I tried making the change you suggested, and the results don't make any sense. It gives me a number that is higher than the number I get if I run the same script without the grep function (and associated modifications) included. Should I define something similar to the $i defined for the first fragments for the second fragments? Thanks.

In reply to Re^2: Bioinformatics- Use of uninitialized value by mlsmit10
in thread Bioinformatics- Use of uninitialized value by mlsmit10

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