The Atmel AT32UC3B1256 board controller and the Atmel ATxmega32E5 are connected through TWI, SPI, and USART interfaces. All interfaces can be used to communicate between the devices, but only the USART is implemented by default on the board controller.
This represents the RX and TX on the ATxmega32E5. The RX is connected to TX on the other device, and vice versa.
These TWI signals can be reconnected by placing a 0Ω resistor or a solder drop on R408 and R409 footprints.
These SPI signals can be reconnected by placing a 0Ω resistor or a solder drop on R410, R411, R412, and R413 footprints.