Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01003435.1 Corchorus olitorius cultivar O-4 contig03442, 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, 752
Length: 1254
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Found at i:279 original size:121 final size:122
Alignment explanation
Indices: 1--348 Score: 664
Period size: 122 Copynumber: 2.9 Consensus size: 122
1 AGCTTTCGTGCCTCAATCCCACTTGTCTTTAGGTCATTAAGCCATAGGCAAATGAAAAAGGTGTT
1 AGCTTTCGTGCCTCAATCCCACTTGTCTTTAGG-CATTAAGCCATAGGCAAATGAAAAAGGTGTT
66 TTTTATGAAATGATAAAAACCTTTTGCCTAATGCCTAATGCTTACAGGCCTACAGCAC
65 TTTTATGAAATGATAAAAACCTTTTGCCTAATGCCTAATGCTTACAGGCCTACAGCAC
124 AGCTTTCGTGCCTCAATCCCACTTGTCTTTAGGCATTAAGCCATAGGCAAATGAAAAAGGTGTTT
1 AGCTTTCGTGCCTCAATCCCACTTGTCTTTAGGCATTAAGCCATAGGCAAATGAAAAAGGTGTTT
189 TTTATGAAATGATAAAAACCTTTTGCCTAATGCCTAATGCTTACA-GCCTACAGCAC
66 TTTATGAAATGATAAAAACCTTTTGCCTAATGCCTAATGCTTACAGGCCTACAGCAC
245 AGCTTTCGTGCCTCAATCCCACTTGTCTTTAGGCATTAAGCCATAGGCAAATGAAAAAGGTG-TT
1 AGCTTTCGTGCCTCAATCCCACTTGTCTTTAGGCATTAAGCCATAGGCAAATGAAAAAGGTGTTT
*
309 TTTATGAAATCATAAAAACCTTTTGCCTAATGCCTAATGC
66 TTTATGAAATGATAAAAACCTTTTGCCTAATGCCTAATGC
349 CTAATGCTTA
Statistics
Matches: 224, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
120 41 0.18
121 73 0.33
122 77 0.34
123 33 0.15
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (122 bp):
AGCTTTCGTGCCTCAATCCCACTTGTCTTTAGGCATTAAGCCATAGGCAAATGAAAAAGGTGTTT
TTTATGAAATGATAAAAACCTTTTGCCTAATGCCTAATGCTTACAGGCCTACAGCAC
Done.