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--0238
         (657 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC1782.10c |nhp2||RNA-binding protein Nhp2 |Schizosaccharomyce...    27   2.4  
SPAC664.15 |||CCR4-Not complex subunit Caf4/Mdv1 |Schizosaccharo...    26   4.2  
SPAC222.10c |byr4||two-component GAP Byr4|Schizosaccharomyces po...    25   7.3  
SPBC13G1.10c |mug81||ATP-dependent RNA helicase Slh1|Schizosacch...    25   9.6  

>SPAC1782.10c |nhp2||RNA-binding protein Nhp2 |Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 154

 Score = 27.1 bits (57), Expect = 2.4
 Identities = 13/40 (32%), Positives = 23/40 (57%)
 Frame = +1

Query: 298 LPTVKCCHKPLLKKDMSXRSGNTVEGSSFQSRMVRGKKDL 417
           LP +    KPL  K ++ +   TV+ +S Q  ++RG K++
Sbjct: 22  LPALMPIAKPLAPKKLNKKMMKTVKKASKQKHILRGVKEV 61


>SPAC664.15 |||CCR4-Not complex subunit Caf4/Mdv1
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 651

 Score = 26.2 bits (55), Expect = 4.2
 Identities = 13/23 (56%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
 Frame = -2

Query: 386 WNELPST-VFPERNDISFFKRGL 321
           WN   S+ V P+RN IS F RGL
Sbjct: 44  WNFFDSSPVTPQRNPISLFVRGL 66


>SPAC222.10c |byr4||two-component GAP Byr4|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 665

 Score = 25.4 bits (53), Expect = 7.3
 Identities = 13/39 (33%), Positives = 19/39 (48%)
 Frame = +1

Query: 301 PTVKCCHKPLLKKDMSXRSGNTVEGSSFQSRMVRGKKDL 417
           P +K   K L K+D S     T++ SS  S  V+G   +
Sbjct: 296 PNLKYSSKTLSKRDTSSHYPETLKASSKHSSPVKGNSSI 334


>SPBC13G1.10c |mug81||ATP-dependent RNA helicase
            Slh1|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 1935

 Score = 25.0 bits (52), Expect = 9.6
 Identities = 10/32 (31%), Positives = 21/32 (65%)
 Frame = -1

Query: 648  IKDVNRAHSPDDYIFXILHSKLKSQVYYITLI 553
            ++ +N+  +PD YIF  L  K +S+ +++ +I
Sbjct: 1840 LRRLNQPLNPDFYIFAPLFPKPQSEGFFVLII 1871


  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: 2,540,657
Number of Sequences: 5004
Number of extensions: 50365
Number of successful extensions: 113
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 112
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): 113
length of database: 2,362,478
effective HSP length: 70
effective length of database: 2,012,198
effective search space used: 297805304
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)