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= 0001.3696.p
         (203 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313079|ref|YP_003777171.1| transcription regulator protein...   348   1e-97

>gi|300313079|ref|YP_003777171.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 201

 Score =  348 bits (894), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 172/198 (86%), Positives = 182/198 (91%), Gaps = 1/198 (0%)

Query: 1   MREHYGQNKRNILQAGRALIAQKGFSGVGLSEILAAADIPKGSFYHYFGSKEQYGRELIE 60
           MREHYG+NKRNIL AGRALIAQKG+S VGLSEILAAA IPKGSFYHYFGSKEQYGRELIE
Sbjct: 1   MREHYGENKRNILMAGRALIAQKGYSSVGLSEILAAAAIPKGSFYHYFGSKEQYGRELIE 60

Query: 61  HYVAGYLDRLADVL-EARHGGNARERLLTYWGYWLESQCCQQVEQRCLVVKLSAEVADLS 119
           HYVAGYL+ L  VL +  HG +ARERLLTYWGYWLESQCCQ++EQRCLVVKLSAEVADLS
Sbjct: 61  HYVAGYLESLERVLGDPAHGASARERLLTYWGYWLESQCCQELEQRCLVVKLSAEVADLS 120

Query: 120 EDMRQALHEGTQRFIERIAVCIEEGIAEGSLHTVLQPLATATMLYQQWLGASLLARLSRD 179
           EDMRQALH+GTQ FIERIA CI +GIAEGSLHTVL PLATATMLYQQWLGASLL+RLSRD
Sbjct: 121 EDMRQALHQGTQAFIERIAACIAQGIAEGSLHTVLHPLATATMLYQQWLGASLLSRLSRD 180

Query: 180 RAPMEAAMLVTRHVLVPP 197
           RAPMEAAMLVTR VLV P
Sbjct: 181 RAPMEAAMLVTRRVLVLP 198


  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
   0.322    0.136    0.406 

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: 644,482
Number of extensions: 25007
Number of successful extensions: 96
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 95
Number of HSP's successfully gapped: 2
Length of query: 203
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 122
Effective length of database: 1,236,335
Effective search space: 150832870
Effective search space used: 150832870
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 (21.9 bits)
S2: 128 (53.9 bits)