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= NRPG0090
         (722 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC16A10.06c |nse2||Smc5-6 complex non-SMC subunit 2 |Schizosac...    28   1.2  
SPAC19A8.08 |upf2||nonsense-mediated decay protein Upf2|Schizosa...    25   8.3  

>SPAC16A10.06c |nse2||Smc5-6 complex non-SMC subunit 2
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 250

 Score = 28.3 bits (60), Expect = 1.2
 Identities = 12/33 (36%), Positives = 19/33 (57%)
 Frame = -2

Query: 703 ATRTSSHIQYITTHSTVMTFLYYYIYIRMEHTE 605
           A +TS +I      +T MTFL + +Y+  E+ E
Sbjct: 85  ANKTSENISDFEVRTTEMTFLLFLLYVDEEYEE 117


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

 Score = 25.4 bits (53), Expect = 8.3
 Identities = 12/30 (40%), Positives = 20/30 (66%)
 Frame = +1

Query: 439 NLA*DIFKISLSIYKLRTTTCGPSVYRAIT 528
           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: 2,760,135
Number of Sequences: 5004
Number of extensions: 55004
Number of successful extensions: 85
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 84
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): 85
length of database: 2,362,478
effective HSP length: 71
effective length of database: 2,007,194
effective search space used: 339215786
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)