CNV analysis of BTA7. Delineations of BTA7 (X scale) were used to indicate copy loss and gain in red or blue, respectively. (A) Segmental duplications  were annotated in green. Common CNVs (frequency > 2.5%) previously detected using genomic and CGH analyses [2, 3, 13] were marked by letters "L", "B" and "F", respectively. (B) LOH and copy gain frequencies were calculated using the trinomial expansion of HWE and 912 BeadChip samples. For each marker, only positive values for copy loss (rl) and gain (rg) are presented. (C) Loss and gain frequencies (lsi and Gsi) were also calculated based on the PennCNV analysis for these samples.