Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402506.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5580.0, 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, 769
Length: 1282
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.26
Warning! 342 characters in sequence are not A, C, G, or T
Found at i:1015 original size:170 final size:169
Alignment explanation
Indices: 806--1114 Score: 413
Period size: 170 Copynumber: 1.8 Consensus size: 169
796 NNNNNNNGTA
* ** * *
806 ACTATAAATGGACTTTTCTTGCTTATGAATACCTTTTCTTCATGTTTCTCGAGGTAGACATTCTA
1 ACTATAAATGGACTTGTCTTGCCAATGAATACCTTTTCTTCATGTTTCTCGAAGTAGACATTCAA
* *
871 TTATAATCTATTTTAACC-AAAAATGCGAAAACATTCAACTTAAAATCAATTATGACATCATAAA
66 TTATAATCTATTTT-ACCTAAAAATGCGAAAACACTCAACTTAAAAACAATTATGACATCATAAA
935 ACCATTTAAAGCGAGCATAAGGCTTTCGAAGGTATGGGGG
130 ACCATTTAAAGCGAGCATAAGGCTTTCGAAGGTATGGGGG
* *
975 ACTATAAATGGACTTGTCTTGCCAATGAATTCCTTTTTCTTCATGTTTCTTGAAGTAGACATTCA
1 ACTATAAATGGACTTGTCTTGCCAATGAATACC-TTTTCTTCATGTTTCTCGAAGTAGACATTCA
* * * ** * * * ** *
1040 ATTCTAGTCTGTTTTACCTAAAAATGTTAAAATACTGAACTTAAAAACAATTATTAGTTGATAAA
65 ATTATAATCTATTTTACCTAAAAATGCGAAAACACTCAACTTAAAAACAATTATGACATCATAAA
1105 ACCATTTAAA
130 ACCATTTAAA
1115 CCAAGTAATA
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
169 32 0.27
170 86 0.73
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (169 bp):
ACTATAAATGGACTTGTCTTGCCAATGAATACCTTTTCTTCATGTTTCTCGAAGTAGACATTCAA
TTATAATCTATTTTACCTAAAAATGCGAAAACACTCAACTTAAAAACAATTATGACATCATAAAA
CCATTTAAAGCGAGCATAAGGCTTTCGAAGGTATGGGGG
Done.