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= AGAGAGGGGGCGGGGCGGCCATTGGGGCTCCTCATTGGGGTGCTTGGGGCGCACCCCATCGGGTACCG
GGCGTCCCGGAA
Length=80
Score E
Sequences producing significant alignments: (Bits) Value
[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop 28.8 0.017
[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop 27.0 0.062
[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop 27.0 0.062
[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop 25.1 0.22
[21734]hsa-mir-6089-2 MI0023563 Homo sapiens miR-6089-2 stem-loop 23.3 0.80
[21150]hsa-mir-7108 MI0022959 Homo sapiens miR-7108 stem-loop 23.3 0.80
[18624]hsa-mir-6089-1 MI0020366 Homo sapiens miR-6089-1 stem-loop 23.3 0.80
[3427]hsa-mir-639 MI0003654 Homo sapiens miR-639 stem-loop 23.3 0.80
[20887]hsa-mir-6850 MI0022696 Homo sapiens miR-6850 stem-loop 21.4 2.9
[20825]hsa-mir-6789 MI0022634 Homo sapiens miR-6789 stem-loop 21.4 2.9
[20821]hsa-mir-6785 MI0022630 Homo sapiens miR-6785 stem-loop 21.4 2.9
[18625]hsa-mir-6090 MI0020367 Homo sapiens miR-6090 stem-loop 21.4 2.9
[15812]hsa-mir-4741 MI0017379 Homo sapiens miR-4741 stem-loop 21.4 2.9
[15286]hsa-mir-4488 MI0016849 Homo sapiens miR-4488 stem-loop 21.4 2.9
[14348]hsa-mir-4285 MI0015891 Homo sapiens miR-4285 stem-loop 21.4 2.9
[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop 21.4 2.9
>[24070]hsa-mir-8078 MI0025914 Homo sapiens miR-8078 stem-loop
Length=84
Score = 28.8 bits (15), Expect = 0.017
Identities = 15/15 (100%), Gaps = 0/15 (0%)
Strand=Plus/Minus
Query 4 GAGGGGGCGGGGCGG 18
|||||||||||||||
Sbjct 16 GAGGGGGCGGGGCGG 2
>[20822]hsa-mir-6786 MI0022631 Homo sapiens miR-6786 stem-loop
Length=113
Score = 27.0 bits (14), Expect = 0.062
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 7 GGGGCGGGGCGGCC 20
||||||||||||||
Sbjct 8 GGGGCGGGGCGGCC 21
>[12735]hsa-mir-3196 MI0014241 Homo sapiens miR-3196 stem-loop
Length=64
Score = 27.0 bits (14), Expect = 0.062
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 6 GGGGGCGGGGCGGC 19
||||||||||||||
Sbjct 5 GGGGGCGGGGCGGC 18
>[23677]hsa-mir-7851 MI0025521 Homo sapiens miR-7851 stem-loop
Length=160
Score = 25.1 bits (13), Expect = 0.22
Identities = 15/16 (94%), Gaps = 0/16 (0%)
Strand=Plus/Minus
Query 4 GAGGGGGCGGGGCGGC 19
|||||||||||| |||
Sbjct 28 GAGGGGGCGGGGAGGC 13
>[21734]hsa-mir-6089-2 MI0023563 Homo sapiens miR-6089-2 stem-loop
Length=64
Score = 23.3 bits (12), Expect = 0.80
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 7 GGGGCGGGGCGG 18
||||||||||||
Sbjct 51 GGGGCGGGGCGG 62
>[21150]hsa-mir-7108 MI0022959 Homo sapiens miR-7108 stem-loop
Length=87
Score = 23.3 bits (12), Expect = 0.80
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Minus
Query 7 GGGGCGGGGCGG 18
||||||||||||
Sbjct 55 GGGGCGGGGCGG 44
>[18624]hsa-mir-6089-1 MI0020366 Homo sapiens miR-6089-1 stem-loop
Length=64
Score = 23.3 bits (12), Expect = 0.80
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 7 GGGGCGGGGCGG 18
||||||||||||
Sbjct 51 GGGGCGGGGCGG 62
>[3427]hsa-mir-639 MI0003654 Homo sapiens miR-639 stem-loop
Length=98
Score = 23.3 bits (12), Expect = 0.80
Identities = 12/12 (100%), Gaps = 0/12 (0%)
Strand=Plus/Plus
Query 7 GGGGCGGGGCGG 18
||||||||||||
Sbjct 28 GGGGCGGGGCGG 39
>[20887]hsa-mir-6850 MI0022696 Homo sapiens miR-6850 stem-loop
Length=61
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 66 CCGGGCGTCCC 76
|||||||||||
Sbjct 42 CCGGGCGTCCC 32
>[20825]hsa-mir-6789 MI0022634 Homo sapiens miR-6789 stem-loop
Length=98
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 68 GGGCGTCCCGG 78
|||||||||||
Sbjct 9 GGGCGTCCCGG 19
>[20821]hsa-mir-6785 MI0022630 Homo sapiens miR-6785 stem-loop
Length=81
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 23 TGGGGCTCCTC 33
|||||||||||
Sbjct 41 TGGGGCTCCTC 31
>[18625]hsa-mir-6090 MI0020367 Homo sapiens miR-6090 stem-loop
Length=60
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 7 GGGGCGGGGCG 17
|||||||||||
Sbjct 50 GGGGCGGGGCG 60
>[15812]hsa-mir-4741 MI0017379 Homo sapiens miR-4741 stem-loop
Length=90
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 8 GGGCGGGGCGG 18
|||||||||||
Sbjct 2 GGGCGGGGCGG 12
>[15286]hsa-mir-4488 MI0016849 Homo sapiens miR-4488 stem-loop
Length=62
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 8 GGGCGGGGCGG 18
|||||||||||
Sbjct 62 GGGCGGGGCGG 52
>[14348]hsa-mir-4285 MI0015891 Homo sapiens miR-4285 stem-loop
Length=85
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 9 GGCGGGGCGGC 19
|||||||||||
Sbjct 5 GGCGGGGCGGC 15
>[5171]hsa-mir-1237 MI0006327 Homo sapiens miR-1237 stem-loop
Length=102
Score = 21.4 bits (11), Expect = 2.9
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 6 GGGGGCGGGGC 16
|||||||||||
Sbjct 51 GGGGGCGGGGC 61
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 8176155
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