Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01010814.1 Corchorus olitorius cultivar O-4 contig10846, 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, 604
Length: 1008
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Found at i:813 original size:154 final size:153
Alignment explanation
Indices: 528--1008 Score: 764
Period size: 154 Copynumber: 3.1 Consensus size: 153
518 TGGCGCATCA
* ** * *
528 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTTAACCGTTTTCGATTTGGCAAAC
1 ACTTGTTATTTTGGGCCTAT-AGGGCCCATTAGTTCCGTTTTGAACCGTCTTCGATTTGGCAAAC
* * *
593 CTCAAAGCTTTTCTTTCCATTGTTTATGGACTAACTGTAAGCATTTTGGTGAGATTAGTCCACTG
65 CTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTG
*
658 TGAAGTTTTTAGCTTATTTGGAAC
130 TGAAGTTTTTAGCTCATTTGGAAC
* * * * *
682 ACTTTTTATTTTGGGCCTATAAGGTCCCATTGGTTCCGTTTTGAATCGTCTTCGATTTGACAAAC
1 ACTTGTTATTTTGGGCCTAT-AGGGCCCATTAGTTCCGTTTTGAACCGTCTTCGATTTGGCAAAC
747 CTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTG
65 CTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTG
812 TGAAGTTTTTAGCTCATTTGGAAC
130 TGAAGTTTTTAGCTCATTTGGAAC
*
836 ACTTGTTATTTTGGGCCTATCGTGGCCCATTAGTTCCGTTTTGAACCGTCTTCGATTTGGCAAAC
1 ACTTGTTATTTTGGGCCTATAG-GGCCCATTAGTTCCGTTTTGAACCGTCTTCGATTTGGCAAAC
* * * *
901 CTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTGTGGTAAGATTAATCCACTG
65 CTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTG
966 TGAAGTTTTTAGCTCATTTGGAAC
130 TGAAGTTTTTAGCTCATTTGGAAC
990 ACTTGTTATTTTGGGCCTA
1 ACTTGTTATTTTGGGCCTA
Statistics
Matches: 301, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
153 1 0.00
154 300 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (153 bp):
ACTTGTTATTTTGGGCCTATAGGGCCCATTAGTTCCGTTTTGAACCGTCTTCGATTTGGCAAACC
TCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGT
GAAGTTTTTAGCTCATTTGGAAC
Done.