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= GGAACCTTAGCGGACCCTGGGAGGA
Length=25
Score E
Sequences producing significant alignments: (Bits) Value
[20789]hsa-mir-6753 MI0022598 Homo sapiens miR-6753 stem-loop 23.3 0.15
[20800]hsa-mir-6764 MI0022609 Homo sapiens miR-6764 stem-loop 21.4 0.55
[17514]hsa-mir-3680-2 MI0019113 Homo sapiens miR-3680-2 stem-loop 21.4 0.55
[14522]hsa-mir-3680-1 MI0016081 Homo sapiens miR-3680-1 stem-loop 21.4 0.55
>[20789]hsa-mir-6753 MI0022598 Homo sapiens miR-6753 stem-loop
Length=164
Score = 23.3 bits (12), Expect = 0.15
Identities = 17/19 (89%), Gaps = 2/19 (11%)
Strand=Plus/Minus
Query 5 CCTT-AGCGGACCCTGGGA 22
|||| || |||||||||||
Sbjct 123 CCTTCAG-GGACCCTGGGA 106
>[20800]hsa-mir-6764 MI0022609 Homo sapiens miR-6764 stem-loop
Length=61
Score = 21.4 bits (11), Expect = 0.55
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 13 GACCCTGGGAG 23
|||||||||||
Sbjct 15 GACCCTGGGAG 5
>[17514]hsa-mir-3680-2 MI0019113 Homo sapiens miR-3680-2 stem-loop
Length=87
Score = 21.4 bits (11), Expect = 0.55
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 13 GACCCTGGGAG 23
|||||||||||
Sbjct 58 GACCCTGGGAG 68
>[14522]hsa-mir-3680-1 MI0016081 Homo sapiens miR-3680-1 stem-loop
Length=87
Score = 21.4 bits (11), Expect = 0.55
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 13 GACCCTGGGAG 23
|||||||||||
Sbjct 58 GACCCTGGGAG 68
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 1554588
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