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= GACCCTAGGGGCGGGACTTCATGTCCCAGCAGGCTCC
Length=37
Score E
Sequences producing significant alignments: (Bits) Value
[16303]hsa-mir-5008 MI0017876 Homo sapiens miR-5008 stem-loop 21.4 1.0
[14328]hsa-mir-4267 MI0015871 Homo sapiens miR-4267 stem-loop 21.4 1.0
[14297]hsa-mir-4310 MI0015840 Homo sapiens miR-4310 stem-loop 21.4 1.0
[3396]hsa-mir-610 MI0003623 Homo sapiens miR-610 stem-loop 21.4 1.0
>[16303]hsa-mir-5008 MI0017876 Homo sapiens miR-5008 stem-loop
Length=94
Score = 21.4 bits (11), Expect = 1.0
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 1 GACCCTAGGGG 11
|||||||||||
Sbjct 18 GACCCTAGGGG 8
>[14328]hsa-mir-4267 MI0015871 Homo sapiens miR-4267 stem-loop
Length=82
Score = 21.4 bits (11), Expect = 1.0
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 27 CAGCAGGCTCC 37
|||||||||||
Sbjct 3 CAGCAGGCTCC 13
>[14297]hsa-mir-4310 MI0015840 Homo sapiens miR-4310 stem-loop
Length=57
Score = 21.4 bits (11), Expect = 1.0
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 18 TTCATGTCCCA 28
|||||||||||
Sbjct 38 TTCATGTCCCA 48
>[3396]hsa-mir-610 MI0003623 Homo sapiens miR-610 stem-loop
Length=96
Score = 21.4 bits (11), Expect = 1.0
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 21 ATGTCCCAGCA 31
|||||||||||
Sbjct 51 ATGTCCCAGCA 61
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 2936364
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