Data processing was done on a Red Hat Linux x86, version 6.2, operating system (OS). For the database engine, we used MySQL, version 3.24.40 (see Note 1). The programs for processing the sequences were written in Perl and executed under version 5.6.0 of the Perl interpreter (4). Perl is well known for its text-processing capabilities as well as its wealth of add-on "modules" freely contributed to the Perl community (see Notes 2 and 3). Our Perl programs (see Subheading 3.5.) utilize several of the BioPerl 1.0 modules (see Note 4).

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