Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01008472.1 Corchorus capsularis cultivar CVL-1 contig08493, 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: 2488
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Found at i:286 original size:75 final size:75
Alignment explanation
Indices: 203--468 Score: 480
Period size: 75 Copynumber: 3.5 Consensus size: 75
193 ATAATAATGT
203 GAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAATAAAATAATA
1 GAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAATAAAATAATA
268 ATAAAGTTGA
66 ATAAAGTTGA
278 GAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAATAAAATAATA
1 GAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAATAAAATAATA
343 ATAAAGTTGA
66 ATAAAGTTGA
*
353 GAATATTTTCTAAATCTTGCCAAATTGTGGAAGATTTAGGAGATATTTTAAGAAAT-AAATAAAT
1 GAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAATAAAAT-AAT
*
417 AATAAAGAATGA
65 AATAAAG-TTGA
429 GAATATTTCTCTAAATCTTGCCAAATTGTGGGAGATTTAG
1 GAATATTT-TCTAAATCTTGCCAAATTGTGGGAGATTTAG
469 AAAATATCAA
Statistics
Matches: 185, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
74 4 0.02
75 140 0.76
76 11 0.06
77 30 0.16
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (75 bp):
GAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAATAAAATAATA
ATAAAGTTGA
Done.