Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397927.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1232.0, 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: 1716
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.24
Warning! 518 characters in sequence are not A, C, G, or T
Found at i:283 original size:170 final size:164
Alignment explanation
Indices: 1--472 Score: 558
Period size: 170 Copynumber: 2.8 Consensus size: 164
* *
1 AAGGAATGGGTGACTATAAGTGGACTTTTCTTGCTAATGAATGCTTTTTTCTTTATGTTTCTCGA
1 AAGGAATGGGTGACTACAAGTGGACTTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTTCTCGA
* * *
66 GGTAGATAATTAGTTATTGTCTGTTTTAACCAAAAATGTAAAAAAATTC-ACTTAAAATCAATTA
66 GGTAGACAATCAGTTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
***
130 TGNNNNNNNNNNACTATTTAAAGCGAGTAATAAGGCTTTTA
131 TG-------AAAACTATTTAAAGCGAGTAATAAGGCTTTTA
* * *
171 AAGGAATGGGTGACTACAAGTGGACTTTTCTTGCTAATGAGTACTTTTTTCTTCATGTCTCTCGA
1 AAGGAATGGGTGACTACAAGTGGACTTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTTCTCGA
*
236 GGTAGACAATCAGTTATCGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTN
66 GGTAGACAATCAGTTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATT-
*** *
301 NNNNNNNNNAAAACTATTTAAAGTGAGTAATAAGGCTTTTA
130 ------ATGAAAACTATTTAAAGCGAGTAATAAGGCTTTTA
* *
342 AAAGAATGGGTGACTACAAGTGGACTTTTCTTGCTAATGAATGCTTTTTT-TTGC--GTTTCTTG
1 AAGGAATGGGTGACTACAAGTGGACTTTTCTTGCTAATGAATGCTTTTTTCTT-CATGTTTCTCG
* * * * *
404 AGGTAGACAATCAGTTAAAGAT-TGTTTTAACAAAAAATTTTAAAAAATTCAACTTAAACTCAAT
65 AGGTAGACAATCAGTTATAG-TCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAAT
468 TATGA
129 TATGA
473 GATTATAAAA
Statistics
Matches: 263, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
162 1 0.00
169 63 0.24
170 109 0.41
171 90 0.34
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.35
Consensus pattern (164 bp):
AAGGAATGGGTGACTACAAGTGGACTTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTTCTCGA
GGTAGACAATCAGTTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
TGAAAACTATTTAAAGCGAGTAATAAGGCTTTTA
Done.