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= bmnc25b07
         (669 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC688.08 |srb8|med12|mediator complex subunit Srb8 |Schizosacc...    28   1.1  
SPAC6F12.16c |mtr4||ATP-dependent RNA helicase, TRAMP complex su...    26   5.6  
SPAC222.03c |tim10||Tim9-Tim10 complex subunit Tim10|Schizosacch...    25   9.9  

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

 Score = 28.3 bits (60), Expect = 1.1
 Identities = 17/35 (48%), Positives = 21/35 (60%)
 Frame = +3

Query: 465 LLKILLSETPGHSFQDLTSEKCNSLLVRAVCTILS 569
           +LKI L+  P   F DL +   +SLL R  CTILS
Sbjct: 734 VLKIALNHPP--YFDDLATTTFSSLLKRDECTILS 766


>SPAC6F12.16c |mtr4||ATP-dependent RNA helicase, TRAMP complex subunit
            Mtr4|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1117

 Score = 25.8 bits (54), Expect = 5.6
 Identities = 26/84 (30%), Positives = 42/84 (50%), Gaps = 2/84 (2%)
 Frame = +3

Query: 297  LERELAGTRRLLWGDHV--KEDVFRRWAQGFQFSPDEPSALIQQEGGPCAAIAPVQGFLL 470
            L+++L+  R ++  D +  ++ V RR   GF  S D    +I+ +G     I+   G LL
Sbjct: 909  LKKKLSKARSIMQLDELNSRKRVLRRL--GFTTSDD----VIEVKGRVACEISSGDGLLL 962

Query: 471  KILLSETPGHSFQDLTSEKCNSLL 542
              L+       F DLT E+C +LL
Sbjct: 963  TELIFNG---MFNDLTPEQCAALL 983


>SPAC222.03c |tim10||Tim9-Tim10 complex subunit
           Tim10|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 89

 Score = 25.0 bits (52), Expect = 9.9
 Identities = 12/33 (36%), Positives = 17/33 (51%)
 Frame = +3

Query: 522 EKCNSLLVRAVCTILSQCLAPKYNVAVYRKNES 620
           E  + +  R V T   +C++PKY  A   K ES
Sbjct: 26  EMMSDIFNRLVMTCHKKCISPKYYEADLTKGES 58


  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: 2,779,946
Number of Sequences: 5004
Number of extensions: 56940
Number of successful extensions: 143
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 142
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): 143
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)