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= 0001.2247.p (173 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152981850|ref|YP_001353720.1| ECF subfamily RNA polymerase si... 155 1e-39 gi|152981879|ref|YP_001354278.1| ECF subfamily RNA polymerase si... 132 1e-32 gi|152981881|ref|YP_001355183.1| ECF subfamily RNA polymerase si... 128 2e-31 gi|152980325|ref|YP_001352903.1| ECF subfamily RNA polymerase si... 127 5e-31 gi|152981823|ref|YP_001353717.1| ECF subfamily RNA polymerase si... 126 7e-31 >gi|152981850|ref|YP_001353720.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 173 Score = 155 bits (392), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 83/152 (54%), Positives = 107/152 (70%), Gaps = 1/152 (0%) Query: 20 TEFTNSYSWLKQYLRRQVKSLADAEDVASAAFLEMAGIPDVSI-IREPRALLTTISQRLV 78 T +++ + WL +LR+++ A D+A AFL++ G P+ + +REPRA LTTI++RLV Sbjct: 16 TLYSDHHGWLFGWLRKKMGCTHQAADLAHDAFLQILGRPEALVDVREPRAYLTTIARRLV 75 Query: 79 FDLWRRRDLEAAYLAALATTEEANTPSPEVVLEVVQTLVNIDRLLYGLSKNARQAFLYSQ 138 F+ WRRRDLE AYLA LA E PSPE V++TL+ IDRLL GLS AR AFL SQ Sbjct: 76 FESWRRRDLEQAYLAELAALPEDVAPSPEDQALVLETLLAIDRLLDGLSVKARSAFLMSQ 135 Query: 139 LDGLTYREIAELLGVSVSMVRKYIAQALAKCY 170 LDG+TY EIA L VS S VR+Y+AQAL+ CY Sbjct: 136 LDGMTYSEIAAELNVSASRVRQYMAQALSCCY 167 >gi|152981879|ref|YP_001354278.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 181 Score = 132 bits (332), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 73/149 (48%), Positives = 102/149 (68%), Gaps = 2/149 (1%) Query: 22 FTNSYSWLKQYLRRQVKSLADAEDVASAAFLEMAGIPDVSI-IREPRALLTTISQRLVFD 80 +T + WL +LR+++ + DA D+A FL + DV + IREPRALLTTI+Q +V + Sbjct: 28 YTEHHGWLHAWLRKRLGNSFDAADLAHDTFLRVL-TKDVPLAIREPRALLTTIAQGMVAN 86 Query: 81 LWRRRDLEAAYLAALATTEEANTPSPEVVLEVVQTLVNIDRLLYGLSKNARQAFLYSQLD 140 L+RRR +E AYL ALA E++ SPE +++TLV IDRLL GL+ R+ FL SQLD Sbjct: 87 LYRRRQIEQAYLDALAVLPESHAISPEARAIMLETLVEIDRLLDGLAPLVRKVFLLSQLD 146 Query: 141 GLTYREIAELLGVSVSMVRKYIAQALAKC 169 GL EIAE L +S+ V++YIA+A+A+C Sbjct: 147 GLGQAEIAERLAISIPTVKRYIAKAVAQC 175 >gi|152981881|ref|YP_001355183.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 170 Score = 128 bits (322), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 64/164 (39%), Positives = 106/164 (64%), Gaps = 1/164 (0%) Query: 7 SYTDQPFRHDFLVTEFTNSYSWLKQYLRRQVKSLADAEDVASAAFLEMAGIPDVSIIREP 66 S+ + R + + T +++ + WL+ +LR+++ A D+A F+ + ++ REP Sbjct: 2 SFNETALRQE-ISTLYSDHHGWLQGWLRKKLGDAGKAADLAHDTFVRLLAREELIAAREP 60 Query: 67 RALLTTISQRLVFDLWRRRDLEAAYLAALATTEEANTPSPEVVLEVVQTLVNIDRLLYGL 126 RA LTT++QR++F WRR +LE AYL ALA EA PSPE ++++LV IDR+L GL Sbjct: 61 RAFLTTVAQRVLFSHWRREELERAYLNALAQLPEAFAPSPEDRAILLESLVEIDRMLDGL 120 Query: 127 SKNARQAFLYSQLDGLTYREIAELLGVSVSMVRKYIAQALAKCY 170 ++AFLY+QLD +++ EIA L +S++ V++Y+ +A +CY Sbjct: 121 PIPVKRAFLYAQLDDMSHAEIAAELNISITTVKRYLIRAGVQCY 164 >gi|152980325|ref|YP_001352903.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 180 Score = 127 bits (318), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 64/148 (43%), Positives = 94/148 (63%) Query: 22 FTNSYSWLKQYLRRQVKSLADAEDVASAAFLEMAGIPDVSIIREPRALLTTISQRLVFDL 81 +++ + WL +LR+++ A D+A F+ M D +REPRA LTTI+ L+ D Sbjct: 25 YSSHHGWLHGWLRKKLGCTHHAADLAQDTFVRMLIRCDHQALREPRAYLTTIANGLLIDH 84 Query: 82 WRRRDLEAAYLAALATTEEANTPSPEVVLEVVQTLVNIDRLLYGLSKNARQAFLYSQLDG 141 WRR++LE A+L ALA E TPSPE +++ L+ +DR+L LS R+AFL +Q+ G Sbjct: 85 WRRQELERAWLEALANQPEPITPSPEYRALILEALLQVDRMLESLSDKTRRAFLLAQIHG 144 Query: 142 LTYREIAELLGVSVSMVRKYIAQALAKC 169 TY++IA L VS MV+KY+AQA+ C Sbjct: 145 YTYKQIAVELKVSERMVKKYMAQAMLAC 172 >gi|152981823|ref|YP_001353717.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 186 Score = 126 bits (317), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 70/160 (43%), Positives = 101/160 (63%), Gaps = 2/160 (1%) Query: 14 RHDFLVTEFTNSYSWLKQYLRRQVKSLADAEDVASAAFLEMAGIP-DVSIIREPRALLTT 72 +HD L + ++ Y WL +LR+++ A D A F + +P +++ ++ PRA LTT Sbjct: 18 QHDALDSLYSEHYGWLYGWLRKKLACPHSAADFAQDTFFRLLSVPFELTTLQTPRAYLTT 77 Query: 73 ISQRLVFDLWRRRDLEAAYLAALAT-TEEANTPSPEVVLEVVQTLVNIDRLLYGLSKNAR 131 + RL+ D RRR +E AYL ALA +E + SPE LE V+TL I R+L L + R Sbjct: 78 TATRLMIDETRRRKVEQAYLEALALLQDEVYSVSPEQHLETVETLTLIARMLEDLPEKPR 137 Query: 132 QAFLYSQLDGLTYREIAELLGVSVSMVRKYIAQALAKCYE 171 QAF+ S+LD L+Y EIA LGVS SMV++YIA+A+ CY+ Sbjct: 138 QAFMLSRLDNLSYPEIAMRLGVSASMVKQYIARAMVHCYQ 177 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 0.321 0.134 0.377 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: 315,218 Number of extensions: 9328 Number of successful extensions: 73 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 70 Number of HSP's successfully gapped: 12 Length of query: 173 Length of database: 1,221,021 Length adjustment: 77 Effective length of query: 96 Effective length of database: 936,352 Effective search space: 89889792 Effective search space used: 89889792 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: 126 (53.1 bits)