For complex application layer protocol of low altitude communication system which may be implemented with several wireless communication technologies which include BeiDou Navigation Satellite System, 3G, Digital radio, GPS, ADS-B, etc., we design a low altitude communication protocol conversion process based on pattern match to enhance the capacity of low-altitude flight service stations processing multi-source information from low-altitude aircrafts or other stations. In the process, the application layer protocol of information is identified with the algorithm based on BM pattern matching and CAM multi-pattern matching fusion firstly, secondly, the common intermediate protocol information is produced, and target protocol information is generated finally.