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= 0212.0005.p (466 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 367 e-101 BH0611 [L] COG3344 Retron-type reverse transcriptase 365 e-101 BH0533 [L] COG3344 Retron-type reverse transcriptase 365 e-101 BH0099 [L] COG3344 Retron-type reverse transcriptase 365 e-101 BH0039 [L] COG3344 Retron-type reverse transcriptase 365 e-101 >BH0224 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 367 bits (941), Expect = e-101, Method: Compositional matrix adjust. Identities = 0/423 (0%), Positives = 0/423 (0%), Gaps = 6/423 (1%) Query: 40 LLEQILNRDNLNRAYKQVKRNHGAPGIDGMTVEDALSWLQEHKGELLQSIREGRYKPSPV 99 + + +L + + L + L+ P P Sbjct: 1 MQYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPE 60 Query: 100 RRKEIPKPDGSGVRKLGIPTVIDRVIQQAISQQLQPLFERLFSDGSYGYRPERSAQQAIR 159 + G + + + +++ Sbjct: 61 TQGLTETYVG-NWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLK 119 Query: 160 KVREYAQQGYGYAVEIDLSKYFDTLNHELLMNLLRKQIQDHRVTDLIKKYLKSGVMENGV 219 +++ Y + F L + + + D + Sbjct: 120 RLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVS 179 Query: 220 HCKTEEGSPQGGPLSPLLANIYLNEFDQEMSSRGVKVIRYADDIVVLAKSKRAATRLLES 279 + + + + A+ A + L Sbjct: 180 NETAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFG 239 Query: 280 CRKYLENKLRLQVNAQKSKVVSVVARKHFKFLGFALGKNGNGVYIRAHGQSXXXXXXXXX 339 A+ + V I Sbjct: 240 TLTGKYLNGAKPAGARNTLFSRFTRY---SGEQTQKAV-AAYVDIARRHGLDPAQMALAF 295 Query: 340 ELTSRSQGRNVPQVMEKVKVYIRGWIGYFYVADIKRILQSWSEWLRRRLRMYIWKQWKKP 399 Sbjct: 296 355 Query: 400 KTKVQNLRKLGIPEWQAYQWGNSRLGYWRVAGSPVLSRSITNEKLAQAGYYDFPAQYEQL 459 Sbjct: 356 - 414 Query: 460 RKW 462 Sbjct: 415 417 >BH0611 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 365 bits (938), Expect = e-101, Method: Compositional matrix adjust. Identities = 0/423 (0%), Positives = 0/423 (0%), Gaps = 6/423 (1%) Query: 40 LLEQILNRDNLNRAYKQVKRNHGAPGIDGMTVEDALSWLQEHKGELLQSIREGRYKPSPV 99 + + +L + + L + L+ P P Sbjct: 1 MQYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPE 60 Query: 100 RRKEIPKPDGSGVRKLGIPTVIDRVIQQAISQQLQPLFERLFSDGSYGYRPERSAQQAIR 159 + G + + + +++ Sbjct: 61 TQGLTETYVG-NWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLK 119 Query: 160 KVREYAQQGYGYAVEIDLSKYFDTLNHELLMNLLRKQIQDHRVTDLIKKYLKSGVMENGV 219 +++ Y + F L + + + D + Sbjct: 120 RLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVS 179 Query: 220 HCKTEEGSPQGGPLSPLLANIYLNEFDQEMSSRGVKVIRYADDIVVLAKSKRAATRLLES 279 + + + + A+ A + L Sbjct: 180 NETAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFG 239 Query: 280 CRKYLENKLRLQVNAQKSKVVSVVARKHFKFLGFALGKNGNGVYIRAHGQSXXXXXXXXX 339 A+ + V I Sbjct: 240 TLTGKYLNGAKPAGARNTLFSRFTRY---SGEQTQKAV-AAYVDIARRHGLDPAQMALAF 295 Query: 340 ELTSRSQGRNVPQVMEKVKVYIRGWIGYFYVADIKRILQSWSEWLRRRLRMYIWKQWKKP 399 Sbjct: 296 355 Query: 400 KTKVQNLRKLGIPEWQAYQWGNSRLGYWRVAGSPVLSRSITNEKLAQAGYYDFPAQYEQL 459 Sbjct: 356 - 414 Query: 460 RKW 462 Sbjct: 415 417 >BH0533 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 365 bits (938), Expect = e-101, Method: Compositional matrix adjust. Identities = 0/423 (0%), Positives = 0/423 (0%), Gaps = 6/423 (1%) Query: 40 LLEQILNRDNLNRAYKQVKRNHGAPGIDGMTVEDALSWLQEHKGELLQSIREGRYKPSPV 99 + + +L + + L + L+ P P Sbjct: 1 MQYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPE 60 Query: 100 RRKEIPKPDGSGVRKLGIPTVIDRVIQQAISQQLQPLFERLFSDGSYGYRPERSAQQAIR 159 + G + + + +++ Sbjct: 61 TQGLTETYVG-NWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLK 119 Query: 160 KVREYAQQGYGYAVEIDLSKYFDTLNHELLMNLLRKQIQDHRVTDLIKKYLKSGVMENGV 219 +++ Y + F L + + + D + Sbjct: 120 RLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVS 179 Query: 220 HCKTEEGSPQGGPLSPLLANIYLNEFDQEMSSRGVKVIRYADDIVVLAKSKRAATRLLES 