TBLASTN 2.2.17 [Aug-26-2007]


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 composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= PF14_0251_changed  | Plasmodium falciparum 3D7 | Sel4
protein|conserved Plasmodium selenoprotein, unknown function | protein
 | length=135
         (135 letters)

Database: genome.fa 
           2960 sequences; 20,171,213 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Plasmodium_yoelii_yoelii_str._17XNL|MALPY02554|2002-09-10|ds-DNA...    50   3e-07

>Plasmodium_yoelii_yoelii_str._17XNL|MALPY02554|2002-09-10|ds-
            DNA|Plasmodium_yoelii_TIGR
          Length = 5959

 Score = 50.1 bits (118), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 40/96 (41%), Positives = 52/96 (54%), Gaps = 1/96 (1%)
 Frame = -2

Query: 36   KILKKNKKDAEVKRNNEISIKMKLSREKQLQELDXXXX-XXXXXXXXXXXXXXXXXXXXX 94
            K +K   K +E KRNNEI  KMK+SREKQLQ+L+                          
Sbjct: 1740 KYVKYKSKISEAKRNNEIYEKMKISREKQLQKLEEEMIINKKKMNENLKNTDKENNNKTL 1561

Query: 95   XXXXPKLGSKDNSSFNHLNDYSNYYRPSLKNRFYNN 130
                PK  SKD S+F+H  DYSNYY+PS+++R YN+
Sbjct: 1560 DSSTPKSNSKDKSTFSHFKDYSNYYKPSIRDRLYNH 1453


  Database: genome.fa
    Posted date:  Feb 25, 2008  2:31 PM
  Number of letters in database: 20,171,213
  Number of sequences in database:  2960
  
Lambda     K      H
   0.315    0.129    0.353 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2960
Number of Hits to DB: 2,621,861
Number of extensions: 29794
Number of successful extensions: 526
Number of sequences better than 10.0: 17
Number of HSP's gapped: 518
Number of HSP's successfully gapped: 18
Length of query: 135
Length of database: 6,723,737
Length adjustment: 86
Effective length of query: 49
Effective length of database: 6,469,177
Effective search space: 316989673
Effective search space used: 316989673
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 (21.6 bits)
S2: 40 (20.0 bits)