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= 0223.0015.p
         (133 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300314040|ref|YP_003778132.1| transcription regulator protein...    59   2e-10

>gi|300314040|ref|YP_003778132.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 234

 Score = 58.5 bits (140), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/95 (40%), Positives = 49/95 (51%), Gaps = 7/95 (7%)

Query: 36  LSVLVKADFRFHMAIYRLSGNPAIEQMMAGQWPHLMRSMMAVLNDPGVPVRA----WQEH 91
           LS  + AD  FH  IYR  GNP I Q  A  W H+ R+M A+L+     VR+    W+EH
Sbjct: 132 LSARILADMDFHQFIYRSCGNPMIGQTTALHWQHIRRAMGAILSS---EVRSHLAVWEEH 188

Query: 92  QAIAEHILNGNVDDAFHSATRHIERAGRDLNRRLN 126
           +AI + +L G    A   A +H E A   L R L 
Sbjct: 189 EAILQAMLEGRPALADKLARQHAESAAAHLARVLT 223


  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
   0.320    0.132    0.387 

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: 421,187
Number of extensions: 16391
Number of successful extensions: 67
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 66
Number of HSP's successfully gapped: 1
Length of query: 133
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 58
Effective length of database: 1,264,745
Effective search space: 73355210
Effective search space used: 73355210
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: 125 (52.8 bits)