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= AGGGGAGCTGTGCGTGTGTCGGGGCGGGTGGAACCTTAGCGGACCCTGGG
Length=50
Score E
Sequences producing significant alignments: (Bits) Value
[4579]hsa-mir-920 MI0005712 Homo sapiens miR-920 stem-loop 23.3 0.43
[12663]hsa-mir-3141 MI0014165 Homo sapiens miR-3141 stem-loop 21.4 1.6
[732]hsa-mir-370 MI0000778 Homo sapiens miR-370 stem-loop 21.4 1.6
[268]hsa-mir-210 MI0000286 Homo sapiens miR-210 stem-loop 21.4 1.6
>[4579]hsa-mir-920 MI0005712 Homo sapiens miR-920 stem-loop
Length=75
Score = 23.3 bits (12), Expect = 0.43
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 1 AGGGGAGCTGTG 12
||||||||||||
Sbjct 50 AGGGGAGCTGTG 61
>[12663]hsa-mir-3141 MI0014165 Homo sapiens miR-3141 stem-loop
Length=61
Score = 21.4 bits (11), Expect = 1.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 22 GGGCGGGTGGA 32
|||||||||||
Sbjct 12 GGGCGGGTGGA 22
>[732]hsa-mir-370 MI0000778 Homo sapiens miR-370 stem-loop
Length=75
Score = 21.4 bits (11), Expect = 1.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 26 GGGTGGAACCT 36
|||||||||||
Sbjct 56 GGGTGGAACCT 66
>[268]hsa-mir-210 MI0000286 Homo sapiens miR-210 stem-loop
Length=110
Score = 21.4 bits (11), Expect = 1.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 8 CTGTGCGTGTG 18
|||||||||||
Sbjct 66 CTGTGCGTGTG 76
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 4402545
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