Silkworm 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= wdV10393
         (497 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPBC776.11 |rpl2801|rpl28-1|60S ribosomal protein Ll28B 27a|Schi...    87   1e-18
SPCC5E4.07 |rpl2802|rpl28-2|60S ribosomal protein L27a.2/L28A|Sc...    87   1e-18
SPBC1A4.10c |pmc1|SPBP23A10.01c, med14|mediator complex subunit ...    25   6.3  
SPBC1921.02 |rad60||DNA repair protein Rad60 |Schizosaccharomyce...    25   8.4  

>SPBC776.11 |rpl2801|rpl28-1|60S ribosomal protein Ll28B
           27a|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 148

 Score = 87.4 bits (207), Expect = 1e-18
 Identities = 41/80 (51%), Positives = 46/80 (57%)
 Frame = +2

Query: 14  MATSKKKTRKLRGHVSXXXXXXXXXXXXXXXXXNAGGEHHHRINMDKYHPGYFGKLGMRN 193
           M T   KTRKLRGHVS                  AGG  H R + DKYHPGYFGK+GMR 
Sbjct: 1   MPTHTSKTRKLRGHVSAGHGRIGKHRKHPGGRGKAGGLQHLRSHFDKYHPGYFGKVGMRR 60

Query: 194 FHFRKNKNFCPVLNLDKLWT 253
           FH  KN  + P +NLD+LWT
Sbjct: 61  FHLMKNPLWRPTVNLDRLWT 80



 Score = 27.1 bits (57), Expect = 1.6
 Identities = 17/68 (25%), Positives = 24/68 (35%)
 Frame = +1

Query: 253 IVSEQTRLKYASAPDGKVPVINIVKAXXXXXXXXXXXPKQPVIVXXXXXXXXXXXXXXDV 432
           +V  +TR KY        PVIN++++           P  PVI+                
Sbjct: 81  LVPNETREKYLGKNTEVAPVINVLQSGYGKVLGKGRLPDTPVIIQTRYVSRRAEEKIKQA 140

Query: 433 GGACVLSA 456
           GG   L A
Sbjct: 141 GGVVELIA 148


>SPCC5E4.07 |rpl2802|rpl28-2|60S ribosomal protein
           L27a.2/L28A|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 148

 Score = 87.0 bits (206), Expect = 1e-18
 Identities = 41/80 (51%), Positives = 46/80 (57%)
 Frame = +2

Query: 14  MATSKKKTRKLRGHVSXXXXXXXXXXXXXXXXXNAGGEHHHRINMDKYHPGYFGKLGMRN 193
           M T   KTRKLRGHVS                  AGG  H R + DKYHPGYFGK+GMR 
Sbjct: 1   MPTHVSKTRKLRGHVSAGHGRIGKHRKHPGGRGKAGGLQHLRSHFDKYHPGYFGKVGMRR 60

Query: 194 FHFRKNKNFCPVLNLDKLWT 253
           FH  KN  + P +NLD+LWT
Sbjct: 61  FHLMKNPLWRPTVNLDRLWT 80



 Score = 24.6 bits (51), Expect = 8.4
 Identities = 16/68 (23%), Positives = 24/68 (35%)
 Frame = +1

Query: 253 IVSEQTRLKYASAPDGKVPVINIVKAXXXXXXXXXXXPKQPVIVXXXXXXXXXXXXXXDV 432
           ++  + R KY        PVIN++++           P+ PVIV                
Sbjct: 81  LLPNEARDKYLGKNTEVAPVINVLQSGYGKVLGKGRLPETPVIVQTRYVSRRAEEKIKQA 140

Query: 433 GGACVLSA 456
           GG   L A
Sbjct: 141 GGVVELIA 148


>SPBC1A4.10c |pmc1|SPBP23A10.01c, med14|mediator complex subunit
           Pmc1 |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 879

 Score = 25.0 bits (52), Expect = 6.3
 Identities = 13/33 (39%), Positives = 22/33 (66%)
 Frame = +1

Query: 220 LSSFELR*ALDIVSEQTRLKYASAPDGKVPVIN 318
           L + +L  ALDI+S  T L+ A+AP  K+ +++
Sbjct: 113 LRNSDLVTALDILSTGTSLRLANAPTSKLYMLS 145


>SPBC1921.02 |rad60||DNA repair protein Rad60 |Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 406

 Score = 24.6 bits (51), Expect = 8.4
 Identities = 10/20 (50%), Positives = 15/20 (75%)
 Frame = -3

Query: 324 DNIDDGDLAIWSRCILQPRL 265
           DN+D+ DLA +S+ I +P L
Sbjct: 2   DNLDEDDLAFFSKPIKKPPL 21


  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: 1,832,961
Number of Sequences: 5004
Number of extensions: 34858
Number of successful extensions: 75
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 71
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): 73
length of database: 2,362,478
effective HSP length: 68
effective length of database: 2,022,206
effective search space used: 196153982
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)