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= 0006.0048.p
         (104 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300314050|ref|YP_003778142.1| hypothetical protein Hsero_4773...    83   6e-18

>gi|300314050|ref|YP_003778142.1| hypothetical protein Hsero_4773
           [Herbaspirillum seropedicae SmR1]
          Length = 129

 Score = 82.8 bits (203), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 50/130 (38%), Positives = 63/130 (48%), Gaps = 27/130 (20%)

Query: 1   MTISFTDPSLPGQLQQGQVQTRRLQGGVRIRVTSGLVWLTIAGCRDDIWLQPGRCFDYHG 60
           M+I F   +   +L  GQ     L G   IRV  GLVWLT+     D+WL  GR FD  G
Sbjct: 1   MSIPFATETTTIRLAAGQTHALVLHGAACIRVHQGLVWLTVEQGGADVWLSAGRSFDIQG 60

Query: 61  RGDAIFEAVNGAAEFTVTPLPPKG--------------------------CGDDPIRIAK 94
           RG A+ EA +GAAEF +   P  G                          CG+  +R+++
Sbjct: 61  RGLAVLEAAHGAAEFDLQMQPGWGRRLLRWLRGPGRPPVASSTSSATPPSCGET-VRVSR 119

Query: 95  LLPHGLIRWF 104
           LLPHGLIRWF
Sbjct: 120 LLPHGLIRWF 129


  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
   0.325    0.145    0.485 

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: 405,464
Number of extensions: 16081
Number of successful extensions: 47
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 46
Number of HSP's successfully gapped: 1
Length of query: 104
Length of database: 1,619,870
Length adjustment: 71
Effective length of query: 33
Effective length of database: 1,283,685
Effective search space: 42361605
Effective search space used: 42361605
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 123 (52.0 bits)