Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401332.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_447.0, 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: 5799
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.26
Warning! 1771 characters in sequence are not A, C, G, or T
Found at i:5408 original size:164 final size:164
Alignment explanation
Indices: 5120--5419 Score: 385
Period size: 164 Copynumber: 1.8 Consensus size: 164
5110 AATGGGTGAT
* * * *
5120 TATAAATAGACTTTTCATGCCAATGAATGTGTTTGTCTTCGTGTTTCTCAAGGTAGACATTCAAA
1 TATAAATAGACTTTTCATGCCAATGAATGTGTTTGTCTACATGTTTCCCAAGGAAGACATTCAAA
** * *
5185 TATAGTTTTTTTTACACAAAAATGTAAAAACATTCAACTAAAAAATAATTATTAGATTATAAAAC
66 TATAGCCTGTTTTACACAAAAATGTAAAAACATTCAACTAAAAAATAATTATGAGATTATAAAAC
5250 CATTTAAAAGCAAGTAATAAGGCTTTTGAATGGC
131 CATTTAAAAGCAAGTAATAAGGCTTTTGAATGGC
*
5284 TATAAATAGACTTTTC-TTCTCAATGAATG-GCTTTGTCTACATGTTTCCCAAGGCAAG-CATTC
1 TATAAATAGACTTTTCATGC-CAATGAATGTG-TTTGTCTACATGTTTCCCAAGG-AAGACATTC
* * * * *
5346 AATTCTAGCCTGTTTTA-ATGAAAAATGTAGAAACATTCAACT-TAAAATCAATTATGAGATTAT
63 AAATATAGCCTGTTTTACA-CAAAAATGTAAAAACATTCAACTAAAAAAT-AATTATGAGATTAT
*
5409 AAAACTATTTA
126 AAAACCATTTA
5420 NNNNNNNNNN
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
163 9 0.08
164 105 0.91
165 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (164 bp):
TATAAATAGACTTTTCATGCCAATGAATGTGTTTGTCTACATGTTTCCCAAGGAAGACATTCAAA
TATAGCCTGTTTTACACAAAAATGTAAAAACATTCAACTAAAAAATAATTATGAGATTATAAAAC
CATTTAAAAGCAAGTAATAAGGCTTTTGAATGGC
Done.