Inheritance of a de novo CNV from gene conversion. A de novo CNV was detected in progeny clone 7C126 in Chr 8. We scrutinized the de novo CNV region using MS and SNP allele profiles to assess any allele changes that suggest a meiotic origin. (A, B) Scatter plots representing the relative log2 (test/HB3) hybridization intensities for probes representing the de novo CNV locus in (A) the Dd2 parent compared with HB3 parent and (B) complex de novo CNV in the progeny clone 7C126. (C) Linkage analysis with high density SNP markers  of Chr 8 reveals a multiallelic region overlapping the de novo CNV region. (D) The two Dd2 allelic regions interspersed within a larger HB3 allelic region was undetected at the lower marker density of the MS map  (grey box). The allele profile revealed by the SNP map confirms the meiotic origin of the CNV through gene conversion/double crossover. Each bar of the SNP map denotes a single SNP allele demarcating the parent allele. In both the MS and SNP map the parent alleles are highlighted by red (Dd2) and green (HB3).