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= GGTTTGGGGGCTTGACCTGGGTGCGCTTTCTGGACAGACTTTACAGCCCCGGGGGCACAGTCGTAGA
Length=67
Score E
Sequences producing significant alignments: (Bits) Value
[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop 21.4 2.3
[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop 21.4 2.3
[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop 21.4 2.3
[278]hsa-mir-219a-1 MI0000296 Homo sapiens miR-219a-1 stem-loop 21.4 2.3
>[14506]hsa-mir-3661 MI0016062 Homo sapiens miR-3661 stem-loop
Length=96
Score = 21.4 bits (11), Expect = 2.3
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 11 CTTGACCTGGG 21
|||||||||||
Sbjct 19 CTTGACCTGGG 29
>[14314]hsa-mir-4258 MI0015857 Homo sapiens miR-4258 stem-loop
Length=91
Score = 21.4 bits (11), Expect = 2.3
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 1 GGTTTGGGGGC 11
|||||||||||
Sbjct 70 GGTTTGGGGGC 80
>[4581]hsa-mir-922 MI0005714 Homo sapiens miR-922 stem-loop
Length=81
Score = 21.4 bits (11), Expect = 2.3
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 52 GGGGCACAGTC 62
|||||||||||
Sbjct 48 GGGGCACAGTC 38
>[278]hsa-mir-219a-1 MI0000296 Homo sapiens miR-219a-1 stem-loop
Length=110
Score = 21.4 bits (11), Expect = 2.3
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 1 GGTTTGGGGGC 11
|||||||||||
Sbjct 101 GGTTTGGGGGC 91
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 6540924
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