Fig. 3

DNAscent identifies dispersed replication initiation sites not found by population studies. A–C Upper panels each show 4 Mb of published strand-specific population-level Okazaki fragment sequencing depth and the determined Ok-seq initiation (dark blue) and termination zones (light blue) [16]. Lower, zoomed in panels show ultra-long single-molecule nanopore sequence reads with DNAscent BrdU probabilities (black dots) and fractions BrdU incorporated (blue lines). As in Fig. 2B, above each read are shown DNAscent replication forks with direction (arrows), initiation (light green bars), and termination sites (dark green bars). A Example read showing two DNAscent initiation sites corresponding with published Ok-seq initiation zones. B Example read showing three DNAscent initiation sites within a region determined from population average Ok-seq data to be predominantly replicated by leftward forks and absent of IZs. C Example read showing four DNAscent initiation sites within a region determined from population average Ok-seq data to be a termination zone. D Number, proportion, and density (RIGR) of DNAscent initiation sites found in Ok-seq initiation and termination zones as well as regions classed as other (including predominantly unidirectional forks). Also shown is the percentage of the genome that these classes occupy. Difference (Δ) from expectation was determined from 1000 randomizations of DNAscent initiation site coordinates