Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    48:67 49:66 50:65 51:64 52:63 141:170 142:169 143:168
	    145:166 189:220 192:217 196:212 197:211 253:291 254:290 255:289
	    256:288 258:285 259:284
	Energy of Broken Structure: -55.9
	Energy of Pseudo-Helices:   -28.5
	Pseudoknot Energy Penalty:  32.2
	Total Free Energy:          -52.2
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-352
		Stack = -1.5  for stack of 2-351
		Stack = -2.1  for stack of 3-350
		Stack = -3.3  for stack of 4-349
		Stack = -2.2  for stack of 5-348
		Stack = -2.1  for stack of 6-347
	Helix total = -14.5
	Multiloop = 5.1  for closure of 7-346
		Stack = -3.4  for stack of 329-345
		Stack = -2.4  for stack of 330-344
		Stack = -3.3  for stack of 331-343
		Stack = -3.3  for stack of 332-342
	Helix total = -12.4
	Hairpin = 4.4  for closure of 333-341
		Stack = -2.4  for stack of 20-325
		Stack = -1.5  for stack of 21-324
		Stack = -0.5  for stack of 22-323
		Stack = -2.1  for stack of 23-322
		Stack = -2.4  for stack of 24-321
		Stack = -1.1  for stack of 25-320
	Helix total = -10.0
	Internal/bulge = 1.9  for closure of 26-319	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.4  for closure of 28-317	Size = 6
		Stack = -2.2  for stack of 32-313
	Helix total = -2.2
	Internal/bulge = 2.1  for closure of 33-312	Size = 6
		Stack = -2.1  for stack of 37-308
		Stack = -3.3  for stack of 38-307
		Stack = -2.5  for stack of 39-306
	Helix total = -7.9
	Internal/bulge = 4.6  for closure of 40-305	Size = 7
		Stack = -2.1  for stack of 43-299
		Stack = -1.1  for stack of 44-298
		Stack = -2.1  for stack of 45-297
		Stack = -3.4  for stack of 46-296
	Helix total = -8.7
	Multiloop = 5.7  for closure of 47-295
		Stack = -0.5  for stack of 239-273
	Helix total = -0.5
	Internal/bulge = 1.2  for closure of 240-272	Size = 2
		Stack = -3.3  for stack of 242-270
	Helix total = -3.3
	Internal/bulge = -1.4  for closure of 243-269	Size = 2
		Stack = -2.4  for stack of 245-267
	Helix total = -2.4
	Internal/bulge = 2.9  for closure of 246-266	Size = 5
		Stack = -2.4  for stack of 249-262
		Stack = -3.3  for stack of 250-261
	Helix total = -5.7
	Hairpin = 4.5  for closure of 251-260
	Helix total = 0.0
	Internal/bulge = -0.9  for closure of 201-236	Size = 4
		Stack = -3.3  for stack of 204-233
	Helix total = -3.3
	Internal/bulge = 0.5  for closure of 205-232	Size = 2
		Stack = -3.4  for stack of 207-230
	Helix total = -3.4
	Hairpin = 4.9  for closure of 208-229
		Stack = -0.5  for stack of 159-180
		Stack = -0.5  for stack of 160-179
		Stack = -1.4  for stack of 161-178
		Stack = -1.0  for stack of 162-177
		Stack = -1.3  for stack of 163-176
	Helix total = -4.7
	Hairpin = 6.2  for closure of 164-175
	Helix total = 0.0
	Internal/bulge = 0.5  for closure of 112-138	Size = 2
		Stack = -2.2  for stack of 114-136
		Stack = -1.3  for stack of 115-135
		Stack = -2.1  for stack of 116-134
		Stack = -3.4  for stack of 117-133
		Stack = -2.1  for stack of 118-132
		Stack = -2.1  for stack of 119-131
	Helix total = -13.2
	Hairpin = 5.7  for closure of 120-130
		Stack = -1.5  for stack of 53-81
		Stack = -3.3  for stack of 54-80
		Stack = -2.4  for stack of 55-79
		Stack = -3.3  for stack of 56-78
		Stack = -3.3  for stack of 57-77
		Stack = -3.4  for stack of 58-76
	Helix total = -17.2
	Hairpin = 5.9  for closure of 59-75


	Total energy = -55.9



