I have a question regarding the use of Affymetrix SNP Array 6.0 to detect CNAs. This process was carried out with the data that I am working with and after processing with DNAcopy the data looks like this:
As you can see the start locations for a number of CNAs on chromosome 17 is 527 while there end location varies. Shown here is only a fraction of the cases where this occurs. I was just wondering why this would be the case, is it not unusual for a CNA to start predominantly in one place? Or is this just an artifact of the array/methods used?
Thank you so much for any help you can provide.