Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01010982.1 Corchorus olitorius cultivar O-4 contig11014, 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: 3558
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Found at i:2416 original size:154 final size:153
Alignment explanation
Indices: 2086--2542 Score: 745
Period size: 154 Copynumber: 3.0 Consensus size: 153
2076 CCTATACCCT
*
2086 TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTT-AAAGTGGACTAATCTTACCAAA
1 TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAA-TTTCAAAGTGGACTAATCTAACCAAA
* * *
2150 ATGATTATAGTTAGGCCATAAACAATGGAAAGTAAAAGCATTGAGAGTTGCCAAACCGAACACGA
65 ATGATTATAGTTAGGCCATAAACAATGGAAAG-AAAAGCATTGAGGGTTGCCAAATCGAAGACGA
2215 TTCAAAACGGAACTAATGGGCCCCGA
129 TTCAAAAC-GAACTAATGGGCCCCGA
* * * *
2241 TAGGCCCAAAATAACACGTGTTCCAAATGAGCTAAAAATTTCACAGTGGACTAATCAAACGAAAA
1 TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAATTTCAAAGTGGACTAATCTAACCAAAA
*
2306 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGATGACGATT
66 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATT
*
2371 CAAAACGTAACTAATGGGCCTCGA
131 CAAAACG-AACTAATGGGCCCCGA
* * *
2395 TATGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCAAAGTGGACTAATCTCACCAAAA
1 TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAATTTCAAAGTGGACTAATCTAACCAAAA
2460 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATT
66 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATT
2525 CAAAACAGAACTAATGGG
131 CAAAAC-GAACTAATGGG
2543 TGATGCGCCA
Statistics
Matches: 281, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
153 1 0.00
154 192 0.68
155 88 0.31
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (153 bp):
TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAATTTCAAAGTGGACTAATCTAACCAAAA
TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATT
CAAAACGAACTAATGGGCCCCGA
Done.