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-ul112-1
(7 letters)
Database: /home/users/abid/BLAST/MIRBASE
35,828 sequences; 286,624 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
osa-miR5504 MIMAT0022137 Oryza sativa miR5504 14 20
sja-miR-3485-5p MIMAT0016290 Schistosoma japonicum miR-3485-5p 14 20
hcmv-miR-UL112-3p MIMAT0001577 Human cytomegalovirus miR-UL112-3p 14 20
bra-miR161-3p MIMAT0035879 Brassica rapa miR161-3p 12 80
cfa-miR-8878 MIMAT0034378 Canis familiaris miR-8878 12 80
gra-miR8690 MIMAT0034063 Gossypium raimondii miR8690 12 80
ppc-miR-8256-5p MIMAT0032980 Pristionchus pacificus miR-8256-5p 12 80
ppc-miR-2238i-3p MIMAT0032941 Pristionchus pacificus miR-2238i-3p 12 80
ppc-miR-2238f-3p MIMAT0032857 Pristionchus pacificus miR-2238f-3p 12 80
pmi-miR-2011-5p MIMAT0032185 Patiria miniata miR-2011-5p 12 80
oan-miR-7433-5p MIMAT0029016 Ornithorhynchus anatinus miR-7433-5p 12 80
mmu-miR-6917-3p MIMAT0027735 Mus musculus miR-6917-3p 12 80
gga-miR-6685-3p MIMAT0025791 Gallus gallus miR-6685-3p 12 80
ssc-miR-489 MIMAT0025375 Sus scrofa miR-489 12 80
ggo-miR-668 MIMAT0024252 Gorilla gorilla miR-668 12 80
aca-miR-34a-3p MIMAT0021940 Anolis carolinensis miR-34a-3p 12 80
hsa-miR-5190 MIMAT0021121 Homo sapiens miR-5190 12 80
oar-miR-668-3p MIMAT0019311 Ovis aries miR-668-3p 12 80
hsa-miR-4420 MIMAT0018933 Homo sapiens miR-4420 12 80
gma-miR4387d MIMAT0018301 Glycine max miR4387d 12 80
cin-miR-4001a-1-3p MIMAT0016445 Ciona intestinalis miR-4001a-1-3p 12 80
sja-miR-3502 MIMAT0016311 Schistosoma japonicum miR-3502 12 80
aly-miR161-3p.2 MIMAT0017444 Arabidopsis lyrata miR161-3p.2 12 80
bmo-miR-3245 MIMAT0015427 Bombyx mori miR-3245 12 80
gga-miR-449b-3p MIMAT0007744 Gallus gallus miR-449b-3p 12 80
gga-miR-1640 MIMAT0007515 Gallus gallus miR-1640 12 80
gga-miR-1627-5p MIMAT0007497 Gallus gallus miR-1627-5p 12 80
hsa-miR-1236-5p MIMAT0022945 Homo sapiens miR-1236-5p 12 80
mcmv-miR-m107-1-5p MIMAT0005555 Mouse cytomegalovirus miR-m107-1-5p 12 80
mtr-miR398a-5p MIMAT0022935 Medicago truncatula miR398a-5p 12 80
xtr-miR-489 MIMAT0003642 Xenopus tropicalis miR-489 12 80
gga-miR-489-3p MIMAT0003365 Gallus gallus miR-489-3p 12 80
dre-miR-489 MIMAT0002940 Danio rerio miR-489 12 80
tni-miR-489 MIMAT0002939 Tetraodon nigroviridis miR-489 12 80
fru-miR-489 MIMAT0002938 Fugu rubripes miR-489 12 80
>osa-miR5504 MIMAT0022137 Oryza sativa miR5504
Length = 8
Score = 14.4 bits (7), Expect = 20
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 1 agtgacg 7
|||||||
Sbjct: 1 agtgacg 7
>sja-miR-3485-5p MIMAT0016290 Schistosoma japonicum miR-3485-5p
Length = 8
Score = 14.4 bits (7), Expect = 20
Identities = 7/7 (100%)
Strand = Plus / Minus
Query: 1 agtgacg 7
|||||||
Sbjct: 8 agtgacg 2
>hcmv-miR-UL112-3p MIMAT0001577 Human cytomegalovirus
miR-UL112-3p
Length = 8
Score = 14.4 bits (7), Expect = 20
Identities = 7/7 (100%)
Strand = Plus / Plus
Query: 1 agtgacg 7
|||||||
Sbjct: 2 agtgacg 8
>bra-miR161-3p MIMAT0035879 Brassica rapa miR161-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 6 agtgac 1
>cfa-miR-8878 MIMAT0034378 Canis familiaris miR-8878
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 2 gtgacg 7
||||||
Sbjct: 3 gtgacg 8
>gra-miR8690 MIMAT0034063 Gossypium raimondii miR8690
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 3 agtgac 8
>ppc-miR-8256-5p MIMAT0032980 Pristionchus pacificus miR-8256-5p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 3 agtgac 8
>ppc-miR-2238i-3p MIMAT0032941 Pristionchus pacificus
miR-2238i-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 1 agtgac 6
>ppc-miR-2238f-3p MIMAT0032857 Pristionchus pacificus
miR-2238f-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 1 agtgac 6
