Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020351.1 Corchorus olitorius cultivar O-4 contig20384, 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: 10332
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Found at i:8329 original size:49 final size:47
Alignment explanation
Indices: 8228--8369 Score: 169
Period size: 49 Copynumber: 3.0 Consensus size: 47
8218 GAGCGTGCCA
* * * *
8228 ATCAATTTTGTCAAAAAATTGATAAAAAGTGCGATGAAAATTAAAAG
1 ATCAATTTTGTCTAAAAATTGAGAAAAAGTGCAATGAAAAATAAAAG
8275 ATCAATTTTGTCTTAAAAATTGAGAAAAAGATGCAA-GTAAAAATAAAAG
1 ATCAATTTTGTC-TAAAAATTGAGAAAAAG-TGCAATG-AAAAATAAAAG
* * * *
8324 TTCAATTTTGTAGTAAAAATTGAGAAAAAGTGCAGTGAAAAGTAAA
1 ATCAATTTTGT-CTAAAAATTGAGAAAAAGTGCAATGAAAAATAAA
8370 GGATTGCTTG
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
47 12 0.15
48 28 0.34
49 42 0.51
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.27
Consensus pattern (47 bp):
ATCAATTTTGTCTAAAAATTGAGAAAAAGTGCAATGAAAAATAAAAG
Found at i:9654 original size:9 final size:9
Alignment explanation
Indices: 9636--9673 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
9626 TTAATTCATT
9636 TAATTT-CA
1 TAATTTCCA
9644 TAATTTCCA
1 TAATTTCCA
9653 TAATTTCCA
1 TAATTTCCA
9662 TAATTTCCA
1 TAATTTCCA
9671 TAA
1 TAA
9674 GTAATTTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 6 0.21
9 23 0.79
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATTTCCA
Done.