Samia BLAST Result against spombe

BLASTX 2.2.12 [Aug-07-2005]


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.

Query= S06A01NCLL0014_H23
         (707 letters)

Database: spombe 
           5004 sequences; 2,362,478 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPCPJ732.01 |vps5||retromer complex subunit Vps5|Schizosaccharom...    28   1.1  
SPAC17A2.10c |||sequence orphan|Schizosaccharomyces pombe|chr 1|...    26   6.1  
SPAC1687.03c |rfc4||DNA replication factor C complex subunit Rfc...    25   8.0  

>SPCPJ732.01 |vps5||retromer complex subunit
           Vps5|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 576

 Score = 28.3 bits (60), Expect = 1.1
 Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
 Frame = +1

Query: 262 LLPAFIQIS---LIKEINK*HSIFLLSIYLYEHMYKLVNNM 375
           L P +IQ+     +KEI K H+++ +S  L EH    V+N+
Sbjct: 199 LTPFYIQVHDPHTVKEITKSHTVYSVSTRLEEHNQPSVSNV 239


>SPAC17A2.10c |||sequence orphan|Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 230

 Score = 25.8 bits (54), Expect = 6.1
 Identities = 9/19 (47%), Positives = 13/19 (68%)
 Frame = +2

Query: 434 IIMFVSGPTIRFVFIYFLC 490
           I+ F S P + F+F +FLC
Sbjct: 144 IVYFSSFPILHFLFFFFLC 162


>SPAC1687.03c |rfc4||DNA replication factor C complex subunit
           Rfc4|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 342

 Score = 25.4 bits (53), Expect = 8.0
 Identities = 12/40 (30%), Positives = 22/40 (55%), Gaps = 3/40 (7%)
 Frame = +1

Query: 217 FYCVEVIINKYHSVPLL---PAFIQISLIKEINK*HSIFL 327
           F  V+++ N +  V  +   P F ++ ++KEI + H I L
Sbjct: 275 FSAVDIVTNMFRVVKTMDSIPEFSRLEMLKEIGQTHMIIL 314


  Database: spombe
    Posted date:  Oct 4, 2007 10:57 AM
  Number of letters in database: 2,362,478
  Number of sequences in database:  5004
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 2,690,104
Number of Sequences: 5004
Number of extensions: 53516
Number of successful extensions: 103
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 101
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 103
length of database: 2,362,478
effective HSP length: 71
effective length of database: 2,007,194
effective search space used: 329179816
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)