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= 0002.0201.p
         (147 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310378|ref|YP_003774470.1| transcription regulator protein...   171   2e-44

>gi|300310378|ref|YP_003774470.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 282

 Score =  171 bits (434), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 83/103 (80%), Positives = 94/103 (91%)

Query: 45  APGMPMHVRMDGEQEIDHAQLLRQIAETQERGYSRMESRQIRGVVNLSYPVLGANDRMLA 104
           A  +  HVRMDGEQEI+ AQL+RQI +T++RG+SRMESRQIRGVVNLSYPV+GAN+RMLA
Sbjct: 180 AAMLAAHVRMDGEQEIETAQLMRQIEDTRKRGHSRMESRQIRGVVNLSYPVMGANNRMLA 239

Query: 105 ALNVPYIERIDKKVNPSLDEVQIIVHEISARLSKLMGSSSFGT 147
           ALNVPYIERIDKKVNPSLDEVQ IV EISARLS+LMG SSFG+
Sbjct: 240 ALNVPYIERIDKKVNPSLDEVQGIVQEISARLSRLMGDSSFGS 282


  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    0.134    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: 457,651
Number of extensions: 17305
Number of successful extensions: 60
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 60
Number of HSP's successfully gapped: 1
Length of query: 147
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 70
Effective length of database: 1,255,275
Effective search space: 87869250
Effective search space used: 87869250
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 (21.6 bits)
S2: 126 (53.1 bits)