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= 0002.0097.p
         (252 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309805|ref|YP_003773897.1| transcription regulator protein...   388   e-109

>gi|300309805|ref|YP_003773897.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 193

 Score =  388 bits (996), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 187/193 (96%), Positives = 193/193 (100%)

Query: 60  LELDLTNHFLIAMPSMLDPIFGGTVVYLCEHNHNGALGVVINKPTDMTMDVLFDRINLKL 119
           +ELDLTNHFLIAMPSMLDPIFGGTVVYLCEHNHNGALGVVINKPTDMTMDVLFDRINLKL
Sbjct: 1   MELDLTNHFLIAMPSMLDPIFGGTVVYLCEHNHNGALGVVINKPTDMTMDVLFDRINLKL 60

Query: 120 EIRPDTPDAMPELYRRPVMFGGPVQVERGFVLHSTSEKYSSTLQVTDEVALTTSKDVLEA 179
           EI+PDTPDAMPELYRRPVMFGGPVQVERGFVLHSTSEKYSSTLQVTDEVALTTSKDVLEA
Sbjct: 61  EIQPDTPDAMPELYRRPVMFGGPVQVERGFVLHSTSEKYSSTLQVTDEVALTTSKDVLEA 120

Query: 180 VAHGDGPERVLVTLGCSGWSPGQLEGEIGRNGWLTVKADPAIIFELPVEQRFTAALALLG 239
           VAHG+GP+RVLVTLGCSGWSPGQLEGEIGRNGWLTVKADP+IIFELPVE+RFTAALALLG
Sbjct: 121 VAHGNGPDRVLVTLGCSGWSPGQLEGEIGRNGWLTVKADPSIIFELPVEERFTAALALLG 180

Query: 240 IDPVMLSGDAGRA 252
           IDPVMLSGDAGRA
Sbjct: 181 IDPVMLSGDAGRA 193


  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    0.137    0.407 

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: 878,712
Number of extensions: 37550
Number of successful extensions: 97
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 1
Length of query: 252
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 169
Effective length of database: 1,226,865
Effective search space: 207340185
Effective search space used: 207340185
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: 129 (54.3 bits)