It seems that MinCED is unable to identify repeats when they are right at the beginning of the fasta file. Adding any nucleotide before the first repeat fixes this.
Attached are two fasta files with the same array. Repeats are lowercase and spacers uppercase. example_array_plusA.txt has a single A added to the beginning of the file.
Using minced 0.4.2 installed from bioconda on the first file (example_array.txt), 7 repeats are found,
Hi,
It seems that MinCED is unable to identify repeats when they are right at the beginning of the fasta file. Adding any nucleotide before the first repeat fixes this.
Attached are two fasta files with the same array. Repeats are lowercase and spacers uppercase. example_array_plusA.txt has a single A added to the beginning of the file.
Using minced 0.4.2 installed from bioconda on the first file (example_array.txt), 7 repeats are found,
With a single nucleotide added before the first repeat, 8 repeats are found.
Thanks! Alan
example_array.txt example_array_plusA.txt