Water-pump shaft is steel and can cause anodic-corrosion with aluminium in block. White corrosion is aluminium and yellow/brown is steel. Proper coolant chemistry will keep this corrosion in check for years. However, wrong mix of tap-water and wrong coolant can make things worse; stay away from Death-Cool (DexCool). Personally I prefer silicate-free coolant to preserve water-pump seals.
You can certainly flush in reverse-flow if you want:
1. drain existing coolant.
2. disconnect upper coolant hose from back of thermostat housing, attach garden-hose to that hose (so water flows into engine)
3. disconnect lower radiator hose on left side, aim hose away from bike
4. turn on garden-hose. This will bypass radiator and blow out sediment from engine & water pumps. Can also flush radiator in reverse-flow as well if you want.
5. rinse by refilling system twice with distilled-water, spinning it around and draining twice
6. fill with 50/50 distilled-water/coolant mix. Should probably replace thermostat while you're there.
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