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= hcmv-miR-us29-3p6
         (8 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VMR_0239 | hcmv-miR-us29-3p6 | Human cytomegalovirus                   16   0.25 
VMR_0066 | dev-miR-d13-5p | Duck enteritis virus                       14   0.99 
VMR_0997 | rlcv-miR-rl1-22-5p | Rhesus lymphocryptovirus               12   3.9  
VMR_0995 | rlcv-miR-rl1-22-5p | Rhesus lymphocryptovirus               12   3.9  
VMR_0347 | hvsa-miR-hsur4-5p | Herpesvirus saimiri strain A11          12   3.9  
VMR_0024 | bhv1-miR-b3 | Bovine herpesvirus 1                          12   3.9  
>VMR_0239 | hcmv-miR-us29-3p6 | Human cytomegalovirus
          Length = 8

 Score = 16.4 bits (8), Expect = 0.25
 Identities = 8/8 (100%)
 Strand = Plus / Plus

                 
Query: 1 cccacggt 8
         ||||||||
Sbjct: 1 cccacggt 8
>VMR_0066 | dev-miR-d13-5p | Duck enteritis virus
          Length = 8

 Score = 14.4 bits (7), Expect = 0.99
 Identities = 7/7 (100%)
 Strand = Plus / Minus

                
Query: 1 cccacgg 7
         |||||||
Sbjct: 8 cccacgg 2
>VMR_0997 | rlcv-miR-rl1-22-5p | Rhesus lymphocryptovirus
          Length = 8

 Score = 12.4 bits (6), Expect = 3.9
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 1 cccacg 6
         ||||||
Sbjct: 6 cccacg 1
>VMR_0995 | rlcv-miR-rl1-22-5p | Rhesus lymphocryptovirus
          Length = 8

 Score = 12.4 bits (6), Expect = 3.9
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 1 cccacg 6
         ||||||
Sbjct: 6 cccacg 1
>VMR_0347 | hvsa-miR-hsur4-5p | Herpesvirus saimiri strain A11
          Length = 8

 Score = 12.4 bits (6), Expect = 3.9
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 3 cacggt 8
         ||||||
Sbjct: 6 cacggt 1
>VMR_0024 | bhv1-miR-b3 | Bovine herpesvirus 1
          Length = 8

 Score = 12.4 bits (6), Expect = 3.9
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 2 ccacgg 7
         ||||||
Sbjct: 1 ccacgg 6
  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: 12
Number of extensions: 9
Number of successful extensions: 6
Number of sequences better than 100.0: 6
Number of HSP's gapped: 6
Number of HSP's successfully gapped: 6
Length of query: 8
Length of database: 10,464
Length adjustment: 4
Effective length of query: 4
Effective length of database: 5232
Effective search space:    20928
Effective search space used:    20928
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)