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is the supercoiling free energy of a simulated molecule with linking difference, 
and 
is the linking difference of the unmelted real DNA that would have the linking difference of the simulated molecule after melting m basepairs 
and 
is the intrinsic twist per basepair of the duplex region. Simulated molecules contain n = 0 (□), n = 1 (shaded circles), or n = 2 (▾) melted subunits out of 155 total melted subunits.
