Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015194.1 Corchorus olitorius cultivar O-4 contig15227, 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: 2537
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Found at i:833 original size:274 final size:273
Alignment explanation
Indices: 344--890 Score: 1006
Period size: 274 Copynumber: 2.0 Consensus size: 273
334 TGGAACTAGC
344 ACTGATATCTACAACAAAATTTTGTTCTCTTAAAGTTAATAATTTTGGTTAAGATGCCGAGTTAA
1 ACTGATATCTACAACAAAATTTTGTTCTCTTAAAGTTAATAATTTTGGTTAAGATGCCGAGTTAA
* *
409 TCAAAGAAATTGCAAAATTACAAATTTGAAGATGAAGAAAATGTTGACATATCTTAACATTTTCG
66 TCAAAGAAATTGCAAAATTACAAATTTGAAGATGAAGAAAATGTTGACACATCTCAACATTTTCG
474 TGGAAAAGAGAAAGCTCAAGAAGAGGCAAAAGGTTGATGAAAGTAAAGATGGAAATGTAGATGCA
131 TGGAAAAGAGAAAGCTCAAGAAGAGGCAAAAGGTTGATGAAAGTAAAGATGGAAATGTAGATGCA
* *
539 GATTTAATTATGCTCGATGGATGATTTGTCAAGACAAGCATATGAAAAACC-AAAAGAAAAAAAG
196 GACTTAATTATGCTCGATGGATGATTTGCCAAGACAAGCATATGAAAAACCAAAAAGAAAAAAA-
603 GAAGTTGCAAGAAAA
260 G-AGTTGCAAGAAAA
*
618 ACTGATATCTACAACACAATTTTGTTCTCTTAAAGTTAATAATTTTGGTTAAGATGCCGAGTTAA
1 ACTGATATCTACAACAAAATTTTGTTCTCTTAAAGTTAATAATTTTGGTTAAGATGCCGAGTTAA
683 TCAAAGAAATTGCAAAATTACAAATTTGAAGATGAAGAAAATGTTGACACATCTCAACATTTTCG
66 TCAAAGAAATTGCAAAATTACAAATTTGAAGATGAAGAAAATGTTGACACATCTCAACATTTTCG
*
748 TGGAAAAGAGAAAGCTCAAGAAGAGGCAAAAGGTTGATGGAAGTAAAGATGGAAATGTAGATGCA
131 TGGAAAAGAGAAAGCTCAAGAAGAGGCAAAAGGTTGATGAAAGTAAAGATGGAAATGTAGATGCA
*
813 GACTTAATTATGCTCGATGGATGATTTGCCAAGACAAGCATATGAAAAACCAAAAAGAAGAAAAG
196 GACTTAATTATGCTCGATGGATGATTTGCCAAGACAAGCATATGAAAAACCAAAAAGAAAAAAAG
878 AGTTGCAAGAAAA
261 AGTTGCAAGAAAA
891 GCCAAGTTAG
Statistics
Matches: 265, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
273 13 0.05
274 241 0.91
275 11 0.04
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.26
Consensus pattern (273 bp):
ACTGATATCTACAACAAAATTTTGTTCTCTTAAAGTTAATAATTTTGGTTAAGATGCCGAGTTAA
TCAAAGAAATTGCAAAATTACAAATTTGAAGATGAAGAAAATGTTGACACATCTCAACATTTTCG
TGGAAAAGAGAAAGCTCAAGAAGAGGCAAAAGGTTGATGAAAGTAAAGATGGAAATGTAGATGCA
GACTTAATTATGCTCGATGGATGATTTGCCAAGACAAGCATATGAAAAACCAAAAAGAAAAAAAG
AGTTGCAAGAAAA
Done.