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= br--1122
         (560 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPCC1739.09c |cox13||cytochrome c oxidase subunit VIa|Schizosacc...    35   0.009
SPAC1805.04 |nup132|Nup133b, Nup133b|nucleoporin Nup132|Schizosa...    25   5.8  

>SPCC1739.09c |cox13||cytochrome c oxidase subunit
           VIa|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 130

 Score = 34.7 bits (76), Expect = 0.009
 Identities = 13/22 (59%), Positives = 16/22 (72%)
 Frame = +1

Query: 244 YKAFPWGDGQKSLFHNPHVNAL 309
           +K +PWGDG K+LF N  VN L
Sbjct: 104 FKKYPWGDGSKTLFWNDKVNHL 125



 Score = 29.5 bits (63), Expect = 0.35
 Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
 Frame = +2

Query: 116 WKRMSFFVAFPAIALGMLNA---YLAHQEE-HHERPPFVPYEYMRIRTKR 253
           WK++++++  PA+ L   NA   Y  HQE   H       Y +  +R K+
Sbjct: 57  WKKVTYYIGGPALILASANAYYIYCKHQEHAKHVEDTDPGYSFENLRFKK 106


>SPAC1805.04 |nup132|Nup133b, Nup133b|nucleoporin
           Nup132|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1162

 Score = 25.4 bits (53), Expect = 5.8
 Identities = 11/34 (32%), Positives = 20/34 (58%)
 Frame = -3

Query: 339 NLVVIFITAGKGIHMRVVEKGLLSITPWERFVRM 238
           +L V+   A   +H++  +K ++S T WE  +RM
Sbjct: 370 SLFVVLTDAVIIVHVQEDDKDIVSRTSWEEVIRM 403


  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: 2,009,062
Number of Sequences: 5004
Number of extensions: 39784
Number of successful extensions: 75
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 73
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): 75
length of database: 2,362,478
effective HSP length: 69
effective length of database: 2,017,202
effective search space used: 236012634
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)