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test/old-blast/report.blastp.xml  view on Meta::CPAN

<?xml version="1.0"?>
<!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd">
<BlastOutput>
  <BlastOutput_program>blastp</BlastOutput_program>
  <BlastOutput_version>BLASTP 2.5.0+</BlastOutput_version>
  <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&amp;auml;ffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), &quot;Gapped BLAST and PSI-BLAST: a new generation of protein database search program...
  <BlastOutput_db>/var/folders/zd/h9vt4d056t552wjnjjsfgstm0000gn/T/KQg_sjfYLh.fasta</BlastOutput_db>
  <BlastOutput_query-ID>Query_1</BlastOutput_query-ID>
  <BlastOutput_query-def>seq1</BlastOutput_query-def>
  <BlastOutput_query-len>881</BlastOutput_query-len>
  <BlastOutput_param>
    <Parameters>
      <Parameters_matrix>BLOSUM62</Parameters_matrix>
      <Parameters_expect>1e-10</Parameters_expect>
      <Parameters_gap-open>11</Parameters_gap-open>
      <Parameters_gap-extend>1</Parameters_gap-extend>
      <Parameters_filter>F</Parameters_filter>
    </Parameters>
  </BlastOutput_param>
<BlastOutput_iterations>
<Iteration>
  <Iteration_iter-num>1</Iteration_iter-num>
  <Iteration_query-ID>Query_1</Iteration_query-ID>
  <Iteration_query-def>seq1</Iteration_query-def>
  <Iteration_query-len>881</Iteration_query-len>
<Iteration_hits>
<Hit>
  <Hit_num>1</Hit_num>
  <Hit_id>gnl|BL_ORD_ID|2</Hit_id>
  <Hit_def>seq3</Hit_def>
  <Hit_accession>2</Hit_accession>
  <Hit_len>881</Hit_len>
  <Hit_hsps>
    <Hsp>
      <Hsp_num>1</Hsp_num>
      <Hsp_bit-score>1795.4</Hsp_bit-score>
      <Hsp_score>4649</Hsp_score>
      <Hsp_evalue>0</Hsp_evalue>
      <Hsp_query-from>1</Hsp_query-from>
      <Hsp_query-to>881</Hsp_query-to>
      <Hsp_hit-from>1</Hsp_hit-from>
      <Hsp_hit-to>881</Hsp_hit-to>
      <Hsp_query-frame>0</Hsp_query-frame>
      <Hsp_hit-frame>0</Hsp_hit-frame>
      <Hsp_identity>881</Hsp_identity>
      <Hsp_positive>881</Hsp_positive>
      <Hsp_gaps>0</Hsp_gaps>
      <Hsp_align-len>881</Hsp_align-len>
      <Hsp_qseq>MEAYKQSVDTVTKEVSVNTETGLTQQEAQQRLKENGRNQFEEAKKDSVLKKFIHSLSDFTTIILLVAAAISFYTAIVTEHGEYFEGILIIAIVIINAVLAIVQEGNAEKSLAALQDMNKQSSAVLRDGKVIEVDAEELVVGDVLVLEAGSMITADARLIQASQMRVEESALTGESEPVEKDPTYVGHDDDGLGDQINMIFKGCTVVNGRGRAVVTATGMNTEMGKIAGLLNNSD...
      <Hsp_hseq>MEAYKQSVDTVTKEVSVNTETGLTQQEAQQRLKENGRNQFEEAKKDSVLKKFIHSLSDFTTIILLVAAAISFYTAIVTEHGEYFEGILIIAIVIINAVLAIVQEGNAEKSLAALQDMNKQSSAVLRDGKVIEVDAEELVVGDVLVLEAGSMITADARLIQASQMRVEESALTGESEPVEKDPTYVGHDDDGLGDQINMIFKGCTVVNGRGRAVVTATGMNTEMGKIAGLLNNSD...
