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= 0179.0012.p
         (73 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310204|ref|YP_003774296.1| RNA polymerase sigma-70 factor ...   145   9e-37

>gi|300310204|ref|YP_003774296.1| RNA polymerase sigma-70 factor
           transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 850

 Score =  145 bits (365), Expect = 9e-37,   Method: Compositional matrix adjust.
 Identities = 67/71 (94%), Positives = 69/71 (97%)

Query: 1   MRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKVVEKLCDTLRAQVDEVRQIERQILDV 60
           MRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAK+VEKLCDTLRAQVDEVR +ERQILDV
Sbjct: 467 MRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQILDV 526

Query: 61  AVNKCNMPRAR 71
           AVNKCNMPRA 
Sbjct: 527 AVNKCNMPRAH 537


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.320    0.133    0.367 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 166,938
Number of extensions: 4194
Number of successful extensions: 13
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 13
Number of HSP's successfully gapped: 1
Length of query: 73
Length of database: 1,619,870
Length adjustment: 44
Effective length of query: 29
Effective length of database: 1,411,530
Effective search space: 40934370
Effective search space used: 40934370
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: 123 (52.0 bits)