Fig. 1

Representation of repeats in the genome graph. a, Two sequences where sequence 2 contains 3 additional “ATG” repeats high-lighted in blue. b, GenGraph represents only differences, with node 1 representing both sequences, node 2 representing the additional repeats found only in sequence 1, and node 3 the sequence that is once again shared. c, This is opposed to an approach where the “ATG” repeat is represented as a single node with a self loop. This approach may be neater and result in better compression, but raises many practical problems including not allowing the node to be labeled with the sequence start and stop positions