Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    55:82 56:81 57:80 58:79 59:78 154:199 155:198 156:197
	    157:196 158:195 159:194 160:193 161:192 215:247 216:246 217:245
	    218:244 219:243 263:300 265:298 266:297 267:296 268:295 269:294
	Energy of Broken Structure: -83.7
	Energy of Pseudo-Helices:   -42.6
	Pseudoknot Energy Penalty:  32.5
	Total Free Energy:          -93.8
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-362
		Stack = -1.5  for stack of 2-361
		Stack = -2.1  for stack of 3-360
		Stack = -2.4  for stack of 4-359
		Stack = -2.2  for stack of 5-358
		Stack = -2.4  for stack of 6-357
	Helix total = -13.9
	Multiloop = 5.1  for closure of 7-356
		Stack = -3.4  for stack of 339-355
		Stack = -2.4  for stack of 340-354
		Stack = -3.3  for stack of 341-353
		Stack = -3.3  for stack of 342-352
	Helix total = -12.4
	Hairpin = 4.4  for closure of 343-351
		Stack = -2.4  for stack of 20-335
		Stack = -3.4  for stack of 21-334
		Stack = -3.3  for stack of 22-333
		Stack = -1.4  for stack of 23-332
		Stack = -2.1  for stack of 24-331
		Stack = -2.5  for stack of 25-330
		Stack = 0.3  for stack of 26-329
	Helix total = -14.8
	Internal/bulge = 3.1  for closure of 27-328	Size = 11
		Stack = -3.3  for stack of 34-322
		Stack = -2.1  for stack of 35-321
		Stack = -0.9  for stack of 36-320
		Stack = -2.1  for stack of 37-319
		Stack = -1.5  for stack of 38-318
		Stack = -2.1  for stack of 39-317
	Helix total = -12.0
	Internal/bulge = 3.9  for closure of 40-316	Size = 7
		Stack = -2.1  for stack of 43-310
		Stack = -1.1  for stack of 44-309
		Stack = -2.1  for stack of 45-308
		Stack = -3.4  for stack of 46-307
	Helix total = -8.7
	Multiloop = 4.7  for closure of 47-306
		Stack = -2.5  for stack of 249-283
		Stack = -3.3  for stack of 250-282
		Stack = -2.1  for stack of 251-281
		Stack = -2.4  for stack of 252-280
	Helix total = -10.3
	Internal/bulge = 2.2  for closure of 253-279	Size = 3
	Helix total = 0.0
	Internal/bulge = 3.9  for closure of 256-277	Size = 6
		Stack = -3.3  for stack of 259-272
		Stack = -3.3  for stack of 260-271
	Helix total = -6.6
	Hairpin = 4.1  for closure of 261-270
		Stack = -3.4  for stack of 201-232
		Stack = -2.1  for stack of 202-231
	Helix total = -5.5
	Internal/bulge = 2.8  for closure of 203-230	Size = 4
	Helix total = 0.0
	Internal/bulge = 3.3  for closure of 206-227	Size = 2
		Stack = -2.1  for stack of 209-226
		Stack = -2.2  for stack of 210-225
		Stack = -3.3  for stack of 211-224
		Stack = -2.1  for stack of 212-223
		Stack = -2.1  for stack of 213-222
	Helix total = -11.8
	Hairpin = 4.3  for closure of 214-221
		Stack = -2.4  for stack of 139-184
		Stack = -2.2  for stack of 140-183
		Stack = -2.4  for stack of 141-182
		Stack = -3.3  for stack of 142-181
		Stack = -2.1  for stack of 143-180
		Stack = -2.1  for stack of 144-179
	Helix total = -14.5
	Internal/bulge = 5.4  for closure of 145-178	Size = 10
		Stack = -2.5  for stack of 146-167
		Stack = -2.1  for stack of 147-166
		Stack = -2.1  for stack of 148-165
		Stack = -2.4  for stack of 149-164
		Stack = -2.1  for stack of 150-163
	Helix total = -11.2
	Hairpin = 4.0  for closure of 151-162
		Stack = -2.5  for stack of 113-138
	Helix total = -2.5
	Internal/bulge = 2.7  for closure of 114-137	Size = 6
		Stack = -0.5  for stack of 118-133
		Stack = -2.5  for stack of 119-132
		Stack = -2.4  for stack of 120-131
		Stack = -3.3  for stack of 121-130
		Stack = -3.4  for stack of 122-129
	Helix total = -12.1
	Hairpin = 3.3  for closure of 123-128
		Stack = -2.4  for stack of 48-67
		Stack = -2.4  for stack of 49-66
		Stack = -2.1  for stack of 50-65
		Stack = -2.4  for stack of 51-64
	Helix total = -9.3
	Hairpin = 6.4  for closure of 52-63


	Total energy = -83.7



