It won't make a miraculous difference, but you might try parsing each line only once at the top of the function, rather than re-parsing them each time, i.e.:
my @lines = map { [ /.*?\t(.*?)\t(.*?)\t(.*?)\t(\d)/ ] } <IN>;
# ... rest of function
Regex matching can be expensive, so if you're doing the same match multiple times, it's usually better to do it once and save the results.
I also noticed you're using
$average = $sum / $#things to take an average. Despite appearances, $#things isn't the number of @things. Instead, you'll want to use $average = $sum / @things, since an array evaluates to its length in a scalar context.
/s
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