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= GGACCGAGGCCAGGACTCTCCTTGGGGTTTGGGGGCTTGACCTGGGTGCGCTTTCTGGACAGACTTTA
CAGCCCCGGGGGCACAGTCGTAGAGAGGGGGCGG
Length=102
Score E
Sequences producing significant alignments: (Bits) Value
[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop 27.0 0.081
[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop 21.4 3.8
[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop 21.4 3.8
[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop 21.4 3.8
[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop 21.4 3.8
[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop 21.4 3.8
[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop 21.4 3.8
[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop 21.4 3.8
[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop 21.4 3.8
[278]hsa-mir-219a-1 MI0000296 Homo sapiens miR-219a-1 stem-loop 21.4 3.8
[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop 21.4 3.8
>[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop
Length=67
Score = 27.0 bits (14), Expect = 0.081
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 21 CTTGGGGTTTGGGG 34
||||||||||||||
Sbjct 5 CTTGGGGTTTGGGG 18
>[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop
Length=96
Score = 21.4 bits (11), Expect = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 36 CTTGACCTGGG 46
|||||||||||
Sbjct 19 CTTGACCTGGG 29
>[14360]hsa-mir-500b MI0015903 Homo sapiens miR-500b stem-loop
Length=79
Score = 21.4 bits (11), Expect = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 89 TAGAGAGGGGG 99
|||||||||||
Sbjct 11 TAGAGAGGGGG 1
>[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop
Length=91
Score = 21.4 bits (11), Expect = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 26 GGTTTGGGGGC 36
|||||||||||
Sbjct 70 GGTTTGGGGGC 80
>[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop
Length=75
Score = 21.4 bits (11), Expect = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 24 GGGGTTTGGGG 34
|||||||||||
Sbjct 3 GGGGTTTGGGG 13
>[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop
Length=69
Score = 21.4 bits (11), Expect = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 25 GGGTTTGGGGG 35
|||||||||||
Sbjct 8 GGGTTTGGGGG 18
>[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop
Length=81
Score = 21.4 bits (11), Expect = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 77 GGGGCACAGTC 87
|||||||||||
Sbjct 48 GGGGCACAGTC 38
>[2966]hsa-mir-502 MI0003186 Homo sapiens miR-502 stem-loop
Length=86
Score = 21.4 bits (11), Expect = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 89 TAGAGAGGGGG 99
|||||||||||
Sbjct 15 TAGAGAGGGGG 5
>[2964]hsa-mir-500a MI0003184 Homo sapiens miR-500a stem-loop
Length=84
Score = 21.4 bits (11), Expect = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 89 TAGAGAGGGGG 99
|||||||||||
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 = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 26 GGTTTGGGGGC 36
|||||||||||
Sbjct 101 GGTTTGGGGGC 91
>[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop
Length=110
Score = 21.4 bits (11), Expect = 3.8
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 25 GGGTTTGGGGG 35
|||||||||||
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: 10655916
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