279 + + + + A+ A + L Sbjct: 180 NETAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFG 239 Query: 280 CRKYLENKLRLQVNAQKSKVVSVVARKHFKFLGFALGKNGNGVYIRAHGQSXXXXXXXXX 339 A+ + V I Sbjct: 240 TLTGKYLNGAKPAGARNTLFSRFTRY---SGEQTQKAV-AAYVDIARRHGLDPAQMALAF 295 Query: 340 ELTSRSQGRNVPQVMEKVKVYIRGWIGYFYVADIKRILQSWSEWLRRRLRMYIWKQWKKP 399 Sbjct: 296 355 Query: 400 KTKVQNLRKLGIPEWQAYQWGNSRLGYWRVAGSPVLSRSITNEKLAQAGYYDFPAQYEQL 459 Sbjct: 356 - 414 Query: 460 RKW 462 Sbjct: 415 417 >BH0099 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 365 bits (938), Expect = e-101, Method: Compositional matrix adjust. Identities = 0/423 (0%), Positives = 0/423 (0%), Gaps = 6/423 (1%) Query: 40 LLEQILNRDNLNRAYKQVKRNHGAPGIDGMTVEDALSWLQEHKGELLQSIREGRYKPSPV 99 + + +L + + L + L+ P P Sbjct: 1 MQYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPE 60 Query: 100 RRKEIPKPDGSGVRKLGIPTVIDRVIQQAISQQLQPLFERLFSDGSYGYRPERSAQQAIR 159 + G + + + +++ Sbjct: 61 TQGLTETYVG-NWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLK 119 Query: 160 KVREYAQQGYGYAVEIDLSKYFDTLNHELLMNLLRKQIQDHRVTDLIKKYLKSGVMENGV 219 +++ Y + F L + + + D + Sbjct: 120 RLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVS 179 Query: 220 HCKTEEGSPQGGPLSPLLANIYLNEFDQEMSSRGVKVIRYADDIVVLAKSKRAATRLLES 279 + + + + A+ A + L Sbjct: 180 NETAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFG 239 Query: 280 CRKYLENKLRLQVNAQKSKVVSVVARKHFKFLGFALGKNGNGVYIRAHGQSXXXXXXXXX 339 A+ + V I Sbjct: 240 TLTGKYLNGAKPAGARNTLFSRFTRY---SGEQTQKAV-AAYVDIARRHGLDPAQMALAF 295 Query: 340 ELTSRSQGRNVPQVMEKVKVYIRGWIGYFYVADIKRILQSWSEWLRRRLRMYIWKQWKKP 399 Sbjct: 296 355 Query: 400 KTKVQNLRKLGIPEWQAYQWGNSRLGYWRVAGSPVLSRSITNEKLAQAGYYDFPAQYEQL 459 Sbjct: 356 - 414 Query: 460 RKW 462 Sbjct: 415 417 >BH0039 [L] COG3344 Retron-type reverse transcriptase Length = 346 Score = 365 bits (938), Expect = e-101, Method: Compositional matrix adjust. Identities = 0/423 (0%), Positives = 0/423 (0%), Gaps = 6/423 (1%) Query: 40 LLEQILNRDNLNRAYKQVKRNHGAPGIDGMTVEDALSWLQEHKGELLQSIREGRYKPSPV 99 + + +L + + L + L+ P P Sbjct: 1 MQYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPE 60 Query: 100 RRKEIPKPDGSGVRKLGIPTVIDRVIQQAISQQLQPLFERLFSDGSYGYRPERSAQQAIR 159 + G + + + +++ Sbjct: 61 TQGLTETYVG-NWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLK 119 Query: 160 KVREYAQQGYGYAVEIDLSKYFDTLNHELLMNLLRKQIQDHRVTDLIKKYLKSGVMENGV 219 +++ Y + F L + + + D + Sbjct: 120 RLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVS 179 Query: 220 HCKTEEGSPQGGPLSPLLANIYLNEFDQEMSSRGVKVIRYADDIVVLAKSKRAATRLLES 279 + + + + A+ A + L Sbjct: 180 NETAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFG 239 Query: 280 CRKYLENKLRLQVNAQKSKVVSVVARKHFKFLGFALGKNGNGVYIRAHGQSXXXXXXXXX 339 A+ + V I Sbjct: 240 TLTGKYLNGAKPAGARNTLFSRFTRY---SGEQTQKAV-AAYVDIARRHGLDPAQMALAF 295 Query: 340 ELTSRSQGRNVPQVMEKVKVYIRGWIGYFYVADIKRILQSWSEWLRRRLRMYIWKQWKKP 399 Sbjct: 296 355 Query: 400 KTKVQNLRKLGIPEWQAYQWGNSRLGYWRVAGSPVLSRSITNEKLAQAGYYDFPAQYEQL 459 Sbjct: 356 - 414 Query: 460 RKW 462 Sbjct: 415 417 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 0.319 0.136 0.408 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: 34,324,463 Number of extensions: 1344204 Number of successful extensions: 2331 Number of sequences better than 1.0e-05: 25 Number of HSP's gapped: 2273 Number of HSP's successfully gapped: 25 Length of query: 466 Length of database: 38,378,431 Length adjustment: 110 Effective length of query: 356 Effective length of database: 25,691,691 Effective search space: 9146241996 Effective search space used: 9146241996 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 (21.7 bits) S2: 118 (50.1 bits)