCCTGAACTCGGGCCAGTCGGGAGTTTGTTGACTTCACAGGAATACGCCACAACAGCATCAGTTCTGGTGGTGCAACAGTATTATGATAAGTTATATGCAACTAATCCACATCAGAGGGATGTAGCTTCAGTTCCAGAGAACTAATTAGGGGCTCTTTCATTGATCTTTGAATCATAATGACTGTTTTTCATTCTTGACAGTTTGATATAACTATCTTTTTGAGCTGTAATCATCACTTTTTAAATACAAGGATTCTGGTTGCTTTTTTTGTGGA</gDNA_template>
            <first_frame> R  Q  F  H  Q  I  R  R  E  D  Y  *  K  C  V  G  N  N  Y  Y  P  T  *  L  Q  S  L  Q  F  V  S  G  W  S  K  A  *  W  R  C  T  S  C  I  E  P  E  D  *  L  S  *  T  R  A  S  R  E  F  V  D  F  T  G  I  R  H  N  S  I  S  S  G  G  A  T  V  L  *  *  V  I  C  N  *  S  T  S  E  G  C  S  F  S  S  R  E  L  I  R  G  S  F  I  D  L  *  I  I  M  T  V  F  H  S  *  Q  F  D  I  T  I  F  L  S  C  N  H  H  F  L  N  T  R  I  L  V  A  F  F  V   </first_frame>
            <second_frame>  D  S  S  I  K  Y  E  E  K  T  I  R  N  V  S  E  T  I  T  I  L  R  D  Y  S  R  C  S  L  F  L  V  G  R  R  P  N  G  V  V  P  L  A  L  S  Q  R  T  D  C  P  E  L  G  P  V  G  S  L  L  T  S  Q  E  Y  A  T  T  A  S  V  L  V  V  Q  Q  Y  Y  D  K  L  Y  A  T  N  P  H  Q  R  D  V  A  S  V  P  E  N  *  L  G  A  L  S  L  I  F  E  S  *  *  L  F  F  I  L  D  S  L  I  *  L  S  F  *  A  V  I  I  T  F  *  I  Q  G  F  W  L  L  F  L  W  </second_frame>
            <third_frame>   T  V  P  S  N  T  K  R  R  L  L  E  M  C  R  K  Q  L  L  S  Y  V  I  T  V  V  A  V  C  F  W  L  V  E  G  L  M  A  L  Y  L  L  H  *  A  R  G  L  I  V  L  N  S  G  Q  S  G  V  C  *  L  H  R  N  T  P  Q  Q  H  Q  F  W  W  C  N  S  I  M  I  S  Y  M  Q  L  I  H  I  R  G  M  *  L  Q  F  Q  R  T  N  *  G  L  F  H  *  S  L  N  H  N  D  C  F  S  F  L  T  V  *  Y  N  Y  L  F  E  L  *  S  S  L  F  K  Y  K  D  S  G  C  F  F  C  G </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="C12HBa0110O22.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="28682" stop="28389"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>291</number_coding_nucleotides>
                  <number_encoded_amino_acids>97</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DSSIKYEEKTIRNVSETITILRDYSRCSLFLVGRRPNGVVPLALSQRTDCPELGPVGSLLTSQEYATTASVLVVQQYYDKLYATNPHQRDVASVPEN*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="-" PGL_start="32312" PGL_stop="30307"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="32312" e_stop="32165"/>
            <exon e_start="31432" e_stop="31220"/>
            <exon e_start="30655" e_stop="30307"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.983" acc_prob="0.992" e_score="0.993"/>
          <exon-intron don_prob="0.974" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.986"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.993">
            <gDNA_exon_boundary e_start="32312" e_stop="32165" e_length="148"/>
          </exon>
          <intron i_serial="1" don_prob="0.983" acc_prob="0.992">
