Bio-SearchIO-blastxml
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t/data/newblast.xml view on Meta::CPAN
<?xml version="1.0"?>
<!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd">
<BlastOutput>
<BlastOutput_program>blastp</BlastOutput_program>
<BlastOutput_version>BLASTP 2.2.15 [Oct-15-2006]</BlastOutput_version>
<BlastOutput_reference>Schäffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with ...
<BlastOutput_db>nr</BlastOutput_db>
<BlastOutput_query-ID>gi|15600734|ref|NP_254228.1|</BlastOutput_query-ID>
<BlastOutput_query-def>dihydroorotase [Pseudomonas aeruginosa PAO1]</BlastOutput_query-def>
<BlastOutput_query-len>445</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>
</BlastOutput_param>
<BlastOutput_iterations>
<Iteration>
<Iteration_iter-num>1</Iteration_iter-num>
<Iteration_query-ID>gi|15600734|ref|NP_254228.1|</Iteration_query-ID>
<Iteration_query-def>dihydroorotase [Pseudomonas aeruginosa PAO1]</Iteration_query-def>
<Iteration_query-len>445</Iteration_query-len>
<Iteration_hits>
<Hit>
<Hit_num>1</Hit_num>
<Hit_id>gi|15600734|ref|NP_254228.1|</Hit_id>
<Hit_def>dihydroorotase [Pseudomonas aeruginosa PAO1] >gi|107104643|ref|ZP_01368561.1| hypothetical protein PaerPA_01005722 [Pseudomonas aeruginosa PACS2] >gi|9951880|gb|AAG08926.1|AE004966_8 dihydroorotase [Pseudomonas aeruginosa PAO...
<Hit_accession>NP_254228</Hit_accession>
<Hit_len>445</Hit_len>
<Hit_hsps>
<Hsp>
<Hsp_num>1</Hsp_num>
<Hsp_bit-score>871.692</Hsp_bit-score>
<Hsp_score>2251</Hsp_score>
<Hsp_evalue>0</Hsp_evalue>
<Hsp_query-from>1</Hsp_query-from>
<Hsp_query-to>445</Hsp_query-to>
<Hsp_hit-from>1</Hsp_hit-from>
<Hsp_hit-to>445</Hsp_hit-to>
<Hsp_query-frame>0</Hsp_query-frame>
<Hsp_hit-frame>0</Hsp_hit-frame>
<Hsp_identity>445</Hsp_identity>
<Hsp_positive>445</Hsp_positive>
<Hsp_gaps>0</Hsp_gaps>
<Hsp_align-len>445</Hsp_align-len>
<Hsp_qseq>MQSLLIRNARMVNEGQVREGDLLVRHGRIERIAGCLENCGASREIDAAGRYLLPGMIDDQVHFREPGYPQKGSIASESRAAVAGGITSFMDMPNTRPATLSLEALAEKKRLAAAHSVANYGFHFGVSRDNLDTVAALDPREVAAVKVFMGASTGDMLVDDLPTLERLFASVPTLLLSHCEDTPRIEANLARWRQRFGERIPAAAHPRIRDAEACYRSTALAVELAQ...
<Hsp_hseq>MQSLLIRNARMVNEGQVREGDLLVRHGRIERIAGCLENCGASREIDAAGRYLLPGMIDDQVHFREPGYPQKGSIASESRAAVAGGITSFMDMPNTRPATLSLEALAEKKRLAAAHSVANYGFHFGVSRDNLDTVAALDPREVAAVKVFMGASTGDMLVDDLPTLERLFASVPTLLLSHCEDTPRIEANLARWRQRFGERIPAAAHPRIRDAEACYRSTALAVELAQ...
<Hsp_midline>MQSLLIRNARMVNEGQVREGDLLVRHGRIERIAGCLENCGASREIDAAGRYLLPGMIDDQVHFREPGYPQKGSIASESRAAVAGGITSFMDMPNTRPATLSLEALAEKKRLAAAHSVANYGFHFGVSRDNLDTVAALDPREVAAVKVFMGASTGDMLVDDLPTLERLFASVPTLLLSHCEDTPRIEANLARWRQRFGERIPAAAHPRIRDAEACYRSTALAVE...
