Figure 2. Representative Dimer report of dimerization structures of two primer pairs.

To determine if the new PD algorithm can predict the formation of secondary dimer products, gel images of each amplified product (left) was compared with the dimerization structures of the primer pairs which were used to amplify the corresponding product (right). (a) The stability of each combination is reported as the minimum ΔG (kcal/mol) value. A representative primer pair which produced no visible dimer artefacts (left) and had no stable 3′ end structures, as determined by the minimum ΔG of each structure (right). (b) Alternatively, a representative primer pair which produced a strong dimer artefact on the electrophoresis gel (left) has a strong structure formed between the 3′ ends of the forward (C263) and reverse (C264) (right) primer as evident with the stable minimum ΔG value.