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PRTG Manual: IPv6
PRTG supports the IPv6 protocol for most sensor types. You can define whether data from your network is queried via IPv4 or IPv6: For each device in PRTG you can select whether PRTG will connect to it using either IPv4 or IPv6. This is a simple selection in the Device Settings of each device. Depending on the setting, the sensors created on this device will use the respective protocol.
In the Outgoing IP Settings of the PRTG Probe Administrator you can additionally choose which IPv6 address will be used for outgoing monitoring requests. Note: There is the same option for IPv4, too.