Bio-FastParsers
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test/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 2.2.26+</BlastOutput_version>
<BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&auml;ffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search program...
<BlastOutput_db>nr</BlastOutput_db>
<BlastOutput_query-ID>Query_1</BlastOutput_query-ID>
<BlastOutput_query-def>gi|2105139|gb|AAC47544.1| hemoglobin [Daphnia magna]</BlastOutput_query-def>
<BlastOutput_query-len>348</BlastOutput_query-len>
<BlastOutput_param>
<Parameters>
<Parameters_matrix>BLOSUM62</Parameters_matrix>
<Parameters_expect>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>gi|2105139|gb|AAC47544.1| hemoglobin [Daphnia magna]</Iteration_query-def>
<Iteration_query-len>348</Iteration_query-len>
<Iteration_hits>
<Hit>
<Hit_num>1</Hit_num>
<Hit_id>gi|2105139|gb|AAC47544.1|</Hit_id>
<Hit_def>hemoglobin [Daphnia magna] >gi|4589707|dbj|BAA76872.1| hemoglobin [Daphnia magna] >gi|322229320|dbj|BAJ72727.1| 2-domain hemoglobin [Daphnia magna]</Hit_def>
<Hit_accession>AAC47544</Hit_accession>
<Hit_len>348</Hit_len>
<Hit_hsps>
<Hsp>
<Hsp_num>1</Hsp_num>
<Hsp_bit-score>714.916</Hsp_bit-score>
<Hsp_score>1844</Hsp_score>
<Hsp_evalue>0</Hsp_evalue>
<Hsp_query-from>1</Hsp_query-from>
<Hsp_query-to>348</Hsp_query-to>
<Hsp_hit-from>1</Hsp_hit-from>
<Hsp_hit-to>348</Hsp_hit-to>
<Hsp_query-frame>0</Hsp_query-frame>
<Hsp_hit-frame>0</Hsp_hit-frame>
<Hsp_identity>348</Hsp_identity>
<Hsp_positive>348</Hsp_positive>
<Hsp_gaps>0</Hsp_gaps>
<Hsp_align-len>348</Hsp_align-len>
<Hsp_qseq>MASFKIALLLGVIAFVNACSQAPGTTTTTVTTTVTTVSADDGSEAGLLSAHERSLIRKTWDQAKKDGDVAPQVLFRFVKAHPEYQKMFSKFANVPQSELLSNGNFLAQAYTILAGLNVVIQSLFSQELMANQLNALGGAHQPRGATPVMFEQFGGILEEVLAEELGSGFTAEARQAWKNGLAALVAGIAKNLKKAEDLADPQTKLTPHQIRDVQRSWENIRNDRNA...
<Hsp_hseq>MASFKIALLLGVIAFVNACSQAPGTTTTTVTTTVTTVSADDGSEAGLLSAHERSLIRKTWDQAKKDGDVAPQVLFRFVKAHPEYQKMFSKFANVPQSELLSNGNFLAQAYTILAGLNVVIQSLFSQELMANQLNALGGAHQPRGATPVMFEQFGGILEEVLAEELGSGFTAEARQAWKNGLAALVAGIAKNLKKAEDLADPQTKLTPHQIRDVQRSWENIRNDRNA...
<Hsp_midline>MASFKIALLLGVIAFVNACSQAPGTTTTTVTTTVTTVSADDGSEAGLLSAHERSLIRKTWDQAKKDGDVAPQVLFRFVKAHPEYQKMFSKFANVPQSELLSNGNFLAQAYTILAGLNVVIQSLFSQELMANQLNALGGAHQPRGATPVMFEQFGGILEEVLAEELGSGFTAEARQAWKNGLAALVAGIAKNLKKAEDLADPQTKLTPHQIRDVQRSWENIRND...
