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= GGCGGGGCGGCCATTGGGGCTCCTCATTGGGGTGCTTGGG
Length=40
Score E
Sequences producing significant alignments: (Bits) Value
[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop 23.3 0.33
[20821]hsa-mir-6785 MI0022630 Homo sapiens miR-6785 stem-loop 21.4 1.2
[14348]hsa-mir-4285 MI0015891 Homo sapiens miR-4285 stem-loop 21.4 1.2
[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop 21.4 1.2
>[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop
Length=113
Score = 23.3 bits (12), Expect = 0.33
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 1 GGCGGGGCGGCC 12
||||||||||||
Sbjct 10 GGCGGGGCGGCC 21
>[20821]hsa-mir-6785 MI0022630 Homo sapiens miR-6785 stem-loop
Length=81
Score = 21.4 bits (11), Expect = 1.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 15 TGGGGCTCCTC 25
|||||||||||
Sbjct 41 TGGGGCTCCTC 31
>[14348]hsa-mir-4285 MI0015891 Homo sapiens miR-4285 stem-loop
Length=85
Score = 21.4 bits (11), Expect = 1.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 1 GGCGGGGCGGC 11
|||||||||||
Sbjct 5 GGCGGGGCGGC 15
>[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop
Length=64
Score = 21.4 bits (11), Expect = 1.2
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 1 GGCGGGGCGGC 11
|||||||||||
Sbjct 8 GGCGGGGCGGC 18
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 3319368
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