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= 0028.0299.p
         (165 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311071|ref|YP_003775163.1| hypothetical protein Hsero_1742...   187   5e-49

>gi|300311071|ref|YP_003775163.1| hypothetical protein Hsero_1742
           [Herbaspirillum seropedicae SmR1]
          Length = 168

 Score =  187 bits (474), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 114/168 (67%), Positives = 136/168 (80%), Gaps = 6/168 (3%)

Query: 1   MNMAITSSTSTLTTLGSLDPYGL---GSSGTSNPVTAASNPAAVAQAVELSSEASVIVTL 57
           MNMAI +S+     LG+LDPYGL    +S  ++ V A ++PAAVAQAVEL+++ASV+V+L
Sbjct: 4   MNMAIDTSS---IPLGNLDPYGLPGNSASAGNSAVKAVNDPAAVAQAVELAAQASVVVSL 60

Query: 58  GGGSSANSGLTYNAAGLFDSIVNAGSSAGTSTDLTQNQATQSYYQGVLGSIVTPGATSGI 117
           GG SS N  LTYNAAGLFD+IV AGS+ G S DLTQNQATQSYYQG+LGSIV P +  G+
Sbjct: 61  GGASSGNGALTYNAAGLFDAIVGAGSADGASPDLTQNQATQSYYQGILGSIVIPSSNDGV 120

Query: 118 YDGSGVFAGEGLSSQLSLLLKSQPDLTGSIVEDIVNQNVVGGLISTMA 165
           YDGSG F+G+ LSSQLSLLLKS PDLTG+IVEDIVNQ +VGGLIST A
Sbjct: 121 YDGSGQFSGQALSSQLSLLLKSNPDLTGAIVEDIVNQGIVGGLISTTA 168


  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
   0.305    0.123    0.321 

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: 364,790
Number of extensions: 12665
Number of successful extensions: 53
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 53
Number of HSP's successfully gapped: 1
Length of query: 165
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 87
Effective length of database: 1,250,540
Effective search space: 108796980
Effective search space used: 108796980
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 127 (53.5 bits)