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= rbmnc19c08
         (762 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC4H3.02c |||sequence orphan|Schizosaccharomyces pombe|chr 1||...    27   2.2  
SPAC16C9.06c |upf1||ATP-dependent RNA helicase Upf1|Schizosaccha...    26   6.7  

>SPAC4H3.02c |||sequence orphan|Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 391

 Score = 27.5 bits (58), Expect = 2.2
 Identities = 15/49 (30%), Positives = 22/49 (44%)
 Frame = +2

Query: 605 FFDTVYLRRVEPIQFS*LLLFVIHYIRLHLRPFLGPKCYYRCPPLAQLD 751
           + DT  L  V P++F     + +HY    + PF  P   Y  P   +LD
Sbjct: 97  YIDTATLC-VGPLRFEDTKFYFVHYSNSPIEPFAKPNISYVNPQWNELD 144


>SPAC16C9.06c |upf1||ATP-dependent RNA helicase
           Upf1|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 925

 Score = 25.8 bits (54), Expect = 6.7
 Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
 Frame = -3

Query: 310 YKFDNSSGARFQLNNENVKLSLD*KKHIYIF*CAFEFAKKYVSIHHV*C*SFIGE-ELLI 134
           YKF+       +L +EN +LS+  +K + I   A E  K+ +   HV C + +G  +  I
Sbjct: 496 YKFNPELQRLLKLRSENNELSIQDEKKLRILVAAAE--KELLRAAHVICCTCVGAGDRRI 553

Query: 133 N*YKQR 116
           + YK R
Sbjct: 554 SKYKFR 559


  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: 2,951,353
Number of Sequences: 5004
Number of extensions: 61794
Number of successful extensions: 133
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 130
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): 133
length of database: 2,362,478
effective HSP length: 71
effective length of database: 2,007,194
effective search space used: 365309308
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)