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= prgv0228
         (445 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPBC1685.10 |rps27||40S ribosomal protein S27|Schizosaccharomyce...   105   2e-24
SPAC6F12.16c |mtr4||ATP-dependent RNA helicase, TRAMP complex su...    25   6.9  
SPBC3H7.10 |||elongator homolog|Schizosaccharomyces pombe|chr 2|...    25   6.9  

>SPBC1685.10 |rps27||40S ribosomal protein S27|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 83

 Score =  105 bits (253), Expect = 2e-24
 Identities = 43/63 (68%), Positives = 51/63 (80%)
 Frame = +2

Query: 77  LSGLVPHPNSYFMDVKCPGCYKITTVFSHAQRVVVCAGCSTILCQPTGGRARLTEGCSFK 256
           L  LV  P S+FMDVKCPGC+ ITTVFSHAQ VV+C  C+++LCQPTGG+ARL EGCSF+
Sbjct: 21  LKQLVQGPRSFFMDVKCPGCFNITTVFSHAQTVVICGSCASVLCQPTGGKARLMEGCSFR 80

Query: 257 ENN 265
             N
Sbjct: 81  RKN 83



 Score = 35.5 bits (78), Expect = 0.004
 Identities = 16/23 (69%), Positives = 19/23 (82%)
 Frame = +1

Query: 16 MPLAIDLLHPSPASERRKHKLKR 84
          M LA+DLL+PS  SE RKHKLK+
Sbjct: 1  MVLAVDLLNPSHESEMRKHKLKQ 23


>SPAC6F12.16c |mtr4||ATP-dependent RNA helicase, TRAMP complex
           subunit Mtr4|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1117

 Score = 24.6 bits (51), Expect = 6.9
 Identities = 12/18 (66%), Positives = 13/18 (72%)
 Frame = +2

Query: 41  ILPLRRRGGNISLSGLVP 94
           ILPL RRG  I  SGL+P
Sbjct: 512 ILPLLRRGIGIHHSGLLP 529


>SPBC3H7.10 |||elongator homolog|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 249

 Score = 24.6 bits (51), Expect = 6.9
 Identities = 9/29 (31%), Positives = 17/29 (58%)
 Frame = -1

Query: 178 HHSLCVTKNCCNLVTARALNIHEIRVRMW 92
           +H+L   ++ C L  ++ L+ H I +R W
Sbjct: 37  YHALKAKESTCFLTFSKTLDEHAISMRKW 65


  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: 1,659,597
Number of Sequences: 5004
Number of extensions: 29802
Number of successful extensions: 62
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 61
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): 62
length of database: 2,362,478
effective HSP length: 67
effective length of database: 2,027,210
effective search space used: 162176800
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)