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= GCGTGTGTCGGGGCGGGTGGAACCTTAGCGGACCCTGGGAGGAGGCTCCCCGGCCGAACCTGCCCGAC
CCTCCCTCCCCC
Length=80
Score E
Sequences producing significant alignments: (Bits) Value
[3435]hsa-mir-647 MI0003662 Homo sapiens miR-647 stem-loop 30.7 0.005
[20789]hsa-mir-6753 MI0022598 Homo sapiens miR-6753 stem-loop 25.1 0.22
[447]hsa-mir-149 MI0000478 Homo sapiens miR-149 stem-loop 25.1 0.22
[20811]hsa-mir-6775 MI0022620 Homo sapiens miR-6775 stem-loop 23.3 0.80
[17514]hsa-mir-3680-2 MI0019113 Homo sapiens miR-3680-2 stem-loop 23.3 0.80
[14522]hsa-mir-3680-1 MI0016081 Homo sapiens miR-3680-1 stem-loop 23.3 0.80
[23671]hsa-mir-7845 MI0025515 Homo sapiens miR-7845 stem-loop 21.4 2.9
[21153]hsa-mir-7111 MI0022962 Homo sapiens miR-7111 stem-loop 21.4 2.9
[21148]hsa-mir-7106 MI0022957 Homo sapiens miR-7106 stem-loop 21.4 2.9
[20800]hsa-mir-6764 MI0022609 Homo sapiens miR-6764 stem-loop 21.4 2.9
[20799]hsa-mir-6763 MI0022608 Homo sapiens miR-6763 stem-loop 21.4 2.9
[15843]hsa-mir-4769 MI0017410 Homo sapiens miR-4769 stem-loop 21.4 2.9
[12663]hsa-mir-3141 MI0014165 Homo sapiens miR-3141 stem-loop 21.4 2.9
[4446]hsa-mir-877 MI0005561 Homo sapiens miR-877 stem-loop 21.4 2.9
[732]hsa-mir-370 MI0000778 Homo sapiens miR-370 stem-loop 21.4 2.9
>[3435]hsa-mir-647 MI0003662 Homo sapiens miR-647 stem-loop
Length=96
Score = 30.7 bits (16), Expect = 0.005
Identities = 18/19 (95%), Gaps = 0/19 (0%)
Strand=Plus/Minus
Query 59 CCTGCCCGACCCTCCCTCC 77
|||||| ||||||||||||
Sbjct 82 CCTGCCTGACCCTCCCTCC 64
>[20789]hsa-mir-6753 MI0022598 Homo sapiens miR-6753 stem-loop
Length=164
Score = 25.1 bits (13), Expect = 0.22
Identities = 28/34 (82%), Gaps = 6/34 (18%)
Strand=Plus/Minus
Query 9 CGG-GGCGGGTGGAACCTT-AGCGGACCCTGGGA 40
||| |||||| || |||| || |||||||||||
Sbjct 135 CGGTGGCGGG-GG--CCTTCAG-GGACCCTGGGA 106
>[447]hsa-mir-149 MI0000478 Homo sapiens miR-149 stem-loop
Length=89
Score = 25.1 bits (13), Expect = 0.22
Identities = 15/16 (94%), Gaps = 0/16 (0%)
Strand=Plus/Minus
Query 63 CCCGACCCTCCCTCCC 78
|||| |||||||||||
Sbjct 68 CCCGTCCCTCCCTCCC 53
>[20811]hsa-mir-6775 MI0022620 Homo sapiens miR-6775 stem-loop
Length=69
Score = 23.3 bits (12), Expect = 0.80
Identities = 19/22 (86%), Gaps = 1/22 (5%)
Strand=Plus/Minus
Query 59 CCTGCCCGACCCTCCCTCCCCC 80
|||| || | ||||||||||||
Sbjct 35 CCTGTCC-AGCCTCCCTCCCCC 15
>[17514]hsa-mir-3680-2 MI0019113 Homo sapiens miR-3680-2 stem-loop
Length=87
Score = 23.3 bits (12), Expect = 0.80
Identities = 14/15 (93%), Gaps = 0/15 (0%)
Strand=Plus/Plus
Query 31 GACCCTGGGAGGAGG 45
||||||||||| |||
Sbjct 58 GACCCTGGGAGTAGG 72
>[14522]hsa-mir-3680-1 MI0016081 Homo sapiens miR-3680-1 stem-loop
Length=87
Score = 23.3 bits (12), Expect = 0.80
Identities = 14/15 (93%), Gaps = 0/15 (0%)
Strand=Plus/Plus
Query 31 GACCCTGGGAGGAGG 45
||||||||||| |||
Sbjct 58 GACCCTGGGAGTAGG 72
>[23671]hsa-mir-7845 MI0025515 Homo sapiens miR-7845 stem-loop
Length=99
Score = 21.4 bits (11), Expect = 2.9
Identities = 14/15 (93%), Gaps = 1/15 (7%)
Strand=Plus/Minus
Query 62 GCC-CGACCCTCCCT 75
||| |||||||||||
Sbjct 24 GCCACGACCCTCCCT 10
>[21153]hsa-mir-7111 MI0022962 Homo sapiens miR-7111 stem-loop
Length=72
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 35 CTGGGAGGAGG 45
|||||||||||
Sbjct 72 CTGGGAGGAGG 62
>[21148]hsa-mir-7106 MI0022957 Homo sapiens miR-7106 stem-loop
Length=65
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 35 CTGGGAGGAGG 45
|||||||||||
Sbjct 5 CTGGGAGGAGG 15
>[20800]hsa-mir-6764 MI0022609 Homo sapiens miR-6764 stem-loop
Length=61
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 31 GACCCTGGGAG 41
|||||||||||
Sbjct 15 GACCCTGGGAG 5
>[20799]hsa-mir-6763 MI0022608 Homo sapiens miR-6763 stem-loop
Length=65
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 45 GCTCCCCGGCC 55
|||||||||||
Sbjct 44 GCTCCCCGGCC 54
>[15843]hsa-mir-4769 MI0017410 Homo sapiens miR-4769 stem-loop
Length=77
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 69 CCTCCCTCCCC 79
|||||||||||
Sbjct 56 CCTCCCTCCCC 66
>[12663]hsa-mir-3141 MI0014165 Homo sapiens miR-3141 stem-loop
Length=61
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 11 GGGCGGGTGGA 21
|||||||||||
Sbjct 12 GGGCGGGTGGA 22
>[4446]hsa-mir-877 MI0005561 Homo sapiens miR-877 stem-loop
Length=86
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 35 CTGGGAGGAGG 45
|||||||||||
Sbjct 86 CTGGGAGGAGG 76
>[732]hsa-mir-370 MI0000778 Homo sapiens miR-370 stem-loop
Length=75
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 15 GGGTGGAACCT 25
|||||||||||
Sbjct 56 GGGTGGAACCT 66
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 8176155
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