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= 0165.0011.p
         (67 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B3K626.1 B3K626_9BACI RNA polymerase sigma factor, sigma-70 family     62   1e-08
B3KKX3.1 B3KKX3_9BACI RNA polymerase sigma factor, sigma-70 family     60   4e-08

>B3K626.1 B3K626_9BACI RNA polymerase sigma factor, sigma-70 family
          Length = 193

 Score = 62.4 bits (150), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/42 (64%), Positives = 35/42 (83%)

Query: 1   VEERNLLILRIFEDKSFEEIGEILGKNMEAVKKRYGRIRHKL 42
           VEERNLL+LR+FEDK F EI +IL KN+ AVKK+Y R++ K+
Sbjct: 128 VEERNLLVLRVFEDKPFTEIAQILDKNLSAVKKKYARMKQKV 169


>B3KKX3.1 B3KKX3_9BACI RNA polymerase sigma factor, sigma-70 family
          Length = 204

 Score = 60.5 bits (145), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 31/51 (60%), Positives = 37/51 (72%)

Query: 2   EERNLLILRIFEDKSFEEIGEILGKNMEAVKKRYGRIRHKLKAFMELSEKE 52
           +ERNLLILRIFE+KSF EIG+IL K  +  KKRY R+  KLK +M   E E
Sbjct: 141 DERNLLILRIFEEKSFAEIGQILDKTKDTAKKRYSRLIQKLKKWMHDREGE 191


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.315    0.134    0.353 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 330,572,396
Number of extensions: 9885620
Number of successful extensions: 39900
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 39900
Number of HSP's successfully gapped: 2
Length of query: 67
Length of database: 3,060,696,203
Length adjustment: 39
Effective length of query: 28
Effective length of database: 2,693,276,618
Effective search space: 75411745304
Effective search space used: 75411745304
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 125 (52.8 bits)