Bombyx BLAST Result against nematostella

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= ce--0338
         (541 letters)

Database: nematostella 
           59,808 sequences; 16,821,457 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SB_3393| Best HMM Match : RNA_pol_Rpb1_R (HMM E-Value=0.012)           29   3.2  
SB_48677| Best HMM Match : No HMM Matches (HMM E-Value=.)              27   7.4  

>SB_3393| Best HMM Match : RNA_pol_Rpb1_R (HMM E-Value=0.012)
          Length = 626

 Score = 28.7 bits (61), Expect = 3.2
 Identities = 12/35 (34%), Positives = 19/35 (54%)
 Frame = +2

Query: 239 VICLRNLAFCETEAVVEYKQLRIAVRSAVIYLTQL 343
           ++CL  +  C T  +V   QL + +   V+ LTQL
Sbjct: 143 IVCLTQVILCPTRLIVCLTQLIVCLTQFVVCLTQL 177


>SB_48677| Best HMM Match : No HMM Matches (HMM E-Value=.)
          Length = 586

 Score = 27.5 bits (58), Expect = 7.4
 Identities = 15/41 (36%), Positives = 27/41 (65%), Gaps = 1/41 (2%)
 Frame = +2

Query: 239 VICLRNLAFCETEAVVEYKQLRIAVR-SAVIYLTQLYRVLL 358
           V+CL ++A C +  +VEY +L +A R +A + LT   R+++
Sbjct: 88  VVCLADIAICTSLLLVEY-ELDLATRITASLALTLALRLVM 127


  Database: nematostella
    Posted date:  Oct 22, 2007  1:22 PM
  Number of letters in database: 16,821,457
  Number of sequences in database:  59,808
  
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: 18,568,803
Number of Sequences: 59808
Number of extensions: 367299
Number of successful extensions: 729
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 539
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): 729
length of database: 16,821,457
effective HSP length: 78
effective length of database: 12,156,433
effective search space used: 1227799733
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)