Figure 3: Densitometry analysis showing the assembly yield of a 30-nucleotide-long nucleoprotein filament onto 100 bp dsDNA scaffolds containing mismatches of 0, 2, 6, 8, 10, 12, 15 and 20 bases.

The patterning site is located directly adjacent to the mismatched region of the scaffold. The assembly yield was obtained via XapI enzyme digestion assays. The data represent the average of three independent experiments and the error bars show standard error of the mean. The inset shows a representative 15% PAGE gel (19:1, 80 V, 360 min) showing the results of a restriction enzyme assay following nucleoprotein filament assembly. A single band indicates no digestion. In lanes with two bands, the lower band corresponds to a DNA fragment resulting from the XapI enzyme digestion (with a further DNA fragment running at approximately 30 bp and not visible on the gel image). The number of bases that are not basepaired is indicated above the lanes on the gel. The bands in the first lane represent a 10 bp DNA ladder.