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Maximum parsimony reconciliation in the duplication-transfer-loss model is a widely-used method for analyzing the evolutionary histories of pairs of entities such as hosts and parasites, symbiont species, and species and genes. While efficient algorithms are known for finding maximum parsimony reconciliations, the number of such reconciliations can be exponential in the size of the trees. Since these reconciliations can differ substantially from one another, making inferences from any onedoi:10.1186/s12859-019-3223-5 pmid:31775628 pmcid:PMC6882150 fatcat:eitxxb5n4ze6pm44ta6u6g7xfi