How to *stop* weird crossovers

[hyanwong]

If we introduce duplicated regions, there is a good chance that we will end up with too much unequal crossover (e.g. if regions are duplicated into very distant locations, like a transposable element, we will regularly get chromosomes of very different lengths).

We might need to figure out a way to restrict "unequal" crossovers like this. It's not clear to me how to do this, however.