Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    54:76 55:75 56:74 57:73 167:201 168:200 169:199 170:198
	    171:197 172:196 216:242 217:241 218:240 219:239 221:237 222:236
	    263:300 264:299 265:298 266:297 268:295
	Energy of Broken Structure: -73.1
	Energy of Pseudo-Helices:   -34.0
	Pseudoknot Energy Penalty:  48.2
	Total Free Energy:          -58.9
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 = -2.2  for stack of 4-362
		Stack = -2.4  for stack of 5-361
		Stack = -2.4  for stack of 6-360
	Helix total = -13.9
	Multiloop = 6.8  for closure of 7-359
		Stack = -2.1  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 = -12.0
	Hairpin = 4.4  for closure of 346-354
		Stack = -2.4  for stack of 21-338
		Stack = -1.5  for stack of 22-337
		Stack = -0.5  for stack of 23-336
		Stack = -1.3  for stack of 24-335
		Stack = -2.1  for stack of 25-334
		Stack = -3.4  for stack of 26-333
		Stack = -2.1  for stack of 27-332
		Stack = -1.0  for stack of 28-331
		Stack = -0.9  for stack of 29-330
	Helix total = -15.2
	Internal/bulge = 3.1  for closure of 30-329	Size = 7
		Stack = -2.5  for stack of 34-324
		Stack = -3.3  for stack of 35-323
		Stack = -2.1  for stack of 36-322
		Stack = -1.5  for stack of 37-321
		Stack = -1.4  for stack of 38-320
		Stack = -2.1  for stack of 39-319
		Stack = -2.2  for stack of 40-318
		Stack = -1.3  for stack of 41-317
	Helix total = -16.4
	Internal/bulge = 4.5  for closure of 42-316	Size = 5
		Stack = -2.1  for stack of 44-311
		Stack = -1.1  for stack of 45-310
		Stack = -2.1  for stack of 46-309
		Stack = -2.5  for stack of 47-308
	Helix total = -7.8
	Multiloop = 4.1  for closure of 48-307
		Stack = -3.3  for stack of 246-283
		Stack = -2.1  for stack of 247-282
		Stack = -1.1  for stack of 248-281
		Stack = -2.4  for stack of 249-280
	Helix total = -8.9
	Internal/bulge = 3.0  for closure of 250-279	Size = 3
		Stack = -0.6  for stack of 253-277
	Helix total = -0.6
	Internal/bulge = 3.4  for closure of 254-276	Size = 7
		Stack = -2.1  for stack of 259-272
		Stack = -1.3  for stack of 260-271
	Helix total = -3.4
	Hairpin = 5.2  for closure of 261-270
		Stack = -2.4  for stack of 205-230
		Stack = -2.1  for stack of 206-229
		Stack = -1.5  for stack of 207-228
		Stack = -2.1  for stack of 208-227
		Stack = -2.4  for stack of 209-226
		Stack = -2.4  for stack of 210-225
		Stack = -2.5  for stack of 211-224
	Helix total = -15.4
	Hairpin = 6.3  for closure of 212-223
		Stack = -2.4  for stack of 151-188
		Stack = -2.5  for stack of 152-187
		Stack = -1.5  for stack of 153-186
		Stack = -2.1  for stack of 154-185
		Stack = -0.9  for stack of 155-184
		Stack = -0.6  for stack of 156-183
	Helix total = -10.0
	Internal/bulge = 1.3  for closure of 157-182	Size = 1 BP stack across bulge = -2.5
		Stack = -3.3  for stack of 158-180
		Stack = -2.1  for stack of 159-179
		Stack = -1.5  for stack of 160-178
		Stack = -2.1  for stack of 161-177
		Stack = -2.2  for stack of 162-176
	Helix total = -11.2
	Hairpin = 5.1  for closure of 163-175
	Helix total = 0.0
	Internal/bulge = -0.1  for closure of 118-149	Size = 2
		Stack = -3.3  for stack of 120-147
	Helix total = -3.3
	Internal/bulge = 1.2  for closure of 121-146	Size = 2
		Stack = -0.9  for stack of 123-144
		Stack = -2.1  for stack of 124-143
	Helix total = -3.0
	Hairpin = 6.5  for closure of 125-142
		Stack = -2.4  for stack of 49-64
		Stack = -3.3  for stack of 50-63
		Stack = -3.4  for stack of 51-62
	Helix total = -9.1
	Hairpin = 4.0  for closure of 52-61


	Total energy = -73.1



