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= SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo
sapiens # Complete
         (346 letters)

Database: genome.fa 
           23,491 sequences; 86,045,674 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAXJ01000115.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    39   0.014
gb|AAXJ01004494.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    39   0.015

>gb|AAXJ01000115.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296209786,
             whole genome shotgun sequence
          Length = 63827

 Score = 38.9 bits (89), Expect = 0.014,   Method: Composition-based stats.
 Identities = 16/29 (55%), Positives = 23/29 (79%)
 Frame = +3

Query: 305   TGEFEVFVNGRLVHSKKRGDGFVNESRLQ 333
             TG FEV V+G +VHSK+ GDGF++ + +Q
Sbjct: 39495 TGNFEVAVDGTIVHSKQNGDGFLHSNPVQ 39581


>gb|AAXJ01004494.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296635366,
            whole genome shotgun sequence
          Length = 3335

 Score = 38.9 bits (89), Expect = 0.015,   Method: Composition-based stats.
 Identities = 16/29 (55%), Positives = 23/29 (79%)
 Frame = +1

Query: 305  TGEFEVFVNGRLVHSKKRGDGFVNESRLQ 333
            TG FEV V+G +VHSK+ GDGF++ + +Q
Sbjct: 2314 TGNFEVAVDGTIVHSKQNGDGFLHSNPVQ 2400


  Database: genome.fa
    Posted date:  Jan 16, 2009 12:51 PM
  Number of letters in database: 86,045,674
  Number of sequences in database:  23,491
  
Lambda     K      H
   0.317    0.134    0.382 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 23491
Number of Hits to DB: 17,984,826
Number of extensions: 199753
Number of successful extensions: 1553
Number of sequences better than 10.0: 3
Number of HSP's gapped: 1530
Number of HSP's successfully gapped: 3
Length of query: 346
Length of database: 28,681,891
Length adjustment: 107
Effective length of query: 239
Effective length of database: 26,168,354
Effective search space: 6254236606
Effective search space used: 6254236606
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: 42 (20.8 bits)
