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This paper introduces a new kind of anti-interception communication system based on double layers weighted-type fractional Fourier transform (DL-WFRFT). Comparing with traditional anti-intercepting technique at the physics layer, such as time or frequency hopping, DL-WFRFT secure system is more effective considering frequency spectrum utilization. The DL-WFRFT technique proposed in this paper adopts a special double layers transform structure, so it is more sensitive to the modulation parameters than the single layer transform system proposed before. Therefore, the performance of this secure system for anti-interception is better. Moreover, this paper also analyzes the signal-to-interference power ratio (SIR) result from demodulation parameters errors.