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= psV30213.Seq
         (767 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC6B12.02c |mus7||DNA repair protein Mus7|Schizosaccharomyces ...    29   0.97 
SPAC19A8.08 |upf2||nonsense-mediated decay protein Upf2|Schizosa...    25   9.0  

>SPAC6B12.02c |mus7||DNA repair protein Mus7|Schizosaccharomyces
            pombe|chr 1|||Manual
          Length = 1888

 Score = 28.7 bits (61), Expect = 0.97
 Identities = 28/102 (27%), Positives = 43/102 (42%), Gaps = 5/102 (4%)
 Frame = +3

Query: 321  IVDIEALAFIQDIRR-MLESRLRHFQDKFEYIQATNHNMRTVGLPS----NNTRC*YQIK 485
            + D+E  A + + +R +L  R+ +    F  I  TN   +T GLPS    N      +I 
Sbjct: 1696 VADLEKYALLYENKRPLLSGRIYYLISSFVAISMTN---KTSGLPSSLICNLQNFLARIA 1752

Query: 486  RTFNYKDNVA*TK*PFTPQYVPFVCKYNNIKKS*QYCVSLWY 611
            R F  +         F P Y    C+   +K   Q+C + WY
Sbjct: 1753 RDFLLELCWNIEGSEFPPPYNTVDCRSKFVKTIQQHCSADWY 1794


>SPAC19A8.08 |upf2||nonsense-mediated decay protein
           Upf2|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1049

 Score = 25.4 bits (53), Expect = 9.0
 Identities = 12/30 (40%), Positives = 20/30 (66%)
 Frame = +1

Query: 373 NLA*DIFKISLSIYKLRTTTCGPSVYRAIT 462
           N+  D+F++ L +  L+T  CGPS+ R+ T
Sbjct: 789 NINNDMFRLRLIVVVLQT--CGPSIIRSKT 816


  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: 3,233,047
Number of Sequences: 5004
Number of extensions: 69151
Number of successful extensions: 144
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 141
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): 144
length of database: 2,362,478
effective HSP length: 71
effective length of database: 2,007,194
effective search space used: 369323696
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)