I would say that I'm more of a morning person than night person, but this is a problem I deal with every time my alarm goes off at 4:30 for my run.  For me, if I don't run first thing in the morning I will likely talk myself out of exercising when I get home.  I also have an issue with working out after work in that 1) my run will typically be shorter in distance and or take me longer and 2) I'll have trouble going to sleep at night.  I seem to have the opposite effect from my runs as you do.  After a good run in the morning I'm more awake and feel better throughout the day.  I crash earlier in the evening, than on days I don't run, but it's enough of a difference that I feel much more awake and aware on mornings I run than when I don't.  I've also noticed that on days I don't drag my butt out of bed I will typically feel worse than if I would have just got up and ran. 

If you have only recently changed your routine, give it a couple weeks and see if your body adjusts to the new routine.  Best of luck to you.