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= TTTTATTTTAATTT
Length=14
Score E
Sequences producing significant alignments: (Bits) Value
[14442]hsa-mir-3606 MI0015996 Homo sapiens miR-3606 stem-loop 21.4 0.14
[3351]hsa-mir-570 MI0003577 Homo sapiens miR-570 stem-loop 21.4 0.14
[3334]hsa-mir-553 MI0003558 Homo sapiens miR-553 stem-loop 21.4 0.14
[452]hsa-mir-186 MI0000483 Homo sapiens miR-186 stem-loop 21.4 0.14
>[14442]hsa-mir-3606 MI0015996 Homo sapiens miR-3606 stem-loop
Length=63
Score = 21.4 bits (11), Expect = 0.14
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 4 TATTTTAATTT 14
|||||||||||
Sbjct 27 TATTTTAATTT 37
>[3351]hsa-mir-570 MI0003577 Homo sapiens miR-570 stem-loop
Length=97
Score = 21.4 bits (11), Expect = 0.14
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 3 TTATTTTAATT 13
|||||||||||
Sbjct 48 TTATTTTAATT 58
>[3334]hsa-mir-553 MI0003558 Homo sapiens miR-553 stem-loop
Length=68
Score = 21.4 bits (11), Expect = 0.14
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 1 TTTTATTTTAA 11
|||||||||||
Sbjct 7 TTTTATTTTAA 17
>[452]hsa-mir-186 MI0000483 Homo sapiens miR-186 stem-loop
Length=86
Score = 21.4 bits (11), Expect = 0.14
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 1 TTTTATTTTAA 11
|||||||||||
Sbjct 43 TTTTATTTTAA 53
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 399933
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