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= fdpeP08_F_D24
         (872 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPCC1259.03 |rpa12||DNA-directed RNA polymerase complex I subuni...    73   5e-14
SPAC22A12.05 |rpc11||DNA-directed RNA polymerase III complex sub...    49   8e-07
SPAC20H4.03c |tfs1||transcription elongation factor TFIIS |Schiz...    42   1e-04
SPAPYUG7.04c |rpb9||DNA-directed RNA polymerase II complex subun...    32   0.093
SPCC1322.06 |kap113||karyopherin Kap113|Schizosaccharomyces pomb...    26   6.1  

>SPCC1259.03 |rpa12||DNA-directed RNA polymerase complex I subunit
           Rpa12|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 119

 Score = 72.9 bits (171), Expect = 5e-14
 Identities = 37/110 (33%), Positives = 59/110 (53%), Gaps = 4/110 (3%)
 Frame = +2

Query: 95  STAFCARCGSILPLLQEFGSVKCYTCKAHYEADNYSKMKFQYTIHFNTI--SVITNENIL 268
           S  FC+ CG++L       +  C  C++ Y ++ ++ +  +     +    ++    +I+
Sbjct: 6   SLIFCSECGNLLESTTAQWTT-CDQCQSVYPSEQFANLVVETKSSASAFPSALKLKHSIV 64

Query: 269 HTDGP--EGPVVERKCAKCGYDRMSYATLQLRSADEGQTVFYTCIKCKYK 412
             +    E   +E KC KCG D M++ TLQLRSADEG TVFY C +C YK
Sbjct: 65  QVESQKEEAATIEEKCPKCGNDHMTFHTLQLRSADEGSTVFYECPRCAYK 114


>SPAC22A12.05 |rpc11||DNA-directed RNA polymerase III complex
           subunit Rpc11|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 109

 Score = 49.2 bits (112), Expect = 8e-07
 Identities = 29/106 (27%), Positives = 48/106 (45%), Gaps = 3/106 (2%)
 Frame = +2

Query: 104 FCARCGS-ILPLLQEFG--SVKCYTCKAHYEADNYSKMKFQYTIHFNTISVITNENILHT 274
           FC  CG+ ++  + E G  +  C TC  H+    +   + ++        V+  E    +
Sbjct: 3   FCPTCGNHLIVAVDEEGRNAFDCRTCPYHFPISTFLYSRHEFA-QKEVDDVLGGEEAFES 61

Query: 275 DGPEGPVVERKCAKCGYDRMSYATLQLRSADEGQTVFYTCIKCKYK 412
           +       E    KC  +R  +  LQ+RSADE  + FY C KCK++
Sbjct: 62  NQQTEVTCEN--TKCDNNRAYFFQLQIRSADEPMSTFYRCTKCKFQ 105


>SPAC20H4.03c |tfs1||transcription elongation factor TFIIS
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 293

 Score = 41.9 bits (94), Expect = 1e-04
 Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
 Frame = +2

Query: 248 ITNENILHTDG--PEGPVVER-KCAKCGYDRMSYATLQLRSADEGQTVFYTCIKC 403
           +  EN+ H  G  P+  V +   C KC   ++SY  +Q RSADE  T F  C  C
Sbjct: 232 LEQENLFHAQGAKPQKAVTDLFTCGKCKQKKVSYYQMQTRSADEPMTTFCECTVC 286


>SPAPYUG7.04c |rpb9||DNA-directed RNA polymerase II complex subunit
           Rpb9 |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 113

 Score = 32.3 bits (70), Expect = 0.093
 Identities = 20/104 (19%), Positives = 41/104 (39%), Gaps = 2/104 (1%)
 Frame = +2

Query: 104 FCARCGSIL-PLLQEFGSVKCYTCK-AHYEADNYSKMKFQYTIHFNTISVITNENILHTD 277
           +C  C ++L P   +   V    C+   Y     +   +++ +  + +   T  +   TD
Sbjct: 6   YCIECNNMLYPREDKVDRVLRLACRNCDYSEIAATSKVYRHELQSSNVENTTVSHDASTD 65

Query: 278 GPEGPVVERKCAKCGYDRMSYATLQLRSADEGQTVFYTCIKCKY 409
            P  P  +++C +C      +     R  D   T+ Y C+ C +
Sbjct: 66  -PTLPRSDKECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGF 108


>SPCC1322.06 |kap113||karyopherin Kap113|Schizosaccharomyces
           pombe|chr 3|||Manual
          Length = 983

 Score = 26.2 bits (55), Expect = 6.1
 Identities = 10/29 (34%), Positives = 18/29 (62%)
 Frame = +3

Query: 432 RLLYTSFKVVKGKLGNRIIVSESLYAKIS 518
           RLL T   ++K   GNR++ S  ++ K++
Sbjct: 146 RLLITLHHIIKAMAGNRLLRSRQIFYKLA 174


  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: 2,835,467
Number of Sequences: 5004
Number of extensions: 53571
Number of successful extensions: 110
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 107
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): 110
length of database: 2,362,478
effective HSP length: 72
effective length of database: 2,002,190
effective search space used: 436477420
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)