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= rrv-miR-rr1-6-5p
(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_1135 | rrv-miR-rr1-6-5p | Rhesus rhadinovirus 16 0.25
VMR_1134 | rrv-miR-rr1-6-5p | Rhesus rhadinovirus 16 0.25
VMR_1129 | rrv-miR-rr1-6 | Rhesus rhadinovirus 16 0.25
VMR_0913 | rcmv-miR-r111.2-6 | Rat cytomegalovirus 12 3.9
VMR_0912 | rcmv-miR-r111.2-6 | Rat cytomegalovirus 12 3.9
VMR_0911 | rcmv-miR-r111.2-6 | Rat cytomegalovirus 12 3.9
VMR_0616 | prv-miR-11-1 | Pseudorabies virus 12 3.9
VMR_0612 | prv-miR-11-1 | Pseudorabies virus 12 3.9
VMR_0594 | prv-miR-10-1 | Pseudorabies virus 12 3.9
VMR_0349 | hvsa-miR-hsur5-5p | Herpesvirus saimiri strain A11 12 3.9
>VMR_1135 | rrv-miR-rr1-6-5p | Rhesus rhadinovirus
Length = 8
Score = 16.4 bits (8), Expect = 0.25
Identities = 8/8 (100%)
Strand = Plus / Plus
Query: 1 cgcggaaa 8
||||||||
Sbjct: 1 cgcggaaa 8
>VMR_1134 | rrv-miR-rr1-6-5p | Rhesus rhadinovirus
Length = 8
Score = 16.4 bits (8), Expect = 0.25
Identities = 8/8 (100%)
Strand = Plus / Plus
Query: 1 cgcggaaa 8
||||||||
Sbjct: 1 cgcggaaa 8
>VMR_1129 | rrv-miR-rr1-6 | Rhesus rhadinovirus
Length = 8
Score = 16.4 bits (8), Expect = 0.25
Identities = 8/8 (100%)
Strand = Plus / Plus
Query: 1 cgcggaaa 8
||||||||
Sbjct: 1 cgcggaaa 8
>VMR_0913 | rcmv-miR-r111.2-6 | Rat cytomegalovirus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 cgcgga 6
||||||
Sbjct: 3 cgcgga 8
>VMR_0912 | rcmv-miR-r111.2-6 | Rat cytomegalovirus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 cgcgga 6
||||||
Sbjct: 3 cgcgga 8
>VMR_0911 | rcmv-miR-r111.2-6 | Rat cytomegalovirus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 cgcgga 6
||||||
Sbjct: 3 cgcgga 8
>VMR_0616 | prv-miR-11-1 | Pseudorabies virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 2 gcggaa 7
||||||
Sbjct: 6 gcggaa 1
>VMR_0612 | prv-miR-11-1 | Pseudorabies virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 2 gcggaa 7
||||||
Sbjct: 6 gcggaa 1
>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: 1 cgcgga 6
||||||
Sbjct: 6 cgcgga 1
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 cgcgga 6
||||||
Sbjct: 3 cgcgga 8
>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: 1 cgcgga 6
||||||
Sbjct: 6 cgcgga 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: 20
Number of extensions: 14
Number of successful extensions: 11
Number of sequences better than 100.0: 10
Number of HSP's gapped: 11
Number of HSP's successfully gapped: 11
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)
