Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    49:69 50:68 52:66 53:65 153:186 154:185 155:184 156:183
	    157:182 158:181 202:233 203:232 204:231 205:230 206:229 207:228
	    208:227 236:271 240:267 242:266 244:264 245:263 248:258
	Energy of Broken Structure: -76.5
	Energy of Pseudo-Helices:   -24.9
	Pseudoknot Energy Penalty:  31.8
	Total Free Energy:          -69.6
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-351
		Stack = -1.5  for stack of 2-350
		Stack = -2.1  for stack of 3-349
		Stack = -3.3  for stack of 4-348
		Stack = -3.4  for stack of 5-347
		Stack = -2.4  for stack of 6-346
	Helix total = -16.0
	Multiloop = 6.5  for closure of 7-345
		Stack = -2.1  for stack of 328-344
		Stack = -3.3  for stack of 329-343
		Stack = -3.3  for stack of 330-342
		Stack = -3.3  for stack of 331-341
	Helix total = -12.0
	Hairpin = 4.4  for closure of 332-340
		Stack = -2.4  for stack of 20-324
		Stack = -1.5  for stack of 21-323
		Stack = -0.5  for stack of 22-322
		Stack = -0.5  for stack of 23-321
		Stack = -2.1  for stack of 24-320
		Stack = -3.4  for stack of 25-319
		Stack = -2.1  for stack of 26-318
	Helix total = -12.5
	Internal/bulge = 3.5  for closure of 27-317	Size = 7
		Stack = -2.5  for stack of 32-313
		Stack = -2.1  for stack of 33-312
		Stack = -1.5  for stack of 34-311
		Stack = -3.3  for stack of 35-310
		Stack = -2.1  for stack of 36-309
		Stack = -2.1  for stack of 37-308
		Stack = -3.3  for stack of 38-307
		Stack = -3.3  for stack of 39-306
	Helix total = -20.2
	Internal/bulge = 1.2  for closure of 40-305	Size = 2
	Helix total = 0.0
	Internal/bulge = 4.5  for closure of 42-303	Size = 5
		Stack = -2.4  for stack of 44-298
		Stack = -2.4  for stack of 45-297
		Stack = -2.1  for stack of 46-296
		Stack = -2.2  for stack of 47-295
	Helix total = -9.1
	Multiloop = 5.6  for closure of 48-294
		Stack = -2.2  for stack of 251-290
		Stack = -0.9  for stack of 252-289
		Stack = -0.9  for stack of 253-288
		Stack = -1.3  for stack of 254-287
		Stack = -1.1  for stack of 255-286
		Stack = -2.4  for stack of 256-285
	Helix total = -8.8
	Hairpin = 5.1  for closure of 257-284
		Stack = -3.3  for stack of 189-220
		Stack = -2.4  for stack of 190-219
	Helix total = -5.7
	Internal/bulge = 2.0  for closure of 191-218	Size = 4
		Stack = -1.5  for stack of 194-215
		Stack = -2.1  for stack of 195-214
		Stack = -0.9  for stack of 196-213
		Stack = -1.3  for stack of 197-212
		Stack = -2.2  for stack of 198-211
	Helix total = -8.0
	Hairpin = 5.0  for closure of 199-210
		Stack = -2.4  for stack of 139-174
		Stack = -2.5  for stack of 140-173
		Stack = -1.5  for stack of 141-172
		Stack = -2.1  for stack of 142-171
		Stack = -2.1  for stack of 143-170
	Helix total = -10.6
	Internal/bulge = 2.8  for closure of 144-169	Size = 2
		Stack = -3.3  for stack of 145-166
		Stack = -2.1  for stack of 146-165
		Stack = -1.3  for stack of 147-164
		Stack = -0.9  for stack of 148-163
		Stack = -2.1  for stack of 149-162
	Helix total = -9.7
	Hairpin = 5.4  for closure of 150-161
		Stack = -2.1  for stack of 118-138
		Stack = -3.4  for stack of 119-137
		Stack = -2.1  for stack of 120-136
		Stack = -2.1  for stack of 121-135
		Stack = -3.4  for stack of 122-134
	Helix total = -13.1
	Hairpin = 5.6  for closure of 123-133
		Stack = -2.4  for stack of 57-83
		Stack = -3.3  for stack of 58-82
		Stack = -2.1  for stack of 59-81
		Stack = 0.3  for stack of 60-80
	Helix total = -7.5
	Hairpin = 6.8  for closure of 61-79


	Total energy = -76.5



