Achilles Ankles

I tried to start again on C25K last week.  I have a lot to say about this but not a lot of time to say it, so I'll save it for another entry.  I trained for my first 5K mostly OTP (off the program), running when I felt like it and walking when I needed a rest.  I ran my 5K that same way.  After I ran the 5K I started back on the C25K program.  With that reasoning, and the idea that anything is better than blatant inactivity, I am going to

Problem:  My ankles KILL me when I try to run on the program.  I guess it's all the hills here, and the unnatural pace that the program forces.  My method now is to run on all the flat parts, half the down-hills,  and the last little bit of the uphills.  I'm going to keep doing this until it feels comfortable and easy, and then I will gradually increase.  When I can run for several minutes without ankle pain, I'm going to start on the structured program again and train for a 5K.

In the meantime, genius athletes out there, what do you think I should do about my poor ankles to help them along?