Bombyx 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= msgV0709.Seq
         (409 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC17G6.16c |ysh1||mRNA cleavage and polyadenylation specificit...    35   0.006
SPAP7G5.03 |||conjugation protein |Schizosaccharomyces pombe|chr...    26   2.6  

>SPAC17G6.16c |ysh1||mRNA cleavage and polyadenylation specificity
           factor complex subunit Ysh1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 775

 Score = 34.7 bits (76), Expect = 0.006
 Identities = 12/25 (48%), Positives = 18/25 (72%)
 Frame = +3

Query: 252 QSCIMLEFKGKXIMLDCGXHPGLXG 326
           +SC ++++KGK +MLD G HP   G
Sbjct: 50  RSCHVIQYKGKTVMLDAGVHPAYTG 74



 Score = 25.4 bits (53), Expect = 3.4
 Identities = 19/57 (33%), Positives = 22/57 (38%)
 Frame = +1

Query: 208 DQLTIRPLGAGQEVGSHASCWSSKGKX*CWTVAXILDXLXWTALPFIDLXEAD*VDL 378
           D L    LGAG EVG        KGK               +ALPF D  +   VD+
Sbjct: 35  DLLEFINLGAGNEVGRSCHVIQYKGKTVMLDAGVHPAYTGLSALPFFDEFDLSTVDV 91


>SPAP7G5.03 |||conjugation protein |Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 703

 Score = 25.8 bits (54), Expect = 2.6
 Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
 Frame = -2

Query: 225 SYCQLIAFLRRHWISAFSWICSHFVYLXIFIY-RDLTNSL 109
           SY  L A L + WIS +S +C  ++ +  F++ +DL   +
Sbjct: 4   SYLSLAARLSQCWISPWS-LCCLYILMQFFLFTKDLNTKI 42


  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: 1,393,616
Number of Sequences: 5004
Number of extensions: 23809
Number of successful extensions: 49
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 47
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): 49
length of database: 2,362,478
effective HSP length: 66
effective length of database: 2,032,214
effective search space used: 140222766
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)