            <gDNA_intron_boundary i_start="32164" i_stop="31433" i_length="732"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="31432" e_stop="31220" e_length="213"/>
          </exon>
          <intron i_serial="2" don_prob="0.974" acc_prob="0.999">
            <gDNA_intron_boundary i_start="31219" i_stop="30656" i_length="564"/>
          </intron>
          <exon e_serial="3" e_score="0.986">
            <gDNA_exon_boundary e_start="30655" e_stop="30307" e_length="349"/>
          </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="32312" stop="32165"/>
              <exon start="31432" stop="31220"/>
              <exon start="30655" stop="30307"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U567481" 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="5" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GGTATATTGTACTGTCAGATTGTACTTTCATTCATTCTCGGACTTTTAAAACTGTTTTGGGGGACTGAAAGCTACTTGTTCACACTCCAATCTATCCTTATTTTGGTGTTTGATTTTTTTTATTAGTTCGCAAATCTCGCGTTACAAG : GACTAGTTTGGAGAGGCATACAGTAAAACTATGGATCAGCATTGTCCATCTCCAATGAAGGCTACGTCTAACGGCATTTTTCAGGGTGATAATCCCCTGGATTTTGCACTTCCGTTGGCCATTTTACAGATATGTTTAGTTCTTGTCGTCACGAGAGGTCTTGCCTTTTTGCTGCGGCCGCTAAGACAACCACGTGTAATTGCTGAAGTTATT : GGAGGTATATTGCTGGGACCATCAGCTCTTGGTCGAAACAAAGGCTATTTGAATGCAGTATTCCCACCGAAGAGCATCACCGTCTTAGACACTTTGGCAAATGTTGGTCTCCTGTTCTTTTTATTTCTAGCTGGCCTAGAACTAGATGTTAAGTCATTGCGTCAGAGTGGGAAAAAAGTCCTTGCCATTGCTATTACAGGAATTACTCTTCCATTTGTTTTGGGAGTAGGCACTTCATTTATTCTTCGAGGAACTATAAACCAAGGTGTAAATGCTACCGCATTTCTTGTATTCATGGGTGTAGCGCTTTCCATAACTGCATTTCCTGTTCTGGCACGCATTTTGGCCG</gDNA_template>
            <first_frame> G  I  L  Y  C  Q  I  V  L  S  F  I  L  G  L  L  K  L  F  W  G  T  E  S  Y  L  F  T  L  Q  S  I  L  I  L  V  F  D  F  F  Y  *  F  A  N  L  A  L  Q   : G  L  V  W  R  G  I  Q  *  N  Y  G  S  A  L  S  I  S  N  E  G  Y  V  *  R  H  F  S  G  *  *  S  P  G  F  C  T  S  V  G  H  F  T  D  M  F  S  S  C  R  H  E  R  S  C  L  F  A  A  A  A  K  T  T  T  C  N  C  *  S  Y   : W  R  Y  I  A  G  T  I  S  S  W  S  K  Q  R  L  F  E  C  S  I  P  T  E  E  H  H  R  L  R  H  F  G  K  C  W  S  P  V  L  F  I  S  S  W  P  R  T  R  C  *  V  I  A  S  E  W  E  K  S  P  C  H  C  Y  Y  R  N  Y  S  S  I  C  F  G  S  R  H  F  I  Y  S  S  R  N  Y  K  P  R  C  K  C  Y  R  I  S  C  I  H  G  C  S  A  F  H  N  C  I  S  C  S  G  T  H  F  G   </first_frame>
            <second_frame>  V  Y  C  T  V  R  L  Y  F  H  S  F  S  D  F  *  N  C  F  G  G  L  K  A  T  C  S  H  S  N  L  S  L  F  W  C  L  I  F  F  I  S  S  Q  I  S  R  Y  K  :  D  *  F  G  E  A  Y  S  K  T  M  D  Q  H  C  P  S  P  M  K  A  T  S  N  G  I  F  Q  G  D  N  P  L  D  F  A  L  P  L  A  I  L  Q  I  C  L  V  L  V  V  T  R  G  L  A  F  L  L  R  P  L  R  Q  P  R  V  I  A  E  V  I  :  G  G  I  L  L  G  P  S  A  L  G  R  N  K  G  Y  L  N  A  V  F  P  P  K  S  I  T  V  L  D  T  L  A  N  V  G  L  L  F  F  L  F  L  A  G  L  E  L  D  V  K  S  L  R  Q  S  G  K  K  V  L  A  I  A  I  T  G  I  T  L  P  F  V  L  G  V  G  T  S  F  I  L  R  G  T  I  N  Q  G  V  N  A  T  A  F  L  V  F  M  G  V  A  L  S  I  T  A  F  P  V  L  A  R  I  L  A  </second_frame>
