Primer composition
Primers that contain a skewed AT/GC ratio can fail to give high
specificity, or yield primers that are in other ways not well
behaved. The user is allowed to enter minimum, optimal, and maximum
values for the percentage of basepairs which are either G or C.
Primer Annealing
Primers also tend to dimerize and anneal to themselves. One method
for accounting for this problem was developed by Hillier and Green, PCR
Method. Applic., 1; 124-8, 1991. Maximum values annealing between
primers are able to be set by the user.