Intrusion Detection System (IDS) is used to protect a system or a computer network from different kinds of anomaly attacks. Different detection techniques have been discussed on network-based IDS. The study has been done on the operational procedures of network based open source IDS tool Snort based intrusion detection system, which can read every incoming or outgoing packet through a network and alert the admin accordingly. In this paper, Different types of IDS are compared and criticized which explores the vulnerability of the system. To check every packet, Snort uses a central database system of signature. A layered database system has been proposed to upgrade system performance. An analytical operation has been conveyed on the proposed solution and compared with the existing standard system. After applying the proposed solution the number of packets analyzed rate has been increasing remarkably from 86% to 98%.