Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013965.1 Corchorus capsularis cultivar CVL-1 contig13986, 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: 1713
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Found at i:287 original size:153 final size:154
Alignment explanation
Indices: 1--361 Score: 679
Period size: 153 Copynumber: 2.4 Consensus size: 154
*
1 AATCGGCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCAATTGTTTACGACCTAACTATAATCA
1 AATCTGCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCAATTGTTTACGACCTAACTATAATCA
66 TTTTAGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATGCAGAACACTTGTTATTTCGGGCCTT
66 TTTTAGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATGCAGAACACTTGTTATTTCGGGCCTT
131 TCGGGGTCCATTAGTGCTGTTTTG
131 TCGGGGTCCATTAGTGCTGTTTTG
155 AATCTGCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCAATTGTTTACGACCTAACTATAATCA
1 AATCTGCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCAATTGTTTACGACCTAACTATAATCA
* *
220 -TTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTGTTATTTCGGGCCTT
66 TTTTAGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATGCAGAACACTTGTTATTTCGGGCCTT
284 TCGGGGTCCATTAGTGCTGTTTTG
131 TCGGGGTCCATTAGTGCTGTTTTG
*
308 AATCTGCTTCGATTTGGCAAACCACAAAGCTTTTATTTCAATTGTTTACGACCT
1 AATCTGCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCAATTGTTTACGACCT
362 TACTGATGCG
Statistics
Matches: 203, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
153 139 0.68
154 64 0.32
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (154 bp):
AATCTGCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCAATTGTTTACGACCTAACTATAATCA
TTTTAGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATGCAGAACACTTGTTATTTCGGGCCTT
TCGGGGTCCATTAGTGCTGTTTTG
Done.