Identification of eccDNA from WGLS of yeast human and mouse cells. A) Scheme showing CReSIL extension workflow to identify eccDNA from WGLS dataset; the sequencing depth on a small window of focal amplified regions (blue bars) was higher than the background (gray), and the identified focal regions (horizontal lines) are shown with the breakpoint reads generating linkages between the regions (dark blue curved lines); also shown are the number of breakpoints reads (thicker lines = more reads) and the number breakpoints reads at that location (higher vertical lines = more reads). B) Dot-line plot of F1 scores showing the performance of CReSIL in identifying eccDNA from WGLS synthetic data by mixing 20× of human genome reads with different coverage of simulated eccDNA reads of the true positive and true negative set. C) Circos plot showing the identified yeast eccDNA of the known circular rDNA. D) Histogram showing the distribution of normal reads (dark blue), breakpoint reads (red), and CTC reads (magenta) with the size of identified eccDNA of rDNA (vertical dashed line). E) Bar plots showing the number of identified eccDNA from the WGLS datasets. Green represents circular, and gray represents non-circular. F) Circos plots showing examples of identified eccDNA with high coverage depth on centromere regions of human (left) and mouse (right) datasets. All are satellite repeats. G) Circos plots showing examples of identified eccDNA containing gene(s) of human (left) and mouse (right) datasets (see Figure 1.5 for lane annotation; dataset information (bold), the eccDNA name (italic), and coverage depth (underline).