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chr1    3204562    3661779
chr1    4334223    4350673
...
chr1    4848208    4887987
chr1    4900049    5009660
chr1    5073053    5152630

Xkr4    chr1    3204562    3661779    -    3    457.217
Rp1    chr1    4334223    4350673    -    4    16.45
...
Tcea1    chr1    4847574    4887987    +    10    40.413
Tcea1    chr1    4848208    4887987    +    10    39.779
Rgs20    chr1    4900049    5009660    -    5    109.611

open(FILE, @ARGV[0]) || 
    die ("could not open file @ARGV[0]\n");
...
            print ;($Gene,$Chrom,$ModStart,$ModEnd,$Strand,$ExonCount,
+$SizeKB,$Count)
            }    
    }