Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020735.1 Corchorus olitorius cultivar O-4 contig20768, 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: 3782
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Found at i:3181 original size:334 final size:333
Alignment explanation
Indices: 2568--3188 Score: 1057
Period size: 334 Copynumber: 1.9 Consensus size: 333
2558 CAAATTTCAA
* * *
2568 CTAAGATTTTTGAAGAAACTGACCCATAACATTTTTCCTCAACTTTTGGCCACAATACTCACAAA
1 CTAAAATTTTTGAAAAAACTGACCCATAACATTTTTCCTCAACTTTTGGCCACAATACTCAAAAA
* * *
2633 AATATATAATTCAATGCCAAAAAGATTGAAGGGTTTTTCACGTTTCTAATATCGTTTTTCAAAAT
66 AATATATAATTCAATACCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCAAAAT
* *
2698 TTTTTCCAAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCATAAAAACAAATCCTTA
131 TTTTTCCAAATTAATTTCTAACTAAATCGAAACATGATTCAGATGCTCACAAAAACAAATCCTTA
* *
2763 AATCCATTGTGGCTGAGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTTGGCACCAAAAA
196 AACCCATTGCGGCTGAGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTTGGCACCAAAAA
*
2828 TCATGCAAAACTGAGCCGGGGTCCCATAGCGCATTTTTAGCCAAAAATCATGATGGTTAGTACAC
261 TCATGCAAAACTGAGCCGGGGCCCCATAGCGCATTTTTAGCCAAAAATCATGATGGTTAGTACAC
2893 GATTTCGG
326 GATTTCGG
* * *
2901 CTAAAATTTTTGAAAAAACTGACCCGA-AA-ATTTTTTCCTCCATTTTTTGCCACAATACTCATA
1 CTAAAATTTTTGAAAAAACTGACCC-ATAACA-TTTTTCCTCAACTTTTGGCCACAATACTCA-A
2964 AAAAATATATAATTCAATACCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCAA
63 AAAAATATATAATTCAATACCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCAA
* *
3029 AATTTTTTCCAAATTAATTTTTAACTAAATCGAAACATGATTCAGATGCTCGCAAAAACAAATCC
128 AATTTTTTCCAAATTAATTTCTAACTAAATCGAAACATGATTCAGATGCTCACAAAAACAAATCC
3094 TTAAACCCATTGCGGCTGAGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTTGGCACCAA
193 TTAAACCCATTGCGGCTGAGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTTGGCACCAA
3159 AAATCATGCAAAACTGAGCCGGGGCCCCAT
258 AAATCATGCAAAACTGAGCCGGGGCCCCAT
3189 GACGCTTGTT
Statistics
Matches: 269, Mismatches: 16, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
332 1 0.00
333 52 0.19
334 216 0.80
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (333 bp):
CTAAAATTTTTGAAAAAACTGACCCATAACATTTTTCCTCAACTTTTGGCCACAATACTCAAAAA
AATATATAATTCAATACCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCAAAAT
TTTTTCCAAATTAATTTCTAACTAAATCGAAACATGATTCAGATGCTCACAAAAACAAATCCTTA
AACCCATTGCGGCTGAGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTTGGCACCAAAAA
TCATGCAAAACTGAGCCGGGGCCCCATAGCGCATTTTTAGCCAAAAATCATGATGGTTAGTACAC
GATTTCGG
Done.