Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401231.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4378.0, 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: 1736
ACGTcount: A:0.24, C:0.09, G:0.08, T:0.25
Warning! 610 characters in sequence are not A, C, G, or T
Found at i:514 original size:171 final size:171
Alignment explanation
Indices: 328--685 Score: 416
Period size: 171 Copynumber: 2.1 Consensus size: 171
318 NNNNNNNNNN
* * * * * *
328 ATAATTCATTTTAAGTTGAATTTTTTTACATTTTTATTTAAAAATGACTATAATTGAATGTTTAT
1 ATAATTGATTTTAAGTTAAATTTTTTTACATTTTTATTTAAAAATGACAATAATTAAATATCTAT
* * * * ** *
393 CTCGAGAAACATGTAGAAAAAA-CCATTGATTAAGAAGAAACGTCTATTTATAGTCACTCATTCC
66 CTCAAGAAACAAGCA-AAAAAAGCAATTGATTAAGAAGAAAAATCTATTTATAGACACTCATTCC
* *
457 TTTC-AAAGGCTTATTACTTAG-TTTAAATGGTTTTATAATCTC
130 -TTCAAAAGGCTTATTA-GTAGCTTTAAATAGTTTTATAATCTC
* ************
499 ATAATTGACTTTAAGTTAAATTTTTTTACATTTNNNNNNNNNNNNGACAATAATTAAATATCTAT
1 ATAATTGATTTTAAGTTAAATTTTTTTACATTTTTATTTAAAAATGACAATAATTAAATATCTAT
564 CTCAAGAAACAAGCAAAAAAAGCAATTGATTAAGAAGAAAAATCTATTTATAGACACTCATTCCT
66 CTCAAGAAACAAGCAAAAAAAGCAATTGATTAAGAAGAAAAATCTATTTATAGACACTCATTCCT
629 TCAAAAGGCTTATTAGTAGCTTTAAATAGTTTTATAATCTC
131 TCAAAAGGCTTATTAGTAGCTTTAAATAGTTTTATAATCTC
670 ATAATTGATTTTAAGT
1 ATAATTGATTTTAAGT
686 NNNNNNNNNN
Statistics
Matches: 155, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
170 12 0.08
171 143 0.92
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.38
Consensus pattern (171 bp):
ATAATTGATTTTAAGTTAAATTTTTTTACATTTTTATTTAAAAATGACAATAATTAAATATCTAT
CTCAAGAAACAAGCAAAAAAAGCAATTGATTAAGAAGAAAAATCTATTTATAGACACTCATTCCT
TCAAAAGGCTTATTAGTAGCTTTAAATAGTTTTATAATCTC
Done.