Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018399914.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3147.0, 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, 691
Length: 1152
ACGTcount: A:0.19, C:0.07, G:0.06, T:0.20
Warning! 554 characters in sequence are not A, C, G, or T
Found at i:363 original size:171 final size:171
Alignment explanation
Indices: 186--507 Score: 414
Period size: 171 Copynumber: 1.9 Consensus size: 171
176 NNNNNNNNNN
* ** * *
186 GAAAAAGATATCCATTAG-CAAGAAAAGTCCATTTATAGTTACTGATACCTTCGAAAGCCTTATT
1 GAAAAAGATATCCATT-GCCAAGAAAAGTCCATTTATAGTCACCCATACCTTCAAAAGCCGTATT
* * **********
250 ACTCGCTTTAAATGATTTTATAA-TGTCATAANNNNNNNNNNTTTGAATTTTTTTATATTTTTTA
65 ACTCGCATTAAATAATTTTATAACT-TCATAATAGATTTTAATTTGAATTTTTTTATATTTTTTA
314 TTAAAATAAATTATAATTGAATGTTTGGCTCGAGAAACATGAA
129 TTAAAATAAATTATAATTGAATGTTTGGCTCGAGAAACATGAA
** *
357 GAAAAAGATATCCATTGCCAAGAAAAGTCTGTTTATAGTCACCCATGCCTTCAAAAGCCGTATTA
1 GAAAAAGATATCCATTGCCAAGAAAAGTCCATTTATAGTCACCCATACCTTCAAAAGCCGTATTA
*
422 CTCGCATTAAATAATTTTATAACTTCATAGTAGATTTTAATTTGAATTTTTTTATATTTTTTATT
66 CTCGCATTAAATAATTTTATAACTTCATAATAGATTTTAATTTGAATTTTTTTATATTTTTTATT
*
487 AAAATAGATTATAATTGAATG
131 AAAATAAATTATAATTGAATG
508 NNNNNNNNNN
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
170 1 0.01
171 125 0.98
172 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.38
Consensus pattern (171 bp):
GAAAAAGATATCCATTGCCAAGAAAAGTCCATTTATAGTCACCCATACCTTCAAAAGCCGTATTA
CTCGCATTAAATAATTTTATAACTTCATAATAGATTTTAATTTGAATTTTTTTATATTTTTTATT
AAAATAAATTATAATTGAATGTTTGGCTCGAGAAACATGAA
Done.