A method, computer readable medium and apparatus for detecting an altered application are disclosed. Network traffic data is obtained for a number of endpoint devices to determine a network traffic signature for a first application. The signature comprises a set of flows within a time window. Network traffic data is monitored to determine a network traffic signature for a second application. The signature for the second application comprises the network traffic signature of the first application plus a flow to an additional address. The method determines a ratio of endpoint devices having network traffic data that matches the signature for the second application as compared to a percentage of endpoint devices having network traffic data that matches the signature for the first application. When the percentage satisfies a threshold, the method determines that the second application is the altered application comprising an altered version of the first application.