Most of these constraints can be modified by adjusting prompted and optional program parameters. Following these summaries is an ordered listing of the most appropriate primers or PCR primer pairs selected by prima . The list is ordered by total annealing score so that those primers or PCR primer pairs with the least amount of complementarity to sequences other than the appropriate primer binding sites are listed first. Each output primer or PCR primer pair is designated by a number that corresponds to a line number in the plot of primer sites. While the text output file lists the location of the primer binding site along with each primer sequence, the plot provides a convenient way to review the primer binding sites of many of the selected primers at once.
Data files None.
Stability of Ribonucleic Acid and Double-stranded Helices. Journal of Molecular Biology 86, 843-853. Optimization of the Annealing Temperature for DNA Amplification in vitro. Nucleic Acids Research 18, 6409-6412. Predicting DNA Duplex Stability from the Base Sequence.