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= bmnc3f12
         (765 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC18G6.04c |shm2||serine hydroxymethyltransferase Shm2 |Schizo...    27   3.9  
SPBC1105.06 |pmc4|med4|RNA polymerase II holoenzyme component Pm...    25   9.0  
SPAC14C4.05c |mug61||Sad1 interacting factor|Schizosaccharomyces...    25   9.0  

>SPAC18G6.04c |shm2||serine hydroxymethyltransferase Shm2
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 472

 Score = 26.6 bits (56), Expect = 3.9
 Identities = 10/27 (37%), Positives = 18/27 (66%)
 Frame = +3

Query: 243 EVIPITGSVGLSAVRSSKSKYRRLKAF 323
           EV+ +T  +  +A++  KSK+R  KA+
Sbjct: 418 EVVSLTKKINEAALKEGKSKFRDFKAY 444


>SPBC1105.06 |pmc4|med4|RNA polymerase II holoenzyme component Pmc4
           |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 239

 Score = 25.4 bits (53), Expect = 9.0
 Identities = 9/19 (47%), Positives = 13/19 (68%)
 Frame = +2

Query: 611 KAGGQAQAPVHYGHPKQDE 667
           + G  A+APVHY  P +D+
Sbjct: 127 ETGQDAKAPVHYPWPSEDQ 145


>SPAC14C4.05c |mug61||Sad1 interacting factor|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 844

 Score = 25.4 bits (53), Expect = 9.0
 Identities = 10/40 (25%), Positives = 22/40 (55%)
 Frame = -3

Query: 517 THDVAVTLFLVVLEVSCVRIFYAISVCVVRLGHVIYGLQM 398
           +H V++  +L    +SC RI+  I +     G V++ +++
Sbjct: 692 SHTVSLMKYLTSAVISCWRIYLLIGILAAITGTVVWRIRV 731


  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: 3,190,487
Number of Sequences: 5004
Number of extensions: 68510
Number of successful extensions: 183
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 181
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): 183
length of database: 2,362,478
effective HSP length: 71
effective length of database: 2,007,194
effective search space used: 367316502
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)