            <third_frame>   Y  I  V  L  S  D  C  T  F  I  H  S  R  T  F  K  T  V  L  G  D  *  K  L  L  V  H  T  P  I  Y  P  Y  F  G  V  *  F  F  L  L  V  R  K  S  R  V  T  R :   T  S  L  E  R  H  T  V  K  L  W  I  S  I  V  H  L  Q  *  R  L  R  L  T  A  F  F  R  V  I  I  P  W  I  L  H  F  R  W  P  F  Y  R  Y  V  *  F  L  S  S  R  E  V  L  P  F  C  C  G  R  *  D  N  H  V  *  L  L  K  L  L :   E  V  Y  C  W  D  H  Q  L  L  V  E  T  K  A  I  *  M  Q  Y  S  H  R  R  A  S  P  S  *  T  L  W  Q  M  L  V  S  C  S  F  Y  F  *  L  A  *  N  *  M  L  S  H  C  V  R  V  G  K  K  S  L  P  L  L  L  Q  E  L  L  F  H  L  F  W  E  *  A  L  H  L  F  F  E  E  L  *  T  K  V  *  M  L  P  H  F  L  Y  S  W  V  *  R  F  P  *  L  H  F  L  F  W  H  A  F  W  P </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0110O22.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="31426" stop="31220"/>
                    <exon start="30655" stop="30308"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>555</number_coding_nucleotides>
                  <number_encoded_amino_acids>185</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FGEAYSKTMDQHCPSPMKATSNGIFQGDNPLDFALPLAILQICLVLVVTRGLAFLLRPLRQPRVIAEVIGGILLGPSALGRNKGYLNAVFPPKSITVLDTLANVGLLFFLFLAGLELDVKSLRQSGKKVLAIAITGITLPFVLGVGTSFILRGTINQGVNATAFLVFMGVALSITAFPVLARILA</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="-" PGL_start="38549" PGL_stop="37697"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="38549" e_stop="38134"/>
            <exon e_start="38047" e_stop="37697"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.992" acc_prob="0.988" e_score="1.000"/>
          <exon-only e_score="0.997"/>
        </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="38549" e_stop="38134" e_length="416"/>
          </exon>
          <intron i_serial="1" don_prob="0.992" acc_prob="0.988">
            <gDNA_intron_boundary i_start="38133" i_stop="38048" i_length="86"/>
          </intron>
          <exon e_serial="2" e_score="0.997">
            <gDNA_exon_boundary e_start="38047" e_stop="37697" e_length="351"/>
          </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="38549" stop="38134"/>
