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= CCTTGGGGTTTGGGGG
Length=16
Score E
Sequences producing significant alignments: (Bits) Value
[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop 27.0 0.004
[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop 21.4 0.19
[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop 21.4 0.19
[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop 21.4 0.19
>[20892]hsa-mir-6855 MI0022701 Homo sapiens miR-6855 stem-loop
Length=67
Score = 27.0 bits (14), Expect = 0.004
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 2 CTTGGGGTTTGGGG 15
||||||||||||||
Sbjct 5 CTTGGGGTTTGGGG 18
>[9317]hsa-mir-2110 MI0010629 Homo sapiens miR-2110 stem-loop
Length=75
Score = 21.4 bits (11), Expect = 0.19
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 5 GGGGTTTGGGG 15
|||||||||||
Sbjct 3 GGGGTTTGGGG 13
>[5163]hsa-mir-1229 MI0006319 Homo sapiens miR-1229 stem-loop
Length=69
Score = 21.4 bits (11), Expect = 0.19
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 6 GGGTTTGGGGG 16
|||||||||||
Sbjct 8 GGGTTTGGGGG 18
>[258]hsa-mir-181c MI0000271 Homo sapiens miR-181c stem-loop
Length=110
Score = 21.4 bits (11), Expect = 0.19
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 6 GGGTTTGGGGG 16
|||||||||||
Sbjct 16 GGGTTTGGGGG 26
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 525720
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