Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01009509.1 Corchorus olitorius cultivar O-4 contig09541, 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, 753
Length: 1255
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Found at i:432 original size:178 final size:179
Alignment explanation
Indices: 163--493 Score: 481
Period size: 178 Copynumber: 1.9 Consensus size: 179
153 CCAATTAAGG
* * ** *
163 TGATTTAAGTGTCTATTAAAAGATTGTTCCATGATCTACAGTTTTCATTAAGGACTCGAAAACTA
1 TGATTCAAATGTCTATTAAAAGATTGTTCCATGATCTACAACTTTCATGAAGGACTCGAAAACTA
* *
228 AATTTAATGTTTCAAGTATCAAAAATGCTTCCGAAA-AATTTGTTGTTTCGGTTAAC-GAGAATA
66 AATTTAATGTTTCAAGTATAAAAAATGCTTCC-AAATAATTAGTTGTTTCGGTTAACGGA-AATA
* *
291 GATGGTCCACTTAA-TATTATATAACTTTTGTTCTAGATGTCTGATTGAGA
129 GACGGTCCACTTAATTATTACATAACTTTTGTTCTAGATGTCTGATTGAGA
* * *
341 TGATTCAAATGTCTCTTGAAAGGTTGTTCCATGATCTACAACTTTCATGAAGGACTCGAAAACTA
1 TGATTCAAATGTCTATTAAAAGATTGTTCCATGATCTACAACTTTCATGAAGGACTCGAAAACTA
406 AATTTAATGTTT-AAGGTATAAAAAATGCTTCCAAATAATTAGTTGTTTCGGTTAACGGAAATAG
66 AATTTAATGTTTCAA-GTATAAAAAATGCTTCCAAATAATTAGTTGTTTCGGTTAACGGAAATAG
**
470 ACGGTTTACTTAATTATTACATAA
130 ACGGTCCACTTAATTATTACATAA
494 TTTGAGCTTA
Statistics
Matches: 135, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
177 5 0.04
178 119 0.88
179 11 0.08
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (179 bp):
TGATTCAAATGTCTATTAAAAGATTGTTCCATGATCTACAACTTTCATGAAGGACTCGAAAACTA
AATTTAATGTTTCAAGTATAAAAAATGCTTCCAAATAATTAGTTGTTTCGGTTAACGGAAATAGA
CGGTCCACTTAATTATTACATAACTTTTGTTCTAGATGTCTGATTGAGA
Done.