I assume you have a VICI/Valco valve in your system?
If it is driven by an air actuator (there are also electrical ones) don´t worry. Valves are operated by applying a certain pressure on one side of the acuator to turn the valve by 90, 60 or 30 degrees (dependig on type). When switching the 6-valve actuator the pressure is released through an electrical (usually GC controlled 4/2 position) valve, which makes a sound like you described.
Does your valve look like this one: http://www.vici.com/vval/vval.php
If you want to make sure: There must be two conduits to the large cylindrical valve body which supply the air pressure (usually 3 or 4 bar). Follow them back to the on/off valve which switches the pressure between the two conduits. This valve has openings for the pressure release. You can feel the pressure impuls coming out of one of them when the valve switches.