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= rbmmt13f01
         (169 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPMIT.04 |cox3||cytochrome c oxidase 3|Schizosaccharomyces pombe...    63   4e-12
SPCC1753.01c |ssb2|SPCC584.06c, rpa2|single-stranded DNA binding...    26   0.77 
SPBP35G2.09 |usp103|yhc1|U1 snRNP-associated protein Usp103 |Sch...    25   1.8  
SPCC550.11 |||karyopherin|Schizosaccharomyces pombe|chr 3|||Manual     23   4.1  
SPCC830.05c |epl1||histone acetyltransferase complex subunit Epl...    23   4.1  
SPBC3B9.16c |nup120||nucleoporin Nup120|Schizosaccharomyces pomb...    23   4.1  

>SPMIT.04 |cox3||cytochrome c oxidase 3|Schizosaccharomyces
           pombe|chr mitochondrial|||Manual
          Length = 273

 Score = 63.3 bits (147), Expect = 4e-12
 Identities = 26/55 (47%), Positives = 34/55 (61%)
 Frame = -1

Query: 169 GSTFFIATGFHGIHVIIGTLFLLICYIRHLNNHFSKNHHFGFEAAA*Y*HFVDVV 5
           G++F+ ATG HGIH+I+GT+ LL+        H +  HH GFE    Y HF DVV
Sbjct: 206 GASFYFATGLHGIHIIVGTILLLVATYNIYTYHLTNTHHNGFECGIYYWHFCDVV 260


>SPCC1753.01c |ssb2|SPCC584.06c, rpa2|single-stranded DNA binding
           protein Ssb2|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 279

 Score = 25.8 bits (54), Expect = 0.77
 Identities = 13/42 (30%), Positives = 22/42 (52%)
 Frame = -1

Query: 142 FHGIHVIIGTLFLLICYIRHLNNHFSKNHHFGFEAAA*Y*HF 17
           +  I +  G +++   YIR + +H   + HF  EA A + HF
Sbjct: 130 YGNIKIFSGKIYIASQYIRTIKDHNEVHFHF-LEAIAVHLHF 170


>SPBP35G2.09 |usp103|yhc1|U1 snRNP-associated protein Usp103
           |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 182

 Score = 24.6 bits (51), Expect = 1.8
 Identities = 8/11 (72%), Positives = 9/11 (81%)
 Frame = -1

Query: 79  NNHFSKNHHFG 47
           NNHF+K HH G
Sbjct: 162 NNHFTKTHHQG 172


>SPCC550.11 |||karyopherin|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 1029

 Score = 23.4 bits (48), Expect = 4.1
 Identities = 5/17 (29%), Positives = 11/17 (64%)
 Frame = -3

Query: 137 WNSCNNWNFISINLLYS 87
           W+ C  W + S+N +++
Sbjct: 253 WHKCKKWAYYSLNRIFT 269


>SPCC830.05c |epl1||histone acetyltransferase complex subunit Epl1
           |Schizosaccharomyces pombe|chr 3|||Manual
          Length = 557

 Score = 23.4 bits (48), Expect = 4.1
 Identities = 9/22 (40%), Positives = 16/22 (72%)
 Frame = -3

Query: 155 HSNRISWNSCNNWNFISINLLY 90
           HS+  ++N+C++ +F S N LY
Sbjct: 451 HSSLSNFNTCDSLSFSSNNSLY 472


>SPBC3B9.16c |nup120||nucleoporin Nup120|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 1136

 Score = 23.4 bits (48), Expect = 4.1
 Identities = 10/25 (40%), Positives = 18/25 (72%)
 Frame = +2

Query: 2   SYYIYKMSISSCSFKSKVMIFRKVI 76
           S+ IYK++ ++ SFK  V+I + +I
Sbjct: 308 SFSIYKLNANAHSFKLNVVIEKGII 332


  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: 520,737
Number of Sequences: 5004
Number of extensions: 6250
Number of successful extensions: 24
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 24
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): 24
length of database: 2,362,478
effective HSP length: 36
effective length of database: 2,182,334
effective search space used: 41464346
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)