PC cgDNA+min: Pyne et al. 339 bp sequence

Periodic closure cgDNA+min results for the 4 initial guesses highlighted in the following bifurcation diagram:

We see a striking result for initial guess D: the minimum eigenvalue of the Hessian is nagative (and has a giant norm), hence the configuration shown for D is not a minimizer.

Solution for initial guess A:

	Link	Energy	Smallest Eigenvalue
Initial guess A	31	9835	-
Solution A	33	31	1.38e-7

MATLAB figures and saved variables:
Noy_339_3Dsol1_PCcgDNA+min.fig
Noy_339_2Dsol1_PCcgDNA+min_cgDNA-coord.fig
Noy_339_2Dsol1_PCcgDNA+min_Pho-coord.fig
Noy_339_sol1_PCcgDNA+min.mat

Solution for initial guess B:

	Link	Energy	Smallest Eigenvalue
Initial guess B	31	10332	-
Solution B	32	41	2.85e-7

MATLAB figures and saved variables:
Noy_339_3Dsol3_PCcgDNA+min.fig
Noy_339_2Dsol3_PCcgDNA+min_cgDNA-coord.fig
Noy_339_2Dsol3_PCcgDNA+min_Pho-coord.fig
Noy_339_sol3_PCcgDNA+min.mat

Solution for initial guess C:

	Link	Energy	Smallest Eigenvalue
Initial guess C	34	10654	-
Solution C	32	42	1.04e-7

MATLAB figures and saved variables:
Noy_339_3Dsol6_PCcgDNA+min.fig
Noy_339_2Dsol6_PCcgDNA+min_cgDNA-coord.fig
Noy_339_2Dsol6_PCcgDNA+min_Pho-coord.fig
Noy_339_sol6_PCcgDNA+min.mat

Solution for initial guess D:

	Link	Energy	Smallest Eigenvalue
Initial guess D	Too hard to count, 31 from Bifuraction diagram	65140	-
Solution D	Too hard to count	1206	-4.45e6

MATLAB figures and saved variables:
Noy_339_3Dsol9_PCcgDNA+min.fig
Noy_339_2Dsol9_PCcgDNA+min_cgDNA-coord.fig
Noy_339_2Dsol9_PCcgDNA+min_Pho-coord.fig
Noy_339_sol9_PCcgDNA+min.mat

Output data

PC cgDNA+min: Pyne et al. 339 bp sequence

Solution for initial guess A:

Solution for initial guess B:

Solution for initial guess C:

Solution for initial guess D: