Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397743.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1040.0, 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, 1000
Length: 4314
ACGTcount: A:0.16, C:0.05, G:0.06, T:0.15
Warning! 2489 characters in sequence are not A, C, G, or T
Found at i:1871 original size:171 final size:160
Alignment explanation
Indices: 1580--1890 Score: 354
Period size: 171 Copynumber: 1.9 Consensus size: 160
1570 NNNNNNNNNN
* * *
1580 AAGCGAGTAATAAGGCTTTCGAAGGTAAGGGTGACTATAAATGGACTTTTCTTCCTAATGGATAT
1 AAGCGAGTAATAACGCTTTCGAAGGCAAGGGCGACTATAAATGGACTTTTCTTCCTAATGGATAT
* * * *
1645 CTTTTTCCTCACGTTTCTCAAGGCAGATAATCAATTATAATATGTTTTCATAAAAAATATAAAAA
66 CTTTTTCCTCACATTTCTCAAGGCAAACAATCAATTATAATATGTTTTAAT-AAAAATATAAAAA
1710 AATTCAANNNNNNNNNNATTATGAGGTTATAAAATCATTTA
130 AATTCAA----------ATTATGAGGTTATAAAATCATTTA
* * *
1751 AAGCGAGTAATAACGCTTTCGAAGGCATGTGCGACTATAAATGGACTTTTCTT-GTCAATGGATA
1 AAGCGAGTAATAACGCTTTCGAAGGCAAGGGCGACTATAAATGGACTTTTCTTCCT-AATGGATA
* * * * * * *
1815 TCTTTTTCTTCACATTTTTCGAGGTAAACACTCAATTATAATCTGTTTTAATAAAAATATAAAGA
65 TCTTTTTCCTCACATTTCTCAAGGCAAACAATCAATTATAATATGTTTTAATAAAAATATAAAAA
1880 AATTCAAATTA
130 AATTCAAATTA
1891 AAAGTAATTA
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
160 4 0.03
170 20 0.16
171 98 0.80
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.34
Consensus pattern (160 bp):
AAGCGAGTAATAACGCTTTCGAAGGCAAGGGCGACTATAAATGGACTTTTCTTCCTAATGGATAT
CTTTTTCCTCACATTTCTCAAGGCAAACAATCAATTATAATATGTTTTAATAAAAATATAAAAAA
ATTCAAATTATGAGGTTATAAAATCATTTA
Done.