Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    48:68 49:67 50:66 51:65 52:64 163:197 164:196 165:195
	    166:194 167:193 168:192 213:247 215:245 216:244 217:243 218:242
	    219:241 220:240 248:280 249:279 250:278 264:275
	Energy of Broken Structure: -86.0
	Energy of Pseudo-Helices:   -33.3
	Pseudoknot Energy Penalty:  36.1
	Total Free Energy:          -83.2
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-365
		Stack = -1.5  for stack of 2-364
		Stack = -2.1  for stack of 3-363
		Stack = -2.4  for stack of 4-362
		Stack = -1.1  for stack of 5-361
		Stack = -2.1  for stack of 6-360
	Helix total = -12.5
	Multiloop = 5.0  for closure of 7-359
		Stack = -3.3  for stack of 342-358
		Stack = -3.3  for stack of 343-357
		Stack = -3.3  for stack of 344-356
		Stack = -3.3  for stack of 345-355
	Helix total = -13.2
	Hairpin = 4.4  for closure of 346-354
		Stack = -2.4  for stack of 19-338
		Stack = -2.4  for stack of 20-337
		Stack = -1.1  for stack of 21-336
		Stack = -2.1  for stack of 22-335
		Stack = -2.2  for stack of 23-334
		Stack = -1.3  for stack of 24-333
	Helix total = -11.5
	Internal/bulge = 3.9  for closure of 25-332	Size = 11
	Helix total = 0.0
	Internal/bulge = 0.8  for closure of 32-326	Size = 2
		Stack = -2.1  for stack of 34-324
		Stack = -2.1  for stack of 35-323
		Stack = -3.3  for stack of 36-322
	Helix total = -7.5
	Internal/bulge = 2.9  for closure of 37-321	Size = 12
		Stack = -2.4  for stack of 43-313
		Stack = -3.3  for stack of 44-312
		Stack = -3.3  for stack of 45-311
		Stack = -3.4  for stack of 46-310
	Helix total = -12.4
	Multiloop = 2.9  for closure of 47-309
		Stack = -2.2  for stack of 266-305
		Stack = -0.9  for stack of 267-304
		Stack = -0.9  for stack of 268-303
		Stack = -2.1  for stack of 269-302
		Stack = -3.4  for stack of 270-301
	Helix total = -9.5
	Hairpin = 6.1  for closure of 271-300
		Stack = -2.1  for stack of 203-231
		Stack = -1.4  for stack of 204-230
		Stack = -2.2  for stack of 205-229
		Stack = -0.9  for stack of 206-228
		Stack = -1.3  for stack of 207-227
		Stack = -1.0  for stack of 208-226
		Stack = -2.2  for stack of 209-225
		Stack = -3.3  for stack of 210-224
		Stack = -2.1  for stack of 211-223
	Helix total = -16.5
	Hairpin = 6.2  for closure of 212-222
		Stack = -2.4  for stack of 148-184
		Stack = -2.5  for stack of 149-183
		Stack = -1.5  for stack of 150-182
		Stack = -2.1  for stack of 151-181
		Stack = -2.1  for stack of 152-180
	Helix total = -10.6
	Internal/bulge = 2.3  for closure of 153-179	Size = 4
		Stack = -3.3  for stack of 155-175
		Stack = -2.4  for stack of 156-174
		Stack = -3.3  for stack of 157-173
		Stack = -3.3  for stack of 158-172
		Stack = -2.4  for stack of 159-171
		Stack = -1.4  for stack of 160-170
	Helix total = -16.1
	Hairpin = 5.9  for closure of 161-169
		Stack = -2.4  for stack of 113-147
		Stack = -2.2  for stack of 114-146
		Stack = -2.1  for stack of 115-145
	Helix total = -6.7
	Internal/bulge = 5.2  for closure of 116-144	Size = 5
		Stack = -2.4  for stack of 121-142
		Stack = -2.1  for stack of 122-141
	Helix total = -4.5
	Internal/bulge = 1.9  for closure of 123-140	Size = 2
		Stack = -2.5  for stack of 125-138
		Stack = -2.1  for stack of 126-137
		Stack = -2.1  for stack of 127-136
		Stack = -3.4  for stack of 128-135
	Helix total = -10.1
	Hairpin = 4.6  for closure of 129-134
		Stack = -2.1  for stack of 54-83
		Stack = -3.4  for stack of 55-82
		Stack = -2.1  for stack of 56-81
		Stack = -2.1  for stack of 57-80
		Stack = -2.4  for stack of 58-79
	Helix total = -12.1
	Hairpin = 6.8  for closure of 59-78


	Total energy = -86.0



