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= rlcv-miR-rl1-20-3p
(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_0988 | rlcv-miR-rl1-20-3p | Rhesus lymphocryptovirus 16 0.25
VMR_0736 | prv-miR-5-5p | Pseudorabies virus 12 3.9
VMR_0734 | prv-miR-5-5p | Pseudorabies virus 12 3.9
VMR_0726 | prv-miR-5-5p | Pseudorabies virus 12 3.9
VMR_0316 | hsv1-miR-h7* | Herpes simplex virus 1 12 3.9
VMR_0237 | hcmv-miR-us25-2-3p | Human cytomegalovirus 12 3.9
VMR_0218 | hbv-miR-b8-5p | Herpes B virus 12 3.9
VMR_0215 | hbv-miR-b8-5p | Herpes B virus 12 3.9
VMR_0211 | hbv-miR-b8-5p | Herpes B virus 12 3.9
VMR_0208 | hbv-miR-b8-5p | Herpes B virus 12 3.9
VMR_0205 | hbv-miR-b8-5p | Herpes B virus 12 3.9
VMR_0202 | hbv-miR-b8-5p | Herpes B virus 12 3.9
>VMR_0988 | rlcv-miR-rl1-20-3p | Rhesus lymphocryptovirus
Length = 8
Score = 16.4 bits (8), Expect = 0.25
Identities = 8/8 (100%)
Strand = Plus / Plus
Query: 1 tgtggatc 8
||||||||
Sbjct: 1 tgtggatc 8
>VMR_0736 | prv-miR-5-5p | Pseudorabies virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 2 gtggat 7
||||||
Sbjct: 1 gtggat 6
>VMR_0734 | prv-miR-5-5p | Pseudorabies virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 2 gtggat 7
||||||
Sbjct: 3 gtggat 8
>VMR_0726 | prv-miR-5-5p | Pseudorabies virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 2 gtggat 7
||||||
Sbjct: 3 gtggat 8
>VMR_0316 | hsv1-miR-h7* | Herpes simplex virus 1
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 3 tggatc 8
||||||
Sbjct: 3 tggatc 8
>VMR_0237 | hcmv-miR-us25-2-3p | Human cytomegalovirus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 2 gtggat 7
||||||
Sbjct: 6 gtggat 1
>VMR_0218 | hbv-miR-b8-5p | Herpes B virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 tgtgga 6
||||||
Sbjct: 1 tgtgga 6
>VMR_0215 | hbv-miR-b8-5p | Herpes B virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 tgtgga 6
||||||
Sbjct: 1 tgtgga 6
>VMR_0211 | hbv-miR-b8-5p | Herpes B virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 tgtgga 6
||||||
Sbjct: 1 tgtgga 6
>VMR_0208 | hbv-miR-b8-5p | Herpes B virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 tgtgga 6
||||||
Sbjct: 1 tgtgga 6
>VMR_0205 | hbv-miR-b8-5p | Herpes B virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 tgtgga 6
||||||
Sbjct: 1 tgtgga 6
>VMR_0202 | hbv-miR-b8-5p | Herpes B virus
Length = 8
Score = 12.4 bits (6), Expect = 3.9
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 tgtgga 6
||||||
Sbjct: 1 tgtgga 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: 19
Number of extensions: 17
Number of successful extensions: 12
Number of sequences better than 100.0: 12
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)