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= bmnc6f06
         (655 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC1F7.01c |spt6|SPAC694.07c|transcription elongation factor Sp...    26   5.5  
SPAC222.09 |seb1||RNA-binding protein Seb1 |Schizosaccharomyces ...    25   7.2  
SPAC2F7.04 |pmc2|med1|RNA polymerase II holoenzyme mediator comp...    25   7.2  
SPAC17H9.02 |||ATP-dependent RNA helicase Mtr4-like |Schizosacch...    25   9.5  

>SPAC1F7.01c |spt6|SPAC694.07c|transcription elongation factor
           Spt6|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1365

 Score = 25.8 bits (54), Expect = 5.5
 Identities = 12/33 (36%), Positives = 19/33 (57%)
 Frame = -1

Query: 643 KFLQRCSRDVIGPHGRSGVVMGSRVHVEEDMTS 545
           +F+++   DVIG  G S      R HV++ +TS
Sbjct: 734 EFVEKVKPDVIGVSGMSVSAHKIRQHVQDSLTS 766


>SPAC222.09 |seb1||RNA-binding protein Seb1 |Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 620

 Score = 25.4 bits (53), Expect = 7.2
 Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
 Frame = -2

Query: 144 PMTSSTYAVSLRDKALGRGWIRNSDNGKP*R--RPSHMRVPS 25
           P+ + T + SLR  +L R    +  +G+P R   PSH+ +PS
Sbjct: 329 PLPAPTSSQSLRLGSLHRSRSPSPRSGRPRRSPSPSHLSIPS 370


>SPAC2F7.04 |pmc2|med1|RNA polymerase II holoenzyme mediator complex
           subunit |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 454

 Score = 25.4 bits (53), Expect = 7.2
 Identities = 10/32 (31%), Positives = 18/32 (56%)
 Frame = +1

Query: 340 PPRLVWRRRKLEGQCEQAIPWIQIENSGFTYM 435
           P ++ W R  ++  C  ++PW  I  +GF Y+
Sbjct: 19  PNQINWTRYWID--CLSSVPWNDISVTGFEYL 48


>SPAC17H9.02 |||ATP-dependent RNA helicase Mtr4-like
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1030

 Score = 25.0 bits (52), Expect = 9.5
 Identities = 10/23 (43%), Positives = 15/23 (65%)
 Frame = -1

Query: 409 SGSRVLLVHIDLRAFFSSIPNEE 341
           SG  +LLV +  + FF+ +P EE
Sbjct: 869 SGDELLLVELIFQGFFNQMPPEE 891


  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: 3,013,481
Number of Sequences: 5004
Number of extensions: 68377
Number of successful extensions: 191
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 181
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): 191
length of database: 2,362,478
effective HSP length: 70
effective length of database: 2,012,198
effective search space used: 295793106
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)