Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    104:189 105:188 106:187 107:184 108:183 109:182 110:180 111:179
	    112:178
	Energy of Broken Structure: -115.7
	Energy of Pseudo-Helices:   -10.4
	Pseudoknot Energy Penalty:  8.3
	Total Free Energy:          -117.8
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -4.0
		Stack = -2.4  for stack of 407-470
		Stack = -2.2  for stack of 408-469
		Stack = -3.3  for stack of 409-468
		Stack = -2.1  for stack of 410-467
		Stack = -2.1  for stack of 411-466
	Helix total = -12.1
	Internal/bulge = 0.4  for closure of 412-465	Size = 1 BP stack across bulge = -3.4
		Stack = -2.4  for stack of 414-464
		Stack = -3.4  for stack of 415-463
	Helix total = -5.8
	Internal/bulge = 6.2  for closure of 416-462	Size = 17
		Stack = -2.1  for stack of 429-456
		Stack = -3.4  for stack of 430-455
		Stack = -2.1  for stack of 431-454
	Helix total = -7.6
	Internal/bulge = 2.4  for closure of 432-453	Size = 4
		Stack = -2.4  for stack of 435-450
		Stack = -3.3  for stack of 436-449
		Stack = -3.3  for stack of 437-448
	Helix total = -9.0
	Hairpin = 4.0  for closure of 438-447
		Stack = -3.3  for stack of 220-391
		Stack = -2.1  for stack of 221-390
		Stack = -2.1  for stack of 222-389
		Stack = -2.5  for stack of 223-388
		Stack = -0.5  for stack of 224-387
	Helix total = -10.5
	Internal/bulge = 5.9  for closure of 225-386	Size = 24
		Stack = -2.5  for stack of 244-379
		Stack = -3.3  for stack of 245-378
		Stack = -2.1  for stack of 246-377
		Stack = -1.5  for stack of 247-376
		Stack = -2.4  for stack of 248-375
		Stack = -1.5  for stack of 249-374
		Stack = -2.5  for stack of 250-373
		Stack = -3.3  for stack of 251-372
		Stack = -3.3  for stack of 252-371
	Helix total = -22.4
	Internal/bulge = 2.8  for closure of 253-370	Size = 13
		Stack = -3.4  for stack of 261-363
		Stack = -2.1  for stack of 262-362
		Stack = -2.2  for stack of 263-361
		Stack = -1.4  for stack of 264-360
		Stack = -2.5  for stack of 265-359
		Stack = -3.3  for stack of 266-358
		Stack = -3.3  for stack of 267-357
	Helix total = -18.2
	Internal/bulge = 0.9  for closure of 268-356	Size = 2
		Stack = -3.4  for stack of 270-354
		Stack = -3.3  for stack of 271-353
		Stack = -1.4  for stack of 272-352
	Helix total = -8.1
	Multiloop = 6.5  for closure of 273-351
		Stack = -2.1  for stack of 331-343
		Stack = -2.4  for stack of 332-342
		Stack = -2.1  for stack of 333-341
	Helix total = -6.6
	Hairpin = 4.1  for closure of 334-340
		Stack = -2.4  for stack of 281-329
		Stack = -3.4  for stack of 282-328
		Stack = -2.4  for stack of 283-327
		Stack = -1.5  for stack of 284-326
	Helix total = -9.7
	Internal/bulge = 1.3  for closure of 285-325	Size = 1 BP stack across bulge = -2.5
		Stack = -2.1  for stack of 287-324
		Stack = -2.1  for stack of 288-323
		Stack = -3.4  for stack of 289-322
	Helix total = -7.6
	Internal/bulge = 1.4  for closure of 290-321	Size = 4
		Stack = -1.4  for stack of 293-318
		Stack = -0.5  for stack of 294-317
	Helix total = -1.9
	Hairpin = 6.9  for closure of 295-316
		Stack = -2.2  for stack of 1-217
		Stack = -2.4  for stack of 2-216
		Stack = -3.3  for stack of 3-215
	Helix total = -7.9
	Internal/bulge = 2.3  for closure of 4-214	Size = 4
		Stack = -3.4  for stack of 6-210
		Stack = -2.1  for stack of 7-209
		Stack = -1.4  for stack of 8-208
		Stack = -3.4  for stack of 9-207
	Helix total = -10.3
	Internal/bulge = -1.4  for closure of 10-206	Size = 2
		Stack = -3.3  for stack of 12-204
		Stack = -3.3  for stack of 13-203
		Stack = -3.3  for stack of 14-202
		Stack = -2.4  for stack of 15-201
		Stack = -2.1  for stack of 16-200
	Helix total = -14.4
	Internal/bulge = 8.0  for closure of 17-199	Size = 109
		Stack = -3.3  for stack of 58-129
		Stack = -3.3  for stack of 59-128
		Stack = -2.1  for stack of 60-127
		Stack = -0.9  for stack of 61-126
	Helix total = -9.6
	Internal/bulge = 7.3  for closure of 62-125	Size = 27
		Stack = -3.3  for stack of 87-121
	Helix total = -3.3
	Internal/bulge = 1.2  for closure of 88-120	Size = 2
		Stack = -2.4  for stack of 90-118
		Stack = -2.4  for stack of 91-117
		Stack = -3.4  for stack of 92-116
		Stack = -2.1  for stack of 93-115
		Stack = -2.1  for stack of 94-114
	Helix total = -12.4
	Hairpin = 5.5  for closure of 95-113


	Total energy = -115.7



