The configuration pin looks fine to me. Since the JTAG pin is connected separately then it should be fine. No problem with the AS connection as well. Please make sure that the MSEL pin is set correctly.
If you have doubt on the JTAG and AS connection, you may always refer back to https://www.intel.com/content/www/us/en/programmable/documentation/sam1403483633377.html#sam1403482901661 Figure 137.