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= GTGGGCGAGGGGGACCGAGGCCAGGACTCTCCTTGGGGTTTGGGGGCTTGACCTGGGTGCGCTTTCTG
GACAGACTTTACAGCCCCGGGGGCACAGTCGTAGAGAGGGGGCGGGGCGGCC
Length=120
Score E
Sequences producing significant alignments: (Bits) Value
[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop 28.8 0.027
[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop 27.0 0.098
[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop 27.0 0.098
[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop 27.0 0.098
[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop 25.1 0.35
[21734]hsa-mir-6089-2 MI0023563 Homo sapiens miR-6089-2 stem-loop 23.3 1.3
[21150]hsa-mir-7108 MI0022959 Homo sapiens miR-7108 stem-loop 23.3 1.3
[20765]hsa-mir-6729 MI0022574 Homo sapiens miR-6729 stem-loop 23.3 1.3
[18624]hsa-mir-6089-1 MI0020366 Homo sapiens miR-6089-1 stem-loop 23.3 1.3
[3427]hsa-mir-639 MI0003654 Homo sapiens miR-639 stem-loop 23.3 1.3
[18625]hsa-mir-6090 MI0020367 Homo sapiens miR-6090 stem-loop 21.4 4.6
[15812]hsa-mir-4741 MI0017379 Homo sapiens miR-4741 stem-loop 21.4 4.6
[15709]hsa-mir-4649 MI0017276 Homo sapiens miR-4649 stem-loop 21.4 4.6
[15327]hsa-mir-4523 MI0016890 Homo sapiens miR-4523 stem-loop 21.4 4.6
[15286]hsa-mir-4488 MI0016849 Homo sapiens miR-4488 stem-loop 21.4 4.6
[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop 21.4 4.6
[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop 21.4 4.6
[14348]hsa-mir-4285 MI0015891 Homo sapiens miR-4285 stem-loop 21.4 4.6
[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop 21.4 4.6
[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop 21.4 4.6
[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop 21.4 4.6
[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop 21.4 4.6
[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop 21.4 4.6
[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop 21.4 4.6
[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop 21.4 4.6
[278]hsa-mir-219a-1 MI0000296 Homo sapiens miR-219a-1 stem-loop 21.4 4.6
[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop 21.4 4.6
>[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop
Length=84
Score = 28.8 bits (15), Expect = 0.027
Identities = 15/15 (100%), Gaps = 0/15 (0%)
Strand=Plus/Minus
Query 104 GAGGGGGCGGGGCGG 118
|||||||||||||||
Sbjct 16 GAGGGGGCGGGGCGG 2
>[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop
Length=67
Score = 27.0 bits (14), Expect = 0.098
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 32 CTTGGGGTTTGGGG 45
||||||||||||||
Sbjct 5 CTTGGGGTTTGGGG 18
>[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop
Length=113
Score = 27.0 bits (14), Expect = 0.098
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 107 GGGGCGGGGCGGCC 120
||||||||||||||
Sbjct 8 GGGGCGGGGCGGCC 21
>[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop
Length=64
Score = 27.0 bits (14), Expect = 0.098
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 106 GGGGGCGGGGCGGC 119
||||||||||||||
Sbjct 5 GGGGGCGGGGCGGC 18
>[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop
Length=160
Score = 25.1 bits (13), Expect = 0.35
Identities = 15/16 (94%), Gaps = 0/16 (0%)
Strand=Plus/Minus
Query 104 GAGGGGGCGGGGCGGC 119
|||||||||||| |||
Sbjct 28 GAGGGGGCGGGGAGGC 13
>[21734]hsa-mir-6089-2 MI0023563 Homo sapiens miR-6089-2 stem-loop
Length=64
Score = 23.3 bits (12), Expect = 1.3
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 107 GGGGCGGGGCGG 118
||||||||||||
Sbjct 51 GGGGCGGGGCGG 62
>[21150]hsa-mir-7108 MI0022959 Homo sapiens miR-7108 stem-loop
Length=87
Score = 23.3 bits (12), Expect = 1.3
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 107 GGGGCGGGGCGG 118
||||||||||||
Sbjct 55 GGGGCGGGGCGG 44
>[20765]hsa-mir-6729 MI0022574 Homo sapiens miR-6729 stem-loop
Length=65
