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= GGGAAGGAGGTGTCCGGAGCCGCGGACCTAGAGAT
Length=35
Score E
Sequences producing significant alignments: (Bits) Value
[20780]hsa-mir-6744 MI0022589 Homo sapiens miR-6744 stem-loop 21.4 0.95
[5481]hsa-mir-513c MI0006649 Homo sapiens miR-513c stem-loop 21.4 0.95
[5480]hsa-mir-513b MI0006648 Homo sapiens miR-513b stem-loop 21.4 0.95
[438]hsa-mir-125a MI0000469 Homo sapiens miR-125a stem-loop 21.4 0.95
>[20780]hsa-mir-6744 MI0022589 Homo sapiens miR-6744 stem-loop
Length=66
Score = 21.4 bits (11), Expect = 0.95
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 25 GACCTAGAGAT 35
|||||||||||
Sbjct 40 GACCTAGAGAT 30
>[5481]hsa-mir-513c MI0006649 Homo sapiens miR-513c stem-loop
Length=84
Score = 21.4 bits (11), Expect = 0.95
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 4 AAGGAGGTGTC 14
|||||||||||
Sbjct 19 AAGGAGGTGTC 29
>[5480]hsa-mir-513b MI0006648 Homo sapiens miR-513b stem-loop
Length=84
Score = 21.4 bits (11), Expect = 0.95
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 4 AAGGAGGTGTC 14
|||||||||||
Sbjct 19 AAGGAGGTGTC 29
>[438]hsa-mir-125a MI0000469 Homo sapiens miR-125a stem-loop
Length=86
Score = 21.4 bits (11), Expect = 0.95
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 24 GGACCTAGAGA 34
|||||||||||
Sbjct 17 GGACCTAGAGA 7
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 2681028
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