We updated the format for the reference bed file containing information about regions. Previously columns for the bed file had the following format:
CHROM | START | END | MOTIF_LEN | NUM_COPY | NAME
now we removed the motif length and the number of copies to replace it with the motif sequence as follows:
CHROM | START | END | MOTIF | NAME
Please refer to the tool's documentation for more details and an example of a valid reference file.