Although I am fully aware that different primer designing software are using different algorithms in their work, still they should give the similar primer pair combinations or not? Also, when some program expels top recommended primer pair sequence combination, and when I checked them for secondary structures, such as hairpins, self dimers, cross dimers I encounter some confusion. In some cases primers have a high values of delta G, even more then -7, -8 kcal/mol which is far from recommended values. What is the catch?
Yong Jin Chung
I think this paper will help you.
and You neet to understand Net delta G in this paper.
Good Luck :)
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