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= 0001.3198.p (210 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152981873|ref|YP_001355232.1| RNA polymerase sigma factor [Ja... 207 3e-55 gi|152981851|ref|YP_001352594.1| RNA polymerase sigma factor [Ja... 202 2e-53 gi|152980473|ref|YP_001353052.1| RNA polymerase sigma factor Rpo... 55 4e-09 >gi|152981873|ref|YP_001355232.1| RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 202 Score = 207 bits (528), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 106/194 (54%), Positives = 141/194 (72%) Query: 14 ALPQEVSGRPGQEPVHPTEERLRTLLLAGLDGDAVAYRNFLAELSGRLRAFLRKRLLHLQ 73 AL Q + R + +E RL LL+ GL GD VAYRNFL + LRAFLR+RL Sbjct: 8 ALMQRIPNREKPDRKELSELRLHALLVQGLAGDQVAYRNFLQLTATHLRAFLRRRLSRWP 67 Query: 74 DEVEDVVQETLLAIHNARHTYHADQPVTAWVHAIARYKLMDFLRARSRREAFHDPLDEEH 133 DEVED+VQE+LLAIHN R TY + P+TAWV+AIA+YKL+D+LR +RRE +DPLD+E+ Sbjct: 68 DEVEDLVQESLLAIHNQRATYDVNAPLTAWVYAIAKYKLIDWLRRHARRETLNDPLDDEN 127 Query: 134 ELLATCDDEPAQARRDVGALLEELPDKQRLPILHVKLEGLSVAETAQLTGMSESAVKVGI 193 EL T D + +A+RD+G LLE LP++QR I+H KL+G SV ETA +SE++VKV + Sbjct: 128 ELFTTADSDAHEAQRDLGKLLELLPEQQRAAIVHTKLDGWSVRETAAALNISEASVKVAV 187 Query: 194 HRGLKALALKIREK 207 HRGLKALA+K++++ Sbjct: 188 HRGLKALAIKLQDE 201 >gi|152981851|ref|YP_001352594.1| RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 192 Score = 202 bits (513), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 100/183 (54%), Positives = 133/183 (72%) Query: 25 QEPVHPTEERLRTLLLAGLDGDAVAYRNFLAELSGRLRAFLRKRLLHLQDEVEDVVQETL 84 Q+ V E RLR LLL GL+G AYR FL + LRAFLR+RL H D+VED+VQE+L Sbjct: 9 QQSVSQAETRLRALLLEGLNGSENAYRQFLQMTATHLRAFLRRRLSHWPDQVEDLVQESL 68 Query: 85 LAIHNARHTYHADQPVTAWVHAIARYKLMDFLRARSRREAFHDPLDEEHELLATCDDEPA 144 LAIHN R TY P+TAW++AIA+YKL+D+LR +RRE+ +DPLD+E+E+ +T D + Sbjct: 69 LAIHNQRTTYDKGAPLTAWMYAIAKYKLIDWLRRHARRESQNDPLDDENEIFSTADADAH 128 Query: 145 QARRDVGALLEELPDKQRLPILHVKLEGLSVAETAQLTGMSESAVKVGIHRGLKALALKI 204 +ARRD+ +LE LP +QR ILH K++G S+ ETA + MSES VK+ +HRGLK LA K+ Sbjct: 129 EARRDLSKVLETLPPQQRAAILHTKVDGWSMRETAVVLKMSESNVKIAVHRGLKTLAAKL 188 Query: 205 REK 207 R + Sbjct: 189 RNE 191 >gi|152980473|ref|YP_001353052.1| RNA polymerase sigma factor RpoE [Janthinobacterium sp. Marseille] Length = 200 Score = 55.1 bits (131), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 48/178 (26%), Positives = 78/178 (43%), Gaps = 23/178 (12%) Query: 45 GDAVAYRNFLAELSGRLRAFLRKRLLHLQDEVEDVVQETLLAIHNARHTYHADQPVTAWV 104 GD A+ + + +L + RL+ Q E EDVVQE + + A + D W+ Sbjct: 18 GDKKAFELLVIKYQRKLMRLV-SRLVRDQAEAEDVVQEAFIKAYRALPQFRGDSAFYTWL 76 Query: 105 HAIARYKLMDFLRARSRR------------EAFHD-----PLDEEHELLATCDDEPAQAR 147 + I ++L + RR E F D ++ LLAT Q Sbjct: 77 YRIGINTAKNYLVTQGRRAPTSTEADVEEAETFDDGDHLRDINTPESLLAT-----KQIA 131 Query: 148 RDVGALLEELPDKQRLPILHVKLEGLSVAETAQLTGMSESAVKVGIHRGLKALALKIR 205 + + +EELP++ R+ I ++EGLS E A+ G V+ I R +A++ K+R Sbjct: 132 QTLNLAMEELPEELRMAITLREIEGLSYDEIAESMGCPIGTVRSRIFRAREAISEKLR 189 Database: BlastDatabases/707/707 Posted date: Apr 13, 2011 12:58 PM Number of letters in database: 1,221,021 Number of sequences in database: 3697 Lambda K H 0.319 0.134 0.380 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3697 Number of Hits to DB: 424,541 Number of extensions: 15478 Number of successful extensions: 67 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 70 Number of HSP's successfully gapped: 3 Length of query: 210 Length of database: 1,221,021 Length adjustment: 79 Effective length of query: 131 Effective length of database: 928,958 Effective search space: 121693498 Effective search space used: 121693498 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 (21.8 bits) S2: 127 (53.5 bits)