It's kind of funny, we started this exercise as a "Fish Market Murder" but in the end it was only possible to find real variable sequence regions that are homologous and short enough by using mammals...
In this case we are using a short portion of the D-loop region of the Mitochondrial Genome.
http://marinebiotech.net/workshop/bioinformatics/Saturdays/CSI_wSeqs.doc
http://marinebiotech.net/workshop/bioinformatics/Saturdays/CSI_wSeqs_answers.doc
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