Fig. 1

1000GP 27 sample study. 27 samples were selected from the 2504 samples used in the 1000GP due to the availability of high-quality, 50X sequencing coverage comprising polymerase chain reaction-free, 250 bp Illumina PE reads (ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20130502/supporting/high_coverage_alignments/20141118_high_coverage.alignment.index). SV types represented in the VCF files were deletions, duplications, and inversions while translocations and other complex SVs were excluded. Mean mapping quality > 30 is considered good. %reference refers to what percentage of the reads mapped to the reference genome