Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01006360.1 Corchorus olitorius cultivar O-4 contig06385, 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, 610
Length: 1018
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Found at i:286 original size:154 final size:154
Alignment explanation
Indices: 1--324 Score: 497
Period size: 154 Copynumber: 2.1 Consensus size: 154
* * * *
1 CTCATCAAAATGATTATAGTTAGGCCATAAACAACTTAAAGAAAAGCTTTGAGGTTTGCCAAATC
1 CTCACCAAAATGATTACAGTTAGGCCATAAACAACTGAAAGAAAAGCATTGAGGTTTGCCAAATC
** *
66 GAAAACGATTCAAAACGTCACTAATGGGCCTAGATAGGCCCAAAATAACAAGTGTTCCAAATGAG
66 GAAAACGATTCAAAACGGAACTAATGGGCCCAGATAGGCCCAAAATAACAAGTGTTCCAAATGAG
131 CTAAAAACATCACAGTGGACTAAT
131 CTAAAAACATCACAGTGGACTAAT
** *
155 CTCACCAAAATGATTACAGTTAGTTCATAAATAA-TGGAAAGAAAAGCATTGAGGTTTGCCAAAT
1 CTCACCAAAATGATTACAGTTAGGCCATAAACAACT-GAAAGAAAAGCATTGAGGTTTGCCAAAT
* * * *
219 CGAAGACGATTCAAAACGGAACTAATGGTCCCCGATAGGTCCAAAATAACAAGTGTTCCAAATGA
65 CGAAAACGATTCAAAACGGAACTAATGGGCCCAGATAGGCCCAAAATAACAAGTGTTCCAAATGA
*
284 GCTAAAAACTTCACAGTGGACTAAT
130 GCTAAAAACATCACAGTGGACTAAT
309 CTCACCAAAATGATTA
1 CTCACCAAAATGATTA
325 TATGATACGA
Statistics
Matches: 154, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
153 1 0.01
154 153 0.99
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (154 bp):
CTCACCAAAATGATTACAGTTAGGCCATAAACAACTGAAAGAAAAGCATTGAGGTTTGCCAAATC
GAAAACGATTCAAAACGGAACTAATGGGCCCAGATAGGCCCAAAATAACAAGTGTTCCAAATGAG
CTAAAAACATCACAGTGGACTAAT
Done.