I have a confusion in the results of some sanger sequence reactions for IBDV viruses.
the sequence reactions fail to give any reads or give non specific, bad quality and short fragments, although the PCR of those reactions are strongly positive and the sequenced samples was positive for both classic and vvIBDV by real time PCR.
could this failure be related to the mixed infection in samples or quasispecies phenomena?
I am in bad need to find out the scientific causes of these results supported with scientific published papers.
thanks for help