Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01007732.1 Corchorus olitorius cultivar O-4 contig07758, 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, 865
Length: 1443
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Found at i:618 original size:32 final size:32
Alignment explanation
Indices: 582--645 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
572 AAAGAAAATT
* * *
582 ATATATTTTTTATGTTATATGCTATAAATTAA
1 ATATATTTTTTATGTCATATACTACAAATTAA
614 ATATATTTTTTATGTCATATACTACAAATTAA
1 ATATATTTTTTATGTCATATACTACAAATTAA
646 TGTAATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (32 bp):
ATATATTTTTTATGTCATATACTACAAATTAA
Found at i:888 original size:98 final size:98
Alignment explanation
Indices: 719--914 Score: 392
Period size: 98 Copynumber: 2.0 Consensus size: 98
709 TTAACTAGTA
719 CTATATAAGTCTAAACTTCAAAACCATTAACCTGAAATATCTAAAATAACCTTTTTAATTTTAAA
1 CTATATAAGTCTAAACTTCAAAACCATTAACCTGAAATATCTAAAATAACCTTTTTAATTTTAAA
784 AGTTTAGTATTCACTTAAAGGGTAAATATGTAT
66 AGTTTAGTATTCACTTAAAGGGTAAATATGTAT
817 CTATATAAGTCTAAACTTCAAAACCATTAACCTGAAATATCTAAAATAACCTTTTTAATTTTAAA
1 CTATATAAGTCTAAACTTCAAAACCATTAACCTGAAATATCTAAAATAACCTTTTTAATTTTAAA
882 AGTTTAGTATTCACTTAAAGGGTAAATATGTAT
66 AGTTTAGTATTCACTTAAAGGGTAAATATGTAT
915 TTATCAAATT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (98 bp):
CTATATAAGTCTAAACTTCAAAACCATTAACCTGAAATATCTAAAATAACCTTTTTAATTTTAAA
AGTTTAGTATTCACTTAAAGGGTAAATATGTAT
Done.