Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398634.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_192.0, 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, 714
Length: 1190
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.29
Warning! 301 characters in sequence are not A, C, G, or T
Found at i:667 original size:170 final size:170
Alignment explanation
Indices: 385--699 Score: 488
Period size: 170 Copynumber: 1.9 Consensus size: 170
375 NNNNNNNNNN
* *
385 TTAAAATAGACTATAATTGAATGCTTACCTCGAGAAACATAAAGAAAAAAACATTCATTGGCAAA
1 TTAAAATAGACTATAATTGAATACTTACCTCGAGAAACATAAAGAAAAAAACAGTCATTGGCAAA
* * *
450 AAAAGTCTATTTATAGTCTTTTATTTCTTCAAAGACCTTACTACTCGCTTTAAATGGTTTTATAA
66 AAAAGTCCATTTATAGTCTTTTATTTCTTCAAAGACCTTAATACTCGCTTTAAATAGTTTTATAA
* *
515 ACTTATAATTGATTTCAAGTTGGATTTTTTAGATTTTTAG
131 ACTCAAAATTGATTTCAAGTTGGATTTTTTAGATTTTTAG
* * * * *
555 TTAAAATAGAGTATAATTGAATATTTACCTTGAGAAATATAAAGAAAAAAACAGTCATTGGCAAG
1 TTAAAATAGACTATAATTGAATACTTACCTCGAGAAACATAAAGAAAAAAACAGTCATTGGCAAA
*
620 AAAAGTCCATTTATGGTCTTTTATTTCTTCAAA-AGCCTTAATACTCGCTTTAAATAGTTTTATA
66 AAAAGTCCATTTATAGTCTTTTATTTCTTCAAAGA-CCTTAATACTCGCTTTAAATAGTTTTATA
*
684 ATCTCAAAATTGATTT
130 AACTCAAAATTGATTT
700 TAGGTTTAAT
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
169 1 0.01
170 129 0.99
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (170 bp):
TTAAAATAGACTATAATTGAATACTTACCTCGAGAAACATAAAGAAAAAAACAGTCATTGGCAAA
AAAAGTCCATTTATAGTCTTTTATTTCTTCAAAGACCTTAATACTCGCTTTAAATAGTTTTATAA
ACTCAAAATTGATTTCAAGTTGGATTTTTTAGATTTTTAG
Done.