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= 0001.0334.p
         (120 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309637|ref|YP_003773729.1| hypothetical protein Hsero_0295...   112   1e-26

>gi|300309637|ref|YP_003773729.1| hypothetical protein Hsero_0295
           [Herbaspirillum seropedicae SmR1]
          Length = 118

 Score =  112 bits (279), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 56/116 (48%), Positives = 77/116 (66%), Gaps = 5/116 (4%)

Query: 1   MGANKRKRHMDIYVRFLELIESIHDLP---TLEPLEKKIFDHITRALHAEDSLSVTDVTG 57
           MG NKR    DIY+RFL+L E++  LP   +L+PLE +I   I RA   +  LSV D+  
Sbjct: 1   MGKNKRP--ADIYLRFLQLAEALRGLPALPSLDPLEDRILAFIARAGQEQQRLSVRDLMA 58

Query: 58  DASLGSPVTVHLRLKSLVAKGWIALSETEDGRRKQINLTEAAQQHLVKVSQCLIKA 113
            +  GSP  +H RLKS+  KGWI L++TED RRKQ+ L++AA  H  K+S+CL++A
Sbjct: 59  QSEFGSPAMLHTRLKSMREKGWIVLADTEDPRRKQVELSQAAWLHFDKLSKCLVQA 114


  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    0.133    0.375 

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: 349,500
Number of extensions: 11766
Number of successful extensions: 39
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 38
Number of HSP's successfully gapped: 1
Length of query: 120
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 46
Effective length of database: 1,269,480
Effective search space: 58396080
Effective search space used: 58396080
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: 125 (52.8 bits)