Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401862.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4967.0, 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: 2360
ACGTcount: A:0.14, C:0.04, G:0.05, T:0.14
Warning! 1487 characters in sequence are not A, C, G, or T
Found at i:779 original size:170 final size:160
Alignment explanation
Indices: 497--821 Score: 350
Period size: 170 Copynumber: 2.0 Consensus size: 160
487 NNNNNNNNNN
* * *
497 ATTATAAAACTATTTAAAGCAAGTAATAAGGCTTTTGTAGGAATAAAAGACTATCAATGAACTTT
1 ATTATAAAACTATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAAAAGACTATAAATAAACTTT
* *
562 TCTTCCAAATAAATGGATTTTTCTACACGTTTCTCAAGGCTGACATTCAATTATAGTCTGTTTTA
66 TCTTCCAAATAAATAGATTTTTCTACACGTTTCTCAAGGCTGACATTCAATTATAGTATGTTTTA
*
627 ATGAAAAATGTAAAAAATTTAACTTGNNNNNNNNNNTGAG
131 ATGAAAAATGTAAAAAATTCAACTTG----------TGAG
** * ***
667 ATTATAAAA-TCATTTAAAGCGTGTAATAGGGCTTTTGAAGGAATTGGAGACTATAAATAAACTT
1 ATTATAAAACT-ATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAAAAGACTATAAATAAACTT
* * * * *
731 TTTTTTCAAATAACTA-AGTTTTTCTATACGTTT-TCCAAGTCTGACATTCAATTATAGTATGTT
65 TTCTTCCAAATAAATAGA-TTTTTCTACACGTTTCT-CAAGGCTGACATTCAATTATAGTATGTT
*
794 TTAATGAAAAATGTAAAAGATTCAACTT
128 TTAATGAAAAATGTAAAAAATTCAACTT
822 AAAANNNNNN
Statistics
Matches: 134, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
169 3 0.02
170 131 0.98
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.36
Consensus pattern (160 bp):
ATTATAAAACTATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAAAAGACTATAAATAAACTTT
TCTTCCAAATAAATAGATTTTTCTACACGTTTCTCAAGGCTGACATTCAATTATAGTATGTTTTA
ATGAAAAATGTAAAAAATTCAACTTGTGAG
Done.