In the example shown above, we can clearly see several regions of copy number loss (red regions in middle logR panel), which are associated with appropriate loss of heterozygosity (yellow regions in the bottom B-allele frequency panel). These regions alternate with copy number neutral regions (uncolored baseline in logR panel, uncolored 3 band pattern in bottom B-allele frequency panel) and regions of copy gain (blue regions in logR panel, purple 4 band allelic imbalance pattern in B-allele frequency panel).
Even from a whole genome overview, we can easily identify the alternating copy states and altered heterozygosity of chromosome 6. This is just one of the many ways BioDiscovery Nexus Copy Number software can be used to identify some of the frequent aberrations found in cancer.
You may also like to read the article here on how to estimate the percentage of aberrant cells in a tumor/normal cell mixture.