i'd use HTML::TokeParser::Simple and DBI and put your line directly into your db. also, if your files are in separate directories look at find2perl (or File::Find).
i too would advise against just relying on the line number. however, if you want to do that, it can be done just as easy from straight command line:
find -type f -print0 | xargs -0 -i{} head -1000 {} | tail -1 | while read string; do mysql -e 'insert query $string'; done
that said, the perl would be faster and TokeParser would allow for more reliable data. the pers modules i stated above are pretty straight forward to use, but since i've just done (from LWP and not from files) i can pretty much get you a template for this in a few minutes if you need.
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