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= GCGAGGGGGACCGAGGCCAGGACTCTCCTTGGGGTTTGGGGGCTTGACCTGGGTGCGCTTTCTGGACA
GACTTTACAGCCCCGGGGGCACAGTCGTAGAGAGGGGGCGGGGCG
Length=113
Score E
Sequences producing significant alignments: (Bits) Value
[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop 27.0 0.091
[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop 27.0 0.091
[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop 23.3 1.2
[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop 23.3 1.2
[21734]hsa-mir-6089-2 MI0023563 Homo sapiens miR-6089-2 stem-loop 21.4 4.2
[21150]hsa-mir-7108 MI0022959 Homo sapiens miR-7108 stem-loop 21.4 4.2
[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop 21.4 4.2
[18625]hsa-mir-6090 MI0020367 Homo sapiens miR-6090 stem-loop 21.4 4.2
[18624]hsa-mir-6089-1 MI0020366 Homo sapiens miR-6089-1 stem-loop 21.4 4.2
[15327]hsa-mir-4523 MI0016890 Homo sapiens miR-4523 stem-loop 21.4 4.2
[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop 21.4 4.2
[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop 21.4 4.2
[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop 21.4 4.2
[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop 21.4 4.2
[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop 21.4 4.2
[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop 21.4 4.2
[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop 21.4 4.2
[3427]hsa-mir-639 MI0003654 Homo sapiens miR-639 stem-loop 21.4 4.2
[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop 21.4 4.2
[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop 21.4 4.2
[278]hsa-mir-219a-1 MI0000296 Homo sapiens miR-219a-1 stem-loop 21.4 4.2
[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop 21.4 4.2
>[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop
Length=84
Score = 27.0 bits (14), Expect = 0.091
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Minus
Query 100 GAGGGGGCGGGGCG 113
||||||||||||||
Sbjct 16 GAGGGGGCGGGGCG 3
>[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop
Length=67
Score = 27.0 bits (14), Expect = 0.091
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 28 CTTGGGGTTTGGGG 41
||||||||||||||
Sbjct 5 CTTGGGGTTTGGGG 18
>[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop
Length=160
Score = 23.3 bits (12), Expect = 1.2
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 100 GAGGGGGCGGGG 111
||||||||||||
Sbjct 28 GAGGGGGCGGGG 17
>[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop
Length=64
Score = 23.3 bits (12), Expect = 1.2
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 102 GGGGGCGGGGCG 113
||||||||||||
Sbjct 5 GGGGGCGGGGCG 16
>[21734]hsa-mir-6089-2 MI0023563 Homo sapiens miR-6089-2 stem-loop
Length=64
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 103 GGGGCGGGGCG 113
|||||||||||
Sbjct 51 GGGGCGGGGCG 61
>[21150]hsa-mir-7108 MI0022959 Homo sapiens miR-7108 stem-loop
Length=87
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 103 GGGGCGGGGCG 113
|||||||||||
Sbjct 55 GGGGCGGGGCG 45
>[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop
Length=113
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 103 GGGGCGGGGCG 113
|||||||||||
Sbjct 8 GGGGCGGGGCG 18
>[18625]hsa-mir-6090 MI0020367 Homo sapiens miR-6090 stem-loop
Length=60
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 103 GGGGCGGGGCG 113
|||||||||||
Sbjct 50 GGGGCGGGGCG 60
>[18624]hsa-mir-6089-1 MI0020366 Homo sapiens miR-6089-1 stem-loop
Length=64
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 103 GGGGCGGGGCG 113
|||||||||||
Sbjct 51 GGGGCGGGGCG 61
>[15327]hsa-mir-4523 MI0016890 Homo sapiens miR-4523 stem-loop
Length=69
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 5 GGGGGACCGAG 15
|||||||||||
Sbjct 3 GGGGGACCGAG 13
>[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop
Length=96
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 43 CTTGACCTGGG 53
|||||||||||
Sbjct 19 CTTGACCTGGG 29
>[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop
Length=79
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 96 TAGAGAGGGGG 106
|||||||||||
Sbjct 11 TAGAGAGGGGG 1
>[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop
Length=91
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 33 GGTTTGGGGGC 43
|||||||||||
Sbjct 70 GGTTTGGGGGC 80
>[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop
Length=75
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 31 GGGGTTTGGGG 41
|||||||||||
Sbjct 3 GGGGTTTGGGG 13
>[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop
Length=102
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 102 GGGGGCGGGGC 112
|||||||||||
Sbjct 51 GGGGGCGGGGC 61
>[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop
Length=69
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 32 GGGTTTGGGGG 42
|||||||||||
Sbjct 8 GGGTTTGGGGG 18
>[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop
Length=81
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 84 GGGGCACAGTC 94
|||||||||||
Sbjct 48 GGGGCACAGTC 38
>[3427]hsa-mir-639 MI0003654 Homo sapiens miR-639 stem-loop
Length=98
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 103 GGGGCGGGGCG 113
|||||||||||
Sbjct 28 GGGGCGGGGCG 38
>[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop
Length=86
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 96 TAGAGAGGGGG 106
|||||||||||
Sbjct 15 TAGAGAGGGGG 5
>[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop
Length=84
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 96 TAGAGAGGGGG 106
|||||||||||
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 = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 33 GGTTTGGGGGC 43
|||||||||||
Sbjct 101 GGTTTGGGGGC 91
>[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop
Length=110
Score = 21.4 bits (11), Expect = 4.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 32 GGGTTTGGGGG 42
|||||||||||
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: 12018882
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