A malware analysis system is described that provides information about malware execution history on a client computer and allows automated back-end analysis for faster creation of identification signatures and removal instructions. The malware analysis system collects threat information on client computers and sends the threat information to a back-end analysis component for automated analysis. The back-end analysis component analyzes the threat information by comparing the threat information to information about known threats. The system builds a signature for identifying the threat family and a mitigation script for neutralizing the threat. The system sends the signature and mitigation data to client computers, which use the information to mitigate the threat. Thus, the malware analysis system detects and mitigates threats more quickly than previous systems by reducing the burden on technicians to manually create environments for reproducing the threats and manually analyze the threat behavior.