I am a BCPNP paper based applicant. As far as I know, one cannot have an express entry and paper based application at the same time. If you have Express Entry, yes you can apply through different streams, FSW, CEC, PNP Express Entry. However, if you have PNP Paper Based (non-Express Entry), you can apply through only this stream. IRCC has already received your Paper Based application, I highly doubt you will receive an ITA for the recent CEC. I am no expert, but I think you will need to withdraw your Express Entry profile. And if you decide to keep you Express Entry profile, you will need to withdraw your paper based application. And once IRCC begins processing an application, they do not refund fees.