Large copy number variants detected in sequenced dogs.

Location (chr, start, end) and size (length in bp) of CNVs detected in the 160 dog genomes and found to be segregating in at least two of the sequenced individuals. For CNVs overlapping genes, gene name (gene_name), ensemble gene id (gene), ensemble transcript id (transcript), gene description (description) and gene ontology terms (GO-annotations) associated with the gene are reported. CNVs overlapping conserved elements are flagged as conserved (phastcon) and the highest phastcon lod score within the boundaries of the CNV is reported (phastcon_lod). Average diploid copy number (bread_name_CNV), range of diploid copy numbers (range_bread_name), where measures in each individual is separated by “_”, and average pairwise breed differentiation for the CNV (breed_name_VST) is reported for each breed. Total differentiation across the entire sample (total_VST) is also reported for each CNV. ANOVA reports p-values from anova analysis testing if average copy numbers deviate between breeds.
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