Duplications

[ahammel]

Add support for probes for short duplication events.

Suggested syntax:

FOO: c.123-133 dup /50    --duplicate whatever is at bases 123 to 133
FOO: K9-C12 dup /50       --duplicate given an AA range, checking the flanking AAs
FOO: c. 123 ACGTC dup /50 --duplicate the sequence starting at c.123, checking that it matches the given sequence

At the moment we're adding duplication events in an ad-hoc way by figuring out the insertion sequence and position and making an insertion probe.