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= 0009.0106.p
         (158 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309995|ref|YP_003774087.1| Type IV pilin A protein [Herbas...   113   6e-27

>gi|300309995|ref|YP_003774087.1| Type IV pilin A protein
           [Herbaspirillum seropedicae SmR1]
          Length = 168

 Score =  113 bits (283), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 73/166 (43%), Positives = 96/166 (57%), Gaps = 19/166 (11%)

Query: 8   RYSPTGFTLIELMIVIAIVGVLAMVAIPQYRDYLVRTKVAEGLNLATPAKMAVSETIASK 67
           R S  GFTL+ELM+ +AIVG+LAM+   QY+DY+ R +V+EG NLA P K+AV+E I+S 
Sbjct: 7   RSSQQGFTLLELMVTLAIVGILAMLGASQYQDYIARARVSEGFNLAEPYKLAVTEQISSN 66

Query: 68  GSADFEQAATGY-TFTPSKEITSVSDIKIEK---GGAITITFGDIGGEAKGKTLKLVPSA 123
            +  F  A  G   FTP+  +T +S   ++    GG ITIT+    GE  G TL L P+ 
Sbjct: 67  -NGVFTVAQLGLPAFTPTANVTGISVSPMQPRGVGGVITITYSAQVGE--GGTLTLTPTI 123

Query: 124 ANPSAITWLCQTA-------PAKAAADSPL----LPAKYAPEVCRG 158
           A+   I W C  A       P  A A++      LPAKYAP  CRG
Sbjct: 124 AS-GTIQWQCAAAGVTQAPTPQGATANTGFVAGTLPAKYAPANCRG 168


  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
   0.315    0.130    0.364 

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: 484,055
Number of extensions: 18444
Number of successful extensions: 112
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 111
Number of HSP's successfully gapped: 1
Length of query: 158
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 80
Effective length of database: 1,250,540
Effective search space: 100043200
Effective search space used: 100043200
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: 127 (53.5 bits)