SATA can be either, the only difference is the IDE channel its on. Depending on your motherboard, you have Primary, Secondary, and possibly Third IDE channels, all corresponding to the different connectors. Generally the SATA will take the Primary channel, and if you have 4 SATA connectors and one or two PATA connectors, then the SATA will take both Primary and Secondary and the PATA will take the Third channel. The channel it's on doesn't make any difference on your performance, it only changes which channel your motherboard recognizes the device on. I myself have 4 SATA connectors and one PATA connector that supports two PATA devices, and I use two PATA devices. Therefore, my motherboard recognizes my devices both on the Third IDE channel, Third IDE Master and Third IDE Slave. My Primary and Secondary channels don't detect any devices because I don't use SATA.
In short, your PATA and your SATA will not be mixed as master and slave, but used on different IDE channels. This will not affect the performance of your system, just remember to set the hard drive that has windows on it to boot before your other hard drive in your BIOS.