Processes are described that include computational tools for identification of unknown pathogenic organisms and other threat agents (e.g., rare variants) in samples. The processes can be conducted without specific a priori knowledge of the unknown. Identification may include fragmenting a genome from one or more candidate organisms and READs and/or CONTIGs segments for the unknown organism in silico to form fragments, and determining the statistical relevance of exact fragment matches between the sample fragments and the candidate fragments.
STATEMENT REGARDING RIGHTS TO INVENTION MADE UNDER FEDERALLY-SPONSORED RESEARCH AND DEVELOPMENT
 This invention was made with Government support under Contract DE-AC05-76RL01830 awarded by the U.S. Department of Energy. The Government has certain rights in the invention.