If you take 3 measurements, we will be able to learn a lot more. Measure just the speaker, then just the sub, then both of them together. Overlay them on one graph.
Also, where are you placing the microphone for the measurements? Generally, we measure from the listening position or one meter from the axis of the tweeter.
It looks to me like you might be slightly off axis of the tweeter since the top end is going down in frequency response, but not too drastically. What speakers are you measuring?