</Hsp>
</Hit_hsps>
</Hit>
<Hit>
<Hit_num>2</Hit_num>
<Hit_id>gi|116053692|ref|YP_794019.1|</Hit_id>
<Hit_def>dihydroorotase [Pseudomonas aeruginosa UCBPP-PA14] >gi|115588913|gb|ABJ14928.1| dihydroorotase [Pseudomonas aeruginosa UCBPP-PA14]</Hit_def>
<Hit_accession>YP_794019</Hit_accession>
<Hit_len>445</Hit_len>
<Hit_hsps>
<Hsp>
<Hsp_num>1</Hsp_num>
<Hsp_bit-score>870.152</Hsp_bit-score>
<Hsp_score>2247</Hsp_score>
<Hsp_evalue>0</Hsp_evalue>
<Hsp_query-from>1</Hsp_query-from>
<Hsp_query-to>445</Hsp_query-to>
<Hsp_hit-from>1</Hsp_hit-from>
<Hsp_hit-to>445</Hsp_hit-to>
<Hsp_query-frame>0</Hsp_query-frame>
<Hsp_hit-frame>0</Hsp_hit-frame>
<Hsp_identity>444</Hsp_identity>
<Hsp_positive>445</Hsp_positive>
<Hsp_gaps>0</Hsp_gaps>
<Hsp_align-len>445</Hsp_align-len>
<Hsp_qseq>MQSLLIRNARMVNEGQVREGDLLVRHGRIERIAGCLENCGASREIDAAGRYLLPGMIDDQVHFREPGYPQKGSIASESRAAVAGGITSFMDMPNTRPATLSLEALAEKKRLAAAHSVANYGFHFGVSRDNLDTVAALDPREVAAVKVFMGASTGDMLVDDLPTLERLFASVPTLLLSHCEDTPRIEANLARWRQRFGERIPAAAHPRIRDAEACYRSTALAVELAQ...
<Hsp_hseq>MQSLLIRNARMVNEGQVREGDLLVRHGRIERIAGCLENCGASREIDAAGRYLLPGMIDDQVHFREPGYPQKGSIASESRAAVAGGITSFMDMPNTRPATLSLEALAEKKRLAAAHSVANYGFHFGVSRDNLDTVAALDPRDVAAVKVFMGASTGDMLVDDLPTLERLFASVPTLLLSHCEDTPRIEANLARWRQRFGERIPAAAHPRIRDAEACYRSTALAVELAQ...
<Hsp_midline>MQSLLIRNARMVNEGQVREGDLLVRHGRIERIAGCLENCGASREIDAAGRYLLPGMIDDQVHFREPGYPQKGSIASESRAAVAGGITSFMDMPNTRPATLSLEALAEKKRLAAAHSVANYGFHFGVSRDNLDTVAALDPR+VAAVKVFMGASTGDMLVDDLPTLERLFASVPTLLLSHCEDTPRIEANLARWRQRFGERIPAAAHPRIRDAEACYRSTALAVE...
</Hsp>
t/data/newblast.xml view on Meta::CPAN
<Hsp_bit-score>535.028</Hsp_bit-score>
<Hsp_score>1377</Hsp_score>
<Hsp_evalue>2.49177e-150</Hsp_evalue>
<Hsp_query-from>3</Hsp_query-from>
<Hsp_query-to>426</Hsp_query-to>
<Hsp_hit-from>2</Hsp_hit-from>
<Hsp_hit-to>425</Hsp_hit-to>
<Hsp_query-frame>0</Hsp_query-frame>
<Hsp_hit-frame>0</Hsp_hit-frame>
<Hsp_identity>273</Hsp_identity>
<Hsp_positive>320</Hsp_positive>
<Hsp_gaps>4</Hsp_gaps>
<Hsp_align-len>426</Hsp_align-len>
<Hsp_qseq>YLIKNGWILNENGEKTQADIRVTGETITAIG-KLDATDNETVIDAKGLLVSPGFVDLHVHFREPGGEKKETIETGAKAAGRGGYTTVAAMPNTRPVPDTKEQMEWVQNRIKETSCVRVLPYASITIRQIGDEMTNFEALKEAGAFAFTDDGVGIQTAGMMYEAMKRAAAIDKAIVAHCEDNSLIYGGSVHEGTFSKANGLNGIPSVCESVHIARDVLLL-GANCHY...
