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= 0001.0909.p
         (189 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310251|ref|YP_003774343.1| hypothetical protein Hsero_0918...    96   2e-21
gi|300310095|ref|YP_003774187.1| hypothetical protein Hsero_0760...    76   1e-15
gi|300313609|ref|YP_003777701.1| hypothetical protein Hsero_4324...    76   2e-15
gi|300312708|ref|YP_003776800.1| hypothetical protein Hsero_3411...    75   3e-15
gi|300312023|ref|YP_003776115.1| hypothetical protein Hsero_2711...    67   8e-13

>gi|300310251|ref|YP_003774343.1| hypothetical protein Hsero_0918
          [Herbaspirillum seropedicae SmR1]
          Length = 137

 Score = 95.5 bits (236), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 46/83 (55%), Positives = 59/83 (71%), Gaps = 1/83 (1%)

Query: 4  RPIIRYGDRTTHGGTVISADHTFAVYGKSVARIGDLVSCPHCKGTFPIVTGAPSMWSSQN 63
          RP I  GD+T+HGGTVIS D +F ++GK+VA IGDL +CP CKGTF I +GA  M ++  
Sbjct: 3  RPFITVGDKTSHGGTVISGDQSFLIHGKAVASIGDLTTCPRCKGTFAITSGAEDMITNGK 62

Query: 64 V-ARQDDITSCGAKLIASQSTAT 85
            AR  D T+CGA LIA+Q+  T
Sbjct: 63 APARDGDRTACGAILIATQALTT 85


>gi|300310095|ref|YP_003774187.1| hypothetical protein Hsero_0760
          [Herbaspirillum seropedicae SmR1]
          Length = 85

 Score = 76.3 bits (186), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 43/84 (51%), Positives = 55/84 (65%), Gaps = 2/84 (2%)

Query: 4  RPIIRYGDRTTHGGTVISADHTFAVYGKSVARIGDLVSCPHCKGTFPIVTGAPSM-WSSQ 62
          +P+I  GD+T+HGGTVI A     V GK VAR+GD VSCP   G+  I +G P+M     
Sbjct: 3  QPVIVLGDKTSHGGTVIQASGVTMVGGKQVARVGDKVSCPR-HGSTTIASGDPTMIIDGA 61

Query: 63 NVARQDDITSCGAKLIASQSTATI 86
           VAR  D T+CGA LIASQ+T ++
Sbjct: 62 PVARDGDKTACGAVLIASQATTSV 85


>gi|300313609|ref|YP_003777701.1| hypothetical protein Hsero_4324
          [Herbaspirillum seropedicae SmR1]
          Length = 88

 Score = 75.9 bits (185), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 42/83 (50%), Positives = 55/83 (66%), Gaps = 2/83 (2%)

Query: 5  PIIRYGDRTTHGGTVISADHTFAVYGKSVARIGDLVSCP-HCKGTFPIVTGAPS-MWSSQ 62
          PIIR GD T+HGG VISA  T  ++G  +AR+GDLVSCP    GT PI+ GAP+ +   +
Sbjct: 4  PIIRLGDSTSHGGKVISASPTHTLHGIGIARVGDLVSCPREGHGTTPIIEGAPTYLIGDR 63

Query: 63 NVARQDDITSCGAKLIASQSTAT 85
           VA Q    +CG  LI+S +TA+
Sbjct: 64 MVALQGHRAACGCSLISSLATAS 86


>gi|300312708|ref|YP_003776800.1| hypothetical protein Hsero_3411
          [Herbaspirillum seropedicae SmR1]
          Length = 87

 Score = 75.1 bits (183), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 39/80 (48%), Positives = 47/80 (58%), Gaps = 3/80 (3%)

Query: 4  RPIIRYGDRTTHGGTVISADHTFAVYGKSVARIGDLVSCPHCKGTFPIVTGAPS---MWS 60
          R +IR GD+T+HGG VISA  T    GK VA  GD+ +CP CKG F I  G  +      
Sbjct: 7  RAVIRLGDKTSHGGEVISASDTLKAMGKGVALEGDMTTCPKCKGQFAIQPGGGNSTRKHH 66

Query: 61 SQNVARQDDITSCGAKLIAS 80
           + VA   D T+CGA LIAS
Sbjct: 67 GKQVAYHGDTTTCGASLIAS 86


>gi|300312023|ref|YP_003776115.1| hypothetical protein Hsero_2711
          [Herbaspirillum seropedicae SmR1]
          Length = 173

 Score = 67.4 bits (163), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 38/82 (46%), Positives = 47/82 (57%), Gaps = 1/82 (1%)

Query: 6  IIRYGDRTTHGGTVISADHTFAVYGKSVARIGDLVSCPHCKGTFPIVTGAPSMWSSQN-V 64
          IIR GD T+HGGTV+    +F V G   A +G +V CP CKG++ IV G        N V
Sbjct: 5  IIRKGDSTSHGGTVLEGLVSFNVLGLPAALVGHMVYCPRCKGSYAIVEGVRHFRCGGNPV 64

Query: 65 ARQDDITSCGAKLIASQSTATI 86
          A     T+CGA+L ASQS   I
Sbjct: 65 AVAGMKTACGAELQASQSAFLI 86


  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
   0.317    0.132    0.397 

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: 489,290
Number of extensions: 15504
Number of successful extensions: 60
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 57
Number of HSP's successfully gapped: 6
Length of query: 189
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 109
Effective length of database: 1,241,070
Effective search space: 135276630
Effective search space used: 135276630
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 (21.6 bits)
S2: 128 (53.9 bits)