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= 0001.2963.p
         (204 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...   374   e-105

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

 Score =  374 bits (960), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 178/185 (96%), Positives = 181/185 (97%)

Query: 1   MAKKSVVTEAQEIQLAIELINLGARLQLLESETSLSRERLLKLYKELKGVSPPKGMLPFS 60
           MAKKSVVTEAQEIQLAIELINLGARLQLLESETSLSRERLLKLYKELKGVSPPKGMLPFS
Sbjct: 1   MAKKSVVTEAQEIQLAIELINLGARLQLLESETSLSRERLLKLYKELKGVSPPKGMLPFS 60

Query: 61  TDWFITWQPNIHSSLFINIHRYLVEYARISGIEAVMKAYKLYLEQVGYTDSGEPVLSLTR 120
           TDWFITWQPNIHSSLFINIHRYLVE+ARISGIEAVMKAYKLYLEQVG  D+GEPVLSLTR
Sbjct: 61  TDWFITWQPNIHSSLFINIHRYLVEHARISGIEAVMKAYKLYLEQVGQNDAGEPVLSLTR 120

Query: 121 AWTLVRFFESKMLMTTPCCKCGGHFVVHRLDLHQDYLCGLCHMPSRAGKTKKAKDAVVMG 180
           AWTLVRFFESKMLMTTPCCKC GHFVVHRLDLHQDYLCGLCHMPSRAGKTKKAKDAVV+G
Sbjct: 121 AWTLVRFFESKMLMTTPCCKCNGHFVVHRLDLHQDYLCGLCHMPSRAGKTKKAKDAVVLG 180

Query: 181 LVEAA 185
           L EAA
Sbjct: 181 LAEAA 185


  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    0.135    0.404 

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: 476,040
Number of extensions: 16410
Number of successful extensions: 43
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 43
Number of HSP's successfully gapped: 1
Length of query: 204
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 123
Effective length of database: 1,236,335
Effective search space: 152069205
Effective search space used: 152069205
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 (22.0 bits)
S2: 128 (53.9 bits)