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= rcmv-miR-r111.2-6
         (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_0913 | rcmv-miR-r111.2-6 | Rat cytomegalovirus                     16   0.25 
VMR_0912 | rcmv-miR-r111.2-6 | Rat cytomegalovirus                     16   0.25 
VMR_0911 | rcmv-miR-r111.2-6 | Rat cytomegalovirus                     16   0.25 
VMR_1135 | rrv-miR-rr1-6-5p | Rhesus rhadinovirus                      12   3.9  
VMR_1134 | rrv-miR-rr1-6-5p | Rhesus rhadinovirus                      12   3.9  
VMR_1129 | rrv-miR-rr1-6 | Rhesus rhadinovirus                         12   3.9  
VMR_0594 | prv-miR-10-1 | Pseudorabies virus                           12   3.9  
VMR_0405 | kshv-miR-k12-3-3p | Kaposi sarcoma-associated herpesv...    12   3.9  
VMR_0404 | kshv-miR-k12-3* | Kaposi sarcoma-associated herpesvirus     12   3.9  
VMR_0349 | hvsa-miR-hsur5-5p | Herpesvirus saimiri strain A11          12   3.9  
VMR_0082 | dev-miR-d23-3p | Duck enteritis virus                       12   3.9  
>VMR_0913 | rcmv-miR-r111.2-6 | Rat cytomegalovirus
          Length = 8

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

                 
Query: 1 ttcgcgga 8
         ||||||||
Sbjct: 1 ttcgcgga 8
>VMR_0912 | rcmv-miR-r111.2-6 | Rat cytomegalovirus
          Length = 8

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

                 
Query: 1 ttcgcgga 8
         ||||||||
Sbjct: 1 ttcgcgga 8
>VMR_0911 | rcmv-miR-r111.2-6 | Rat cytomegalovirus
          Length = 8

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

                 
Query: 1 ttcgcgga 8
         ||||||||
Sbjct: 1 ttcgcgga 8
>VMR_1135 | rrv-miR-rr1-6-5p | Rhesus rhadinovirus
          Length = 8

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

               
Query: 3 cgcgga 8
         ||||||
Sbjct: 1 cgcgga 6
>VMR_1134 | rrv-miR-rr1-6-5p | Rhesus rhadinovirus
          Length = 8

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

               
Query: 3 cgcgga 8
         ||||||
Sbjct: 1 cgcgga 6
>VMR_1129 | rrv-miR-rr1-6 | Rhesus rhadinovirus
          Length = 8

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

               
Query: 3 cgcgga 8
         ||||||
Sbjct: 1 cgcgga 6
>VMR_0594 | prv-miR-10-1 | Pseudorabies virus
          Length = 8

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

               
Query: 3 cgcgga 8
         ||||||
Sbjct: 6 cgcgga 1

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

               
Query: 3 cgcgga 8
         ||||||
Sbjct: 3 cgcgga 8
>VMR_0405 | kshv-miR-k12-3-3p | Kaposi sarcoma-associated
         herpesvirus
          Length = 8

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

               
Query: 2 tcgcgg 7
         ||||||
Sbjct: 1 tcgcgg 6
>VMR_0404 | kshv-miR-k12-3* | Kaposi sarcoma-associated
         herpesvirus
          Length = 8

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

               
Query: 2 tcgcgg 7
         ||||||
Sbjct: 1 tcgcgg 6
>VMR_0349 | hvsa-miR-hsur5-5p | Herpesvirus saimiri strain A11
          Length = 8

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

               
Query: 3 cgcgga 8
         ||||||
Sbjct: 6 cgcgga 1
>VMR_0082 | dev-miR-d23-3p | Duck enteritis virus
          Length = 8

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

               
Query: 1 ttcgcg 6
         ||||||
Sbjct: 6 ttcgcg 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: 19
Number of extensions: 13
Number of successful extensions: 12
Number of sequences better than 100.0: 11
Number of HSP's gapped: 12
Number of HSP's successfully gapped: 12
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)