Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398048.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1357.0, 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: 1777
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.23
Warning! 638 characters in sequence are not A, C, G, or T
Found at i:369 original size:170 final size:168
Alignment explanation
Indices: 4--398 Score: 408
Period size: 170 Copynumber: 2.3 Consensus size: 168
1 CTG
* *
4 TTTTAATCAAAAAAGTGAAAAAATTCATCTAAAAATCTATTATGAGATTATCAAACAATTTAAAG
1 TTTTAATCAAAAAAGTG-AAAAATTCATCTAAAAATCAATTATGAGATTATAAAACAATTTAAAG
* * * *******
69 CGAGTAATAAAGCTTTTGAAGAAATAAGAGGCTATAAATGGACTTTTCTTGTCAATNNNNNNNNN
65 CGAATAATAAAGCTTTTAAAGAAATAAGAGACTATAAATGGACTTTTCTTGTCAAT--AGAATGC
* * * *
134 NTTCTTTACATTTCTCTTGGTAGATATTCAGATAAAATTTG
128 CTTCTTTACATTTCTCTTGGTAGACATTCAGATAAAATCTA
* * * * *
175 TTTTAA-CCAAAATGTGATAAAATTCAACCAAAAATCAATTATGATATTATAAAACAATTTAAAG
1 TTTTAATCAAAAAAGTGA-AAAATTCATCTAAAAATCAATTATGAGATTATAAAACAATTTAAAG
* * *
239 CGAATAATAAGGCTTTTAAA-AGAATAGGAGACTATAAATGGACTTTTGTTG-CAA-ATGAATGC
65 CGAATAATAAAGCTTTTAAAGA-AATAAGAGACTATAAATGGACTTTTCTTGTCAATA-GAATGC
*
301 CTGTCTCTT-CATGTT-TCTTGAGGTAGACATTCA-ATTATAATCTA
128 CT-TCT-TTACAT-TTCTCTT--GGTAGACATTCAGA-TAAAATCTA
345 TTTTAATCAAAAAAGTGAAAAATTCATCTAAAAATCAATTATGAGATTATAAAA
1 TTTTAATCAAAAAAGTGAAAAATTCATCTAAAAATCAATTATGAGATTATAAAA
399 NNNNNNNNNN
Statistics
Matches: 184, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
167 1 0.01
168 10 0.05
169 10 0.05
170 148 0.80
171 15 0.08
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.33
Consensus pattern (168 bp):
TTTTAATCAAAAAAGTGAAAAATTCATCTAAAAATCAATTATGAGATTATAAAACAATTTAAAGC
GAATAATAAAGCTTTTAAAGAAATAAGAGACTATAAATGGACTTTTCTTGTCAATAGAATGCCTT
CTTTACATTTCTCTTGGTAGACATTCAGATAAAATCTA
Done.