nstretch

You're curious about the missing part of your genome? You need to know where the Ns are! So far, only fasta files are supported.

Usage

# input
./nstretch genome.fa                    # file
cat genome.fa | ./nstretch              # stdin
gunzip -c genome.fa.gz | ./nstretch     # stdin using gzipped data

Output

The output is given in bed format consisting of chr, start and end.

chr	start	end
Chr1	12	34
Chr2	13478	13582
...	...	...