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= 0001.4564.p
         (142 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313968|ref|YP_003778060.1| transcription regulator protein...   256   6e-70

>gi|300313968|ref|YP_003778060.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 142

 Score =  256 bits (654), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 127/142 (89%), Positives = 131/142 (92%)

Query: 1   MPTYTITELAEEFAITPRAIRFYEDHGILNPKREGVGGRQRVYPARQRTRLKLTLRGKRL 60
           MPTYTITELAEEFAITPRAIRFYEDHGILNPKREGVGGR RVYPAR+RTRLKLTLRGKRL
Sbjct: 1   MPTYTITELAEEFAITPRAIRFYEDHGILNPKREGVGGRHRVYPARERTRLKLTLRGKRL 60

Query: 61  GFTLAEIKDLIDMYESPKDTQPQLQRFLGLLQQHREKLEQQREDLDLTLSEIAAHEEECR 120
           GFTL+EIKDLIDMYESPKDTQ QLQRFLGLLQQHREKLEQQREDL+LTLSEIAAHEEECR
Sbjct: 61  GFTLSEIKDLIDMYESPKDTQAQLQRFLGLLQQHREKLEQQREDLELTLSEIAAHEEECR 120

Query: 121 QLLAAAKPRSATSKNKRKICAA 142
           QLL   KPR   SK +RK  AA
Sbjct: 121 QLLTDGKPRPLGSKPRRKAVAA 142


  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    0.135    0.379 

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: 373,692
Number of extensions: 12295
Number of successful extensions: 60
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 61
Number of HSP's successfully gapped: 1
Length of query: 142
Length of database: 1,619,870
Length adjustment: 76
Effective length of query: 66
Effective length of database: 1,260,010
Effective search space: 83160660
Effective search space used: 83160660
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: 126 (53.1 bits)