Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398131.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1433.0, 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: 3592
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.20
Warning! 1589 characters in sequence are not A, C, G, or T
Found at i:3064 original size:171 final size:170
Alignment explanation
Indices: 2758--3078 Score: 414
Period size: 171 Copynumber: 1.9 Consensus size: 170
2748 NNNNNNNNNN
* *
2758 AATAAGCCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTCTTAATCAATGGCTTTTTTT
1 AATAAGCCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTCTTAATCAATGGCTTTTTTT
* * **********
2823 ACACGTTTCCCTAGGCAGACATTCAATTATAGTCTGTTTAAATAAAAAATGTAANNNNNNNNNNC
66 ACACATTT-CCTAGGCAGACATTCAATTATAGTCTGTTTAAATAAAAAATATAAAAAAATTTAAC
2888 TTAAAATCAATTATGAGATTATAAAATGATTTAAATCGACT
130 TTAAAATCAATTATGAGATTATAAAATGATTTAAATCGACT
2929 AATAAGCCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTCTTAATCAATGG-TTTTTTC
1 AATAAGCCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTCTTAATCAATGGCTTTTTT-
* * * *
2993 TGCACATTT-CTAGAGTTAGACATTCAATTATTGTCTGTTCTAAA-GAAAAATATAAAAAAATTT
65 TACACATTTCCTAG-G-CAGACATTCAATTATAGTCTGTT-TAAATAAAAAATATAAAAAAATTT
3056 AACTTAAAATCAATTATGAGATT
127 AACTTAAAATCAATTATGAGATT
3079 NNNNNNNNNN
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
169 4 0.03
170 7 0.05
171 113 0.88
172 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.36
Consensus pattern (170 bp):
AATAAGCCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTCTTAATCAATGGCTTTTTTT
ACACATTTCCTAGGCAGACATTCAATTATAGTCTGTTTAAATAAAAAATATAAAAAAATTTAACT
TAAAATCAATTATGAGATTATAAAATGATTTAAATCGACT
Done.