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Hi Alok,

You can try following Perl script on ur dataset. It will extract the numeric values and seperate it's chromosome, start and end coordinates with tabs in outFile.

usage : perl extractNumber.pl infileName > outFile

use strict;
use warnings;

my $filename = "$ARGV[0]";
open(my $fh, '<:encoding(UTF-8)', $filename) or die "Could not open file '$filename' $!";

while (my $row = <$fh>) {
    chomp $row;
   # next if $row !~ /^s+$/;
    my @all_nums = $row =~ /(\d+)/g;  # (123, 456, 789)
    foreach (@all_nums) {
        print "$_\t";
        }
    print "\n";
}

Wish you all the best for your research work. 

Thanks

Hi Alok,

You can try this Perl onliner

perl -nle '$_ =~s/[^\d.]//g; print "$_\n";' infile

Thanks