              <exon start="38047" stop="37697"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U602410" 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="6" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AGTAGGGCACAGCTATAATTTGATAGACACAAGGACTCGAAGGATTTTGAACGTTGAAACTGCATCGAGAAATCGAATTTCAGTTCGTGAAATTGGAGAAACTCCATTCTTCCATGCTAACATGTATCTGCATCTTCAAGTAAAGCAGGCAAGTACACTTGCCTAAGCTATCAGTGCATTTTAATCCATCATAGAATGTAATGTTTCTTCTTCTTATTGACGTTTACTGCTAGTTATCTTTTAGGTGATTTGATAACGTAATACACTCTTGTCTGTATTTTGGCTAATGAAGGCACAAGATGAGAACTCTTTGAGCAGGCAAACAAGAGCTTCTTCTTTAGCAAAGGAATCAAAAAGTGATTTTTTAGCACTTGTTGGTGACATGAACAATGAGAAGTATCCTATTTACATGACAG : GTCCATTGTTGTACACACTTTGCACAGCTGTGATAGATTTGGATGAAAAAATTCTATCAATTATAGAAGGGAATCCAAAGGAAAAACAAGAATCATATGTCTTCTCATTGTCCTAAAAGAAGGGAAACTTTTACTTGTTCAAATAACAATTAAGGTGAAGCAGGGTCAGGAAGAACGAGATCCCCATTTTGCAAGTTAGTTATTATGGATAGTTTTTACAAAGAATTGGACTAATGGTGTATACGATATTGGAGTTACCGATGTAGATGCTTCATAGCTGGTTCTCATTCTTTAGAGACTACGAGTGTAATAAGAGCATATGTTAGATAGTTCTATTTCTCAATCTTTCGA</gDNA_template>
            <first_frame> S  R  A  Q  L  *  F  D  R  H  K  D  S  K  D  F  E  R  *  N  C  I  E  K  S  N  F  S  S  *  N  W  R  N  S  I  L  P  C  *  H  V  S  A  S  S  S  K  A  G  K  Y  T  C  L  S  Y  Q  C  I  L  I  H  H  R  M  *  C  F  F  F  L  L  T  F  T  A  S  Y  L  L  G  D  L  I  T  *  Y  T  L  V  C  I  L  A  N  E  G  T  R  *  E  L  F  E  Q  A  N  K  S  F  F  F  S  K  G  I  K  K  *  F  F  S  T  C  W  *  H  E  Q  *  E  V  S  Y  L  H  D  R :   S  I  V  V  H  T  L  H  S  C  D  R  F  G  *  K  N  S  I  N  Y  R  R  E  S  K  G  K  T  R  I  I  C  L  L  I  V  L  K  E  G  K  L  L  L  V  Q  I  T  I  K  V  K  Q  G  Q  E  E  R  D  P  H  F  A  S  *  L  L  W  I  V  F  T  K  N  W  T  N  G  V  Y  D  I  G  V  T  D  V  D  A  S  *  L  V  L  I  L  *  R  L  R  V  *  *  E  H  M  L  D  S  S  I  S  Q  S  F   </first_frame>
            <second_frame>  V  G  H  S  Y  N  L  I  D  T  R  T  R  R  I  L  N  V  E  T  A  S  R  N  R  I  S  V  R  E  I  G  E  T  P  F  F  H  A  N  M  Y  L  H  L  Q  V  K  Q  A  S  T  L  A  *  A  I  S  A  F  *  S  I  I  E  C  N  V  S  S  S  Y  *  R  L  L  L  V  I  F  *  V  I  *  *  R  N  T  L  L  S  V  F  W  L  M  K  A  Q  D  E  N  S  L  S  R  Q  T  R  A  S  S  L  A  K  E  S  K  S  D  F  L  A  L  V  G  D  M  N  N  E  K  Y  P  I  Y  M  T   : G  P  L  L  Y  T  L  C  T  A  V  I  D  L  D  E  K  I  L  S  I  I  E  G  N  P  K  E  K  Q  E  S  Y  V  F  S  L  S  *  K  K  G  N  F  Y  L  F  K  *  Q  L  R  *  S  R  V  R  K  N  E  I  P  I  L  Q  V  S  Y  Y  G  *  F  L  Q  R  I  G  L  M  V  Y  T  I  L  E  L  P  M  *  M  L  H  S  W  F  S  F  F  R  D  Y  E  C  N  K  S  I  C  *  I  V  L  F  L  N  L  S  </second_frame>
            <third_frame>   *  G  T  A  I  I  *  *  T  Q  G  L  E  G  F  *  T  L  K  L  H  R  E  I  E  F  Q  F  V  K  L  E  K  L  H  S  S  M  L  T  C  I  C  I  F  K  *  S  R  Q  V  H  L  P  K  L  S  V  H  F  N  P  S  *  N  V  M  F  L  L  L  I  D  V  Y  C  *  L  S  F  R  *  F  D  N  V  I  H  S  C  L  Y  F  G  *  *  R  H  K  M  R  T  L  *  A  G  K  Q  E  L  L  L  *  Q  R  N  Q  K  V  I  F  *  H  L  L  V  T  *  T  M  R  S  I  L  F  T  *  Q  :  V  H  C  C  T  H  F  A  Q  L  *  *  I  W  M  K  K  F  Y  Q  L  *  K  G  I  Q  R  K  N  K  N  H  M  S  S  H  C  P  K  R  R  E  T  F  T  C  S  N  N  N  *  G  E  A  G  S  G  R  T  R  S  P  F  C  K  L  V  I  M  D  S  F  Y  K  E  L  D  *  W  C  I  R  Y  W  S  Y  R  C  R  C  F  I  A  G  S  H  S  L  E  T  T  S  V  I  R  A  Y  V  R  *  F  Y  F  S  I  F  R </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="C12HBa0110O22.1" strand="-"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="38293" stop="38134"/>