Score = 23.3 bits (12), Expect = 1.3
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 3 GGGCGAGGGGGA 14
||||||||||||
Sbjct 59 GGGCGAGGGGGA 48
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 1 GTGGGCGAGGG 11
|||||||||||
Sbjct 5 GTGGGCGAGGG 15
>[18624]hsa-mir-6089-1 MI0020366 Homo sapiens miR-6089-1 stem-loop
Length=64
Score = 23.3 bits (12), Expect = 1.3
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 107 GGGGCGGGGCGG 118
||||||||||||
Sbjct 51 GGGGCGGGGCGG 62
>[3427]hsa-mir-639 MI0003654 Homo sapiens miR-639 stem-loop
Length=98
Score = 23.3 bits (12), Expect = 1.3
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 107 GGGGCGGGGCGG 118
||||||||||||
Sbjct 28 GGGGCGGGGCGG 39
>[18625]hsa-mir-6090 MI0020367 Homo sapiens miR-6090 stem-loop
Length=60
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 107 GGGGCGGGGCG 117
|||||||||||
Sbjct 50 GGGGCGGGGCG 60
>[15812]hsa-mir-4741 MI0017379 Homo sapiens miR-4741 stem-loop
Length=90
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 108 GGGCGGGGCGG 118
|||||||||||
Sbjct 2 GGGCGGGGCGG 12
>[15709]hsa-mir-4649 MI0017276 Homo sapiens miR-4649 stem-loop
Length=64
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 2 TGGGCGAGGGG 12
|||||||||||
Sbjct 3 TGGGCGAGGGG 13
>[15327]hsa-mir-4523 MI0016890 Homo sapiens miR-4523 stem-loop
Length=69
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 9 GGGGGACCGAG 19
|||||||||||
Sbjct 3 GGGGGACCGAG 13
>[15286]hsa-mir-4488 MI0016849 Homo sapiens miR-4488 stem-loop
Length=62
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 108 GGGCGGGGCGG 118
|||||||||||
Sbjct 62 GGGCGGGGCGG 52
>[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop
Length=96
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 47 CTTGACCTGGG 57
|||||||||||
Sbjct 19 CTTGACCTGGG 29
>[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop
Length=79
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 100 TAGAGAGGGGG 110
|||||||||||
Sbjct 11 TAGAGAGGGGG 1
>[14348]hsa-mir-4285 MI0015891 Homo sapiens miR-4285 stem-loop
Length=85
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 109 GGCGGGGCGGC 119
|||||||||||
Sbjct 5 GGCGGGGCGGC 15
>[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop
Length=91
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 37 GGTTTGGGGGC 47
|||||||||||
Sbjct 70 GGTTTGGGGGC 80
>[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop
Length=75
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 35 GGGGTTTGGGG 45
|||||||||||
Sbjct 3 GGGGTTTGGGG 13
>[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop
Length=102
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 106 GGGGGCGGGGC 116
|||||||||||
Sbjct 51 GGGGGCGGGGC 61
>[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop
Length=69
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 36 GGGTTTGGGGG 46
|||||||||||
Sbjct 8 GGGTTTGGGGG 18
>[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop
Length=81
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 88 GGGGCACAGTC 98
|||||||||||
Sbjct 48 GGGGCACAGTC 38
>[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop
Length=86
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 100 TAGAGAGGGGG 110
|||||||||||
Sbjct 15 TAGAGAGGGGG 5
>[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop
Length=84
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 100 TAGAGAGGGGG 110
|||||||||||
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 = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 37 GGTTTGGGGGC 47
|||||||||||
Sbjct 101 GGTTTGGGGGC 91
>[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop
Length=110
Score = 21.4 bits (11), Expect = 4.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 36 GGGTTTGGGGG 46
|||||||||||
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: 12886224
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