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= NV060213.seq
         (670 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC23D3.08 |usp108||U1 snRNP-associated protein Usp108|Schizosa...    26   4.3  
SPAC688.08 |srb8|med12|mediator complex subunit Srb8 |Schizosacc...    26   4.3  
SPBPJ4664.02 |||glycoprotein |Schizosaccharomyces pombe|chr 2|||...    25   7.5  

>SPAC23D3.08 |usp108||U1 snRNP-associated protein
           Usp108|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 382

 Score = 26.2 bits (55), Expect = 4.3
 Identities = 20/70 (28%), Positives = 34/70 (48%), Gaps = 1/70 (1%)
 Frame = -3

Query: 263 VFSLSNGIXTII-ETILFRMASMSDSLGSLKQASQTPTILCRSSSMPLGDFSSEISAPRL 87
           V SL  G   +I + ++  + S+S+S   L  AS  P    R  ++   +  + +    L
Sbjct: 115 VSSLILGSKVLIHQNLIPSLFSVSNSTKLLYSASLLPRSSERLVTLETNEIDASVVIETL 174

Query: 86  LKYLLSSSAF 57
           LKY+LS  +F
Sbjct: 175 LKYILSRISF 184


>SPAC688.08 |srb8|med12|mediator complex subunit Srb8
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1233

 Score = 26.2 bits (55), Expect = 4.3
 Identities = 13/31 (41%), Positives = 17/31 (54%)
 Frame = -3

Query: 479 VSKLFPKLLNSSEDFPDKSNSCSQFYDMXIY 387
           + KLF   LN S D PD +    QFY++  Y
Sbjct: 656 MGKLFQVELNFSYDSPDVNLLIEQFYEITSY 686


>SPBPJ4664.02 |||glycoprotein |Schizosaccharomyces pombe|chr
            2|||Manual
          Length = 3971

 Score = 25.4 bits (53), Expect = 7.5
 Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
 Frame = -3

Query: 203  SMSDSLGSLKQASQTPTILCRSSSMPLGD--FSSEISAPRLLKYLLSSSAFN 54
            S + ++ S   AS   ++L   SS  L    FSS  S P  L Y +SSS+ +
Sbjct: 3610 SSTRAIESESTASHRSSVLSELSSYDLSTSAFSSSSSEPSTLDYSVSSSSLS 3661


  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: 2,214,121
Number of Sequences: 5004
Number of extensions: 35279
Number of successful extensions: 85
Number of sequences better than 10.0: 3
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: 70
effective length of database: 2,012,198
effective search space used: 305854096
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)