      <Hsp_midline>MEAYKQSVDTVTKEVSVNTETGLTQQEAQQRLKENGRNQFEEAKKDSVLKKFIHSLSDFTTIILLVAAAISFYTAIVTEHGEYFEGILIIAIVIINAVLAIVQEGNAEKSLAALQDMNKQSSAVLRDGKVIEVDAEELVVGDVLVLEAGSMITADARLIQASQMRVEESALTGESEPVEKDPTYVGHDDDGLGDQINMIFKGCTVVNGRGRAVVTATGMNTEMGKIAGLLN...
    </Hsp>
  </Hit_hsps>
</Hit>
<Hit>
  <Hit_num>2</Hit_num>
  <Hit_id>gnl|BL_ORD_ID|8</Hit_id>
  <Hit_def>seq9</Hit_def>
  <Hit_accession>8</Hit_accession>
  <Hit_len>876</Hit_len>
  <Hit_hsps>
    <Hsp>
      <Hsp_num>1</Hsp_num>
      <Hsp_bit-score>931.013</Hsp_bit-score>
      <Hsp_score>2405</Hsp_score>
      <Hsp_evalue>0</Hsp_evalue>
      <Hsp_query-from>5</Hsp_query-from>
      <Hsp_query-to>869</Hsp_query-to>
      <Hsp_hit-from>5</Hsp_hit-from>
      <Hsp_hit-to>868</Hsp_hit-to>
      <Hsp_query-frame>0</Hsp_query-frame>
      <Hsp_hit-frame>0</Hsp_hit-frame>
      <Hsp_identity>478</Hsp_identity>
      <Hsp_positive>640</Hsp_positive>
      <Hsp_gaps>5</Hsp_gaps>
      <Hsp_align-len>867</Hsp_align-len>
      <Hsp_qseq>KQSVDTVTKEVSVNTETGLTQQEAQQRLKENGRNQFEEAKKDSVLKKFIHSLSDFTTIILLVAAAISFYTAIVTEHGEYFEGILIIAIVIINAVLAIVQEGNAEKSLAALQDMNKQSSAVLRDGKVIEVDAEELVVGDVLVLEAGSMITADARLIQASQMRVEESALTGESEPVEKDPTYVGHDDDGLGDQINMIFKGCTVVNGRGRAVVTATGMNTEMGKIAGLLNNSDQQKT...
      <Hsp_hseq>KESVEQLLSKLHTNLDTGLTKEQVKQKHAEFGTNEFEEGKKESLLQKIGHHLIEITTIVLLFAAAISAYLAITTGYG-WAKVVVILGIVVLNMVLGIYQENSAEKALAALQSMNAHLTTVVRDGVRMQVDATELVPGDIIEIVAGDMIPADARIISSSSLQVEESALTGESVPVEKDANAVVSEKAPIGDRLNMLYSGCLVTNGRATAVVVEIGMETEMGKIAGLLNSTSKLMT...
      <Hsp_midline>K+SV+ +  ++  N +TGLT+++ +Q+  E G N+FEE KK+S+L+K  H L + TTI+LL AAAIS Y AI T +G + + ++I+ IV++N VL I QE +AEK+LAALQ MN   + V+RDG  ++VDA ELV GD++ + AG MI ADAR+I +S ++VEESALTGES PVEKD   V  +   +GD++NM++ GC V NGR  AVV   GM TEMGKIAGLLN++ +...
