Fig. 2

Storing order-overlap-MEMs as a BED file. The overlaps of consecutive MEMs are stored by their zero-based, half-open genomic position relative to the query contig. Columns represent contig, start, end, and order of each order-overlap-MEM. White triangles represent order-MEM intervals. Gray triangles represent the overlapping interval between consecutive order-MEM intervals. Gray points represent adjoining consecutive MEMs that bookend start and end. These points are stored with the same value as the start and end of an interval. Overlap-MEMs are stored in a similar manner as order-overlap-MEMs but with intervals annotated by genome ID instead of order