Network based intrusion detection system is a computer network security tool. In this paper, we present an intrusion detection system based on Self-Organizing Maps (SOM) and Resilient Propagation Neural Network (RPROP) for visualizing and classifying intrusion and normal patterns. We introduce a cluster matching equation for finding principal associated components in component planes. We apply data from The Third International Knowledge Discovery and Data Mining Tools Competition (KDD cup’99) for training and testing our prototype. From our experimental results with different network data, our scheme archives more than 90 percent detection rate, and less than 5 percent false alarm rate in one SYN flooding and two port scanning attack types.