                    <exon start="38047" stop="37932"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>273</number_coding_nucleotides>
                  <number_encoded_amino_acids>91</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RNTLLSVFWLMKAQDENSLSRQTRASSLAKESKSDFLALVGDMNNEKYPIYMTGPLLYTLCTAVIDLDEKILSIIEGNPKEKQESYVFSLS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="-" PGL_start="40964" PGL_stop="39398"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="40964" e_stop="40662"/>
            <exon e_start="39988" e_stop="39819"/>
            <exon e_start="39488" e_stop="39398"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.958" e_score="0.997"/>
          <exon-intron don_prob="1.000" acc_prob="0.909" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </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="0.997">
            <gDNA_exon_boundary e_start="40964" e_stop="40662" e_length="303"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.958">
            <gDNA_intron_boundary i_start="40661" i_stop="39989" i_length="673"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="39988" e_stop="39819" e_length="170"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.909">
            <gDNA_intron_boundary i_start="39818" i_stop="39489" i_length="330"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="39488" e_stop="39398" e_length="91"/>
          </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="40964" stop="40662"/>
              <exon start="39988" stop="39819"/>
              <exon start="39488" stop="39398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U576868" 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="7" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCAATAATGGCCATGGGAAGCACAAATTTGGAACCCAACAAGTTAGAAATGTATGAATTTGGCCCTTTTGAAGAAGATGAGGGTTTCCAAATTGGGTTTTTGATAGGCCAAAAATTCTCCAAATTAATACAAAACAGGTTATCTACTGACCTTATTCTTCAAAATCAATTACTCCCTTTTGCTCAACTCCCAAATTCTCAAACACTTATACATACTTTATCTCAAACAAACAAGAACAAGTTCCCAAATTATTGGAATGAACTCAAAGGAATTGCTCAAGGAAGTGGTGTCCCCTTTCTCAAT : ATTTTATTATTGAATTTTAGGAAAGAAATATTGCCTTTCATTCCAAAGACAGAGGAATGTCCCAAGGAGGAAGACATTAATGATGACTGTTCTGATATTCTTGTTGTTAGTAATTCCATGGCTATGGCAGTTCATAATGAGGATGCAAATGTTGCTCTTGTCGGACACAC : TTATTTGGTTAAGGTGACATTATCTAATGGAACAACATTCACTGCTTATACATATGCTGGAGAACTTCCAAGTTGTGCATTTGGATTTAAT</gDNA_template>
