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= 0001.0868.p (167 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... 128 2e-31 gi|152981823|ref|YP_001353717.1| ECF subfamily RNA polymerase si... 123 5e-30 gi|152980397|ref|YP_001355175.1| ECF subfamily RNA polymerase si... 118 2e-28 gi|152981821|ref|YP_001355187.1| ECF subfamily RNA polymerase si... 114 3e-27 gi|152980325|ref|YP_001352903.1| ECF subfamily RNA polymerase si... 114 3e-27 >gi|152981850|ref|YP_001353720.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 173 Score = 128 bits (321), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 71/161 (44%), Positives = 97/161 (60%), Gaps = 5/161 (3%) Query: 2 EQVETLYRDHHRWLRGWLRHKLGCTEQAADLAHDTFLRLLSTRDVLTALNEPRAYLLTAA 61 +Q TLY DHH WL GWLR K+GCT QAADLAHD FL++L + L + EPRAYL T A Sbjct: 12 QQAHTLYSDHHGWLFGWLRKKMGCTHQAADLAHDAFLQILGRPEALVDVREPRAYLTTIA 71 Query: 62 RNLLIDRARRHRIRQSYLEQLERQIEAAPELLHAPSPETILQAVQAIEALGRALLGVHAE 121 R L+ + RR + Q+YL +L A PE + APSPE ++ + A+ R L G+ + Sbjct: 72 RRLVFESWRRRDLEQAYLAEL----AALPEDV-APSPEDQALVLETLLAIDRLLDGLSVK 126 Query: 122 AAQAFILHYVQGQRQEELAQHFGVSLRSVQGWLAQALVHCH 162 A AF++ + G E+A VS V+ ++AQAL C+ Sbjct: 127 ARSAFLMSQLDGMTYSEIAAELNVSASRVRQYMAQALSCCY 167 >gi|152981823|ref|YP_001353717.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 186 Score = 123 bits (309), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 65/162 (40%), Positives = 95/162 (58%), Gaps = 4/162 (2%) Query: 2 EQVETLYRDHHRWLRGWLRHKLGCTEQAADLAHDTFLRLLSTRDVLTALNEPRAYLLTAA 61 + +++LY +H+ WL GWLR KL C AAD A DTF RLLS LT L PRAYL T A Sbjct: 20 DALDSLYSEHYGWLYGWLRKKLACPHSAADFAQDTFFRLLSVPFELTTLQTPRAYLTTTA 79 Query: 62 RNLLIDRARRHRIRQSYLEQLERQIEAAPELLHAPSPETILQAVQAIEALGRALLGVHAE 121 L+ID RR ++ Q+YLE L + +++ SPE L+ V+ + + R L + + Sbjct: 80 TRLMIDETRRRKVEQAYLEALALLQDE----VYSVSPEQHLETVETLTLIARMLEDLPEK 135 Query: 122 AAQAFILHYVQGQRQEELAQHFGVSLRSVQGWLAQALVHCHR 163 QAF+L + E+A GVS V+ ++A+A+VHC++ Sbjct: 136 PRQAFMLSRLDNLSYPEIAMRLGVSASMVKQYIARAMVHCYQ 177 >gi|152980397|ref|YP_001355175.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 168 Score = 118 bits (295), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 69/163 (42%), Positives = 100/163 (61%), Gaps = 12/163 (7%) Query: 2 EQVETLYRDHHRWLRGWLRHKLGCTEQAADLAHDTFLRLLSTRDVLTALNEPRAYLLTAA 61 ++V TLY DHH WL+GWL KLG AADLA DTF+R+L +RD L+A+ EPRAYL T A Sbjct: 10 QEVATLYGDHHGWLQGWLCKKLGNAFDAADLAQDTFIRILGSRD-LSAIQEPRAYLTTVA 68 Query: 62 RNLLIDRARRHRIRQSYLEQLERQIEAAPELLHAPSPE---TILQAVQAIEALGRALLGV 118 + L+I+ +R + ++YLE L E APS E IL+ + I+A+ AL Sbjct: 69 KGLVINWYQRQALERAYLEALALLPEP-----QAPSAEQRYIILETLYEIDAMLDAL--- 120 Query: 119 HAEAAQAFILHYVQGQRQEELAQHFGVSLRSVQGWLAQALVHC 161 A + F+L ++G + EE+A VS+ +V+ ++ QA +HC Sbjct: 121 QARVKRVFLLSQIEGMKYEEIAVQMDVSVITVKRYMKQAFLHC 163 >gi|152981821|ref|YP_001355187.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 184 Score = 114 bits (285), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 64/162 (39%), Positives = 98/162 (60%), Gaps = 7/162 (4%) Query: 2 EQVETLYRDHHRWLRGWLRHKLGCTEQAADLAHDTFLRLLSTRDVLTALN--EPRAYLLT 59 +Q+ TLY +HH WL GWLR KLGC AAD+A DTFLR+L+ +D + L+ EPRAYL T Sbjct: 23 QQIHTLYSNHHGWLFGWLRKKLGCAHNAADIAQDTFLRILTAQDKRSDLDLREPRAYLTT 82 Query: 60 AARNLLIDRARRHRIRQSYLEQLERQIEAAPELLHAPSPETILQAVQAIEALGRALLGVH 119 A +L++ RR + ++YLE L P+ ++AP+PE L ++ + + L + Sbjct: 83 VAGRVLLNHYRRLSLERAYLEAL----ALVPD-MYAPAPEDRLIILETLHEIDAMLDALP 137 Query: 120 AEAAQAFILHYVQGQRQEELAQHFGVSLRSVQGWLAQALVHC 161 +A AF+L +G E++ VS+R+V+ ++AQA C Sbjct: 138 HKARTAFLLAQFEGLSYAEISVRLDVSVRTVKRYMAQAFEEC 179 >gi|152980325|ref|YP_001352903.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 180 Score = 114 bits (285), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 69/160 (43%), Positives = 94/160 (58%), Gaps = 6/160 (3%) Query: 2 EQVETLYRDHHRWLRGWLRHKLGCTEQAADLAHDTFLRLLSTRDVLTALNEPRAYLLTAA 61 + V LY HH WL GWLR KLGCT AADLA DTF+R+L D AL EPRAYL T A Sbjct: 19 DSVALLYSSHHGWLHGWLRKKLGCTHHAADLAQDTFVRMLIRCDH-QALREPRAYLTTIA 77 Query: 62 RNLLIDRARRHRIRQSYLEQLERQIEAAPELLHAPSPETILQAVQAIEALGRALLGVHAE 121 LLID RR + +++LE L Q PE + PSPE ++A+ + R L + + Sbjct: 78 NGLLIDHWRRQELERAWLEALANQ----PEPI-TPSPEYRALILEALLQVDRMLESLSDK 132 Query: 122 AAQAFILHYVQGQRQEELAQHFGVSLRSVQGWLAQALVHC 161 +AF+L + G +++A VS R V+ ++AQA++ C Sbjct: 133 TRRAFLLAQIHGYTYKQIAVELKVSERMVKKYMAQAMLAC 172 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 0.324 0.134 0.400 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: 362,962 Number of extensions: 12501 Number of successful extensions: 103 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 83 Number of HSP's successfully gapped: 16 Length of query: 167 Length of database: 1,221,021 Length adjustment: 77 Effective length of query: 90 Effective length of database: 936,352 Effective search space: 84271680 Effective search space used: 84271680 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 126 (53.1 bits)