Great potential, just needs tweaking
Despite a couple of obvious glitches that can easily be fixed (controls/instructions button), the game seemed well thought out and presented. You have good imagination and ambition.
I suggest increasing the frame rate and decreasing the amount of clips active at once to make the game faster.
Also, tweak that programming, a la being able to fire more than one missle at a time. And add sound! You've got the visuals now you need sound for further immersion into the game.