</Hsp>
</Hit_hsps>
</Hit>
<Hit>
<Hit_num>2</Hit_num>
<Hit_id>gi|322229318|dbj|BAJ72725.1|</Hit_id>
<Hit_def>2-domain hemoglobin [Daphnia magna]</Hit_def>
<Hit_accession>BAJ72725</Hit_accession>
<Hit_len>347</Hit_len>
<Hit_hsps>
<Hsp>
<Hsp_num>1</Hsp_num>
<Hsp_bit-score>665.611</Hsp_bit-score>
<Hsp_score>1716</Hsp_score>
<Hsp_evalue>0</Hsp_evalue>
<Hsp_query-from>1</Hsp_query-from>
<Hsp_query-to>345</Hsp_query-to>
<Hsp_hit-from>1</Hsp_hit-from>
<Hsp_hit-to>345</Hsp_hit-to>
<Hsp_query-frame>0</Hsp_query-frame>
<Hsp_hit-frame>0</Hsp_hit-frame>
<Hsp_identity>337</Hsp_identity>
<Hsp_positive>341</Hsp_positive>
<Hsp_gaps>0</Hsp_gaps>
<Hsp_align-len>345</Hsp_align-len>
<Hsp_qseq>MASFKIALLLGVIAFVNACSQAPGTTTTTVTTTVTTVSADDGSEAGLLSAHERSLIRKTWDQAKKDGDVAPQVLFRFVKAHPEYQKMFSKFANVPQSELLSNGNFLAQAYTILAGLNVVIQSLFSQELMANQLNALGGAHQPRGATPVMFEQFGGILEEVLAEELGSGFTAEARQAWKNGLAALVAGIAKNLKKAEDLADPQTKLTPHQIRDVQRSWENIRNDRNA...
<Hsp_hseq>MASFKIALLLGVIAFVNACSQAPGTTTTTVTTTVTTVSADDGSEAGLLSAHERSLIRKTWDQAKKDGDVAPQVLFRFVKAHPEYQKMFSKFANVPQSELLSNGNFLAQAYTILAGLNVVIQSLFSQELMANQLNALGGAHQARGATPVMFEQFGGILEEVLAEELGSGFTAEARQAWKNGLAALVAGIAKNLKKAEDLADPQTKLTPHQIQDVQRSWENVRNGRNA...
<Hsp_midline>MASFKIALLLGVIAFVNACSQAPGTTTTTVTTTVTTVSADDGSEAGLLSAHERSLIRKTWDQAKKDGDVAPQVLFRFVKAHPEYQKMFSKFANVPQSELLSNGNFLAQAYTILAGLNVVIQSLFSQELMANQLNALGGAHQ RGATPVMFEQFGGILEEVLAEELGSGFTAEARQAWKNGLAALVAGIAKNLKKAEDLADPQTKLTPHQI+DVQRSWEN+RN ...
</Hsp>
test/blastp.xml view on Meta::CPAN
<Hsp_bit-score>553.132</Hsp_bit-score>
<Hsp_score>1424</Hsp_score>
<Hsp_evalue>0</Hsp_evalue>
<Hsp_query-from>1</Hsp_query-from>
<Hsp_query-to>345</Hsp_query-to>
<Hsp_hit-from>1</Hsp_hit-from>
<Hsp_hit-to>346</Hsp_hit-to>
<Hsp_query-frame>0</Hsp_query-frame>
<Hsp_hit-frame>0</Hsp_hit-frame>
<Hsp_identity>277</Hsp_identity>
<Hsp_positive>313</Hsp_positive>
<Hsp_gaps>1</Hsp_gaps>
<Hsp_align-len>346</Hsp_align-len>
<Hsp_qseq>MASFKIALLLGVIAFVNACSQAPGTTTTTVTTTVTTVSADDGSEAGLLSAHERSLIRKTWDQAKKDGDVAPQVLFRFVKAHPEYQKMFSKFANVPQSELLSNGNFLAQAYTILAGLNVVIQSLFSQELMANQLNALGGAHQPRGATPVMFEQFGGILEEVLAEELGSGFTAEARQAWKNGLAALVAGIAKNLKKAEDLADPQTKLTPHQIRDVQRSWENIRNDRNA...
<Hsp_hseq>MQFFNVALVFGVLAIASAYSQAPGTTTTTVTTTVTTVTADEGTDSGLLSAHERSVIRKTWDQAKKDGDVPPKILFRFIVANPEYQKMFKSFATVPQNELMGNGNFLAQAYTILAGLNVVIQSLSSQELLANQINALGGAHQPRGATPIMFEQFGAITEEVLAEELGIAFNAEARQAWKNGIRALVAGISKNLKKAEDLADPQTKLTPHQIRDVQTSWENLRSDRNS...
<Hsp_midline>M F +AL+ GV+A +A SQAPGTTTTTVTTTVTTV+AD+G+++GLLSAHERS+IRKTWDQAKKDGDV P++LFRF+ A+PEYQKMF FA VPQ+EL+ NGNFLAQAYTILAGLNVVIQSL SQEL+ANQ+NALGGAHQPRGATP+MFEQFG I EEVLAEELG F AEARQAWKNG+ ALVAGI+KNLKKAEDLADPQTKLTPHQIRDVQ SWEN+R+D...
</Hsp>
</Hit_hsps>
</Hit>
<Hit>
<Hit_num>10</Hit_num>
<Hit_id>gi|321477134|gb|EFX88093.1|</Hit_id>
<Hit_def>hemoglobin [Daphnia pulex]</Hit_def>
<Hit_accession>EFX88093</Hit_accession>
<Hit_len>345</Hit_len>
<Hit_hsps>
<Hsp>
<Hsp_num>1</Hsp_num>
<Hsp_bit-score>552.747</Hsp_bit-score>
<Hsp_score>1423</Hsp_score>
<Hsp_evalue>0</Hsp_evalue>
<Hsp_query-from>3</Hsp_query-from>
<Hsp_query-to>347</Hsp_query-to>
<Hsp_hit-from>2</Hsp_hit-from>
<Hsp_hit-to>345</Hsp_hit-to>
<Hsp_query-frame>0</Hsp_query-frame>
<Hsp_hit-frame>0</Hsp_hit-frame>
<Hsp_identity>272</Hsp_identity>
<Hsp_positive>312</Hsp_positive>
<Hsp_gaps>1</Hsp_gaps>
<Hsp_align-len>345</Hsp_align-len>
<Hsp_qseq>SFKIALLLGVIAFVNACSQAPGTTTTTVTTTVTTVSADDGSEAGLLSAHERSLIRKTWDQAKKDGDVAPQVLFRFVKAHPEYQKMFSKFANVPQSELLSNGNFLAQAYTILAGLNVVIQSLFSQELMANQLNALGGAHQPRGATPVMFEQFGGILEEVLAEELGSGFTAEARQAWKNGLAALVAGIAKNLKKAEDLADPQTKLTPHQIRDVQRSWENIRNDRNALV...
<Hsp_hseq>AFKFALLFGLVAFASACSQAPGTTTTTVTTTVTTVSADEGDE-GILSSHDRSVIRKTWDQAKKDGDVAPQVLYRFVTAHPEYQKMFSKFASVPQNELLGNGNFLAQAYTILAGLNVVVQSLSSQELLANQLNALGGAHQARGATPIMFEQFGEILTGVLAEELGSAFNAEAQSAWKSGLAALVAGISKTLKKSEDLADPQTKFTGRQIRDAQRTWENIRGGRNAMV...
<Hsp_midline>+FK ALL G++AF +ACSQAPGTTTTTVTTTVTTVSAD+G E G+LS+H+RS+IRKTWDQAKKDGDVAPQVL+RFV AHPEYQKMFSKFA+VPQ+ELL NGNFLAQAYTILAGLNVV+QSL SQEL+ANQLNALGGAHQ RGATP+MFEQFG IL VLAEELGS F AEA+ AWK+GLAALVAGI+K LKK+EDLADPQTK T QIRD QR+WENIR RN...
</Hsp>
</Hit_hsps>
</Hit>
</Iteration_hits>
<Iteration_stat>
<Statistics>
<Statistics_db-num>21588058</Statistics_db-num>
<Statistics_db-len>7402657167</Statistics_db-len>
<Statistics_hsp-len>0</Statistics_hsp-len>
<Statistics_eff-space>978067833820</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>
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