Fragment library with only 20 fragments.
bent-unbent experiment for all fragment libraries.
Results of unbent-unbent experiment.
Updated experiment to be more robust.

Namely, it sets the output directories based on fragment library in
addition to the kinds of alignments being used.

Also, I've added a way to distinguish between which alignments to use
for sequence and structure, instead of using the same for both.

Finally, the co-occurrence matrix is computed as well.
Results from bent-bent experiment.
Results of homstrad-homstrad experiment.