BLAST Search Results
BLASTN 2.2.15 [Oct-15-2006]


Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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= bhv1-miR-b5
         (7 letters)

Database: /home/users/abid/BLAST/VIRMIRNA 
           1308 sequences; 10,464 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VMR_0342 | hsv2-miR-h9-5p | Herpes simplex virus 2                     14   0.74 
VMR_0026 | bhv1-miR-b5 | Bovine herpesvirus 1                          14   0.74 
VMR_0009 | bfv-miR-bf1-5p | Bovine foamy virus                         14   0.74 
VMR_0008 | bfv-miR-bf1-5p | Bovine foamy virus                         14   0.74 
VMR_0007 | bfv-miR-bf1-5p | Bovine foamy virus                         14   0.74 
VMR_0006 | bfv-miR-bf1-5p | Bovine foamy virus                         14   0.74 
VMR_1004 | rlcv-miR-rl1-24-3p | Rhesus lymphocryptovirus               12   2.9  
VMR_0369 | hvt-miR-h4 | Herpesvirus of turkeys                         12   2.9  
VMR_0223 | hcmv-miR-ul112-5p6 | Human cytomegalovirus                  12   2.9  
>VMR_0342 | hsv2-miR-h9-5p | Herpes simplex virus 2
          Length = 8

 Score = 14.4 bits (7), Expect = 0.74
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 tcggagg 7
         |||||||
Sbjct: 2 tcggagg 8
>VMR_0026 | bhv1-miR-b5 | Bovine herpesvirus 1
          Length = 8

 Score = 14.4 bits (7), Expect = 0.74
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 tcggagg 7
         |||||||
Sbjct: 2 tcggagg 8
>VMR_0009 | bfv-miR-bf1-5p | Bovine foamy virus
          Length = 8

 Score = 14.4 bits (7), Expect = 0.74
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 tcggagg 7
         |||||||
Sbjct: 2 tcggagg 8
>VMR_0008 | bfv-miR-bf1-5p | Bovine foamy virus
          Length = 8

 Score = 14.4 bits (7), Expect = 0.74
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 tcggagg 7
         |||||||
Sbjct: 2 tcggagg 8
>VMR_0007 | bfv-miR-bf1-5p | Bovine foamy virus
          Length = 8

 Score = 14.4 bits (7), Expect = 0.74
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 tcggagg 7
         |||||||
Sbjct: 2 tcggagg 8
>VMR_0006 | bfv-miR-bf1-5p | Bovine foamy virus
          Length = 8

 Score = 14.4 bits (7), Expect = 0.74
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 tcggagg 7
         |||||||
Sbjct: 2 tcggagg 8
>VMR_1004 | rlcv-miR-rl1-24-3p | Rhesus lymphocryptovirus
          Length = 8

 Score = 12.4 bits (6), Expect = 2.9
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 1 tcggag 6
         ||||||
Sbjct: 3 tcggag 8
>VMR_0369 | hvt-miR-h4 | Herpesvirus of turkeys
          Length = 8

 Score = 12.4 bits (6), Expect = 2.9
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 2 cggagg 7
         ||||||
Sbjct: 3 cggagg 8
>VMR_0223 | hcmv-miR-ul112-5p6 | Human cytomegalovirus
          Length = 8

 Score = 12.4 bits (6), Expect = 2.9
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cggagg 7
         ||||||
Sbjct: 6 cggagg 1
  Database: /home/users/abid/BLAST/VIRMIRNA
    Posted date:  Sep 8, 2014  7:41 PM
  Number of letters in database: 10,464
  Number of sequences in database:  1308
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 1308
Number of Hits to DB: 15
Number of extensions: 9
Number of successful extensions: 9
Number of sequences better than 100.0: 9
Number of HSP's gapped: 9
Number of HSP's successfully gapped: 9
Length of query: 7
Length of database: 10,464
Length adjustment: 4
Effective length of query: 3
Effective length of database: 5232
Effective search space:    15696
Effective search space used:    15696
X1: 4 ( 7.9 bits)
X2: 15 (29.7 bits)
X3: 25 (49.6 bits)
S1: 4 ( 8.4 bits)
S2: 4 ( 8.4 bits)