BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0220.0007.p (444 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH0224 [L] COG3344 Retron-type reverse transcriptase 172 1e-42 BH0611 [L] COG3344 Retron-type reverse transcriptase 171 2e-42 BH0533 [L] COG3344 Retron-type reverse transcriptase 171 2e-42 BH0099 [L] COG3344 Retron-type reverse transcriptase 171 2e-42 BH0039 [L] COG3344 Retron-type reverse transcriptase 171 2e-42 >BH0224 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 172 bits (436), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 23/362 (6%), Positives = 58/362 (16%), Gaps = 38/362 (10%) Query: 23 LVHLLDKQRLWDCHLEMQGDKAA-GVDGVTKAEYERELESNLEDLLSRMKRQAYKPKPSR 81 H + L L + + +L+ + P+P Sbjct: 2 QYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPET 61 Query: 82 RTYIPKENGNKRPLGIPSYEDKLVQKAMSQILNAIYEEKFLPCSYGFRPGRSQHQALQAL 141 + GN + + K N + + H +L+ L Sbjct: 62 QGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRL 121 Query: 142 DRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIADPNFLRLIGRFLKGGVMEEGFY 201 + F + + W + D + Sbjct: 122 QTD-YLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSN 180 Query: 202 QETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKRCRGKAGMVRFADDFVCGFEREE 261 + + + V A+ Sbjct: 181 ETAFGVMRYLHLADKHDLPRIVT---IQNPYSLLNRSF------EVGLAEV--SQ----- 224 Query: 262 EAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDCKRAGLTKPATFDFLGFRHIWGR 321 E + + ++ + + Sbjct: 225 --------YEGVELLAYSCLGFGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKA--V 274 Query: 322 GKSGKYRLLRKTSPKKFRLRVKEITQWARQNRHQPEGMFVDSVR---RKLRGHYQYYGVS 378 R Q + + K + +S Sbjct: 275 AAYVDIA-RRHGLDPAQMALAFVRR----QPFVAST--LLGATTMDQLKTNIESLHLELS 327 Query: 379 DN 380 ++ Sbjct: 328 ED 329 >BH0611 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 171 bits (433), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 23/362 (6%), Positives = 58/362 (16%), Gaps = 38/362 (10%) Query: 23 LVHLLDKQRLWDCHLEMQGDKAA-GVDGVTKAEYERELESNLEDLLSRMKRQAYKPKPSR 81 H + L L + + +L+ + P+P Sbjct: 2 QYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPET 61 Query: 82 RTYIPKENGNKRPLGIPSYEDKLVQKAMSQILNAIYEEKFLPCSYGFRPGRSQHQALQAL 141 + GN + + K N + + H +L+ L Sbjct: 62 QGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRL 121 Query: 142 DRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIADPNFLRLIGRFLKGGVMEEGFY 201 + F + + W + D + Sbjct: 122 QTD-YLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSN 180 Query: 202 QETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKRCRGKAGMVRFADDFVCGFEREE 261 + + + V A+ Sbjct: 181 ETAFGVMRYLHLADKHDLPRIVT---IQNPYSLLNRSF------EVGLAEV--SQ----- 224 Query: 262 EAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDCKRAGLTKPATFDFLGFRHIWGR 321 E + + ++ + + Sbjct: 225 --------YEGVELLAYSCLGFGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKA--V 274 Query: 322 GKSGKYRLLRKTSPKKFRLRVKEITQWARQNRHQPEGMFVDSVR---RKLRGHYQYYGVS 378 R Q + + K + +S Sbjct: 275 AAYVDIA-RRHGLDPAQMALAFVRR----QPFVAST--LLGATTMDQLKTNIESLHLELS 327 Query: 379 DN 380 ++ Sbjct: 328 ED 329 >BH0533 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 171 bits (433), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 23/362 (6%), Positives = 58/362 (16%), Gaps = 38/362 (10%) Query: 23 LVHLLDKQRLWDCHLEMQGDKAA-GVDGVTKAEYERELESNLEDLLSRMKRQAYKPKPSR 81 H + L L + + +L+ + P+P Sbjct: 2 QYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPET 61 Query: 82 RTYIPKENGNKRPLGIPSYEDKLVQKAMSQILNAIYEEKFLPCSYGFRPGRSQHQALQAL 141 + GN + + K N + + H +L+ L Sbjct: 62 QGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRL 121 Query: 142 DRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIADPNFLRLIGRFLKGGVMEEGFY 201 + F + + W + D + Sbjct: 122 QTD-YLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSN 180 Query: 202 QETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKRCRGKAGMVRFADDFVCGFEREE 261 + + + V A+ Sbjct: 181 ETAFGVMRYLHLADKHDLPRIVT---IQNPYSLLNRSF------EVGLAEV--SQ----- 224 Query: 262 EAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDCKRAGLTKPATFDFLGFRHIWGR 321 E + + ++ + + Sbjct: 225 --------YEGVELLAYSCLGFGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKA--V 274 Query: 322 GKSGKYRLLRKTSPKKFRLRVKEITQWARQNRHQPEGMFVDSVR---RKLRGHYQYYGVS 378 R Q + + K + +S Sbjct: 275 AAYVDIA-RRHGLDPAQMALAFVRR----QPFVAST--LLGATTMDQLKTNIESLHLELS 327 Query: 379 DN 380 ++ Sbjct: 328 ED 329 >BH0099 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 171 bits (433), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 23/362 (6%), Positives = 58/362 (16%), Gaps = 38/362 (10%) Query: 23 LVHLLDKQRLWDCHLEMQGDKAA-GVDGVTKAEYERELESNLEDLLSRMKRQAYKPKPSR 81 H + L L + + +L+ + P+P Sbjct: 2 QYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPET 61 Query: 82 RTYIPKENGNKRPLGIPSYEDKLVQKAMSQILNAIYEEKFLPCSYGFRPGRSQHQALQAL 141 + GN + + K N + + H +L+ L Sbjct: 62 QGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRL 121 Query: 142 DRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIADPNFLRLIGRFLKGGVMEEGFY 201 + F + + W + D + Sbjct: 122 QTD-YLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSN 180 Query: 202 QETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKRCRGKAGMVRFADDFVCGFEREE 261 + + + V A+ Sbjct: 181 ETAFGVMRYLHLADKHDLPRIVT---IQNPYSLLNRSF------EVGLAEV--SQ----- 224 Query: 262 EAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDCKRAGLTKPATFDFLGFRHIWGR 321 E + + ++ + + Sbjct: 225 --------YEGVELLAYSCLGFGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKA--V 274 Query: 322 GKSGKYRLLRKTSPKKFRLRVKEITQWARQNRHQPEGMFVDSVR---RKLRGHYQYYGVS 378 R Q + + K + +S Sbjct: 275 AAYVDIA-RRHGLDPAQMALAFVRR----QPFVAST--LLGATTMDQLKTNIESLHLELS 327 Query: 379 DN 380 ++ Sbjct: 328 ED 329 >BH0039 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 171 bits (433), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 23/362 (6%), Positives = 58/362 (16%), Gaps = 38/362 (10%) Query: 23 LVHLLDKQRLWDCHLEMQGDKAA-GVDGVTKAEYERELESNLEDLLSRMKRQAYKPKPSR 81 H + L L + + +L+ + P+P Sbjct: 2 QYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPET 61 Query: 82 RTYIPKENGNKRPLGIPSYEDKLVQKAMSQILNAIYEEKFLPCSYGFRPGRSQHQALQAL 141 + GN + + K N + + H +L+ L Sbjct: 62 QGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRL 121 Query: 142 DRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIADPNFLRLIGRFLKGGVMEEGFY 201 + F + + W + D + Sbjct: 122 QTD-YLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSN 180 Query: 202 QETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKRCRGKAGMVRFADDFVCGFEREE 261 + + + V A+ Sbjct: 181 ETAFGVMRYLHLADKHDLPRIVT---IQNPYSLLNRSF------EVGLAEV--SQ----- 224 Query: 262 EAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDCKRAGLTKPATFDFLGFRHIWGR 321 E + + ++ + + Sbjct: 225 --------YEGVELLAYSCLGFGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKA--V 274 Query: 322 GKSGKYRLLRKTSPKKFRLRVKEITQWARQNRHQPEGMFVDSVR---RKLRGHYQYYGVS 378 R Q + + K + +S Sbjct: 275 AAYVDIA-RRHGLDPAQMALAFVRR----QPFVAST--LLGATTMDQLKTNIESLHLELS 327 Query: 379 DN 380 ++ Sbjct: 328 ED 329 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.322 0.139 0.425 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 33,972,531 Number of extensions: 1542279 Number of successful extensions: 3130 Number of sequences better than 1.0e-05: 24 Number of HSP's gapped: 3082 Number of HSP's successfully gapped: 24 Length of query: 444 Length of database: 38,378,431 Length adjustment: 110 Effective length of query: 334 Effective length of database: 25,691,691 Effective search space: 8581024794 Effective search space used: 8581024794 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 117 (49.7 bits)