Figure 3.

Circular molecules can lead to linear contigs with end repeats. (Left) A circular molecule (black) is subjected to high-throughput sequencing. The short vertical line indicates the first nucleotide in the resulting contig. The reads (gray) map to random sections of the molecule. (Right) The reads are assembled into a linear contig with an end repeat, and the first nucleotide (vertical black line) is repeated. In the diagram, one read overlaps the first nucleotide, and its presence leads to the end repeat, to which it partially maps.