Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397970.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1276.0, 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: 2492
ACGTcount: A:0.20, C:0.07, G:0.08, T:0.20
Warning! 1137 characters in sequence are not A, C, G, or T
Found at i:1836 original size:172 final size:170
Alignment explanation
Indices: 1511--2127 Score: 502
Period size: 171 Copynumber: 3.6 Consensus size: 170
1501 NNNNNNNNNN
* ** ** * *** * *
1511 AATGTCTTTTTCTTTACGTTTCTTGAGGTAGACATTCAATTGTAGTCTATTTTAGGTAAAATTAT
1 AATGCCTTTTTCTTTGTGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATGT
* * *
1576 AAAAAAATTCAATTTAAAATCAATTATGGCATTATAAAACTATTTAAAGCAAGTAATGAA-GCTT
66 AAAAAAATTCAACTTAAAATCAATTATGG-ATTATAAAACCATTTAAAGCGAGTAAT-AAGGCTT
**********
1640 TNNNNNNNNNNGGTGACTATAAATGGACTTTTCTTACCAATG
129 TTGAAGATATAGGTGACTATAAATGGACTTTTCTTACCAATG
** * *
1682 AATGCCTTTTTCTTTGCATTTCTCAAGGTTGACATTCAATTATAGTCTATTTTAACCAAAAATAT
1 AATGCCTTTTTCTTTGTGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATGT
* * * *
1747 AAAACAATTTGAACTTAAAACCAATTATGAGATTATAAAACCATTTAAAG-TATGTAATAAGGCT
66 AAAA-AAATTCAACTTAAAATCAATTATG-GATTATAAAACCATTTAAAGCGA-GTAATAAGGCT
**********
1811 TTTGAAGGA-ATAGGTGACTATAAATGGANNNNNNNNNNCAATG
128 TTTGAA-GATATAGGTGACTATAAATGGACTTTTCTTACCAATG
* ** ** * *
1854 AATGCCTTTTTCTTTATGTTTCTTGAGGTAGACAGCCAATTATAATCTAATTTAACCAAAAATGT
1 AATGCCTTTTTCTTTGTGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATGT
* * ********
1919 AAAAAAATTCAACTTAAAATAAATTATGCCATTATAAAACCATTTAAAGCGAGTAATNNNNNNNN
66 AAAAAAATTCAACTTAAAATCAATTATG-GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
** * * *
1984 NNAAGATATGGGTGACTATAAATGGACTTTTTTTGCCAATG
130 TGAAGATATAGGTGACTATAAATGGACTTTTCTTACCAATG
* * * * **
2025 AATGCCTTTTTCTTTGTGTTTCTCAAGATAGACATTCAATTATTGTATGTTTTAATAAAAAATGT
1 AATGCCTTTTTCTTTGTGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATGT
*
2090 AAAAAACTTCAACTTAAAATCAATTATGGCATTATAAA
66 AAAAAAATTCAACTTAAAATCAATTATGG-ATTATAAA
2128 NNNNNNNNNN
Statistics
Matches: 347, Mismatches: 91, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
170 2 0.01
171 216 0.62
172 128 0.37
173 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.35
Consensus pattern (170 bp):
AATGCCTTTTTCTTTGTGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATGT
AAAAAAATTCAACTTAAAATCAATTATGGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
GAAGATATAGGTGACTATAAATGGACTTTTCTTACCAATG
Done.