Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018399299.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2569.0, 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: 3153
ACGTcount: A:0.24, C:0.07, G:0.08, T:0.21
Warning! 1287 characters in sequence are not A, C, G, or T
Found at i:1594 original size:171 final size:170
Alignment explanation
Indices: 1279--1594 Score: 366
Period size: 171 Copynumber: 1.8 Consensus size: 170
1269 NNNNNNNNNN
* * *
1279 GACTATAAATAGACTTTTCTTACCAATGGATATCTTTTTCTTCATGTTTCCTGATGCAAACATTC
1 GACTATAAATAGACTTTTCCTACCAATAGATATCTTTTTCTTCATGTTTCC-GAAGCAAACATTC
** * * * **********
1344 AATTATTATTTATTTTAACCAAGAATGTAAAAAAATTTAACTTAAAANNNNNNNNNNGATTATAA
65 AATTATTACCTATTTTAACCAAAAATGTAAAAAAATTCAAATTAAAATCAATTATGAGATTATAA
*
1409 AAATATTTAAAGCGAGTAATAGGGCTTTTGAAGGGATGGGT
130 AAATATTGAAAGCGAGTAATAGGGCTTTTGAAGGGATGGGT
* * *
1450 GACTATAAATAGACTTTTCCTACCAATAGATATCTTTTTCTTTATATTTTCC-AAGGAAGACATT
1 GACTATAAATAGACTTTTCCTACCAATAGATATCTTTTTCTTCAT-GTTTCCGAAGCAA-ACATT
*
1514 CAATTATTACCTGTTTTAACCAAAAATGTAAAAAAATTCAAATTAAAATCAATTATGAGATTA-A
64 CAATTATTACCTATTTTAACCAAAAATGTAAAAAAATTCAAATTAAAATCAATTATGAGATTATA
*
1578 AAAGTCATTGAAAGCGA
129 AAAAT-ATTGAAAGCGA
1595 ATNNNNNNNN
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
170 9 0.08
171 104 0.88
172 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.35
Consensus pattern (170 bp):
GACTATAAATAGACTTTTCCTACCAATAGATATCTTTTTCTTCATGTTTCCGAAGCAAACATTCA
ATTATTACCTATTTTAACCAAAAATGTAAAAAAATTCAAATTAAAATCAATTATGAGATTATAAA
AATATTGAAAGCGAGTAATAGGGCTTTTGAAGGGATGGGT
Done.