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Unwanted delay using a NI USB 6259


I use a NI USB-6259 board with SignalExpress to trigger a mechanical shutter and a camera. I've written my own formula to control the time between each time the shutter opens and closes. However, it seems that the output is different from the input I wrote. Even with a more simple signal (a sine), there is a time between two blocks of signal where the signal is constant. This time can dure from 15 ms to 120 ms. 
I wonder if the problem comes from the software (but I doubt it, I don't see why it could do that) or the board itself. Has someone encountered this kind of problem ? 

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