Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402949.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_610.0, 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: 13893
ACGTcount: A:0.20, C:0.06, G:0.07, T:0.19
Warning! 6596 characters in sequence are not A, C, G, or T
Found at i:10136 original size:170 final size:170
Alignment explanation
Indices: 9839--10148 Score: 401
Period size: 170 Copynumber: 1.8 Consensus size: 170
9829 NNNNNNNNNN
9839 TTTAAAGCAAGTAATAAGGCTTTTGAAAGAATAAGAGACTATAAATAGACTTTTCTCCCAAATAA
1 TTTAAAGCAAGTAATAAGGCTTTTGAAAGAATAAGAGACTATAAATAGACTTTTCTCCCAAATAA
* * * * *
9904 ATGGGTTTTCTTACATGTTTCTTGACACAGGCATTCAATTATAATATCTTTTAACGAAAAATGTA
66 ATAGGTTTTCTTACACGTTTCTCGACACAGGCATTCAATTATAATATATTTTAACAAAAAATGTA
*
9969 AAAGATTCAATTTAGAATTAATTATGAGATTATAAAACTA
131 AAAAATTCAATTTAGAATTAATTATGAGATTATAAAACTA
* ** * *
10009 TTTAAAGCTAA-TAATAAGGCTTTT-ACAGGAATGTGAGACTATAAATGGACTTTTCTTCCAAAT
1 TTTAAAGC-AAGTAATAAGGCTTTTGA-AAGAATAAGAGACTATAAATAGACTTTTCTCCCAAAT
* *** * * * *
10072 AAATAAGTTTT-TCTACACGTTTCTCGAGGTAGGCATTCAATTGTAGTTTATTTTAATAAAAAAT
64 AAATAGGTTTTCT-TACACGTTTCTCGACACAGGCATTCAATTATAATATATTTTAACAAAAAAT
10136 GTAAAAAATTCAA
128 GTAAAAAATTCAA
10149 CTNNNNNNNN
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
169 2 0.02
170 114 0.97
171 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
TTTAAAGCAAGTAATAAGGCTTTTGAAAGAATAAGAGACTATAAATAGACTTTTCTCCCAAATAA
ATAGGTTTTCTTACACGTTTCTCGACACAGGCATTCAATTATAATATATTTTAACAAAAAATGTA
AAAAATTCAATTTAGAATTAATTATGAGATTATAAAACTA
Done.