Sorry in advance for my English.
I want extract all positions of non-sequenced nucleotides for each chromosomes from a genome sequence file (Fasta).
To do that, I have a fasta file with the genome sequences, like this :
I want find all N positions and obtain this position in bed format, eg :
chr1 1 200 ...
I didn't found how to do that in Bedtools.
If you have any idea, could you help me?