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= 0007.0007.p
         (105 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311177|ref|YP_003775269.1| transcription regulator protein...    72   1e-14
gi|300312365|ref|YP_003776457.1| transcription regulator protein...    67   4e-13

>gi|300311177|ref|YP_003775269.1| transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
          Length = 153

 Score = 71.6 bits (174), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 31/73 (42%), Positives = 49/73 (67%), Gaps = 4/73 (5%)

Query: 4  ISRTAKPSSLQSSAPKLSDFLCFAIYSANLAFGKAYKPILDELGLTYTQYIAVIALWEED 63
          +S+T K    + +AP L   LCFA+YS +L+  K Y+ +L +LG+TY+QY+ ++ LWE+D
Sbjct: 2  VSKTDK----RKAAPLLDAQLCFALYSTSLSMSKLYRKLLRDLGITYSQYLVLMVLWEQD 57

Query: 64 NQTVSGLGEKFFF 76
            TVS +GE+   
Sbjct: 58 QLTVSEIGERLVL 70


>gi|300312365|ref|YP_003776457.1| transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
          Length = 158

 Score = 66.6 bits (161), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/57 (52%), Positives = 39/57 (68%)

Query: 20 LSDFLCFAIYSANLAFGKAYKPILDELGLTYTQYIAVIALWEEDNQTVSGLGEKFFF 76
          L   LCFA+YSA+LA  KAYK +L  L +TY QY+ ++ LWE+D  TVS LG + F 
Sbjct: 20 LDHQLCFAMYSASLAMTKAYKKLLAPLDITYPQYLVMMVLWEKDQVTVSELGGRLFL 76


  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
   0.327    0.137    0.409 

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: 273,043
Number of extensions: 8573
Number of successful extensions: 25
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 25
Number of HSP's successfully gapped: 2
Length of query: 105
Length of database: 1,619,870
Length adjustment: 72
Effective length of query: 33
Effective length of database: 1,278,950
Effective search space: 42205350
Effective search space used: 42205350
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 (21.7 bits)
S2: 123 (52.0 bits)