            <first_frame> S  I  M  A  M  G  S  T  N  L  E  P  N  K  L  E  M  Y  E  F  G  P  F  E  E  D  E  G  F  Q  I  G  F  L  I  G  Q  K  F  S  K  L  I  Q  N  R  L  S  T  D  L  I  L  Q  N  Q  L  L  P  F  A  Q  L  P  N  S  Q  T  L  I  H  T  L  S  Q  T  N  K  N  K  F  P  N  Y  W  N  E  L  K  G  I  A  Q  G  S  G  V  P  F  L  N  :  I  L  L  L  N  F  R  K  E  I  L  P  F  I  P  K  T  E  E  C  P  K  E  E  D  I  N  D  D  C  S  D  I  L  V  V  S  N  S  M  A  M  A  V  H  N  E  D  A  N  V  A  L  V  G  H  T :   Y  L  V  K  V  T  L  S  N  G  T  T  F  T  A  Y  T  Y  A  G  E  L  P  S  C  A  F  G  F  N </first_frame>
            <second_frame>  Q  *  W  P  W  E  A  Q  I  W  N  P  T  S  *  K  C  M  N  L  A  L  L  K  K  M  R  V  S  K  L  G  F  *  *  A  K  N  S  P  N  *  Y  K  T  G  Y  L  L  T  L  F  F  K  I  N  Y  S  L  L  L  N  S  Q  I  L  K  H  L  Y  I  L  Y  L  K  Q  T  R  T  S  S  Q  I  I  G  M  N  S  K  E  L  L  K  E  V  V  S  P  F  S  I :   F  Y  Y  *  I  L  G  K  K  Y  C  L  S  F  Q  R  Q  R  N  V  P  R  R  K  T  L  M  M  T  V  L  I  F  L  L  L  V  I  P  W  L  W  Q  F  I  M  R  M  Q  M  L  L  L  S  D  T   : L  I  W  L  R  *  H  Y  L  M  E  Q  H  S  L  L  I  H  M  L  E  N  F  Q  V  V  H  L  D  L   </second_frame>
            <third_frame>   N  N  G  H  G  K  H  K  F  G  T  Q  Q  V  R  N  V  *  I  W  P  F  *  R  R  *  G  F  P  N  W  V  F  D  R  P  K  I  L  Q  I  N  T  K  Q  V  I  Y  *  P  Y  S  S  K  S  I  T  P  F  C  S  T  P  K  F  S  N  T  Y  T  Y  F  I  S  N  K  Q  E  Q  V  P  K  L  L  E  *  T  Q  R  N  C  S  R  K  W  C  P  L  S  Q   : Y  F  I  I  E  F  *  E  R  N  I  A  F  H  S  K  D  R  G  M  S  Q  G  G  R  H  *  *  *  L  F  *  Y  S  C  C  *  *  F  H  G  Y  G  S  S  *  *  G  C  K  C  C  S  C  R  T  H  :  L  F  G  *  G  D  I  I  *  W  N  N  I  H  C  L  Y  I  C  W  R  T  S  K  L  C  I  W  I  *  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0110O22.1" strand="-"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="40964" stop="40662"/>
                    <exon start="39988" stop="39819"/>
                    <exon start="39488" stop="39398"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>564</number_coding_nucleotides>
                  <number_encoded_amino_acids>188</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SIMAMGSTNLEPNKLEMYEFGPFEEDEGFQIGFLIGQKFSKLIQNRLSTDLILQNQLLPFAQLPNSQTLIHTLSQTNKNKFPNYWNELKGIAQGSGVPFLNILLLNFRKEILPFIPKTEECPKEEDINDDCSDILVVSNSMAMAVHNEDANVALVGHTYLVKVTLSNGTTFTAYTYAGELPSCAFGFN</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 24 chains have been computed
$ 
$ memory statistics:
$ 15496 bytes spliced alignments in total
$ 7 spliced alignments have been stored
$ 2213 bytes was the average size of a spliced alignment
$ 12808 bytes predicted gene locations in total
$ 7 predicted gene locations have been stored
$ 1829 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 33 backtrace matrices have been allocated
$ 
$ date finished: 2009-07-24 23:21:00
-->
