I have implemented your specification, but did not get the expected result. (Did you mean to sort on distance rather than value?)
use strict;
use warnings;
use Data::Dumper;
my $header = <DATA>; #capture the header line
my @headers = split(/\t+/,$header);
my @recordsArray;
while(my $line = <DATA>){
my @records = split(/\t+/,$line);
# print "@records";
push @recordsArray,[@records];
}
#print Dumper(\@recordsArray);
my @SortedArray = sort {$b->[3]<=>$a->[3] or $b->[2]<=>$a->[2]} @recor
+dsArray;
print Dumper(\@SortedArray);
__DATA__
ID distance score value start stop done remaining
+
N_425 614 17.01 425 40 12 308 322
N_542 1290 18.74 542 53 15 237 251
N_372 870 15.66 372 80 15 262 276
N_236 814 15.65 236 69 13 185 200