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= 0001.2879.p
         (105 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312203|ref|YP_003776295.1| UPF0060 superfamily protein [He...   157   2e-40

>gi|300312203|ref|YP_003776295.1| UPF0060 superfamily protein
           [Herbaspirillum seropedicae SmR1]
          Length = 105

 Score =  157 bits (396), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 94/105 (89%), Positives = 99/105 (94%)

Query: 1   MKTVFLYLCTALAEIVGCYLPYLWLKQDRSAWLLLPAAVSLVLFAWLLTLHEAASGRVYA 60
           MKT+ LYLCTALAEIVGCYLPYLWL+QDRS WLLLPAA+SL LFAWLL+LHEAASGRVYA
Sbjct: 1   MKTLLLYLCTALAEIVGCYLPYLWLRQDRSVWLLLPAALSLALFAWLLSLHEAASGRVYA 60

Query: 61  AYGGVYIAVAMLWLWAVDGVRPSGWDCAGVAVALAGMAIIAFQPR 105
           AYGGVYIAVAMLWLWAVDGVRPS WD AG+AVALAGM IIAFQPR
Sbjct: 61  AYGGVYIAVAMLWLWAVDGVRPSAWDWAGMAVALAGMGIIAFQPR 105


  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
   0.330    0.140    0.480 

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: 310,789
Number of extensions: 8544
Number of successful extensions: 57
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 57
Number of HSP's successfully gapped: 1
Length of query: 105
Length of database: 1,619,870
Length adjustment: 72
Effective length of query: 33
Effective length of database: 1,278,950
Effective search space: 42205350
Effective search space used: 42205350
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 123 (52.0 bits)