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(a) ConsensusGenome of haplomes Genome1 and Genome2. Red/blue segments show highly diverged regions, while black segments show similar regions. (b) The de Bruijn graph DB(Genome1 ∪ Genome2, k). The directions of green arrows match the direction of the bulge collapsing in the polymorphism masking algorithm. (c) ConsensusGraph generated by the polymorphism masking algorithm. (d) Haplocontigs representing Genome1 and Genome2 that map to the same paths in ConsensusGraph.
