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= wdS20960
         (550 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPBC3E7.14 |smf1|SPBC4F6.01|Sm snRNP core protein Smf1|Schizosac...    86   3e-18
SPAC2F3.17c |lsm6||U6 snRNP-associated protein Lsm6|Schizosaccha...    58   6e-10
SPBC30D10.06 |lsm4||U6 snRNP-associated protein Lsm4|Schizosacch...    37   0.002
SPAC26A3.08 |smb1|smb|Sm snRNP core protein Smb1|Schizosaccharom...    30   0.20 
SPBC9B6.05c |lsm3||U6 snRNP-associated protein Lsm3|Schizosaccha...    27   1.4  
SPBC2D10.06 |rep1|rec16|MBF transcription factor complex subunit...    25   7.3  
SPAC57A7.11 |mip1||WD repeat protein Mip1|Schizosaccharomyces po...    25   7.3  

>SPBC3E7.14 |smf1|SPBC4F6.01|Sm snRNP core protein
           Smf1|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 78

 Score = 86.2 bits (204), Expect = 3e-18
 Identities = 39/55 (70%), Positives = 42/55 (76%)
 Frame = +1

Query: 91  INPKPFLNSLTGKSVLVKLKWGHEYKGLLVSTDGYMNLQLANTEELVDGTCTGNL 255
           +NPKPFL  L GK VLV+LKWG EYKG L S D YMNLQL N EELVDG  TG+L
Sbjct: 6   VNPKPFLQGLIGKPVLVRLKWGQEYKGTLQSVDSYMNLQLLNAEELVDGVKTGDL 60



 Score = 29.1 bits (62), Expect = 0.45
 Identities = 11/13 (84%), Positives = 13/13 (100%)
 Frame = +3

Query: 255 GEVLIRCNNVLYV 293
           GE+LIRCNNVL+V
Sbjct: 61  GEILIRCNNVLWV 73


>SPAC2F3.17c |lsm6||U6 snRNP-associated protein
           Lsm6|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 75

 Score = 58.4 bits (135), Expect = 6e-10
 Identities = 27/51 (52%), Positives = 34/51 (66%)
 Frame = +1

Query: 94  NPKPFLNSLTGKSVLVKLKWGHEYKGLLVSTDGYMNLQLANTEELVDGTCT 246
           +P  FLN + GK VL++L  G +YKG+L   DGYMNL L  TEE V+G  T
Sbjct: 4   SPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVNGKKT 54



 Score = 25.0 bits (52), Expect = 7.3
 Identities = 10/18 (55%), Positives = 12/18 (66%)
 Frame = +3

Query: 252 FGEVLIRCNNVLYVRGAD 305
           +G+  IR NNVLYV   D
Sbjct: 57  YGDAFIRGNNVLYVSALD 74


>SPBC30D10.06 |lsm4||U6 snRNP-associated protein
           Lsm4|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 121

 Score = 36.7 bits (81), Expect = 0.002
 Identities = 17/38 (44%), Positives = 23/38 (60%)
 Frame = +1

Query: 97  PKPFLNSLTGKSVLVKLKWGHEYKGLLVSTDGYMNLQL 210
           P   LN+  G+ +LV+LK G  + G L + D YMNL L
Sbjct: 3   PLTLLNATQGRPILVELKNGETFNGHLENCDNYMNLTL 40


>SPAC26A3.08 |smb1|smb|Sm snRNP core protein
           Smb1|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 147

 Score = 30.3 bits (65), Expect = 0.20
 Identities = 15/37 (40%), Positives = 23/37 (62%)
 Frame = +1

Query: 115 SLTGKSVLVKLKWGHEYKGLLVSTDGYMNLQLANTEE 225
           SL   S+ V  K G  + G L++ DG+MNL L++ +E
Sbjct: 8   SLLNHSLNVTTKDGRTFVGQLLAFDGFMNLVLSDCQE 44


>SPBC9B6.05c |lsm3||U6 snRNP-associated protein
           Lsm3|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 93

 Score = 27.5 bits (58), Expect = 1.4
 Identities = 13/33 (39%), Positives = 20/33 (60%)
 Frame = +1

Query: 133 VLVKLKWGHEYKGLLVSTDGYMNLQLANTEELV 231
           V VKL+   E  G L + D ++N+ L + EE+V
Sbjct: 22  VYVKLRGDRELNGRLHAYDEHLNMVLGDAEEIV 54


>SPBC2D10.06 |rep1|rec16|MBF transcription factor complex subunit
           Rep1|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 472

 Score = 25.0 bits (52), Expect = 7.3
 Identities = 13/33 (39%), Positives = 15/33 (45%)
 Frame = -2

Query: 282 HYCILLKLHQITCTSSIDKFFSISKLQIHVAIC 184
           H   LL   +  C      F SISKLQ H + C
Sbjct: 410 HSSPLLSRSRFICCYCTKPFLSISKLQEHESSC 442


>SPAC57A7.11 |mip1||WD repeat protein Mip1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 1313

 Score = 25.0 bits (52), Expect = 7.3
 Identities = 8/28 (28%), Positives = 20/28 (71%)
 Frame = +1

Query: 400 ILSKKIEISYYSVSSKITLGIYPEILMI 483
           +LSK +++  ++V   +++GI+P +L +
Sbjct: 510 LLSKFLDLGVWAVDLALSIGIFPYVLKL 537


  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: 1,890,776
Number of Sequences: 5004
Number of extensions: 32786
Number of successful extensions: 70
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 67
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): 70
length of database: 2,362,478
effective HSP length: 69
effective length of database: 2,017,202
effective search space used: 227943826
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)