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= 0008.0065.p
         (59 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310212|ref|YP_003774304.1| transcription activator transcr...    96   4e-22

>gi|300310212|ref|YP_003774304.1| transcription activator
          transcription regulator protein [Herbaspirillum
          seropedicae SmR1]
          Length = 86

 Score = 96.3 bits (238), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 42/55 (76%), Positives = 51/55 (92%)

Query: 1  MSTLMKEITYRCQNVDCGHTFVATLEISRTVSLSAMPNPEVSLPISPRAYLAPQG 55
          MS++MKEITY+CQNV+CGHTFVATLE+SRTVS+SAMPNPEV +PIS RA+LA + 
Sbjct: 23 MSSMMKEITYQCQNVECGHTFVATLEVSRTVSMSAMPNPEVRIPISSRAFLAAKN 77


  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
   0.317    0.128    0.376 

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: 171,967
Number of extensions: 4495
Number of successful extensions: 7
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 7
Number of HSP's successfully gapped: 1
Length of query: 59
Length of database: 1,619,870
Length adjustment: 32
Effective length of query: 27
Effective length of database: 1,468,350
Effective search space: 39645450
Effective search space used: 39645450
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: 41 (21.7 bits)
S2: 123 (52.0 bits)