typically how many sequences in the input file, and how long each DNA chain?
what does your "compare" operation do? if it's testing for exact match then you don't need to..as you can test a sequence key exists before assigning. so if you put in this test for prior existence before assignment, you're essentially checking the incoming sequence against every sequence already loaded in the hash.
and if the comparison of the DNA chains is more involved, then another structure more suited to the comparison operation could help make the task more managable/efficient.
the hardest line to type correctly is: stty erase ^H

In reply to Re^2: Bioinformatic task by aquarium
in thread Bioinformatic task by uvnew

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