Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Cotton_A_21901
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, 529
Length: 882
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Found at i:746 original size:219 final size:219
Alignment explanation
Indices: 367--772 Score: 686
Period size: 219 Copynumber: 1.9 Consensus size: 219
357 GGTTCAACCA
367 ATGGCTGCTGCTGCAACAGGGTCTGAAAATGGAGAAAAGGCAAAACCCAGAGTCAATGAGTGGCC
1 ATGGCTGCTGCTGCAACAGGGTCTGAAAATGGAGAAAAGGCAAAACCCAGAGTCAATGAGTGGCC
* * * *
432 AAACTCACGGCGGACATACAGAAGCAAAAGGATAGACATGGAACTGGACAAAGGGAAAGTCCACA
66 AAACTCACAGCCGACATACAGAAGAAAAAGGATAGACATGGAACTGGACAAAGGGAAAGGCCACA
*
497 ATGTGGTTGAAACAGAGGATTCCAATGACTTGACTAGGTTTCGAAATAGAACAGCGACCAGCCGT
131 ATGAGGTTGAAACAGAGGATTCCAATGACTTGACTAGGTTTCGAAATAGAACAGCGACCAGCCGT
562 CGAACGTTTAAGTCGATGAAGACG
196 CGAACGTTTAAGTCGATGAAGACG
* ** *
586 ATGGCTGCTGCTGTAACAGGGTCTGAAAATGGAGAAAAGGCGGAACCCAGAGTCAATGAGTGTCC
1 ATGGCTGCTGCTGCAACAGGGTCTGAAAATGGAGAAAAGGCAAAACCCAGAGTCAATGAGTGGCC
* * *
651 AAACTCACAGCCGACATACAGAAGAAAAATGATAGACATGGAACTGGACGAAGGGGAAGGCCACA
66 AAACTCACAGCCGACATACAGAAGAAAAAGGATAGACATGGAACTGGACAAAGGGAAAGGCCACA
* *
716 ATGAGGTTGAAACAGAGGATTCCAATGACTTGCCTAGGTTTCGATATAGAACAGCGA
131 ATGAGGTTGAAACAGAGGATTCCAATGACTTGACTAGGTTTCGAAATAGAACAGCGA
773 TGAAGACGAT
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 173 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (219 bp):
ATGGCTGCTGCTGCAACAGGGTCTGAAAATGGAGAAAAGGCAAAACCCAGAGTCAATGAGTGGCC
AAACTCACAGCCGACATACAGAAGAAAAAGGATAGACATGGAACTGGACAAAGGGAAAGGCCACA
ATGAGGTTGAAACAGAGGATTCCAATGACTTGACTAGGTTTCGAAATAGAACAGCGACCAGCCGT
CGAACGTTTAAGTCGATGAAGACG
Done.