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= 0001.0251.p
         (231 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309608|ref|YP_003773700.1| transcription regulator protein...   343   6e-96

>gi|300309608|ref|YP_003773700.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 221

 Score =  343 bits (881), Expect = 6e-96,   Method: Compositional matrix adjust.
 Identities = 166/198 (83%), Positives = 178/198 (89%)

Query: 1   MTRQRLSREQSREQTRERLLEAAHAVFMQQGYAQTSVEDISAAAGYSRGAFYSNFDDKTQ 60
           MTRQRLSREQSREQTRERLLEAAHAVFMQ+G+A  SVEDIS AAGYSRGAFYSNFDDKTQ
Sbjct: 1   MTRQRLSREQSREQTRERLLEAAHAVFMQKGFALASVEDISTAAGYSRGAFYSNFDDKTQ 60

Query: 61  LFFELLRREGETIDRGFERLLDGGLTAPGALRDALATQYSALYRDDQCSLLWMEARIVAL 120
           LFFELLRREGE+IDRGF+R+L+  +T    L D LA QYS LYRDD+CSLLWMEARIVAL
Sbjct: 61  LFFELLRREGESIDRGFQRILEAPMTDAAVLEDELAAQYSRLYRDDKCSLLWMEARIVAL 120

Query: 121 RDEKFRAQLDDFLEGRYRQITRFVQAYCQVTGIAPTAPPREIAIGLMALCEGVSFSYRCV 180
           RDEKFRAQLD FLE RYRQIT FV+AY Q+TG   +APPREIAIGLMALCEGVSFSYRCV
Sbjct: 121 RDEKFRAQLDGFLEERYRQITGFVEAYGQLTGTTLSAPPREIAIGLMALCEGVSFSYRCV 180

Query: 181 PHIVDGKTAESVLAWFLK 198
           PHIVDGKTAESVL+WFLK
Sbjct: 181 PHIVDGKTAESVLSWFLK 198


  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
   0.321    0.133    0.386 

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: 598,142
Number of extensions: 23224
Number of successful extensions: 78
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 78
Number of HSP's successfully gapped: 1
Length of query: 231
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 149
Effective length of database: 1,231,600
Effective search space: 183508400
Effective search space used: 183508400
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: 129 (54.3 bits)