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= CCCTGGGAGGAGGCTCCCCGGCCGAACCTGCCCGACCC
Length=38
Score E
Sequences producing significant alignments: (Bits) Value
[21153]hsa-mir-7111 MI0022962 Homo sapiens miR-7111 stem-loop 21.4 1.1
[21148]hsa-mir-7106 MI0022957 Homo sapiens miR-7106 stem-loop 21.4 1.1
[20799]hsa-mir-6763 MI0022608 Homo sapiens miR-6763 stem-loop 21.4 1.1
[4446]hsa-mir-877 MI0005561 Homo sapiens miR-877 stem-loop 21.4 1.1
>[21153]hsa-mir-7111 MI0022962 Homo sapiens miR-7111 stem-loop
Length=72
Score = 21.4 bits (11), Expect = 1.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 3 CTGGGAGGAGG 13
|||||||||||
Sbjct 72 CTGGGAGGAGG 62
>[21148]hsa-mir-7106 MI0022957 Homo sapiens miR-7106 stem-loop
Length=65
Score = 21.4 bits (11), Expect = 1.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 3 CTGGGAGGAGG 13
|||||||||||
Sbjct 5 CTGGGAGGAGG 15
>[20799]hsa-mir-6763 MI0022608 Homo sapiens miR-6763 stem-loop
Length=65
Score = 21.4 bits (11), Expect = 1.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Plus
Query 13 GCTCCCCGGCC 23
|||||||||||
Sbjct 44 GCTCCCCGGCC 54
>[4446]hsa-mir-877 MI0005561 Homo sapiens miR-877 stem-loop
Length=86
Score = 21.4 bits (11), Expect = 1.1
Identities = 11/11 (100%), Gaps = 0/11 (0%)
Strand=Plus/Minus
Query 3 CTGGGAGGAGG 13
|||||||||||
Sbjct 86 CTGGGAGGAGG 76
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 3064032
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