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--1788X
         (414 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC17G6.16c |ysh1||mRNA cleavage and polyadenylation specificit...    28   0.66 
SPBC1604.02c |||PPR repeat protein|Schizosaccharomyces pombe|chr...    26   2.0  
SPBC21C3.01c |vps13a|vps1301, SPBC31F10.18c|chorein homolog|Schi...    25   3.5  
SPCC162.08c |nup211||nuclear pore complex associated protein|Sch...    25   3.5  
SPAC1486.05 |nup189||nucleoporin Nup189|Schizosaccharomyces pomb...    25   6.1  
SPBC83.16c |||conserved fungal protein|Schizosaccharomyces pombe...    24   8.1  

>SPAC17G6.16c |ysh1||mRNA cleavage and polyadenylation specificity
           factor complex subunit Ysh1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 775

 Score = 27.9 bits (59), Expect = 0.66
 Identities = 18/58 (31%), Positives = 31/58 (53%)
 Frame = -3

Query: 268 YKLTSLRSRLNRF*PISNVFSFSSQQLIPFFSNLNDVHFNHFERKFKYLISSSLQIGR 95
           YKL S    L  F  ++     + +Q+IPFFS++   +F H ++ F Y+  S  + G+
Sbjct: 516 YKLMSAED-LRDFSDLTTTV-LTQKQVIPFFSSMELANF-HLKQMFGYVKQSKTKAGQ 570


>SPBC1604.02c |||PPR repeat protein|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 697

 Score = 26.2 bits (55), Expect = 2.0
 Identities = 13/49 (26%), Positives = 26/49 (53%)
 Frame = -2

Query: 209 FLFFSTTYSIFFKSKRCSF*PFREKIQILNIQFFTDWSREQRTQTSTIR 63
           F FF  TY +F +SK  ++ PF  ++ I +   F ++   ++   S ++
Sbjct: 239 FWFFEKTYDLFMQSK-LTWRPFTYRVLIESFMKFGNFEEAEKLAYSYVK 286


>SPBC21C3.01c |vps13a|vps1301, SPBC31F10.18c|chorein
            homolog|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 3071

 Score = 25.4 bits (53), Expect = 3.5
 Identities = 12/39 (30%), Positives = 20/39 (51%)
 Frame = -3

Query: 223  ISNVFSFSSQQLIPFFSNLNDVHFNHFERKFKYLISSSL 107
            I +++  S   LIP      + + +   RKF YL++S L
Sbjct: 886  ICSLYRRSENYLIPVVRAFTEFYIDLVVRKFDYLVTSKL 924


>SPCC162.08c |nup211||nuclear pore complex associated
            protein|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 1837

 Score = 25.4 bits (53), Expect = 3.5
 Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
 Frame = -3

Query: 379  VEFSNYDVKTLSIPKVLPXRDQ--EKFTEILRNTTDCTRYKLTSLRSRL 239
            +E SN   K L+  K L   ++  E+F  ++ +       K+TSLRS L
Sbjct: 964  LEKSNIQQKYLASEKTLEMMNETHEQFKHLVESEISTREEKITSLRSEL 1012


>SPAC1486.05 |nup189||nucleoporin Nup189|Schizosaccharomyces pombe|chr
            1|||Manual
          Length = 1778

 Score = 24.6 bits (51), Expect = 6.1
 Identities = 12/30 (40%), Positives = 17/30 (56%)
 Frame = -3

Query: 127  YLISSSLQIGRENRELKLVQSAVCDPLVNY 38
            YL+  +  +G    EL + +SA C PL NY
Sbjct: 1485 YLLLKAYAMGTSLEELTIPESAKCSPL-NY 1513


>SPBC83.16c |||conserved fungal protein|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 563

 Score = 24.2 bits (50), Expect = 8.1
 Identities = 10/29 (34%), Positives = 14/29 (48%)
 Frame = -3

Query: 178 FSNLNDVHFNHFERKFKYLISSSLQIGRE 92
           FS +N  HF+HF   F     S + +  E
Sbjct: 138 FSKINKRHFDHFSAAFHSTGRSDVDLANE 166


  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: 1,542,365
Number of Sequences: 5004
Number of extensions: 26902
Number of successful extensions: 57
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 56
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): 57
length of database: 2,362,478
effective HSP length: 66
effective length of database: 2,032,214
effective search space used: 144287194
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)