<Hsp_hseq>YVLKNGQVLNASGKLESKDVLIQNGKVNLIADSIEVTSGEE-FDATGKLITPGFIDVHVHLREPGGEHKETILTGTKAAARGGYTTICSMPNTKPVPDSKEVMESIQAKIKETAKVRVLPYASITTSLGTDELVDFEALKEAGAFAFTDDGVGVQLAGTMYEAMKRAAALDMAIVAHCEDNSLIYGGVVHDGIFAEKEGLKGIPNIAESVQIARDVLLAEAAGCHY...
<Hsp_midline>Y++KNG +LN +G+ D+ + + I ++ T E DA G L++PGF+D+HVH REPGGE KETI TG KAA RGGYTT+ +MPNT+PVPD+KE ME +Q +IKET+ VRVLPYASIT DE+ +FEALKEAGAFAFTDDGVG+Q AG MYEAMKRAAA+D AIVAHCEDNSLIYGG VH+G F++ GL GIP++ ESV IARDVLL A ...
</Hsp>
</Hit_hsps>
</Hit>
<Hit>
<Hit_num>10</Hit_num>
<Hit_id>gi|46908069|ref|YP_014458.1|</Hit_id>
<Hit_def>dihydroorotase [Listeria monocytogenes str. 4b F2365] >gi|47093074|ref|ZP_00230852.1| dihydroorotase, multifunctional complex type [Listeria monocytogenes str. 4b H7858] >gi|67460855|sp|Q71YH9|PYRC_LISMF Dihydroorotase (DHOas...
<Hit_accession>YP_014458</Hit_accession>
<Hit_len>426</Hit_len>
<Hit_hsps>
<Hsp>
<Hsp_num>1</Hsp_num>
<Hsp_bit-score>532.717</Hsp_bit-score>
<Hsp_score>1371</Hsp_score>
<Hsp_evalue>1.23665e-149</Hsp_evalue>
<Hsp_query-from>3</Hsp_query-from>
<Hsp_query-to>426</Hsp_query-to>
<Hsp_hit-from>2</Hsp_hit-from>
<Hsp_hit-to>425</Hsp_hit-to>
<Hsp_query-frame>0</Hsp_query-frame>
<Hsp_hit-frame>0</Hsp_hit-frame>
<Hsp_identity>272</Hsp_identity>
<Hsp_positive>319</Hsp_positive>
<Hsp_gaps>4</Hsp_gaps>
<Hsp_align-len>426</Hsp_align-len>
<Hsp_qseq>YLIKNGWILNENGEKTQADIRVTGETITAIG-KLDATDNETVIDAKGLLVSPGFVDLHVHFREPGGEKKETIETGAKAAGRGGYTTVAAMPNTRPVPDTKEQMEWVQNRIKETSCVRVLPYASITIRQIGDEMTNFEALKEAGAFAFTDDGVGIQTAGMMYEAMKRAAAIDKAIVAHCEDNSLIYGGSVHEGTFSKANGLNGIPSVCESVHIARDVLLL-GANCHY...
<Hsp_hseq>YVLKNGQVLNASGELENKDVLIQNGKVNLIADSIEVTSGEE-FDATGKLIAPGFIDVHVHLREPGGEHKETILTGTQAAARGGYTTICSMPNTKPVPDSKEVMESLQAKIKETAKVRVLPYASITTSLGTDELVDFEALKEAGAFAFTDDGVGVQLAGTMYEAMKRAAALDMAIVAHCEDNSLIYGGVVHDGIFAEKEGLKGIPNIAESVQIARDVLLAEAAGCHY...
<Hsp_midline>Y++KNG +LN +GE D+ + + I ++ T E DA G L++PGF+D+HVH REPGGE KETI TG +AA RGGYTT+ +MPNT+PVPD+KE ME +Q +IKET+ VRVLPYASIT DE+ +FEALKEAGAFAFTDDGVG+Q AG MYEAMKRAAA+D AIVAHCEDNSLIYGG VH+G F++ GL GIP++ ESV IARDVLL A ...
</Hsp>
</Hit_hsps>
</Hit>
</Iteration_hits>
<Iteration_stat>
<Statistics>
<Statistics_db-num>4299737</Statistics_db-num>
<Statistics_db-len>1479795817</Statistics_db-len>
<Statistics_hsp-len>0</Statistics_hsp-len>
<Statistics_eff-space>0</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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