Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    57:83 58:82 59:81 60:80 61:79 155:191 156:190 157:189
	    158:188 159:187 207:240 208:239 209:238 210:237 211:236 212:235
	    213:234 214:233 242:277 243:276 246:273 249:271 251:269 254:264
	Energy of Broken Structure: -73.4
	Energy of Pseudo-Helices:   -32.2
	Pseudoknot Energy Penalty:  32.4
	Total Free Energy:          -73.2
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-357
		Stack = -1.5  for stack of 2-356
		Stack = -2.1  for stack of 3-355
		Stack = -3.3  for stack of 4-354
		Stack = -3.4  for stack of 5-353
		Stack = -2.4  for stack of 6-352
	Helix total = -16.0
	Multiloop = 6.5  for closure of 7-351
		Stack = -2.2  for stack of 334-350
		Stack = -2.4  for stack of 335-349
		Stack = -3.3  for stack of 336-348
		Stack = -3.3  for stack of 337-347
	Helix total = -11.2
	Hairpin = 4.9  for closure of 338-346
		Stack = -2.4  for stack of 20-330
		Stack = -1.5  for stack of 21-329
		Stack = -0.5  for stack of 22-328
		Stack = -0.5  for stack of 23-327
		Stack = -2.1  for stack of 24-326
		Stack = -2.5  for stack of 25-325
		Stack = -1.0  for stack of 26-324
	Helix total = -10.5
	Internal/bulge = 1.9  for closure of 27-323	Size = 2
	Helix total = 0.0
	Internal/bulge = 5.1  for closure of 29-321	Size = 1 BP stack across bulge = 1.3
	Helix total = 0.0
	Internal/bulge = -0.7  for closure of 31-320	Size = 2
		Stack = -2.1  for stack of 33-318
		Stack = -2.2  for stack of 34-317
	Helix total = -4.3
	Internal/bulge = 0.3  for closure of 35-316	Size = 4
		Stack = -2.4  for stack of 38-313
		Stack = -1.4  for stack of 39-312
	Helix total = -3.8
	Internal/bulge = 4.9  for closure of 40-311	Size = 9
		Stack = -2.4  for stack of 44-304
		Stack = -2.4  for stack of 45-303
		Stack = -2.1  for stack of 46-302
		Stack = -2.2  for stack of 47-301
	Helix total = -9.1
	Multiloop = 4.2  for closure of 48-300
		Stack = -2.2  for stack of 257-296
		Stack = -2.4  for stack of 258-295
		Stack = -2.1  for stack of 259-294
	Helix total = -6.7
	Internal/bulge = 1.3  for closure of 260-293	Size = 1 BP stack across bulge = -2.1
		Stack = -2.2  for stack of 261-291
		Stack = -2.1  for stack of 262-290
	Helix total = -4.3
	Hairpin = 5.0  for closure of 263-289
		Stack = -3.3  for stack of 195-226
		Stack = -2.4  for stack of 196-225
	Helix total = -5.7
	Internal/bulge = 0.1  for closure of 197-224	Size = 4
		Stack = -3.3  for stack of 200-221
		Stack = -2.1  for stack of 201-220
		Stack = -1.3  for stack of 202-219
		Stack = -2.1  for stack of 203-218
		Stack = -3.4  for stack of 204-217
	Helix total = -12.2
	Hairpin = 5.0  for closure of 205-216
		Stack = -2.1  for stack of 139-176
		Stack = -1.4  for stack of 140-175
		Stack = -1.5  for stack of 141-174
		Stack = -3.3  for stack of 142-173
		Stack = -2.1  for stack of 143-172
		Stack = -0.9  for stack of 144-171
	Helix total = -11.3
	Internal/bulge = 3.0  for closure of 145-170	Size = 4
		Stack = -2.1  for stack of 147-166
		Stack = -2.4  for stack of 148-165
		Stack = -2.1  for stack of 149-164
		Stack = -0.9  for stack of 150-163
		Stack = -1.4  for stack of 151-162
		Stack = -0.5  for stack of 152-161
	Helix total = -9.4
	Hairpin = 5.1  for closure of 153-160
		Stack = -2.1  for stack of 117-138
		Stack = -3.4  for stack of 118-137
		Stack = -2.1  for stack of 119-136
		Stack = -2.1  for stack of 120-135
		Stack = -3.4  for stack of 121-134
	Helix total = -13.1
	Hairpin = 5.1  for closure of 122-133
		Stack = -2.4  for stack of 49-69
		Stack = -2.4  for stack of 50-68
		Stack = -2.1  for stack of 51-67
		Stack = -3.3  for stack of 52-66
	Helix total = -10.2
	Hairpin = 4.4  for closure of 53-65


	Total energy = -73.4



