Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01000979.1 Corchorus capsularis cultivar CVL-1 contig00979, 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, 800
Length: 1334
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Found at i:945 original size:163 final size:165
Alignment explanation
Indices: 665--993 Score: 590
Period size: 163 Copynumber: 2.0 Consensus size: 165
655 AATCCATCAT
*
665 ATATAGCAAGTAATCAAAAGTAGAATCCATAACCAAACTGCATTTTTAACAAAAAAACAAACAAA
1 ATATAGCAAGTAATCAAAAGTAGAATCCATAACCAAACTACATTTTTAAC-AAAAAACAAACAAA
* *
730 CAATATTCATAGCATGTTCAAATTGAAGACAAAACAGATCCCAGTCTCATGATAATAAAAACCAA
65 CAATATTCATAGCATGTTCAAATTAAACACAAAACAGATCCCAGTCTCATGATAATAAAAACCAA
* *
795 CCAAATTGTTCTCCAATCTCCACTGCCGCCTGAGTA
130 ACAAATTGTTCTCCAATCTCCACTGCCGCATGAGTA
831 ATATAGCAAGTAATCAAAAGTAGAATCCATAACCAAACTACATTTTTAAC-AAAAA-AAACAAAC
1 ATATAGCAAGTAATCAAAAGTAGAATCCATAACCAAACTACATTTTTAACAAAAAACAAACAAAC
894 AATATTCATAGCATGTTCAAATTAAACACAAAACAGATCCCAGTCTCATGATAATAAAAACCAAA
66 AATATTCATAGCATGTTCAAATTAAACACAAAACAGATCCCAGTCTCATGATAATAAAAACCAAA
959 CAAATTGTTCTCCAATCTCCACTGCCGCATGAGTA
131 CAAATTGTTCTCCAATCTCCACTGCCGCATGAGTA
994 GTACAATTCC
Statistics
Matches: 158, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
163 104 0.66
164 5 0.03
166 49 0.31
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (165 bp):
ATATAGCAAGTAATCAAAAGTAGAATCCATAACCAAACTACATTTTTAACAAAAAACAAACAAAC
AATATTCATAGCATGTTCAAATTAAACACAAAACAGATCCCAGTCTCATGATAATAAAAACCAAA
CAAATTGTTCTCCAATCTCCACTGCCGCATGAGTA
Done.