Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402306.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5388.0, 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: 1754
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.30
Warning! 368 characters in sequence are not A, C, G, or T
Found at i:1589 original size:171 final size:159
Alignment explanation
Indices: 1439--1754 Score: 425
Period size: 171 Copynumber: 1.9 Consensus size: 159
1429 NNNNNNNNNN
*
1439 ATTTTATAATCTCATAATTGATTTTAATTTGAATTATTTTATATTTTTTGTTAAAACATATTATA
1 ATTTTATAACCTCATAATTGATTTTAATTTGAATT-TTTTATATTTTTTGTTAAAACATATTATA
1504 ATTAAATGTTTTTCCCGAGAAACTTAAAGAAAAAGATATCCATTAGCAAGAAAAGTACATTTATA
65 ATTAAATGTTTTTCCC-AGAAACTTAAAGAAAAAGATATCCATTAGCAAGAAAAGTACATTTATA
***
1569 GTCACCGATGCCTTCAAAAGCCTTATTANNNNNNNNNNNNN
129 GTCACCGATGCCTTCAAAAGCCTTATTA----------CTC
****
1610 NNNNTATAACCTCATAATTGATTTTAATTTGAATTTTTTTATATTTTTTGTTAAAACATATTATA
1 ATTTTATAACCTCATAATTGATTTTAATTTGAA-TTTTTTATATTTTTTGTTAAAACATATTATA
1675 ATTAAATGTTTTTCCCCAGAAACTTAAAGAAAAAGATATCCATTAGCAAGAAAAGTACATTTATA
65 ATTAAATGTTTTT-CCCAGAAACTTAAAGAAAAAGATATCCATTAGCAAGAAAAGTACATTTATA
*
1740 GTCACCCATGCCTTC
129 GTCACCGATGCCTTC
Statistics
Matches: 137, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
171 132 0.96
172 5 0.04
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.38
Consensus pattern (159 bp):
ATTTTATAACCTCATAATTGATTTTAATTTGAATTTTTTATATTTTTTGTTAAAACATATTATAA
TTAAATGTTTTTCCCAGAAACTTAAAGAAAAAGATATCCATTAGCAAGAAAAGTACATTTATAGT
CACCGATGCCTTCAAAAGCCTTATTACTC
Done.