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= 0025.0004.p
         (131 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312613|ref|YP_003776705.1| transcription regulator protein...   134   2e-33

>gi|300312613|ref|YP_003776705.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 239

 Score =  134 bits (337), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 65/82 (79%), Positives = 73/82 (89%)

Query: 50  AVREXFLQSIAGSLYLLGKKSRTITSRIPATLERSLQDHRDILIALKARDPQQASDAMRT 109
           A    FLQSIAGSLY+LGKKSR+ITSRIPATLERSLQDHR IL ALKARDPQ+AS+AMR 
Sbjct: 158 ACNNPFLQSIAGSLYMLGKKSRSITSRIPATLERSLQDHRQILDALKARDPQKASEAMRH 217

Query: 110 HLIRVRDAYRGAAQNKDESVHD 131
           HL+RVRDAYR A +N++ESVHD
Sbjct: 218 HLMRVRDAYRSAGRNRNESVHD 239



 Score =  106 bits (265), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 52/53 (98%), Positives = 52/53 (98%)

Query: 1  MSFDPIVQKSISEQVAQRLLTMIRSGLLKPGQQLPPERELAAMLGVGRPAVRE 53
          MSFDPIVQKSISEQVAQRLLTMIRSGLLKP QQLPPERELAAMLGVGRPAVRE
Sbjct: 1  MSFDPIVQKSISEQVAQRLLTMIRSGLLKPDQQLPPERELAAMLGVGRPAVRE 53


  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
   0.319    0.133    0.362 

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: 373,456
Number of extensions: 13857
Number of successful extensions: 91
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 91
Number of HSP's successfully gapped: 2
Length of query: 131
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 56
Effective length of database: 1,264,745
Effective search space: 70825720
Effective search space used: 70825720
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: 125 (52.8 bits)