Hello,

I am trying to learn how to use bcftools --targets and --regions options.

By specifiying some start and end positions in my linux command, I can detect some DUP, INV, DEL entries that I know they exist in my .bcf file, like:

bcftools view -t 1:start-end myfile.bcf

or

bcftools view -r 1:start-end myfile.bcf

.

However, I can not detect any BND entry, although I know their exact start-end positions, and give the exact same numbers in my command as start-end, or I give any other numbers between start-end positions, and the result does not return any BND entry. What is the reason for this? I am new at this so maybe I miss a very basic point.

Thanks in advance!