How to do the calculations in a Single Step

The Forward Primer

The example below shows how to find the values for the forward primer. The SmaI recognition sequence is ccc'ggg and the primer sequence is 'actggcc.

 Select operation
 X  1 Search
    2 List enzyme file
    3 Clear text
    4 Clear graphics
 ? Selection (1-4) (1) =
 Select input source
    1 All enzymes file
 X  2 Six cutter file
    3 Four cutter file
    4 Personal file
    5 Keyboard
 ? Selection (1-5) (2) =5
 Define search strings by typing a string name 
 followed by the string(s)
 ? Name=b
 ? String(s)=ccc'ggg/'actggcc/
 ? Name=
 ? Search for all names (y/n) (y) = 
 Select results display mode
 X  1 Order results enzyme by enzyme
    2 Order results by position
    3 Show only infrequent cutters
    4 Show names above the sequence
 ? Selection (1-4) (1) =
 ? List matches (y/n) (y) = 
 ? The sequence is linear (y/n) (y) = n
 ? Search for definite matches (y/n) (y) = 
 Working
  Matches found=     2
      Name            Sequence                       Position Fragment lengths
    1 b               ccc'ggg                            6249   7208     41
    2 b               'actggcc                           6290     41   7208

Finding the vepe values for the forward primer in a single step

This gives us the position of the cloning site (6249) and the relative position of the primer site (41)