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= rbmnc10n15
         (842 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC1565.05 |||sequence orphan|Schizosaccharomyces pombe|chr 1||...    29   0.82 
SPCC16A11.01 ||SPCC63.15|conserved fungal protein|Schizosaccharo...    27   2.5  
SPCC306.03c |cnd2||condensin subunit Cnd2|Schizosaccharomyces po...    27   2.5  
SPBC543.09 |||mitochondrial m-AAA protease|Schizosaccharomyces p...    27   4.4  
SPBC21D10.10 |||bromodomain protein|Schizosaccharomyces pombe|ch...    27   4.4  
SPAC19A8.08 |upf2||nonsense-mediated decay protein Upf2|Schizosa...    26   5.8  
SPBC1539.05 |cog3||Golgi transport complex subunit Cog3 |Schizos...    26   7.7  
SPCC965.13 |||membrane transporter|Schizosaccharomyces pombe|chr...    26   7.7  
SPAPB1A10.04c |cwp1||geranylgeranyltransferase I alpha subunit C...    26   7.7  

>SPAC1565.05 |||sequence orphan|Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 773

 Score = 29.1 bits (62), Expect = 0.82
 Identities = 28/122 (22%), Positives = 55/122 (45%), Gaps = 2/122 (1%)
 Frame = -2

Query: 739 LSFNVFFVNV--RIMKRPFNADRCIKNFSLLGNEYHVLVSSLQRVLNDQLMCLLKDIFTN 566
           + F+  F+ V  R   +  N  + +K  S+L   +   + SL   L+++    +    + 
Sbjct: 470 IEFDAKFLGVVERYQNQYANNCKILKTSSVLPIPFAHAIESLLFSLDEENELQVSCAASG 529

Query: 565 KFDYKIKRRLNHLKRLFANLPAESYNSCVNDLTDMYLYKEQNETITNFVKKILDISGPDL 386
             +Y I+ RL      ++ L  + ++  V D     LYK Q +   NF+++  DIS  ++
Sbjct: 530 TLNYLIRHRLFS----YSTLVQKGFSGSVFDC----LYKFQKDIAFNFLERTSDISAYEI 581

Query: 385 GC 380
            C
Sbjct: 582 AC 583


>SPCC16A11.01 ||SPCC63.15|conserved fungal
           protein|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 328

 Score = 27.5 bits (58), Expect = 2.5
 Identities = 10/25 (40%), Positives = 15/25 (60%)
 Frame = +3

Query: 123 VTKWVPAVNYFTGRQLLTILFIFKF 197
           + +W+ A  Y+    LL + FIFKF
Sbjct: 159 IFEWLSATRYYPQSSLLRVSFIFKF 183


>SPCC306.03c |cnd2||condensin subunit Cnd2|Schizosaccharomyces
           pombe|chr 3|||Manual
          Length = 742

 Score = 27.5 bits (58), Expect = 2.5
 Identities = 12/30 (40%), Positives = 18/30 (60%)
 Frame = -2

Query: 511 NLPAESYNSCVNDLTDMYLYKEQNETITNF 422
           N+P +S+ S VN L + Y  KE  +  T+F
Sbjct: 670 NMPVKSFFSTVNQLEETYEKKELKDISTSF 699


>SPBC543.09 |||mitochondrial m-AAA protease|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 773

 Score = 26.6 bits (56), Expect = 4.4
 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
 Frame = -2

Query: 379 RKLMRIYLNTDTF-SGQLPAYLTHYVNYPHKNLCDQNWKRF 260
           +K+  I LN +T   G L AY+ + V  P+ N+ +  W+ F
Sbjct: 124 KKVFEIALNGNTILGGILVAYILYNVLSPNANMQEITWQDF 164


>SPBC21D10.10 |||bromodomain protein|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 299

 Score = 26.6 bits (56), Expect = 4.4
 Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
 Frame = -2

Query: 466 DMYLYKEQN-ETITNFVKKILDISGPDLGCRKLMRIYLNTDTFSGQLPA 323
           D  +YK Q+  T+ N +K+  +I+  D   R+++RI+ N   ++G  PA
Sbjct: 223 DSLVYKPQDLRTLKNMIKEG-NITEVDELYREVLRIFANCKMYNGSDPA 270


>SPAC19A8.08 |upf2||nonsense-mediated decay protein
           Upf2|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1049

 Score = 26.2 bits (55), Expect = 5.8
 Identities = 13/47 (27%), Positives = 28/47 (59%), Gaps = 2/47 (4%)
 Frame = -2

Query: 583 KDIF--TNKFDYKIKRRLNHLKRLFANLPAESYNSCVNDLTDMYLYK 449
           K+IF   ++ D  +K+    +KR  ++L +E+Y+S + ++  + L K
Sbjct: 28  KNIFHTESQLDSSLKKNTAFMKRCKSSLTSENYDSFIKEIKTLSLKK 74


>SPBC1539.05 |cog3||Golgi transport complex subunit Cog3
           |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 735

 Score = 25.8 bits (54), Expect = 7.7
 Identities = 13/38 (34%), Positives = 20/38 (52%)
 Frame = -2

Query: 553 KIKRRLNHLKRLFANLPAESYNSCVNDLTDMYLYKEQN 440
           KI R +N   ++F  +  E  +SC+  L D Y Y  +N
Sbjct: 510 KIYRLVN--SQVFDEIALELVHSCIRSLVDAYRYFSRN 545


>SPCC965.13 |||membrane transporter|Schizosaccharomyces pombe|chr
           3|||Manual
          Length = 537

 Score = 25.8 bits (54), Expect = 7.7
 Identities = 13/33 (39%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
 Frame = -1

Query: 302 LSTQKFV*PKLEA-VYVMYFFVILIKQHNFLTI 207
           ++T  F+   L A +YV+YFF  LI++H+ L +
Sbjct: 488 MATLAFISLSLVATIYVIYFFGHLIRKHSRLAV 520


>SPAPB1A10.04c |cwp1||geranylgeranyltransferase I alpha subunit
           Cwp1|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 294

 Score = 25.8 bits (54), Expect = 7.7
 Identities = 11/30 (36%), Positives = 18/30 (60%)
 Frame = -2

Query: 481 VNDLTDMYLYKEQNETITNFVKKILDISGP 392
           +N L D  L+   N++  N++  +LD SGP
Sbjct: 204 LNYLKDKILFAPDNQSAWNYLCGVLDKSGP 233


  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: 3,131,031
Number of Sequences: 5004
Number of extensions: 64671
Number of successful extensions: 165
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 162
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): 165
length of database: 2,362,478
effective HSP length: 72
effective length of database: 2,002,190
effective search space used: 416455520
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)