mrs

Information Retrieval System for Biomedical databanks
  http://mrs.cmbi.ru.nl/
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MRS is a complete system to retrieve, index and query biological and medical databanks. It comes with all the code required to fetch data using FTP or rsync, then creates a local databank with indices using a databank specific parser written in Perl. It can then serve this data using a built-in web application and webservices.

Searching can be done on words and Boolean queries. As a bonus you can search protein sequences using a custom Blast algorithm.