Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01010088.1 Corchorus olitorius cultivar O-4 contig10120, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2027
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Found at i:1544 original size:47 final size:47
Alignment explanation
Indices: 1477--1569 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
1467 TTATTTTAAA
1477 AAACTTTAAATTCTTGTTACACACTCAAATAAATTAAACTAGCAATT
1 AAACTTTAAATTCTTGTTACACACTCAAATAAATTAAACTAGCAATT
1524 AAACTTTAAATTCTTGTTACACACTCAAATAAATTAAACTAGCAAT
1 AAACTTTAAATTCTTGTTACACACTCAAATAAATTAAACTAGCAAT
1570 ACACTAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.33
Consensus pattern (47 bp):
AAACTTTAAATTCTTGTTACACACTCAAATAAATTAAACTAGCAATT
Found at i:1665 original size:28 final size:28
Alignment explanation
Indices: 1633--1688 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
1623 TTTTAATTAA
*
1633 TTTTTTT-TTAGAATAAAGTATAGTACT
1 TTTTTTTGTTAAAATAAAGTATAGTACT
*
1660 TTTTTTTGTTAAAATAAATTATAGTACT
1 TTTTTTTGTTAAAATAAAGTATAGTACT
1688 T
1 T
1689 CATTAGATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.54
Consensus pattern (28 bp):
TTTTTTTGTTAAAATAAAGTATAGTACT
Done.