Comparing our results to other cattle CNVR sets generated from NGS we saw lower percentages of overlap. The study of Bickhart et al. (2012) identified 1265 CNVRs in the Btau 4.0 genome assembly. Their data consisted of WGS from 5 individuals representing 3 breeds, along with simulated NGS reads from the sequenced Hereford cow, L1 Dominette 01449. Only 2 of the CNVRs in our set overlapped with their data. Another NGS-based study, investigated copy number variation between one Holstein and one Black Angus bull (Stothard et al., 2011). A total of 790 CNVRs were identified in this study, and only 4 CNVRs from our set were found to be overlapping. In the NGS study of Zhan et al. (2011), 520 CNVRs were identified on the genome of one Holstein-Friesian bull when comparing the sequence reads against a Fleckvieh bull. A total of 7 of our CNVRs overlapped with this set. In a previous CNV study, we detected CNVRs from low coverage WGS of 154 pure bred bulls from 7 breeds used in the GPE project (Keel et al., 2016). The exome sequence of 117 of these bulls was used in the current study. Thirty one of our 57 CNVRs (64.6%) were overlapped by CNVRs from our previous study.