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= AGGGTGGGGAAGCAGGGGAGCTGTGCGTGTGTCGGGGCGGGTGGAACCTTAGCGGACCCTGGGAGGAG
GCTCCCCGGCCGAACCTGCCCGACCCT
Length=95
Score E
Sequences producing significant alignments: (Bits) Value
[20789]hsa-mir-6753 MI0022598 Homo sapiens miR-6753 stem-loop 25.1 0.27
[4579]hsa-mir-920 MI0005712 Homo sapiens miR-920 stem-loop 25.1 0.27
[17514]hsa-mir-3680-2 MI0019113 Homo sapiens miR-3680-2 stem-loop 23.3 0.99
[15329]hsa-mir-4525 MI0016892 Homo sapiens miR-4525 stem-loop 23.3 0.99
[14522]hsa-mir-3680-1 MI0016081 Homo sapiens miR-3680-1 stem-loop 23.3 0.99
[21153]hsa-mir-7111 MI0022962 Homo sapiens miR-7111 stem-loop 21.4 3.6
[21148]hsa-mir-7106 MI0022957 Homo sapiens miR-7106 stem-loop 21.4 3.6
[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop 21.4 3.6
[20800]hsa-mir-6764 MI0022609 Homo sapiens miR-6764 stem-loop 21.4 3.6
[20799]hsa-mir-6763 MI0022608 Homo sapiens miR-6763 stem-loop 21.4 3.6
[14867]hsa-mir-3150b MI0016426 Homo sapiens miR-3150b stem-loop 21.4 3.6
[14497]hsa-mir-3653 MI0016053 Homo sapiens miR-3653 stem-loop 21.4 3.6
[12663]hsa-mir-3141 MI0014165 Homo sapiens miR-3141 stem-loop 21.4 3.6
[4446]hsa-mir-877 MI0005561 Homo sapiens miR-877 stem-loop 21.4 3.6
[732]hsa-mir-370 MI0000778 Homo sapiens miR-370 stem-loop 21.4 3.6
[268]hsa-mir-210 MI0000286 Homo sapiens miR-210 stem-loop 21.4 3.6
>[20789]hsa-mir-6753 MI0022598 Homo sapiens miR-6753 stem-loop
Length=164
Score = 25.1 bits (13), Expect = 0.27
Identities = 28/34 (82%), Gaps = 6/34 (18%)
Strand=Plus/Minus
Query 33 CGG-GGCGGGTGGAACCTT-AGCGGACCCTGGGA 64
||| |||||| || |||| || |||||||||||
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 = 0.27
Identities = 13/13 (100%), Gaps = 0/13 (0%)
Strand=Plus/Plus
Query 13 CAGGGGAGCTGTG 25
|||||||||||||
Sbjct 49 CAGGGGAGCTGTG 61
>[17514]hsa-mir-3680-2 MI0019113 Homo sapiens miR-3680-2 stem-loop
Length=87
Score = 23.3 bits (12), Expect = 0.99
Identities = 14/15 (93%), Gaps = 0/15 (0%)
Strand=Plus/Plus
Query 55 GACCCTGGGAGGAGG 69
||||||||||| |||
Sbjct 58 GACCCTGGGAGTAGG 72
>[15329]hsa-mir-4525 MI0016892 Homo sapiens miR-4525 stem-loop
Length=75
Score = 23.3 bits (12), Expect = 0.99
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 1 AGGGTGGGGAAG 12
||||||||||||
Sbjct 72 AGGGTGGGGAAG 61
>[14522]hsa-mir-3680-1 MI0016081 Homo sapiens miR-3680-1 stem-loop
Length=87
Score = 23.3 bits (12), Expect = 0.99
Identities = 14/15 (93%), Gaps = 0/15 (0%)
Strand=Plus/Plus
Query 55 GACCCTGGGAGGAGG 69
||||||||||| |||
Sbjct 58 GACCCTGGGAGTAGG 72
>[21153]hsa-mir-7111 MI0022962 Homo sapiens miR-7111 stem-loop
Length=72
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 59 CTGGGAGGAGG 69
|||||||||||
Sbjct 72 CTGGGAGGAGG 62
>[21148]hsa-mir-7106 MI0022957 Homo sapiens miR-7106 stem-loop
Length=65
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 59 CTGGGAGGAGG 69
|||||||||||
Sbjct 5 CTGGGAGGAGG 15
>[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop
Length=113
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 13 CAGGGGAGCTG 23
|||||||||||
Sbjct 44 CAGGGGAGCTG 34
>[20800]hsa-mir-6764 MI0022609 Homo sapiens miR-6764 stem-loop
Length=61
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 55 GACCCTGGGAG 65
|||||||||||
Sbjct 15 GACCCTGGGAG 5
>[20799]hsa-mir-6763 MI0022608 Homo sapiens miR-6763 stem-loop
Length=65
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 69 GCTCCCCGGCC 79
|||||||||||
Sbjct 44 GCTCCCCGGCC 54
>[14867]hsa-mir-3150b MI0016426 Homo sapiens miR-3150b stem-loop
Length=86
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 6 GGGGAAGCAGG 16
|||||||||||
Sbjct 84 GGGGAAGCAGG 74
>[14497]hsa-mir-3653 MI0016053 Homo sapiens miR-3653 stem-loop
Length=110
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 5 TGGGGAAGCAG 15
|||||||||||
Sbjct 106 TGGGGAAGCAG 96
>[12663]hsa-mir-3141 MI0014165 Homo sapiens miR-3141 stem-loop
Length=61
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 35 GGGCGGGTGGA 45
|||||||||||
Sbjct 12 GGGCGGGTGGA 22
>[4446]hsa-mir-877 MI0005561 Homo sapiens miR-877 stem-loop
Length=86
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 59 CTGGGAGGAGG 69
|||||||||||
Sbjct 86 CTGGGAGGAGG 76
>[732]hsa-mir-370 MI0000778 Homo sapiens miR-370 stem-loop
Length=75
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 39 GGGTGGAACCT 49
|||||||||||
Sbjct 56 GGGTGGAACCT 66
>[268]hsa-mir-210 MI0000286 Homo sapiens miR-210 stem-loop
Length=110
Score = 21.4 bits (11), Expect = 3.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 21 CTGTGCGTGTG 31
|||||||||||
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: 10062960
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