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= 0001.2229.p (184 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152981823|ref|YP_001353717.1| ECF subfamily RNA polymerase si... 79 2e-16 gi|152981827|ref|YP_001352444.1| ECF subfamily RNA polymerase si... 69 3e-13 gi|152980397|ref|YP_001355175.1| ECF subfamily RNA polymerase si... 67 8e-13 gi|152981821|ref|YP_001355187.1| ECF subfamily RNA polymerase si... 67 8e-13 gi|152981879|ref|YP_001354278.1| ECF subfamily RNA polymerase si... 65 3e-12 >gi|152981823|ref|YP_001353717.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 186 Score = 79.0 bits (193), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 50/156 (32%), Positives = 82/156 (52%), Gaps = 5/156 (3%) Query: 16 NVITRYYRELLQFCLRKVKNPETAADLVQDSFVRVLTMERAGQAILDPRALLRQVALHLK 75 ++ + +Y L + +K+ P +AAD QD+F R+L++ + PRA L A L Sbjct: 24 SLYSEHYGWLYGWLRKKLACPHSAADFAQDTFFRLLSVPFELTTLQTPRAYLTTTATRLM 83 Query: 76 IDMDRRAAIRQ-HEDLDSLPETEMPAVPAHLQPEQACAAIQSAHAYLEAIDSLPTRCREA 134 ID RR + Q + + +L + E+ +V PEQ +++ ++ LP + R+A Sbjct: 84 IDETRRRKVEQAYLEALALLQDEVYSV----SPEQHLETVETLTLIARMLEDLPEKPRQA 139 Query: 135 FQLYAFEGLPNKEIAERMGISLSMVNQYISRGKLAC 170 F L + L EIA R+G+S SMV QYI+R + C Sbjct: 140 FMLSRLDNLSYPEIAMRLGVSASMVKQYIARAMVHC 175 >gi|152981827|ref|YP_001352444.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 178 Score = 68.6 bits (166), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 78/157 (49%), Gaps = 9/157 (5%) Query: 14 TGNVITRYYRE---LLQFCLRKVKN-PETAADLVQDSFVRVLTMERAGQAILDPRALLRQ 69 + + +TR Y + L+ LRK P AADL D+++RV+ A + I PRA L Sbjct: 16 SSDSLTRLYSDHHGWLKAWLRKKTGCPHNAADLAHDTYMRVIETRNAVE-IDTPRAFLTT 74 Query: 70 VALHLKIDMDRRAAIRQHEDLDSLPETEMPAVPAHLQPEQACAAIQSAHAYLEAIDSLPT 129 +A + R + + LDS+ + P VP+ E I++ +D LP Sbjct: 75 IAKRVLASYFRHLEV-ERAYLDSIADLPEPLVPS---LETQAIVIETLLEIDRILDGLPA 130 Query: 130 RCREAFQLYAFEGLPNKEIAERMGISLSMVNQYISRG 166 + R AF +G+P EIAER+ +SLS V QY++R Sbjct: 131 KVRTAFLWAQIDGMPYAEIAERLDVSLSSVKQYMARA 167 >gi|152980397|ref|YP_001355175.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 168 Score = 66.6 bits (161), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 48/142 (33%), Positives = 75/142 (52%), Gaps = 9/142 (6%) Query: 31 RKVKNPETAADLVQDSFVRVLTMERAGQAILDPRALLRQVALHLKIDMDRRAAIRQH--E 88 +K+ N AADL QD+F+R+L R AI +PRA L VA L I+ +R A+ + E Sbjct: 29 KKLGNAFDAADLAQDTFIRILG-SRDLSAIQEPRAYLTTVAKGLVINWYQRQALERAYLE 87 Query: 89 DLDSLPETEMPAVPAHLQPEQACAAIQSAHAYLEAIDSLPTRCREAFQLYAFEGLPNKEI 148 L LPE + P+ EQ +++ + +D+L R + F L EG+ +EI Sbjct: 88 ALALLPEPQAPSA------EQRYIILETLYEIDAMLDALQARVKRVFLLSQIEGMKYEEI 141 Query: 149 AERMGISLSMVNQYISRGKLAC 170 A +M +S+ V +Y+ + L C Sbjct: 142 AVQMDVSVITVKRYMKQAFLHC 163 >gi|152981821|ref|YP_001355187.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 184 Score = 66.6 bits (161), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 46/159 (28%), Positives = 83/159 (52%), Gaps = 10/159 (6%) Query: 16 NVITRYYRELLQFCLRKVKNPETAADLVQDSFVRVLTME--RAGQAILDPRALLRQVALH 73 + + ++ L + +K+ AAD+ QD+F+R+LT + R+ + +PRA L VA Sbjct: 27 TLYSNHHGWLFGWLRKKLGCAHNAADIAQDTFLRILTAQDKRSDLDLREPRAYLTTVAGR 86 Query: 74 LKIDMDRRAAIRQH--EDLDSLPETEMPAVPAHLQPEQACAAIQSAHAYLEAIDSLPTRC 131 + ++ RR ++ + E L +P+ PA PE +++ H +D+LP + Sbjct: 87 VLLNHYRRLSLERAYLEALALVPDMYAPA------PEDRLIILETLHEIDAMLDALPHKA 140 Query: 132 REAFQLYAFEGLPNKEIAERMGISLSMVNQYISRGKLAC 170 R AF L FEGL EI+ R+ +S+ V +Y+++ C Sbjct: 141 RTAFLLAQFEGLSYAEISVRLDVSVRTVKRYMAQAFEEC 179 >gi|152981879|ref|YP_001354278.1| ECF subfamily RNA polymerase sigma factor [Janthinobacterium sp. Marseille] Length = 181 Score = 65.1 bits (157), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 49/154 (31%), Positives = 77/154 (50%), Gaps = 9/154 (5%) Query: 19 TRYYRELLQFCLRKVKNPETAADLVQDSFVRVLTMERAGQAILDPRALLRQVALHLKIDM 78 T ++ L + +++ N AADL D+F+RVLT + AI +PRALL +A + ++ Sbjct: 29 TEHHGWLHAWLRKRLGNSFDAADLAHDTFLRVLTKD-VPLAIREPRALLTTIAQGMVANL 87 Query: 79 DRRAAIRQH--EDLDSLPETEMPAVPAHLQPEQACAAIQSAHAYLEAIDSLPTRCREAFQ 136 RR I Q + L LPE+ + PE +++ +D L R+ F Sbjct: 88 YRRRQIEQAYLDALAVLPESHA------ISPEARAIMLETLVEIDRLLDGLAPLVRKVFL 141 Query: 137 LYAFEGLPNKEIAERMGISLSMVNQYISRGKLAC 170 L +GL EIAER+ IS+ V +YI++ C Sbjct: 142 LSQLDGLGQAEIAERLAISIPTVKRYIAKAVAQC 175 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 0.398 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: 370,262 Number of extensions: 13786 Number of successful extensions: 98 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 91 Number of HSP's successfully gapped: 14 Length of query: 184 Length of database: 1,221,021 Length adjustment: 78 Effective length of query: 106 Effective length of database: 932,655 Effective search space: 98861430 Effective search space used: 98861430 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)