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= 0014.0013.p
         (211 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309897|ref|YP_003773989.1| transcription regulator protein...   174   4e-45

>gi|300309897|ref|YP_003773989.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 148

 Score =  174 bits (442), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 80/134 (59%), Positives = 104/134 (77%), Gaps = 2/134 (1%)

Query: 9   MAKRKSLMSDPCPVARSIDVVGDRWALLIIRDAFDGMRRFGEFQKSLGVAKNILSARLRD 68
           M+       + CPVARS+DVVGDRWALLI+RDAFDG+RRFG+FQ++L V+KNIL+ RLR 
Sbjct: 1   MSSHADHHEEHCPVARSVDVVGDRWALLIVRDAFDGIRRFGDFQRNLSVSKNILADRLRK 60

Query: 69  LVDAGILDVAPASDGSAYQEYILTAKGKELFTVVLGLRQWGEGHLFKKGESIAPMVDRDS 128
           LVDA IL++  ASDG++YQEY+LT  G  LF +V+ LRQWGE HLFK+GE  + ++D D+
Sbjct: 61  LVDANILEMQAASDGTSYQEYVLTETGLGLFPLVVALRQWGEAHLFKRGEKHSVLIDTDT 120

Query: 129 GKPIPEAKPAPLHR 142
           GKP+  A  AP+ R
Sbjct: 121 GKPV--AYMAPISR 132


  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
   0.318    0.133    0.412 

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: 532,074
Number of extensions: 21772
Number of successful extensions: 101
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 104
Number of HSP's successfully gapped: 1
Length of query: 211
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 130
Effective length of database: 1,236,335
Effective search space: 160723550
Effective search space used: 160723550
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 (21.7 bits)
S2: 128 (53.9 bits)