Don't read the whole file into memory. Read it line by line instead:
while (<FILE>) {
...
# $_ is the current line
}
(see
Range operators).
Also, there is no need in the @t array: just slice the array returned by split:
if ((split "\t",$_)[7] =~ /^(?:HIGH|LOW|LRR)$/)
Also, your condition ($t[7] =~ /HIGH/ && /LOW/ && /LRR/) will never be true as long as one line never contains "HIGH", "LOW" and "LRR" at the same time.
Sorry if my advice was wrong.
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