Abstract: Systems and methods are provided for analysis of genetic data. One embodiment is a system that includes a memory storing sequence data and trait data. The system also includes a controller that identifies qualifying variants within the sequence data. The controller generates a sliding window comprising a selection of sequential variants, wherein a number of the individuals in the population carrying a qualifying variant at the sliding window is within a predetermined range, and iteratively: performs a statistical analysis that indicates whether qualifying variants at genomic coordinates within a region occupied by the sliding window are correlated with the trait, and moves the sliding window across at least one variant along a chromosomal direction, while adjusting a number of variants encompassed by the sliding window to maintain a number of the individuals in the population carrying a qualifying variant at the sliding window within the predetermined range.