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= 0008.0035.p
         (150 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310485|ref|YP_003774577.1| transcription regulator protein...   167   2e-43

>gi|300310485|ref|YP_003774577.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 145

 Score =  167 bits (424), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 84/130 (64%), Positives = 98/130 (75%)

Query: 5   CTCTRLRRLTRRITSIYDRHLLPDALTISQYSLLSRVGRHGSIANLRLAAEMGMDRSTLS 64
           CTC  LRRLTRRIT +YD HL    L+I+QYSL+SR+GR G IAN+ LA +MGMDRSTLS
Sbjct: 6   CTCAPLRRLTRRITVLYDHHLQDCELSITQYSLISRIGRKGPIANITLAQDMGMDRSTLS 65

Query: 65  RNIKPLMAAGWIATVDMPPDEQVDKRSFGLGLSEAGQAKLAAARPNWVAAQLEIDGLLGE 124
           R +KPLMAAGWI TVD+P D Q+DKRSF L LS+ G+AKL  ARP W  AQ EID LLG 
Sbjct: 66  RALKPLMAAGWIETVDLPADAQLDKRSFALQLSQDGRAKLEQARPYWRRAQDEIDRLLGP 125

Query: 125 DLHAALSGMI 134
           DL    + +I
Sbjct: 126 DLARNFNDLI 135


  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
   0.323    0.137    0.405 

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: 439,928
Number of extensions: 17031
Number of successful extensions: 74
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 74
Number of HSP's successfully gapped: 1
Length of query: 150
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 73
Effective length of database: 1,255,275
Effective search space: 91635075
Effective search space used: 91635075
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 (22.0 bits)
S2: 126 (53.1 bits)