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= TGGGGTTTGGGGGCTTGACCTGGGTGCGCTTTCTGGACAGACTTTACAGCCCCGGGGGCACAGTCGTA
GAGAGGGGGCGGGGCGG
Length=85
Score E
Sequences producing significant alignments: (Bits) Value
[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop 28.8 0.019
[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop 25.1 0.24
[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop 23.3 0.86
[21734]hsa-mir-6089-2 MI0023563 Homo sapiens miR-6089-2 stem-loop 23.3 0.86
[21150]hsa-mir-7108 MI0022959 Homo sapiens miR-7108 stem-loop 23.3 0.86
[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop 23.3 0.86
[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop 23.3 0.86
[18624]hsa-mir-6089-1 MI0020366 Homo sapiens miR-6089-1 stem-loop 23.3 0.86
[3427]hsa-mir-639 MI0003654 Homo sapiens miR-639 stem-loop 23.3 0.86
[18625]hsa-mir-6090 MI0020367 Homo sapiens miR-6090 stem-loop 21.4 3.1
[15812]hsa-mir-4741 MI0017379 Homo sapiens miR-4741 stem-loop 21.4 3.1
[15286]hsa-mir-4488 MI0016849 Homo sapiens miR-4488 stem-loop 21.4 3.1
[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop 21.4 3.1
[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop 21.4 3.1
[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop 21.4 3.1
[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop 21.4 3.1
[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop 21.4 3.1
[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop 21.4 3.1
[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop 21.4 3.1
[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop 21.4 3.1
[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop 21.4 3.1
[278]hsa-mir-219a-1 MI0000296 Homo sapiens miR-219a-1 stem-loop 21.4 3.1
[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop 21.4 3.1
>[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop
Length=84
Score = 28.8 bits (15), Expect = 0.019
Identities = 15/15 (100%), Gaps = 0/15 (0%)
Strand=Plus/Minus
Query 71 GAGGGGGCGGGGCGG 85
|||||||||||||||
Sbjct 16 GAGGGGGCGGGGCGG 2
>[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop
Length=64
Score = 25.1 bits (13), Expect = 0.24
Identities = 13/13 (100%), Gaps = 0/13 (0%)
Strand=Plus/Plus
Query 73 GGGGGCGGGGCGG 85
|||||||||||||
Sbjct 5 GGGGGCGGGGCGG 17
>[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop
Length=160
Score = 23.3 bits (12), Expect = 0.86
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 71 GAGGGGGCGGGG 82
||||||||||||
Sbjct 28 GAGGGGGCGGGG 17
>[21734]hsa-mir-6089-2 MI0023563 Homo sapiens miR-6089-2 stem-loop
Length=64
Score = 23.3 bits (12), Expect = 0.86
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 74 GGGGCGGGGCGG 85
||||||||||||
Sbjct 51 GGGGCGGGGCGG 62
>[21150]hsa-mir-7108 MI0022959 Homo sapiens miR-7108 stem-loop
Length=87
Score = 23.3 bits (12), Expect = 0.86
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 74 GGGGCGGGGCGG 85
||||||||||||
Sbjct 55 GGGGCGGGGCGG 44
>[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop
Length=67
Score = 23.3 bits (12), Expect = 0.86
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 1 TGGGGTTTGGGG 12
||||||||||||
Sbjct 7 TGGGGTTTGGGG 18
>[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop
Length=113
Score = 23.3 bits (12), Expect = 0.86
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 74 GGGGCGGGGCGG 85
||||||||||||
Sbjct 8 GGGGCGGGGCGG 19
>[18624]hsa-mir-6089-1 MI0020366 Homo sapiens miR-6089-1 stem-loop
Length=64
Score = 23.3 bits (12), Expect = 0.86
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 74 GGGGCGGGGCGG 85
||||||||||||
Sbjct 51 GGGGCGGGGCGG 62
>[3427]hsa-mir-639 MI0003654 Homo sapiens miR-639 stem-loop
Length=98
Score = 23.3 bits (12), Expect = 0.86
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 74 GGGGCGGGGCGG 85
||||||||||||
Sbjct 28 GGGGCGGGGCGG 39
>[18625]hsa-mir-6090 MI0020367 Homo sapiens miR-6090 stem-loop
Length=60
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 74 GGGGCGGGGCG 84
|||||||||||
Sbjct 50 GGGGCGGGGCG 60
>[15812]hsa-mir-4741 MI0017379 Homo sapiens miR-4741 stem-loop
Length=90
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 75 GGGCGGGGCGG 85
|||||||||||
Sbjct 2 GGGCGGGGCGG 12
>[15286]hsa-mir-4488 MI0016849 Homo sapiens miR-4488 stem-loop
Length=62
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 75 GGGCGGGGCGG 85
|||||||||||
Sbjct 62 GGGCGGGGCGG 52
>[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop
Length=96
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 14 CTTGACCTGGG 24
|||||||||||
Sbjct 19 CTTGACCTGGG 29
>[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop
Length=79
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 67 TAGAGAGGGGG 77
|||||||||||
Sbjct 11 TAGAGAGGGGG 1
>[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop
Length=91
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 4 GGTTTGGGGGC 14
|||||||||||
Sbjct 70 GGTTTGGGGGC 80
>[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop
Length=75
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 2 GGGGTTTGGGG 12
|||||||||||
Sbjct 3 GGGGTTTGGGG 13
>[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop
Length=102
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 73 GGGGGCGGGGC 83
|||||||||||
Sbjct 51 GGGGGCGGGGC 61
>[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop
Length=69
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 3 GGGTTTGGGGG 13
|||||||||||
Sbjct 8 GGGTTTGGGGG 18
>[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop
Length=81
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 55 GGGGCACAGTC 65
|||||||||||
Sbjct 48 GGGGCACAGTC 38
>[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop
Length=86
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 67 TAGAGAGGGGG 77
|||||||||||
Sbjct 15 TAGAGAGGGGG 5
>[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop
Length=84
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 67 TAGAGAGGGGG 77
|||||||||||
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 = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 4 GGTTTGGGGGC 14
|||||||||||
Sbjct 101 GGTTTGGGGGC 91
>[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop
Length=110
Score = 21.4 bits (11), Expect = 3.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 3 GGGTTTGGGGG 13
|||||||||||
Sbjct 16 GGGTTTGGGGG 26
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 8805090
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