    </Hsp>

test/old-blast/report.blastp.xml  view on Meta::CPAN

      <Hsp_bit-score>63.5438</Hsp_bit-score>
      <Hsp_score>153</Hsp_score>
      <Hsp_evalue>1.41196e-12</Hsp_evalue>
      <Hsp_query-from>417</Hsp_query-from>
      <Hsp_query-to>551</Hsp_query-to>
      <Hsp_hit-from>513</Hsp_hit-from>
      <Hsp_hit-to>674</Hsp_hit-to>
      <Hsp_query-frame>0</Hsp_query-frame>
      <Hsp_hit-frame>0</Hsp_hit-frame>
      <Hsp_identity>45</Hsp_identity>
      <Hsp_positive>74</Hsp_positive>
      <Hsp_gaps>31</Hsp_gaps>
      <Hsp_align-len>164</Hsp_align-len>
      <Hsp_qseq>GRITFTDTVRPEAKETMEKLHQLHLQRILMLTGDQESVAETIAAEVGIT-------------------------EVHGECLPQDKLTILKELPKENHPVIMVGDGVNDAPSLAAADVGIAMGAHGATAASETADVVILKDDLSKVSQAV----EIAQDTMKIAK</Hsp_qseq>
      <Hsp_hseq>GYLAFLDPPKETAAAAIHALHQ-HNVAVKVLTGDNQYVTHSVCKEVGLAGEKIITGNELQQLNQEELRKTVQAYNIFAKITPDQKVRIVNALTENGQTVGFLGDGINDAGAMRAADVGISVDT-AVDVAKESADVILLRKDLMVLEKGILSGRRVFTNTMKYVK</Hsp_hseq>
      <Hsp_midline>G + F D  +  A   +  LHQ H   + +LTGD + V  ++  EVG+                           +  +  P  K+ I+  L +    V  +GDG+NDA ++ AADVGI++       A E+ADV++L+ DL  + + +     +  +TMK  K</Hsp_midline>
    </Hsp>
  </Hit_hsps>
</Hit>
<Hit>
  <Hit_num>85</Hit_num>
  <Hit_id>gnl|BL_ORD_ID|31</Hit_id>
  <Hit_def>seq32</Hit_def>
  <Hit_accession>31</Hit_accession>
  <Hit_len>902</Hit_len>
  <Hit_hsps>
    <Hsp>
      <Hsp_num>1</Hsp_num>
      <Hsp_bit-score>60.4622</Hsp_bit-score>
      <Hsp_score>145</Hsp_score>
      <Hsp_evalue>1.2835e-11</Hsp_evalue>
      <Hsp_query-from>416</Hsp_query-from>
      <Hsp_query-to>540</Hsp_query-to>
      <Hsp_hit-from>527</Hsp_hit-from>
      <Hsp_hit-to>674</Hsp_hit-to>
      <Hsp_query-frame>0</Hsp_query-frame>
      <Hsp_hit-frame>0</Hsp_hit-frame>
      <Hsp_identity>42</Hsp_identity>
      <Hsp_positive>70</Hsp_positive>
      <Hsp_gaps>27</Hsp_gaps>
      <Hsp_align-len>150</Hsp_align-len>
      <Hsp_qseq>LGRITFTDTVRPEAKETMEKLHQLHLQRILMLTGDQESVAETIAAEVGI-------------------------TEVHGECLPQDKLTILKELPKENHPVIMVGDGVNDAPSLAAADVGIAMGAHGATAASETADVVILKDDLSKVSQAV</Hsp_qseq>
      <Hsp_hseq>MGFLAFLDPPKETAPHAIKALKE-HGVEVKILTGDNEIVTKKVCKEVGIPVQNVLLGEEIENMTDDELAEIAERTTIFAKLTPMQKARIIKALRTKGHVVGFLGDGINDAPAMREADVAISVD-NAVDIAKESADIILLEKSLMVLEEGV</Hsp_hseq>
      <Hsp_midline>+G + F D  +  A   ++ L + H   + +LTGD E V + +  EVGI                         T +  +  P  K  I+K L  + H V  +GDG+NDAP++  ADV I++  +    A E+AD+++L+  L  + + V</Hsp_midline>
    </Hsp>
  </Hit_hsps>
</Hit>
</Iteration_hits>
  <Iteration_stat>
    <Statistics>
      <Statistics_db-num>88</Statistics_db-num>
      <Statistics_db-len>70474</Statistics_db-len>
      <Statistics_hsp-len>70</Statistics_hsp-len>
      <Statistics_eff-space>34150734</Statistics_eff-space>
      <Statistics_kappa>0.041</Statistics_kappa>
      <Statistics_lambda>0.267</Statistics_lambda>
      <Statistics_entropy>0.14</Statistics_entropy>
    </Statistics>
  </Iteration_stat>
</Iteration>
</BlastOutput_iterations>
</BlastOutput>