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= bmnc18n13
         (627 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC227.12 |||U4/U6 x U5 tri-snRNP complex subunit Prp4 family|S...    36   0.004
SPAC2G11.02 |urb2||ribosome biogenesis protein Urb2 |Schizosacch...    28   1.3  
SPAC3F10.08c |||rRNA processing protein Faf1|Schizosaccharomyces...    28   1.3  
SPAC27D7.14c |tpr1|SPAC637.02c|RNA polymerase II associated Paf1...    26   5.1  
SPAC8F11.03 |msh3|swi4|MutS protein homolog 3|Schizosaccharomyce...    25   6.8  
SPBC1734.01c ||SPBC337.17c|RNA-binding protein|Schizosaccharomyc...    25   9.0  

>SPAC227.12 |||U4/U6 x U5 tri-snRNP complex subunit Prp4
           family|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 462

 Score = 36.3 bits (80), Expect = 0.004
 Identities = 17/62 (27%), Positives = 35/62 (56%)
 Frame = +2

Query: 434 LGDIQISNEYMELEEEISRDKKALLEEFERRRKARQLNVSTDDDEVRRSLRQLGEPVCLF 613
           LG+++ +  + E     ++++ A   E + + + + L +  +D +VR  LR+ GEP+  F
Sbjct: 9   LGELE-TRPFSEGITRFTKEQAAYYAEQKEKDRIKALKIPYEDSKVREYLRRYGEPITYF 67

Query: 614 GE 619
           GE
Sbjct: 68  GE 69


>SPAC2G11.02 |urb2||ribosome biogenesis protein Urb2
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1318

 Score = 27.9 bits (59), Expect = 1.3
 Identities = 20/55 (36%), Positives = 28/55 (50%)
 Frame = -2

Query: 224 PIILIGYVLVLIKSFKNLVFVSINSLKTCFYCIEMKIYTNNNYILCCLRFPFKIS 60
           PIIL  +   LIK FK  VF+ I+ +  C       +Y+N N +     FP +IS
Sbjct: 93  PIILNAFEY-LIKEFKKDVFLKISDVFVC-------VYSNLNILYISRSFPDQIS 139


>SPAC3F10.08c |||rRNA processing protein Faf1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 259

 Score = 27.9 bits (59), Expect = 1.3
 Identities = 16/36 (44%), Positives = 24/36 (66%)
 Frame = +2

Query: 464 MELEEEISRDKKALLEEFERRRKARQLNVSTDDDEV 571
           +E EEEI   K+   EE + R+++RQ +  +DDDEV
Sbjct: 100 LEDEEEILAKKR---EEQKLRKRSRQNDDGSDDDEV 132


>SPAC27D7.14c |tpr1|SPAC637.02c|RNA polymerase II associated Paf1
            complex subunit Tpr1|Schizosaccharomyces pombe|chr
            1|||Manual
          Length = 1039

 Score = 25.8 bits (54), Expect = 5.1
 Identities = 12/38 (31%), Positives = 26/38 (68%)
 Frame = +2

Query: 467  ELEEEISRDKKALLEEFERRRKARQLNVSTDDDEVRRS 580
            +L+EE  + ++ +LE  + ++KA + ++S  DDE ++S
Sbjct: 902  QLQEERQKMQEEVLEWRKSQQKASEDDMSLSDDEEKQS 939


>SPAC8F11.03 |msh3|swi4|MutS protein homolog 3|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 1004

 Score = 25.4 bits (53), Expect = 6.8
 Identities = 13/41 (31%), Positives = 23/41 (56%)
 Frame = +2

Query: 455 NEYMELEEEISRDKKALLEEFERRRKARQLNVSTDDDEVRR 577
           N Y E E   S D+ A L   +R+R+ R +  +++ + V+R
Sbjct: 51  NSYQEDEGSSSIDENAPLISIKRKRRIRTVKSTSNKELVQR 91


>SPBC1734.01c ||SPBC337.17c|RNA-binding protein|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 682

 Score = 25.0 bits (52), Expect = 9.0
 Identities = 11/31 (35%), Positives = 18/31 (58%)
 Frame = +2

Query: 473 EEEISRDKKALLEEFERRRKARQLNVSTDDD 565
           E  I + K+   E  +RR++ RQL  + DD+
Sbjct: 472 ETTIEKYKRKAAERKQRRKELRQLKKTKDDE 502


  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: 2,090,691
Number of Sequences: 5004
Number of extensions: 34223
Number of successful extensions: 92
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 91
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): 92
length of database: 2,362,478
effective HSP length: 70
effective length of database: 2,012,198
effective search space used: 277683324
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)