>pmi-miR-2011-5p MIMAT0032185 Patiria miniata miR-2011-5p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 8 agtgac 3
>oan-miR-7433-5p MIMAT0029016 Ornithorhynchus anatinus
miR-7433-5p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 8 agtgac 3
>mmu-miR-6917-3p MIMAT0027735 Mus musculus miR-6917-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 6 agtgac 1
>gga-miR-6685-3p MIMAT0025791 Gallus gallus miR-6685-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 2 gtgacg 7
||||||
Sbjct: 3 gtgacg 8
>ssc-miR-489 MIMAT0025375 Sus scrofa miR-489
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 1 agtgac 6
>ggo-miR-668 MIMAT0024252 Gorilla gorilla miR-668
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 8 agtgac 3
>aca-miR-34a-3p MIMAT0021940 Anolis carolinensis miR-34a-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 6 agtgac 1
>hsa-miR-5190 MIMAT0021121 Homo sapiens miR-5190
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 3 agtgac 8
>oar-miR-668-3p MIMAT0019311 Ovis aries miR-668-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 8 agtgac 3
>hsa-miR-4420 MIMAT0018933 Homo sapiens miR-4420
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 6 agtgac 1
>gma-miR4387d MIMAT0018301 Glycine max miR4387d
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 8 agtgac 3
>cin-miR-4001a-1-3p MIMAT0016445 Ciona intestinalis
miR-4001a-1-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 6 agtgac 1
>sja-miR-3502 MIMAT0016311 Schistosoma japonicum miR-3502
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 2 gtgacg 7
||||||
Sbjct: 1 gtgacg 6
>aly-miR161-3p.2 MIMAT0017444 Arabidopsis lyrata miR161-3p.2
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 6 agtgac 1
>bmo-miR-3245 MIMAT0015427 Bombyx mori miR-3245
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 8 agtgac 3
>gga-miR-449b-3p MIMAT0007744 Gallus gallus miR-449b-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 8 agtgac 3
>gga-miR-1640 MIMAT0007515 Gallus gallus miR-1640
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 8 agtgac 3
>gga-miR-1627-5p MIMAT0007497 Gallus gallus miR-1627-5p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 3 agtgac 8
>hsa-miR-1236-5p MIMAT0022945 Homo sapiens miR-1236-5p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 3 agtgac 8
>mcmv-miR-m107-1-5p MIMAT0005555 Mouse cytomegalovirus
miR-m107-1-5p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Minus
Query: 1 agtgac 6
||||||
Sbjct: 8 agtgac 3
>mtr-miR398a-5p MIMAT0022935 Medicago truncatula miR398a-5p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 3 agtgac 8
>xtr-miR-489 MIMAT0003642 Xenopus tropicalis miR-489
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 1 agtgac 6
>gga-miR-489-3p MIMAT0003365 Gallus gallus miR-489-3p
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 1 agtgac 6
>dre-miR-489 MIMAT0002940 Danio rerio miR-489
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 1 agtgac 6
>tni-miR-489 MIMAT0002939 Tetraodon nigroviridis miR-489
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 1 agtgac 6
>fru-miR-489 MIMAT0002938 Fugu rubripes miR-489
Length = 8
Score = 12.4 bits (6), Expect = 80
Identities = 6/6 (100%)
Strand = Plus / Plus
Query: 1 agtgac 6
||||||
Sbjct: 1 agtgac 6
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: 55
Number of extensions: 52
Number of successful extensions: 35
Number of sequences better than 100.0: 35
Number of HSP's gapped: 35
Number of HSP's successfully gapped: 35
Length of query: 7
Length of database: 286,624
Length adjustment: 4
Effective length of query: 3
Effective length of database: 143,312
Effective search space: 429936
Effective search space used: 429936
X1: 5 ( 9.9 bits)
X2: 15 (29.7 bits)
X3: 25 (49.6 bits)
S1: 5 (10.4 bits)
S2: 6 (12.4 bits)
