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= 0216.0002.p
         (166 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310702|ref|YP_003774794.1| transcription regulator protein...   179   1e-46

>gi|300310702|ref|YP_003774794.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 235

 Score =  179 bits (453), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 96/119 (80%), Positives = 105/119 (88%)

Query: 7   IVDPTADRLIAQIAIGAQHLLRTKPAMLGHLKEARVLLETSTARMAAERATEEQIARLRL 66
           +VDPTA+RLIAQIA GAQHLLRTKP ML HLKEARV LETSTARMAA RAT EQI RLR 
Sbjct: 73  VVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAARATPEQIERLRQ 132

Query: 67  SIAQHRASMVNLEEFIERDMAFHREIADISGNPLFPSIVESMFKWAGEFYFTLVRAPGA 125
           ++  HRASMV+L EFIERDMAFHREIADISGNP+FPSIVES+F+WA EFY  +VRAPGA
Sbjct: 133 TVTVHRASMVDLGEFIERDMAFHREIADISGNPIFPSIVESLFRWASEFYTPMVRAPGA 191


  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
   0.328    0.136    0.419 

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: 415,366
Number of extensions: 12606
Number of successful extensions: 73
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 73
Number of HSP's successfully gapped: 1
Length of query: 166
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 88
Effective length of database: 1,250,540
Effective search space: 110047520
Effective search space used: 110047520
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 127 (53.5 bits)