BLASTN 2.3.0+
Reference: Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb
Miller (2000), "A greedy algorithm for aligning DNA sequences", J
Comput Biol 2000; 7(1-2):203-14.
Database: homo-hairpin.fasta
1,881 sequences; 154,002 total letters
Query= GGTTTGGGGGCTTGACCTGGGTGCGCTTTCTGGACAGACTTTACAGCCCCGGGGGCACAGTCGTAGAG
AGGGGGCGGGGC
Length=80
Score E
Sequences producing significant alignments: (Bits) Value
[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop 25.1 0.22
[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop 23.3 0.80
[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop 21.4 2.9
[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop 21.4 2.9
[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop 21.4 2.9
[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop 21.4 2.9
[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop 21.4 2.9
[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop 21.4 2.9
[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop 21.4 2.9
[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop 21.4 2.9
[278]hsa-mir-219a-1 MI0000296 Homo sapiens miR-219a-1 stem-loop 21.4 2.9
>[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop
Length=84
Score = 25.1 bits (13), Expect = 0.22
Identities = 13/13 (100%), Gaps = 0/13 (0%)
Strand=Plus/Minus
Query 68 GAGGGGGCGGGGC 80
|||||||||||||
Sbjct 16 GAGGGGGCGGGGC 4
>[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop
Length=160
Score = 23.3 bits (12), Expect = 0.80
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 68 GAGGGGGCGGGG 79
||||||||||||
Sbjct 28 GAGGGGGCGGGG 17
>[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop
Length=96
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 11 CTTGACCTGGG 21
|||||||||||
Sbjct 19 CTTGACCTGGG 29
>[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop
Length=79
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 64 TAGAGAGGGGG 74
|||||||||||
Sbjct 11 TAGAGAGGGGG 1
>[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop
Length=91
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 1 GGTTTGGGGGC 11
|||||||||||
Sbjct 70 GGTTTGGGGGC 80
>[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop
Length=64
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 70 GGGGGCGGGGC 80
|||||||||||
Sbjct 5 GGGGGCGGGGC 15
>[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop
Length=102
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 70 GGGGGCGGGGC 80
|||||||||||
Sbjct 51 GGGGGCGGGGC 61
>[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop
Length=81
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 52 GGGGCACAGTC 62
|||||||||||
Sbjct 48 GGGGCACAGTC 38
>[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop
Length=86
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 64 TAGAGAGGGGG 74
|||||||||||
Sbjct 15 TAGAGAGGGGG 5
>[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop
Length=84
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 64 TAGAGAGGGGG 74
|||||||||||
Sbjct 14 TAGAGAGGGGG 4
>[278]hsa-mir-219a-1 MI0000296 Homo sapiens miR-219a-1 stem-loop
Length=110
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 1 GGTTTGGGGGC 11
|||||||||||
Sbjct 101 GGTTTGGGGGC 91
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 8176155
Database: homo-hairpin.fasta
Posted date: Sep 23, 2016 6:16 PM
Number of letters in database: 154,002
Number of sequences in database: 1,881
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5