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= fdpeP04_F_O11
         (987 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC26A3.08 |smb1|smb|Sm snRNP core protein Smb1|Schizosaccharom...    66   9e-12
SPBC9B6.05c |lsm3||U6 snRNP-associated protein Lsm3|Schizosaccha...    33   0.082
SPCC1840.10 |lsm8||U6 snRNP-associated protein Lsm8 |Schizosacch...    31   0.19 
SPBC11G11.06c |sme1||Sm snRNP core protein Sme1|Schizosaccharomy...    31   0.19 
SPCC285.12 |lsm7||U6 snRNP-associated protein Lsm7|Schizosacchar...    31   0.19 
SPAC2C4.03c |smd2|cwf9|Sm snRNP core protein Smd2|Schizosaccharo...    29   1.0  
SPAC12B10.03 |||WD repeat protein, human WDR20 family|Schizosacc...    26   9.4  

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

 Score = 65.7 bits (153), Expect = 9e-12
 Identities = 32/58 (55%), Positives = 41/58 (70%), Gaps = 1/58 (1%)
 Frame = +2

Query: 236 TFIGTFKAFDKHMNLILGDCEEFRKIKSKN-SKTADREEKRTLGFVLLRGENIVSLTI 406
           TF+G   AFD  MNL+L DC+E+R IK +N    +  EEKR LG V+LRGE IVSL++
Sbjct: 23  TFVGQLLAFDGFMNLVLSDCQEYRHIKKQNVPSNSVYEEKRMLGLVILRGEFIVSLSV 80


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

 Score = 32.7 bits (71), Expect = 0.082
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
 Frame = +2

Query: 245 GTFKAFDKHMNLILGDCEEFRKIKSKNSKTADREEK---RTLGFVLLRGENIV 394
           G   A+D+H+N++LGD EE   I        D+  K   +    + +RG++++
Sbjct: 34  GRLHAYDEHLNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEMLFVRGDSVI 86


>SPCC1840.10 |lsm8||U6 snRNP-associated protein Lsm8
           |Schizosaccharomyces pombe|chr 3|||Manual
          Length = 94

 Score = 31.5 bits (68), Expect = 0.19
 Identities = 21/50 (42%), Positives = 26/50 (52%)
 Frame = +2

Query: 242 IGTFKAFDKHMNLILGDCEEFRKIKSKNSKTADREEKRTLGFVLLRGENI 391
           +G+ K FD   NLIL D   F +I S +       E   LG  LLRGEN+
Sbjct: 22  LGSLKGFDHTTNLILSD--SFERIISMDQDM----ETIPLGVYLLRGENV 65


>SPBC11G11.06c |sme1||Sm snRNP core protein Sme1|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 84

 Score = 31.5 bits (68), Expect = 0.19
 Identities = 18/49 (36%), Positives = 29/49 (59%)
 Frame = +2

Query: 245 GTFKAFDKHMNLILGDCEEFRKIKSKNSKTADREEKRTLGFVLLRGENI 391
           G  + FD+ MN++L D  +   + +KN+K       R LG +LL+G+NI
Sbjct: 40  GQIRGFDEFMNIVLDDAVQ---VDAKNNK-------RELGRILLKGDNI 78


>SPCC285.12 |lsm7||U6 snRNP-associated protein
           Lsm7|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 113

 Score = 31.5 bits (68), Expect = 0.19
 Identities = 19/50 (38%), Positives = 25/50 (50%)
 Frame = +2

Query: 245 GTFKAFDKHMNLILGDCEEFRKIKSKNSKTADREEKRTLGFVLLRGENIV 394
           G  K FD+ MNL+L D EE  +       T      R LG V++RG  +V
Sbjct: 48  GILKGFDQLMNLVLDDVEEQLRNPEDGKLTG---AIRKLGLVVVRGTTLV 94


>SPAC2C4.03c |smd2|cwf9|Sm snRNP core protein
           Smd2|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 115

 Score = 29.1 bits (62), Expect = 1.0
 Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
 Frame = +2

Query: 254 KAFDKHMNLILGDCEEF---RKIKSKNSKTADREEKRTLGFVLLRGENIV 394
           KAFD+H N++L + +E    +K  +   K     + R +  + LRG+ +V
Sbjct: 58  KAFDRHSNMVLENVKEMWTEKKRTASGKKGKAINKDRFISKMFLRGDGVV 107


>SPAC12B10.03 |||WD repeat protein, human WDR20
           family|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 543

 Score = 25.8 bits (54), Expect = 9.4
 Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
 Frame = -2

Query: 644 RGHPSWGL-LAFEEEQKVDHDFLVPCVVEMARLLLWQDLEDPEVLRPGQCLYQQHEH 477
           +GH SW   + F+  +  D ++ +  V    +LLLW D     + RP   +Y  + H
Sbjct: 403 QGHKSWVTDVIFDAWRCDDDNYRIASVGLDRKLLLW-DFSVSAIHRPKSAVYYVNHH 458


  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: 1,950,057
Number of Sequences: 5004
Number of extensions: 30712
Number of successful extensions: 68
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 64
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): 65
length of database: 2,362,478
effective HSP length: 73
effective length of database: 1,997,186
effective search space used: 509282430
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)