Table 1.

Rearrangement clusters before and after filtering

Filter	Insertions	Deletions	Inversions	Translocations
Unfiltered	450	444	99	99
vs. control	160	148	21	12
vs. hgvar	76	20	2	12

Filter: Filtering levels; unfiltered rearrangements, filtered vs. controls and repetitive sequences, and filtered vs. known human genome variations (dbvar). The number of clusters with at least 13 reads for each rearrangement category is provided for each filter level. For instance, we observe 21 possible inversions after filtering vs. the control set, but 99 before filtering.