Our route through Turkey:
The white lines are flights and purple is by car.  We first arrive in Istanbul and fly east to Kayseri.  We return from Kayseri and fly to Ankara via Istanbul.  In Ankara we will rent our car and continue by road.  After travelling south to Pamukkale and then to Lycia, we will then travel up the Aegean Coast to Troy.  After seeing Troy we will head back south to Bodrum where we will catch a Ferry to Kos to begin the Greek portion of our trip.  We will be in Turkey for 4 weeks, but it is not enough time to see all that we wanted.