Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    53:79 54:78 55:77 153:188 154:187 155:186 156:185 157:184
	    158:183 203:231 204:230 205:229 206:228 207:227 208:226 209:225
	    250:290 251:289 252:288 253:287 254:286 255:285 256:284
	Energy of Broken Structure: -57.4
	Energy of Pseudo-Helices:   -36.9
	Pseudoknot Energy Penalty:  32.6
	Total Free Energy:          -61.7
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 = -2.1  for stack of 23-321
		Stack = -3.3  for stack of 24-320
		Stack = -2.5  for stack of 25-319
		Stack = -0.5  for stack of 26-318
		Stack = -0.5  for stack of 27-317
	Helix total = -13.3
	Internal/bulge = 2.4  for closure of 28-316	Size = 6
		Stack = 1.3  for stack of 32-312
		Stack = -1.5  for stack of 33-311
		Stack = -2.1  for stack of 34-310
		Stack = -1.1  for stack of 35-309
		Stack = -1.3  for stack of 36-308
		Stack = -1.0  for stack of 37-307
		Stack = -2.1  for stack of 38-306
		Stack = -2.5  for stack of 39-305
	Helix total = -10.3
	Internal/bulge = 3.6  for closure of 40-304	Size = 7
		Stack = -2.4  for stack of 43-298
		Stack = -2.4  for stack of 44-297
		Stack = -2.1  for stack of 45-296
		Stack = -3.4  for stack of 46-295
	Helix total = -10.3
	Multiloop = 2.3  for closure of 47-294
		Stack = -3.4  for stack of 234-271
		Stack = -2.1  for stack of 235-270
	Helix total = -5.5
	Internal/bulge = 3.1  for closure of 236-269	Size = 7
		Stack = -0.5  for stack of 241-265
	Helix total = -0.5
	Internal/bulge = 3.6  for closure of 242-264	Size = 6
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 245-259	Size = 2
	Helix total = 0.0
	Hairpin = 5.4  for closure of 247-257
		Stack = -1.4  for stack of 191-219
	Helix total = -1.4
	Internal/bulge = 1.5  for closure of 192-218	Size = 2
		Stack = -2.1  for stack of 194-216
		Stack = -0.9  for stack of 195-215
		Stack = -1.3  for stack of 196-214
		Stack = -0.9  for stack of 197-213
		Stack = -2.1  for stack of 198-212
		Stack = -3.3  for stack of 199-211
	Helix total = -10.6
	Hairpin = 5.3  for closure of 200-210
		Stack = -2.4  for stack of 138-174
		Stack = -2.2  for stack of 139-173
		Stack = -0.9  for stack of 140-172
		Stack = -0.9  for stack of 141-171
		Stack = -2.4  for stack of 142-170
		Stack = -2.1  for stack of 143-169
	Helix total = -10.9
	Internal/bulge = 3.0  for closure of 144-168	Size = 3
		Stack = -2.1  for stack of 146-165
		Stack = -1.3  for stack of 147-164
		Stack = -2.1  for stack of 148-163
		Stack = -1.5  for stack of 149-162
		Stack = -2.5  for stack of 150-161
		Stack = -2.1  for stack of 151-160
	Helix total = -11.6
	Hairpin = 5.3  for closure of 152-159
		Stack = -2.1  for stack of 115-137
		Stack = -3.4  for stack of 116-136
		Stack = -2.1  for stack of 117-135
		Stack = -2.1  for stack of 118-134
	Helix total = -9.7
	Hairpin = 5.7  for closure of 119-133
		Stack = -1.4  for stack of 48-60
	Helix total = -1.4
	Internal/bulge = 1.1  for closure of 49-59	Size = 2
		Stack = -2.5  for stack of 51-57
	Helix total = -2.5
	Hairpin = 5.9  for closure of 52-56


	Total energy = -57.4



