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= 0024.0028.p
         (202 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312292|ref|YP_003776384.1| flagellar transcription activat...   343   6e-96

>gi|300312292|ref|YP_003776384.1| flagellar transcription activator
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 200

 Score =  343 bits (880), Expect = 6e-96,   Method: Compositional matrix adjust.
 Identities = 162/178 (91%), Positives = 169/178 (94%), Gaps = 1/178 (0%)

Query: 3   MAKKSVITESQEIQLAIELINLGARLQLLESETSLSRERLLKLYKELKGVSPPKGMLPFS 62
           MAKKSV+TE+QEIQLAIELINLGARLQLLESETSLSRERLLKLYKELKGVSPPKGMLPFS
Sbjct: 1   MAKKSVVTEAQEIQLAIELINLGARLQLLESETSLSRERLLKLYKELKGVSPPKGMLPFS 60

Query: 63  TDWFITWQPNIHSSLFINIHKYLIEYAKISGIEAVMKAYKLYLEQAGQIADGDESVLSLT 122
           TDWFITWQPNIHSSLFINIH+YL+E+A+ISGIEAVMKAYKLYLEQ GQ  D  E VLSLT
Sbjct: 61  TDWFITWQPNIHSSLFINIHRYLVEHARISGIEAVMKAYKLYLEQVGQ-NDAGEPVLSLT 119

Query: 123 RAWTLVRFFESKMLTTTPCSKCRGHFVVHRLDLHQDYLCGLCHMPSRAGKTKKAKDAI 180
           RAWTLVRFFESKML TTPC KC GHFVVHRLDLHQDYLCGLCHMPSRAGKTKKAKDA+
Sbjct: 120 RAWTLVRFFESKMLMTTPCCKCNGHFVVHRLDLHQDYLCGLCHMPSRAGKTKKAKDAV 177


  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
   0.321    0.133    0.386 

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: 429,654
Number of extensions: 13897
Number of successful extensions: 43
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 42
Number of HSP's successfully gapped: 1
Length of query: 202
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 121
Effective length of database: 1,236,335
Effective search space: 149596535
Effective search space used: 149596535
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)