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= rbmmt14m08
         (424 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPMIT.04 |cox3||cytochrome c oxidase 3|Schizosaccharomyces pombe...   136   1e-33
SPCC1753.01c |ssb2|SPCC584.06c, rpa2|single-stranded DNA binding...    26   2.8  
SPBC29A3.10c |atp14||F1-ATPase subunit H |Schizosaccharomyces po...    25   3.7  
SPBP35G2.09 |usp103|yhc1|U1 snRNP-associated protein Usp103 |Sch...    25   6.4  
SPAC19B12.06c |||rhomboid family protease|Schizosaccharomyces po...    24   8.5  
SPAC6C3.05 |||sequence orphan|Schizosaccharomyces pombe|chr 1|||...    24   8.5  

>SPMIT.04 |cox3||cytochrome c oxidase 3|Schizosaccharomyces
           pombe|chr mitochondrial|||Manual
          Length = 273

 Score =  136 bits (329), Expect = 1e-33
 Identities = 65/140 (46%), Positives = 88/140 (62%), Gaps = 2/140 (1%)
 Frame = -3

Query: 419 EIGRI*PPSRITP--FNPFQIPLLNTIILIRSGVTVT*AHHSLIENNFSQTKQRLFLTIL 246
           E+G + PP  I     +P ++PLLNT+IL+ SG ++T AH+SLI  N     + L++TI 
Sbjct: 121 ELGAVWPPVGIADKTIDPLEVPLLNTVILLTSGASLTYAHYSLIARNRENALKGLYMTIA 180

Query: 245 LGFYFTILQAYEYIEASFTIADRIYGSTFFIATGFHGIHVIIGTLFLLICYIRHLNNHFS 66
           L F F   QAYEY  A FTI+D +YG++F+ ATG HGIH+I+GT+ LL+        H +
Sbjct: 181 LSFLFLGGQAYEYWNAPFTISDSVYGASFYFATGLHGIHIIVGTILLLVATYNIYTYHLT 240

Query: 65  KNHHFGFEAAA*Y*HFVDVV 6
             HH GFE    Y HF DVV
Sbjct: 241 NTHHNGFECGIYYWHFCDVV 260


>SPCC1753.01c |ssb2|SPCC584.06c, rpa2|single-stranded DNA binding
           protein Ssb2|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 279

 Score = 25.8 bits (54), Expect = 2.8
 Identities = 13/42 (30%), Positives = 22/42 (52%)
 Frame = -3

Query: 143 FHGIHVIIGTLFLLICYIRHLNNHFSKNHHFGFEAAA*Y*HF 18
           +  I +  G +++   YIR + +H   + HF  EA A + HF
Sbjct: 130 YGNIKIFSGKIYIASQYIRTIKDHNEVHFHF-LEAIAVHLHF 170


>SPBC29A3.10c |atp14||F1-ATPase subunit H |Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 103

 Score = 25.4 bits (53), Expect = 3.7
 Identities = 8/29 (27%), Positives = 19/29 (65%)
 Frame = -3

Query: 296 IENNFSQTKQRLFLTILLGFYFTILQAYE 210
           +  ++S T  RL++ ++ G Y + L++Y+
Sbjct: 8   LSRSYSTTSPRLYVDVVQGLYISSLKSYK 36


>SPBP35G2.09 |usp103|yhc1|U1 snRNP-associated protein Usp103
           |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 182

 Score = 24.6 bits (51), Expect = 6.4
 Identities = 8/11 (72%), Positives = 9/11 (81%)
 Frame = -3

Query: 80  NNHFSKNHHFG 48
           NNHF+K HH G
Sbjct: 162 NNHFTKTHHQG 172


>SPAC19B12.06c |||rhomboid family protease|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 258

 Score = 24.2 bits (50), Expect = 8.5
 Identities = 11/31 (35%), Positives = 17/31 (54%)
 Frame = -3

Query: 182 DRIYGSTFFIATGFHGIHVIIGTLFLLICYI 90
           +R YG+   IA  F  + VI    +L+ CY+
Sbjct: 94  ERRYGTLCTIAMFFGFLEVIPAIAYLIACYV 124


>SPAC6C3.05 |||sequence orphan|Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 269

 Score = 24.2 bits (50), Expect = 8.5
 Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 4/45 (8%)
 Frame = -3

Query: 245 LGFYFTILQAYEYIE----ASFTIADRIYGSTFFIATGFHGIHVI 123
           L  YF+ L +YE +E     S T+ D +YG   +     H +  I
Sbjct: 131 LTIYFSTLLSYEKVENLIKKSLTVIDSLYGLLNYQINAQHSLGCI 175


  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: 1,520,292
Number of Sequences: 5004
Number of extensions: 26986
Number of successful extensions: 71
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 71
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): 71
length of database: 2,362,478
effective HSP length: 66
effective length of database: 2,032,214
effective search space used: 150383836
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)