Patient 1’s purified DNA was aliquoted at ~0.1 genome equivalents per well across a 384-well plate and subjected to the multiple displacement amplification (MDA) method of whole-genome amplification as previously described12. At this concentration, there is a 4% probability that any two linked loci from separate DNA molecules will be aliquoted to the same well. Furthermore, there is a 2% probability that two linked loci of different parental origin will be aliquoted to the same well. The MDA reaction was incubated at 37°C for 19 hours.
