Real time pcr for Genotyping of FAdVs is far better option then which you are using, it's a fast less tedious assay to perform.For more details of sybergreen PCR based FAdVs Genotyping please go throw this attached paper, hope this solve your query.

Thank You Archana

This is a good source of primer/probe for detection of FAdVs by rRT-PCR:

Article Real-time PCR assay for universal detection and quantitation...