Depending on the trip route you may want to enter the first Supercharger on the route where you plan to stop, charge as the final destination in the Navigation system. Repeat this for the next Supercharger you plan to use along the route, etc. When you arrive at the last Supercharger on the route before your final destination enter the final destination in the Navigation system and it will indicate how much you need to charge to reach the final destination. When Supercharging you don't set the charging amperage (the Tesla vehicle controls the charging amperage throughout the Supercharger charging session.)
By default most Supercharger locations will default to 80% as the charging limit while Supercharging. In general you will not want to take the additional time needed to charge beyond 80% when Supercharging. You can override this limit and increase or decrease the charging limit according to your needs. When following a trip route, while Supercharging, the Tesla Navigation system will inform you when you have charged enough to reach your next stop or final destination. Unless you anticipate bad weather or road conditions ahead this level of charge will be sufficient to reach your destination with at least ~10% charge remaining. If you are uncomfortable with this amount of battery remaining you can continue Supercharging.
Skipping chargers with Navigation system - is it possible?