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= 0003.0040.p
         (137 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310739|ref|YP_003774831.1| hypothetical protein Hsero_1407...   133   5e-33

>gi|300310739|ref|YP_003774831.1| hypothetical protein Hsero_1407
           [Herbaspirillum seropedicae SmR1]
          Length = 125

 Score =  133 bits (335), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 68/121 (56%), Positives = 78/121 (64%)

Query: 9   INLPDVVAEVRHAFERYEVALTTNQVEVLDELFLDGPHTVRYGATENLVGTEAIRAFRQG 68
           +NLP VVAEV HAF  YE AL  N +  LD  F   P TVRYG  E L+G EAIR +RQ 
Sbjct: 4   VNLPHVVAEVEHAFADYEYALLINDIATLDRWFWYAPETVRYGVGEVLLGGEAIRQYRQR 63

Query: 69  RSPKNLMRSLRATVITTYGRDYAVADTEFTREGETRIGRQSHTWLRCPQGWRIVAAHVSW 128
            +P    R L  TV+TT+G+DYA   TEFT     RIGRQ  TW+R  +GWRIVAAHVS 
Sbjct: 64  CTPVPASRKLHRTVVTTFGQDYATVSTEFTDHTSERIGRQMQTWVRMAEGWRIVAAHVSL 123

Query: 129 M 129
           M
Sbjct: 124 M 124


  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
   0.319    0.132    0.401 

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: 449,845
Number of extensions: 16630
Number of successful extensions: 46
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: 137
Length of database: 1,619,870
Length adjustment: 76
Effective length of query: 61
Effective length of database: 1,260,010
Effective search space: 76860610
Effective search space used: 76860610
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 (21.8 bits)
S2: 126 (53.1 bits)