TBLASTN 2.2.19 [Nov-02-2008]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= sp|Q55EX3|SELK_DICDI Selenoprotein K homolog OS=Dictyostelium
discoideum GN=selk PE=3 SV=2
         (115 letters)

Database: genome.fa 
           799 sequences; 32,967,507 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

scaffold_142                                                           46   5e-06
scaffold_300                                                           25   8.2  

>scaffold_142 
          Length = 71084

 Score = 46.2 bits (108), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/37 (54%), Positives = 25/37 (67%)
 Frame = -2

Query: 5     PTYVSGGSVTQTGRSKWRLSYIPEFIWGILNQITFFF 41
             P    GG VTQ  R+KWRLS +PE  W +LNQIT+ +
Sbjct: 60301 PYIKEGGEVTQK-RTKWRLSIVPEMFWYLLNQITYLY 60194



 Score = 37.4 bits (85), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 19/22 (86%), Positives = 20/22 (90%)
 Frame = -1

Query: 94    NRRGDMKNILACNSASGSUGPK 115
             NRRGDMKNILACN+ASG  GPK
Sbjct: 59846 NRRGDMKNILACNAASG-*GPK 59784


>scaffold_300 
          Length = 42091

 Score = 25.4 bits (54), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 10/36 (27%), Positives = 21/36 (58%)
 Frame = -1

Query: 2     PPKPTYVSGGSVTQTGRSKWRLSYIPEFIWGILNQI 37
             PPKPT ++  +++     + ++S+IP  I   +N +
Sbjct: 39190 PPKPTSLNPSTLSDKECKEMKISFIPSTITDAINYL 39083


  Database: genome.fa
    Posted date:  Jan 16, 2009 12:50 PM
  Number of letters in database: 32,967,507
  Number of sequences in database:  799
  
Lambda     K      H
   0.318    0.137    0.432 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 799
Number of Hits to DB: 3,616,403
Number of extensions: 29887
Number of successful extensions: 176
Number of sequences better than 10.0: 3
Number of HSP's gapped: 176
Number of HSP's successfully gapped: 4
Length of query: 115
Length of database: 10,989,169
Length adjustment: 86
Effective length of query: 29
Effective length of database: 10,920,455
Effective search space: 316693195
Effective search space used: 316693195
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)