Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401856.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4961.0, 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: 4045
ACGTcount: A:0.18, C:0.06, G:0.07, T:0.17
Warning! 2065 characters in sequence are not A, C, G, or T
Found at i:349 original size:170 final size:170
Alignment explanation
Indices: 165--558 Score: 456
Period size: 171 Copynumber: 2.3 Consensus size: 170
155 NNNNNNNNNN
** *
165 GCAAGT-GATAAGGCTTTCAAAGGCTTGGGTGACTATAAATAGGCTTTCTTGCAACTGAATGGCT
1 GCAAGTAG-TAAGGCTTTTGAAGGCATGGGTGACTATAAATAGGCTTTCTTGCAACTGAATGGCT
* *
229 ATTTCTTCACGTTTCCTTAGGCAAACATTCAACTGCAATCTGTTTTAA-TAAAAAATATTAAAA-
65 ATTTCTTCACATTTCCTTAGGAAAACATTCAACTGCAATCTGTTTTAACT-AAAAATA-TAAAAC
* * *
292 AATTTAACTTAAAATCAATTATGAGGCTATAAA-AGCAATTAAA
128 AATTCAACTTAAAATCAATTATAAGACTATAAACA-CAATTAAA
* * ********* *
335 GCAAGTAGTAAGGCTTTTGGAGGCATGGATGAGC-ATAAATAGGCTTTNNNNNNNNNNGAATGGG
1 GCAAGTAGTAAGGCTTTTGAAGGCATGGGTGA-CTATAAATAGGCTTT-CTTGCAACTGAATGGC
* * * *
399 TTTTTTTTCACATTTTCTTAGGAAAACATTCAACTGCAATCTGTTTTAACTAAAAATATAAAACT
64 TATTTCTTCACATTTCCTTAGGAAAACATTCAACTGCAATCTGTTTTAACTAAAAATATAAAACA
464 ATTCAACTTAAAATCAATTATAAGACTATAAACACAATTAAA
129 ATTCAACTTAAAATCAATTATAAGACTATAAACACAATTAAA
* *
506 GCAAGTAATAAGGCTTTTGAAGGCATGGGTGAGTATAAATAGGCTTTTCTTGC
1 GCAAGTAGTAAGGCTTTTGAAGGCATGGGTGACTATAAATAGGC-TTTCTTGC
559 TGATGAATAG
Statistics
Matches: 183, Mismatches: 33, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
170 43 0.23
171 135 0.74
172 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.32
Consensus pattern (170 bp):
GCAAGTAGTAAGGCTTTTGAAGGCATGGGTGACTATAAATAGGCTTTCTTGCAACTGAATGGCTA
TTTCTTCACATTTCCTTAGGAAAACATTCAACTGCAATCTGTTTTAACTAAAAATATAAAACAAT
TCAACTTAAAATCAATTATAAGACTATAAACACAATTAAA
Done.