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-r1-2
(8 letters)
Database: /home/users/abid/BLAST/MIRBASE
35,828 sequences; 286,624 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
mmu-miR-6896-3p MIMAT0027693 Mus musculus miR-6896-3p 16 6.9
hsa-miR-6833-3p MIMAT0027567 Homo sapiens miR-6833-3p 16 6.9
ssc-miR-9787-3p MIMAT0037004 Sus scrofa miR-9787-3p 14 27
gra-miR8672 MIMAT0034044 Gossypium raimondii miR8672 14 27
gra-miR7504c MIMAT0034027 Gossypium raimondii miR7504c 14 27
atr-miR8586 MIMAT0033872 Amborella trichopoda miR8586 14 27
atr-miR8581 MIMAT0033865 Amborella trichopoda miR8581 14 27
bdi-miR7754-3p MIMAT0030251 Brachypodium distachyon miR7754-3p 14 27
hcmv-miR-UL59 MIMAT0029122 Human cytomegalovirus miR-UL59 14 27
hsa-miR-6873-3p MIMAT0027647 Homo sapiens miR-6873-3p 14 27
tur-miR-5738-3p MIMAT0023111 Tetranychus urticae miR-5738-3p 14 27
ath-miR5640 MIMAT0022401 Arabidopsis thaliana miR5640 14 27
cin-miR-5604-3p MIMAT0022334 Ciona intestinalis miR-5604-3p 14 27
gma-miR1513b MIMAT0021008 Glycine max miR1513b 14 27
dme-miR-4945-5p MIMAT0020155 Drosophila melanogaster miR-4945-5p 14 27
hsa-miR-4768-5p MIMAT0019920 Homo sapiens miR-4768-5p 14 27
ame-miR-3717 MIMAT0018512 Apis mellifera miR-3717 14 27
osa-miR2100-5p MIMAT0010064 Oryza sativa miR2100-5p 14 27
ath-miR1886.1 MIMAT0007853 Arabidopsis thaliana miR1886.1 14 27
gma-miR1513a-5p MIMAT0007371 Glycine max miR1513a-5p 14 27
mmu-miR-706 MIMAT0003496 Mus musculus miR-706 14 27
cel-miR-247-5p MIMAT0015119 Caenorhabditis elegans miR-247-5p 14 27
>mmu-miR-6896-3p MIMAT0027693 Mus musculus miR-6896-3p
Length = 8
Score = 16.4 bits (8), Expect = 6.9
Identities = 8/8 (100%)
Strand = Plus / Plus
Query: 1 tttctctc 8
||||||||
Sbjct: 1 tttctctc 8
>hsa-miR-6833-3p MIMAT0027567 Homo sapiens miR-6833-3p
Length = 8
Score = 16.4 bits (8), Expect = 6.9
Identities = 8/8 (100%)
Strand = Plus / Plus
Query: 1 tttctctc 8
||||||||
Sbjct: 1 tttctctc 8
>ssc-miR-9787-3p MIMAT0037004 Sus scrofa miR-9787-3p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 1 tttctct 7
|||||||
Sbjct: 7 tttctct 1
>gra-miR8672 MIMAT0034044 Gossypium raimondii miR8672
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 1 tttctct 7
|||||||
Sbjct: 8 tttctct 2
>gra-miR7504c MIMAT0034027 Gossypium raimondii miR7504c
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 1 tttctct 7
|||||||
Sbjct: 8 tttctct 2
>atr-miR8586 MIMAT0033872 Amborella trichopoda miR8586
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 1 tttctct 7
|||||||
Sbjct: 2 tttctct 8
>atr-miR8581 MIMAT0033865 Amborella trichopoda miR8581
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 2 ttctctc 8
|||||||
Sbjct: 8 ttctctc 2
>bdi-miR7754-3p MIMAT0030251 Brachypodium distachyon miR7754-3p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 2 ttctctc 8
|||||||
Sbjct: 1 ttctctc 7
>hcmv-miR-UL59 MIMAT0029122 Human cytomegalovirus miR-UL59
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 2 ttctctc 8
|||||||
Sbjct: 2 ttctctc 8
>hsa-miR-6873-3p MIMAT0027647 Homo sapiens miR-6873-3p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 2 ttctctc 8
|||||||
Sbjct: 1 ttctctc 7
>tur-miR-5738-3p MIMAT0023111 Tetranychus urticae miR-5738-3p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 1 tttctct 7
|||||||
Sbjct: 2 tttctct 8
>ath-miR5640 MIMAT0022401 Arabidopsis thaliana miR5640
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 2 ttctctc 8
|||||||
Sbjct: 8 ttctctc 2
>cin-miR-5604-3p MIMAT0022334 Ciona intestinalis miR-5604-3p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 1 tttctct 7
|||||||
Sbjct: 1 tttctct 7
>gma-miR1513b MIMAT0021008 Glycine max miR1513b
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 2 ttctctc 8
|||||||
Sbjct: 8 ttctctc 2
>dme-miR-4945-5p MIMAT0020155 Drosophila melanogaster
miR-4945-5p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 1 tttctct 7
|||||||
Sbjct: 2 tttctct 8
>hsa-miR-4768-5p MIMAT0019920 Homo sapiens miR-4768-5p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 2 ttctctc 8
|||||||
Sbjct: 2 ttctctc 8
>ame-miR-3717 MIMAT0018512 Apis mellifera miR-3717
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 2 ttctctc 8
|||||||
Sbjct: 8 ttctctc 2
>osa-miR2100-5p MIMAT0010064 Oryza sativa miR2100-5p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 2 ttctctc 8
|||||||
Sbjct: 1 ttctctc 7
>ath-miR1886.1 MIMAT0007853 Arabidopsis thaliana miR1886.1
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 2 ttctctc 8
|||||||
Sbjct: 8 ttctctc 2
>gma-miR1513a-5p MIMAT0007371 Glycine max miR1513a-5p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 2 ttctctc 8
|||||||
Sbjct: 8 ttctctc 2
>mmu-miR-706 MIMAT0003496 Mus musculus miR-706
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 1 tttctct 7
|||||||
Sbjct: 7 tttctct 1
>cel-miR-247-5p MIMAT0015119 Caenorhabditis elegans miR-247-5p
Length = 8
Score = 14.4 bits (7), Expect = 27
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 1 tttctct 7
|||||||
Sbjct: 8 tttctct 2
Database: /home/users/abid/BLAST/MIRBASE
Posted date: Sep 2, 2014 3:58 PM
Number of letters in database: 286,624
Number of sequences in database: 35,828
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: 35828
Number of Hits to DB: 185
Number of extensions: 161
Number of successful extensions: 124
Number of sequences better than 100.0: 22
Number of HSP's gapped: 124
Number of HSP's successfully gapped: 22
Length of query: 8
Length of database: 286,624
Length adjustment: 4
Effective length of query: 4
Effective length of database: 143,312
Effective search space: 573248
Effective search space used: 573248
X1: 5 ( 9.9 bits)
X2: 15 (29.7 bits)
X3: 25 (49.6 bits)
S1: 5 (10.4 bits)
S2: 7 (14.4 bits)