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= TGAGCAGAGGCTGAAGAGGGTGGGGAAGCAGGGGAGCTGTGCGTGTGTC
Length=49
Score E
Sequences producing significant alignments: (Bits) Value
[4579]hsa-mir-920 MI0005712 Homo sapiens miR-920 stem-loop 25.1 0.12
[20922]hsa-mir-6884 MI0022731 Homo sapiens miR-6884 stem-loop 23.3 0.44
[15329]hsa-mir-4525 MI0016892 Homo sapiens miR-4525 stem-loop 23.3 0.44
[20915]hsa-mir-6877 MI0022724 Homo sapiens miR-6877 stem-loop 21.4 1.6
[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop 21.4 1.6
[16298]hsa-mir-5004 MI0017870 Homo sapiens miR-5004 stem-loop 21.4 1.6
[14867]hsa-mir-3150b MI0016426 Homo sapiens miR-3150b stem-loop 21.4 1.6
[14533]hsa-mir-3691 MI0016092 Homo sapiens miR-3691 stem-loop 21.4 1.6
[14497]hsa-mir-3653 MI0016053 Homo sapiens miR-3653 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 = 25.1 bits (13), Expect = 0.12
Identities = 13/13 (100%), Gaps = 0/13 (0%)
Strand=Plus/Plus
Query 29 CAGGGGAGCTGTG 41
|||||||||||||
Sbjct 49 CAGGGGAGCTGTG 61
>[20922]hsa-mir-6884 MI0022731 Homo sapiens miR-6884 stem-loop
Length=78
Score = 23.3 bits (12), Expect = 0.44
Identities = 17/19 (89%), Gaps = 1/19 (5%)
Strand=Plus/Plus
Query 4 GCAGAGGCTGAAGAGGGTG 22
||||||||||| || ||||
Sbjct 4 GCAGAGGCTGA-GAAGGTG 21
>[15329]hsa-mir-4525 MI0016892 Homo sapiens miR-4525 stem-loop
Length=75
Score = 23.3 bits (12), Expect = 0.44
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 17 AGGGTGGGGAAG 28
||||||||||||
Sbjct 72 AGGGTGGGGAAG 61
>[20915]hsa-mir-6877 MI0022724 Homo sapiens miR-6877 stem-loop
Length=64
Score = 21.4 bits (11), Expect = 1.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 4 GCAGAGGCTGA 14
|||||||||||
Sbjct 49 GCAGAGGCTGA 39
>[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop
Length=113
Score = 21.4 bits (11), Expect = 1.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 29 CAGGGGAGCTG 39
|||||||||||
Sbjct 44 CAGGGGAGCTG 34
>[16298]hsa-mir-5004 MI0017870 Homo sapiens miR-5004 stem-loop
Length=107
Score = 21.4 bits (11), Expect = 1.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 4 GCAGAGGCTGA 14
|||||||||||
Sbjct 54 GCAGAGGCTGA 64
>[14867]hsa-mir-3150b MI0016426 Homo sapiens miR-3150b stem-loop
Length=86
Score = 21.4 bits (11), Expect = 1.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 22 GGGGAAGCAGG 32
|||||||||||
Sbjct 84 GGGGAAGCAGG 74
>[14533]hsa-mir-3691 MI0016092 Homo sapiens miR-3691 stem-loop
Length=90
Score = 21.4 bits (11), Expect = 1.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 16 GAGGGTGGGGA 26
|||||||||||
Sbjct 46 GAGGGTGGGGA 56
>[14497]hsa-mir-3653 MI0016053 Homo sapiens miR-3653 stem-loop
Length=110
Score = 21.4 bits (11), Expect = 1.6
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 21 TGGGGAAGCAG 31
|||||||||||
Sbjct 106 TGGGGAAGCAG 96
>[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 37 CTGTGCGTGTG 47
|||||||||||
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: 4468380
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