Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397846.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1147.0, 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: 5440
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.18
Warning! 2794 characters in sequence are not A, C, G, or T
Found at i:3357 original size:171 final size:170
Alignment explanation
Indices: 3053--3375 Score: 395
Period size: 171 Copynumber: 1.9 Consensus size: 170
3043 NNNNNNNNNN
* * * **
3053 AAACTATTTAAAGCGAGTAATAAGCTTTTTGAAGGAATTGATGACTTTAAATGGGCTTTTCTTGT
1 AAACTATTTAAAGCAAGTAATAAGCCTTTTGAAGGAATTGATGACTATAAATGAACTTTTCTTGT
* * * * * * *
3118 CAAATAATGCTTGCTTTTTCACGTTTCTAGAGGTAGACATTCAATTATAGCATGTTTTTATCAAA
66 CAAATAATGCTT-CTTTTTCACGTTTCTACAAGCAAACATTCAACTATAGCATGTTTTAATAAAA
*
3183 AATGTAAAATAATTCAACTTAATATCAATTATGAGATTATA
130 AATGTAAAACAATTCAACTTAATATCAATTATGAGATTATA
*
3224 AAACTATTTAAAGCAATTAATAAGCCTTTT-AACGGAA-TGAGTGACTATAAATGAACTTTT-TT
1 AAACTATTTAAAGCAAGTAATAAGCCTTTTGAA-GGAATTGA-TGACTATAAATGAACTTTTCTT
* * *
3286 TTCCAATGAATGGCTT-TTTTTGCACGTTTCTCCAAGCAAACATTCAACTATAGTC-TGTTTTAA
64 GTCAAAT-AAT-GCTTCTTTTT-CACGTTTCTACAAGCAAACATTCAACTATAG-CATGTTTTAA
3349 TAAAAAATGTAAAACAATTCAACTTAA
125 TAAAAAATGTAAAACAATTCAACTTAA
3376 ANNNNNNNNN
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
170 17 0.13
171 107 0.83
172 5 0.04
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (170 bp):
AAACTATTTAAAGCAAGTAATAAGCCTTTTGAAGGAATTGATGACTATAAATGAACTTTTCTTGT
CAAATAATGCTTCTTTTTCACGTTTCTACAAGCAAACATTCAACTATAGCATGTTTTAATAAAAA
ATGTAAAACAATTCAACTTAATATCAATTATGAGATTATA
Done.