Once mold (mould) has begun to grow in the lens, it is inadvisable to selectively remove it. Ideally, the entire lens should be disassembled and cleaned. This should only be done by a Canon service center.
For future reference, the key is to prevent mold in the first place. Absolutely invest in reusable color indicator silica gel packs, use them often and place them in all your gear bags. If you live in a humid climate, even this may not be enough--a dedicated sealed drying cabinet is a must for lens storage. Once mold has gained a foothold, the glass surface has already been etched, making repeat growth more likely, and the element is permanently damaged.
Because of the push-pull design of the 100-400, it is more susceptible to dust, moisture, and mold problems than lenses that are internal zoom/focus.