specifies the ranges (where the primer shall reside) using a START position and a given NUMBER OF BASES.
The actual sequence data of the currently selected species is examined and the end position of the primer range is set dynamically, such that the range contains the specified number of bases.
Specifies a lower and upper limit for the number of bases the reported primers shall contain.
Specifies the minimum and maximum wanted distance (in number of bases) between the left and right primer of the reported primer pairs. Optional parameters (ignored if 0).
G+C ratio / temperature
Specifies minima and maxima for G+C-ratio and temperature of the reported primers.
Min. dist to next match of primer
If a value above zero is specified, the search accepts primers matching at additional positions, if the distance betweeen the selected position and additional positions is greater than the specified value.
A value of zero or below forces all primers to be well-defined (i.e. to match only once).
Example: primerposition 100
2nd occurrence 30 => distance 70 => primer remains in list
3rd occurrence 140 => distance 40 => primer is removed from list
Expand IUPAC codes
If option is checked, all possibilities of IUPAC codes are permutated when testing for primer matches.
When unchecked, primers containing IUPAC codes will not be considered.
Max. number of results
Limits the number of reported results.
G+C- / temperature-factor
Allows to weight the impact of G+C vs. temperature while scoring the reported results.