left/right position:
specifies the start of primer ranges
(leftmost base position)
[right.min > left.min]
left/right number of bases
specifies how many bases a primer range includes
primer length:
number of bases within a primer
[length > 0]
primer distance:
min/max number of bases between leftmost base in left primer
and rightmost base in right primer
G+C ratio:
range of GC-ratio of primers in percent
(countG+countC / countBases * 100)
temperature:
range of temperature of primers
(4*(countG+countC) + 2*(countA+countT))
minimal distance to next match of primer:
if a primer is found again outside this range it is ignored
example: primerpos 100
min.dist 50
2nd occurrence 30 => primer remains in list
3rd occurrence 140 => primer is removed from list
expand IUPAC-codes:
switches expansion of IUPAC-codes on/off
example: TTRC is expanded to TTAC and TTGC
maximal number of results:
how many possible pairs you want ?
G+C-factor / temperature-factor:
weight of GC / temperature while evaluation of
possible primerpairs
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