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= 0028.0117.p
         (384 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311218|ref|YP_003775310.1| hypothetical protein Hsero_1893...   716   0.0  

>gi|300311218|ref|YP_003775310.1| hypothetical protein Hsero_1893
           [Herbaspirillum seropedicae SmR1]
          Length = 399

 Score =  716 bits (1847), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 344/384 (89%), Positives = 363/384 (94%), Gaps = 4/384 (1%)

Query: 1   MDYRTRIVSSLAEIGPARWDALVAAQAEGNPFLSYAFLHALHESGSASPESGWEPHYLTL 60
           MDYRTRIVSSLAEIG ARWDALVA Q EGNPFLSYAFLHALHESGSAS ESGWEPHYLTL
Sbjct: 20  MDYRTRIVSSLAEIGQARWDALVATQEEGNPFLSYAFLHALHESGSASAESGWEPHYLTL 79

Query: 61  WQGEGQQEQLVAALPLYRKFHSYGEYVFDWAWAEAYQRHGVEYYPKLLSAIPFTPVRGAR 120
           WQ     E L AALPLYRKFHSYGEYVFDWAWAEAYQRHGVEYYPKLLSAIPFTPVRGAR
Sbjct: 80  WQ----DESLAAALPLYRKFHSYGEYVFDWAWAEAYQRHGVEYYPKLLSAIPFTPVRGAR 135

Query: 121 LMAVDETSRGALVAALRALQERNEVSSTHILYPPPEQAQQLADAGYLLRSGVQFHWHNEG 180
           LMA+DET+R AL+ AL+ LQ++ + SSTHILYPP +QA QLA+AG+LLRSGVQFHWHNEG
Sbjct: 136 LMAIDETARVALLEALQRLQQQGQHSSTHILYPPEQQAGQLAEAGFLLRSGVQFHWHNEG 195

Query: 181 YGNFSEFVDTLDRKKRKNILAERRKVAEQGVRFIWLRGTEITEAHWRFFNRCYRHTYAAH 240
           YG+F++FVDTLDRKKRKNILAERRKVAEQGVRF+WLRG EIT+AHWRFFNRCYRHTYAAH
Sbjct: 196 YGSFADFVDTLDRKKRKNILAERRKVAEQGVRFVWLRGAEITDAHWRFFNRCYRHTYAAH 255

Query: 241 YSTPYLNLDFFRRIGETMPQHLLLTVALRGDEPIASSLTVYDADTLYGRYWGALEHVPCL 300
           YSTPYLNLDFFRRIG TMPQHLLLT+ALRG+EPIASSLTV+DADTLYGRYWGALEHVPCL
Sbjct: 256 YSTPYLNLDFFRRIGATMPQHLLLTLALRGEEPIASSLTVHDADTLYGRYWGALEHVPCL 315

Query: 301 HFETAYYQPLEFCIAEKITWFEGGAQGEHKMARGFLPQKTWSAHWLAHPGFYDAVEHFLS 360
           HFETAYYQPLEFCIAEKI+WFEGGAQGEHKMARGFLPQKTWSAHWLAHPGFYDAVEHFLS
Sbjct: 316 HFETAYYQPLEFCIAEKISWFEGGAQGEHKMARGFLPQKTWSAHWLAHPGFYDAVEHFLS 375

Query: 361 RESNGIDGYISELNEHNPFRDAPR 384
           RESNGIDGYISELNEHNPFRD PR
Sbjct: 376 RESNGIDGYISELNEHNPFRDPPR 399


  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
   0.321    0.136    0.440 

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: 1,344,173
Number of extensions: 59662
Number of successful extensions: 181
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 180
Number of HSP's successfully gapped: 1
Length of query: 384
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 297
Effective length of database: 1,207,925
Effective search space: 358753725
Effective search space used: 358753725
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 (21.9 bits)
S2: 131 (55.1 bits)