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= 0252.0003.p
         (166 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312400|ref|YP_003776492.1| hypothetical protein Hsero_3100...   259   6e-71

>gi|300312400|ref|YP_003776492.1| hypothetical protein Hsero_3100
           [Herbaspirillum seropedicae SmR1]
          Length = 175

 Score =  259 bits (663), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 129/173 (74%), Positives = 140/173 (80%), Gaps = 12/173 (6%)

Query: 6   HIIKDKVVISDDWTVLRLNEGETPEGVAIPEGKIIVPLKVWQAQRATLQGHQELGVWFAS 65
            IIK+K V+SDDWTVLRL EGET E V +P+G++IVPLKVWQAQ   L+   E+GVW AS
Sbjct: 3   EIIKNKTVVSDDWTVLRLAEGETAETVNVPQGRVIVPLKVWQAQGEALKSRAEIGVWLAS 62

Query: 66  DERPEALKDDLXS------------DGRGYSIAYNLRARLGYTGELRAIGDVLRDQLFYM 113
           DERPE LK  L S            DGRGYSIAYNLRARLGYTGELRAIGDVLRDQLFYM
Sbjct: 63  DERPEELKGQLDSFKVVAVDFPKFADGRGYSIAYNLRARLGYTGELRAIGDVLRDQLFYM 122

Query: 114 QRVGFNAFAVRADKDIHDALKGLTDFSEKYQTSWDEKNPLFRRAKRETVATRD 166
           QRVGF+AFAVRADK+IHDA+KGLTDFSEKYQTSWDEKNPLFRR KRET  T D
Sbjct: 123 QRVGFDAFAVRADKNIHDAVKGLTDFSEKYQTSWDEKNPLFRRVKRETAQTAD 175


  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    0.136    0.408 

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: 530,206
Number of extensions: 21375
Number of successful extensions: 45
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 44
Number of HSP's successfully gapped: 1
Length of query: 166
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 88
Effective length of database: 1,250,540
Effective search space: 110047520
Effective search space used: 110047520
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: 127 (53.5 bits)