Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024655.1 Corchorus olitorius cultivar O-4 contig24688, 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: 15833
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Found at i:6139 original size:29 final size:29
Alignment explanation
Indices: 6102--6176 Score: 136
Period size: 27 Copynumber: 2.7 Consensus size: 29
6092 ATTTGAACTT
6102 AAAATGACCAAAATGCCCCCCTGAATGTA
1 AAAATGACCAAAATGCCCCCCTGAATGTA
6131 AAAATGACCAAAATG--CCCCTGAATGTA
1 AAAATGACCAAAATGCCCCCCTGAATGTA
6158 AAAATGACCAAAATGCCCC
1 AAAATGACCAAAATGCCCC
6177 TATGTGATCC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
27 27 0.61
29 17 0.39
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (29 bp):
AAAATGACCAAAATGCCCCCCTGAATGTA
Found at i:15789 original size:21 final size:21
Alignment explanation
Indices: 15765--15833 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
15755 CTTAGGCAAT
*
15765 TCCAATGAGCTTGAAACCTTC
1 TCCAATGAGCTTGGAACCTTC
15786 TCCAATGAGCTTGGAACCTTC
1 TCCAATGAGCTTGGAACCTTC
*
15807 TCCAATGAGCATGGAACCTTC
1 TCCAATGAGCTTGGAACCTTC
15828 TCCAAT
1 TCCAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (21 bp):
TCCAATGAGCTTGGAACCTTC
Done.