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= 0001.2088.p
         (522 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311554|ref|YP_003775646.1| hypothetical protein Hsero_2239...   885   0.0  

>gi|300311554|ref|YP_003775646.1| hypothetical protein Hsero_2239
           [Herbaspirillum seropedicae SmR1]
          Length = 522

 Score =  885 bits (2287), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 459/521 (88%), Positives = 484/521 (92%)

Query: 1   MSALYSVAEIRQVEQAALSALPPYTLMQRAGAAIAEQAQQLLCSATASSPSVLILAGPGN 60
           MSAL++VAEIR++EQ AL+ALPPYTLMQRAGAAIAE AQQ+LCS+TASSPSVL+LAGPGN
Sbjct: 1   MSALHTVAEIRRIEQEALAALPPYTLMQRAGAAIAELAQQMLCSSTASSPSVLVLAGPGN 60

Query: 61  NGGDALEAACLLEEAGIEVSVQLHADPSRQPPDARCALARAREAEIQFIDDLSDAALRAQ 120
           NGGDALEAACLLEEAGIEV+VQLHAD SRQPPDAR ALARAREAEIQFI+D  DA LR Q
Sbjct: 61  NGGDALEAACLLEEAGIEVTVQLHADESRQPPDARRALARAREAEIQFIEDHGDALLRQQ 120

Query: 121 SWALVIDGLFGIGLARAPGPALRPIIDYVNSLRCPVLSIDVPSGLDADTGSIIGARDGVA 180
           +WALVIDGLFGIGLAR PGP LR IIDY+NSLRCPVLSIDVPSGLDADTGSI+G RDG A
Sbjct: 121 AWALVIDGLFGIGLARPPGPRLRLIIDYINSLRCPVLSIDVPSGLDADTGSIVGGRDGAA 180

Query: 181 VQATHTITFIGDKPGLHTCDGSDHSGHIVVEPLDIEPRLLRPARAFLNGPQSFATALKPR 240
           VQATHT+TFIGDKPGLHTCDGSDHSG IVV+ L+I      P RAFLNGPQSFATALKPR
Sbjct: 181 VQATHTLTFIGDKPGLHTCDGSDHSGQIVVDTLEIAAERFLPTRAFLNGPQSFATALKPR 240

Query: 241 ANNSHKGSYGDVIVVGGARGMAGAPVLAARTAAFGGAGRVYVAFVDDGLAYDDKHPELMF 300
           ANNSHKGSYGDVIVVGGARGMAGAPVLAARTAAFGGAGRVYVAFVDDGLAYDDKHPELMF
Sbjct: 241 ANNSHKGSYGDVIVVGGARGMAGAPVLAARTAAFGGAGRVYVAFVDDGLAYDDKHPELMF 300

Query: 301 RLADRVEFGASAALVVGPGMGTSRHAHDLLARALESEADIVIDADALNLISAEPTLQHKL 360
           RLADRVEF ASAALVVGPGMGTSRHAHD+LARAL+SEA+IV+DADALNLISAEP LQHKL
Sbjct: 301 RLADRVEFAASAALVVGPGMGTSRHAHDILARALDSEAEIVVDADALNLISAEPALQHKL 360

Query: 361 HSRSHTGAAITSIITPHPLEAARLLDSTTQQVQQDRPQAARLLARQFNAITVLKGAGTVI 420
           H RS  GAA  +IITPHPLEAARLLDSTTQQVQQDRP AAR LARQFNAITVLKGAGTVI
Sbjct: 361 HRRSQAGAAAKTIITPHPLEAARLLDSTTQQVQQDRPHAARQLARQFNAITVLKGAGTVI 420

Query: 421 AFPDGQIAINPSGNPALSTAGTGDVLSGLCGALLAQGWPTRAAALAATWIHGAAADQLVA 480
           AFPDG+IAINPSGNPALSTAGTGDVLSGLCGALLAQGWP RAAALAATWIHGAAADQLVA
Sbjct: 421 AFPDGEIAINPSGNPALSTAGTGDVLSGLCGALLAQGWPARAAALAATWIHGAAADQLVA 480

Query: 481 AGQGPVGLTASEFIPAIRAVFNQILRDHVQRRPATSPHRPQ 521
           +G GPVGLTASEFIPAIRAVFNQI+RDHVQRRP  + HRP 
Sbjct: 481 SGLGPVGLTASEFIPAIRAVFNQIIRDHVQRRPVATAHRPH 521


  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    0.134    0.390 

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: 1,686,692
Number of extensions: 74853
Number of successful extensions: 324
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 324
Number of HSP's successfully gapped: 1
Length of query: 522
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 432
Effective length of database: 1,193,720
Effective search space: 515687040
Effective search space used: 515687040
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 (21.7 bits)
S2: 133 (55.8 bits)