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= GAGGCTGAAGAGGGTGGGGAAGCAGGGGAGCTGTGCGTGTGTCGGGGCGGGTGGAACCTTAGCGGACC
CTGGGA
Length=74
Score E
Sequences producing significant alignments: (Bits) Value
[20789]hsa-mir-6753 MI0022598 Homo sapiens miR-6753 stem-loop 25.1 0.20
[4579]hsa-mir-920 MI0005712 Homo sapiens miR-920 stem-loop 25.1 0.20
[15329]hsa-mir-4525 MI0016892 Homo sapiens miR-4525 stem-loop 23.3 0.73
[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop 21.4 2.6
[14867]hsa-mir-3150b MI0016426 Homo sapiens miR-3150b stem-loop 21.4 2.6
[14533]hsa-mir-3691 MI0016092 Homo sapiens miR-3691 stem-loop 21.4 2.6
[14497]hsa-mir-3653 MI0016053 Homo sapiens miR-3653 stem-loop 21.4 2.6
[12663]hsa-mir-3141 MI0014165 Homo sapiens miR-3141 stem-loop 21.4 2.6
[732]hsa-mir-370 MI0000778 Homo sapiens miR-370 stem-loop 21.4 2.6
[268]hsa-mir-210 MI0000286 Homo sapiens miR-210 stem-loop 21.4 2.6
>[20789]hsa-mir-6753 MI0022598 Homo sapiens miR-6753 stem-loop
Length=164
Score = 25.1 bits (13), Expect = 0.20
Identities = 28/34 (82%), Gaps = 6/34 (18%)
Strand=Plus/Minus
Query 43 CGG-GGCGGGTGGAACCTT-AGCGGACCCTGGGA 74
||| |||||| || |||| || |||||||||||
Sbjct 135 CGGTGGCGGG-GG--CCTTCAG-GGACCCTGGGA 106
>[4579]hsa-mir-920 MI0005712 Homo sapiens miR-920 stem-loop
Length=75
Score = 25.1 bits (13), Expect = 0.20
Identities = 13/13 (100%), Gaps = 0/13 (0%)
Strand=Plus/Plus
Query 23 CAGGGGAGCTGTG 35
|||||||||||||
Sbjct 49 CAGGGGAGCTGTG 61
>[15329]hsa-mir-4525 MI0016892 Homo sapiens miR-4525 stem-loop
Length=75
Score = 23.3 bits (12), Expect = 0.73
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 11 AGGGTGGGGAAG 22
||||||||||||
Sbjct 72 AGGGTGGGGAAG 61
>[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop
Length=113
Score = 21.4 bits (11), Expect = 2.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 23 CAGGGGAGCTG 33
|||||||||||
Sbjct 44 CAGGGGAGCTG 34
>[14867]hsa-mir-3150b MI0016426 Homo sapiens miR-3150b stem-loop
Length=86
Score = 21.4 bits (11), Expect = 2.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 16 GGGGAAGCAGG 26
|||||||||||
Sbjct 84 GGGGAAGCAGG 74
>[14533]hsa-mir-3691 MI0016092 Homo sapiens miR-3691 stem-loop
Length=90
Score = 21.4 bits (11), Expect = 2.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 10 GAGGGTGGGGA 20
|||||||||||
Sbjct 46 GAGGGTGGGGA 56
>[14497]hsa-mir-3653 MI0016053 Homo sapiens miR-3653 stem-loop
Length=110
Score = 21.4 bits (11), Expect = 2.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 15 TGGGGAAGCAG 25
|||||||||||
Sbjct 106 TGGGGAAGCAG 96
>[12663]hsa-mir-3141 MI0014165 Homo sapiens miR-3141 stem-loop
Length=61
Score = 21.4 bits (11), Expect = 2.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 45 GGGCGGGTGGA 55
|||||||||||
Sbjct 12 GGGCGGGTGGA 22
>[732]hsa-mir-370 MI0000778 Homo sapiens miR-370 stem-loop
Length=75
Score = 21.4 bits (11), Expect = 2.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 49 GGGTGGAACCT 59
|||||||||||
Sbjct 56 GGGTGGAACCT 66
>[268]hsa-mir-210 MI0000286 Homo sapiens miR-210 stem-loop
Length=110
Score = 21.4 bits (11), Expect = 2.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 31 CTGTGCGTGTG 41
|||||||||||
Sbjct 66 CTGTGCGTGTG 76
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 7421433
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