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  1. or download this
     use strict;
use Data::Dumper;
my %Gene_overlap;
...
                    else {print "\t0\n";} # prints 0 if no gene/positi
+on found 
            }
            else {print $_ . "\t0\t0\n";} #if no gene overlap
  2. or download this
    005    1    17085712    C    S     MST1P9
006    1    17085712    C    S     MST1P9
006    1    17085713    C    S     MST1P9
007    1    17085712    C    S     MST1P9
006    1    17085713    C    S     MST1P9
006    1    17085713    C    S     MST1P9