Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    109:185 110:184 111:183 112:182 113:181 114:180 115:178 116:177
	    117:176
	Energy of Broken Structure: -156.5
	Energy of Pseudo-Helices:   -14.0
	Pseudoknot Energy Penalty:  8.7
	Total Free Energy:          -161.8
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -4.6
		Stack = -2.4  for stack of 373-435
		Stack = -2.1  for stack of 374-434
		Stack = -2.5  for stack of 375-433
		Stack = -0.5  for stack of 376-432
	Helix total = -7.5
	Internal/bulge = 4.1  for closure of 377-431	Size = 1 BP stack across bulge = 0.3
		Stack = -2.1  for stack of 378-429
		Stack = -2.2  for stack of 379-428
		Stack = -2.4  for stack of 380-427
		Stack = -3.3  for stack of 381-426
		Stack = -3.3  for stack of 382-425
	Helix total = -13.3
	Internal/bulge = 5.5  for closure of 383-424	Size = 10
		Stack = -2.2  for stack of 392-421
		Stack = -2.1  for stack of 393-420
		Stack = -3.4  for stack of 394-419
		Stack = -1.4  for stack of 395-418
		Stack = -2.5  for stack of 396-417
	Helix total = -11.6
	Internal/bulge = 0.3  for closure of 397-416	Size = 4
		Stack = -3.3  for stack of 400-413
		Stack = -3.3  for stack of 401-412
	Helix total = -6.6
	Hairpin = 3.4  for closure of 402-411
		Stack = -3.3  for stack of 213-362
		Stack = -2.1  for stack of 214-361
		Stack = -2.1  for stack of 215-360
		Stack = -3.4  for stack of 216-359
		Stack = -2.4  for stack of 217-358
		Stack = -3.3  for stack of 218-357
	Helix total = -16.6
	Internal/bulge = 3.2  for closure of 219-356	Size = 11
		Stack = -3.4  for stack of 226-350
		Stack = -3.3  for stack of 227-349
	Helix total = -6.7
	Internal/bulge = 0.5  for closure of 228-348	Size = 1 BP stack across bulge = -3.3
		Stack = -2.4  for stack of 229-346
	Helix total = -2.4
	Internal/bulge = -1.1  for closure of 230-345	Size = 1 BP stack across bulge = -3.4
		Stack = -3.3  for stack of 232-344
	Helix total = -3.3
	Internal/bulge = 2.3  for closure of 233-343	Size = 4
		Stack = -3.4  for stack of 235-339
		Stack = -3.3  for stack of 236-338
		Stack = -3.3  for stack of 237-337
		Stack = -3.3  for stack of 238-336
		Stack = -3.3  for stack of 239-335
		Stack = -2.4  for stack of 240-334
	Helix total = -19.0
	Internal/bulge = 3.5  for closure of 241-333	Size = 8
		Stack = -3.3  for stack of 245-327
		Stack = -3.3  for stack of 246-326
		Stack = -2.4  for stack of 247-325
		Stack = -3.4  for stack of 248-324
	Helix total = -12.4
	Multiloop = 5.7  for closure of 249-323
		Stack = -2.1  for stack of 303-315
		Stack = -2.4  for stack of 304-314
		Stack = -2.1  for stack of 305-313
		Stack = -2.5  for stack of 306-312
	Helix total = -9.1
	Hairpin = 5.9  for closure of 307-311
		Stack = -2.4  for stack of 257-301
		Stack = -3.4  for stack of 258-300
		Stack = -2.4  for stack of 259-299
		Stack = -3.3  for stack of 260-298
	Helix total = -11.5
	Internal/bulge = 0.4  for closure of 261-297	Size = 1 BP stack across bulge = -3.4
		Stack = -2.4  for stack of 263-296
		Stack = -3.3  for stack of 264-295
		Stack = -3.4  for stack of 265-294
	Helix total = -9.1
	Internal/bulge = 2.6  for closure of 266-293	Size = 5
		Stack = -3.3  for stack of 269-289
		Stack = -3.3  for stack of 270-288
	Helix total = -6.6
	Hairpin = 4.7  for closure of 271-287
		Stack = -3.3  for stack of 18-210
		Stack = -3.3  for stack of 19-209
	Helix total = -6.6
	Internal/bulge = 0.5  for closure of 20-208	Size = 2
		Stack = -3.3  for stack of 22-206
		Stack = -2.4  for stack of 23-205
		Stack = -2.1  for stack of 24-204
		Stack = -3.4  for stack of 25-203
		Stack = -1.4  for stack of 26-202
		Stack = -2.1  for stack of 27-201
		Stack = -2.2  for stack of 28-200
		Stack = -2.1  for stack of 29-199
		Stack = -1.5  for stack of 30-198
	Helix total = -20.5
	Internal/bulge = 3.7  for closure of 31-197	Size = 4
		Stack = -2.1  for stack of 33-193
		Stack = -3.4  for stack of 34-192
		Stack = -3.3  for stack of 35-191
		Stack = -2.1  for stack of 36-190
	Helix total = -10.9
	Internal/bulge = 8.2  for closure of 37-189	Size = 69
		Stack = -3.3  for stack of 66-147
		Stack = -3.4  for stack of 67-146
		Stack = -2.4  for stack of 68-145
	Helix total = -9.1
	Internal/bulge = 0.3  for closure of 69-144	Size = 1 BP stack across bulge = -2.2
		Stack = -1.3  for stack of 70-142
		Stack = -2.1  for stack of 71-141
		Stack = -3.3  for stack of 72-140
		Stack = -3.4  for stack of 73-139
	Helix total = -10.1
	Internal/bulge = 2.0  for closure of 74-138	Size = 9
		Stack = -3.4  for stack of 80-133
		Stack = -2.1  for stack of 81-132
		Stack = -0.9  for stack of 82-131
		Stack = -0.9  for stack of 83-130
	Helix total = -7.3
	Internal/bulge = 5.1  for closure of 84-129	Size = 9
		Stack = -2.4  for stack of 92-126
		Stack = -3.4  for stack of 93-125
	Helix total = -5.8
	Internal/bulge = -2.2  for closure of 94-124	Size = 2
		Stack = -2.4  for stack of 96-122
		Stack = -3.4  for stack of 97-121
		Stack = -2.1  for stack of 98-120
		Stack = -2.1  for stack of 99-119
	Helix total = -10.0
	Hairpin = 5.5  for closure of 100-118


	Total energy = -156.5



