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= 0001.4301.p
         (560 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312117|ref|YP_003776209.1| hypothetical protein Hsero_2808...    94   3e-20

>gi|300312117|ref|YP_003776209.1| hypothetical protein Hsero_2808
           [Herbaspirillum seropedicae SmR1]
          Length = 575

 Score = 94.0 bits (232), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 89/357 (24%), Positives = 170/357 (47%), Gaps = 28/357 (7%)

Query: 1   MSLNQVRTVIANFLRTETPEVLAISGDWGVGKTFSIREIIGNFNDKKDVEKSLKKYAYVS 60
           MSL + +  + + L     +V+A+SG WG GK+F   +I      K DV  + K   Y S
Sbjct: 1   MSLEETKAQLIHMLEQYDAKVIALSGKWGTGKSFMWDQI-----KKSDVAFA-KDALYAS 54

Query: 61  LFGLNSMAELRTKIWS----RTEDFPVVQDKSRLSRQHLDSGWAKKALSFFKSELPYGKS 116
           +FGL+S+  ++ K+        ++FPV+ +  + +       W   A+S        G +
Sbjct: 55  VFGLSSIDLVKLKLIQSAAKSVDEFPVLTEGVKKT-------WG--AISKMAEGFHKGFA 105

Query: 117 VVVGLEAIVSSLVA-DSIIWFDDLERLSGGIRMEDFMGLVSELKEQSRCKIIIVYNGQQL 175
            V  +  I++ ++  + ++  DD+ER    + +++ +G + E+ +Q +C+++++ N  +L
Sbjct: 106 AVNDIGLILAPVILREKLLVLDDIERKHKKLDVDEVLGFIDEMTKQYKCRVLLILNEDKL 165

Query: 176 GDKE--EIFTTYSEKVIDQKLAYEIDTTEAITLGLRGV--PHLAKEVEPFIAALNIRNIR 231
            DK   E++ T+ EKVIDQ+L     + EA  +  + +  P+  K  E  I    I NIR
Sbjct: 166 -DKASGELWNTFREKVIDQELKLLTSSDEAFEIAKKTIETPYGEKLCE-LIRICGINNIR 223

Query: 232 VVQRIGKALTYIYPLVQNHSTQIHSRVAKATAIFSASIFENSRGFPSPKTILHYNSIRDI 291
           ++Q+I KA   I     + S    +R   +  + SA  +      P+    L     +D 
Sbjct: 224 IIQKIIKASNLILGGRADLSPGTLNRALPSIVLLSAIHYRGIDDGPNFDFALDQGGPQDW 283

Query: 292 MERNHRPTAAPEEPDGPKLEWKEMLGECGFD-NADALDMEVLKAIEQGYSENTKIKE 347
            E +       EE +  +  W+ +  + G    AD  ++ V++ ++ G  E+ K+ E
Sbjct: 284 DEWSKSQGEKSEE-EKNRDRWRVLFRKLGISPQADEFELLVVEFLQSGLVESQKLSE 339


  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    0.134    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: 1,570,280
Number of extensions: 61762
Number of successful extensions: 201
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 199
Number of HSP's successfully gapped: 1
Length of query: 560
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 470
Effective length of database: 1,193,720
Effective search space: 561048400
Effective search space used: 561048400
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: 133 (55.8 bits)