Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    98:234 99:233 100:232 101:231 102:230 103:229 104:227 105:226
	    106:225
	Energy of Broken Structure: -106.6
	Energy of Pseudo-Helices:   -14.0
	Pseudoknot Energy Penalty:  9.0
	Total Free Energy:          -111.6
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.8
		Stack = -2.4  for stack of 393-457
		Stack = -2.1  for stack of 394-456
		Stack = -3.4  for stack of 395-455
		Stack = -2.4  for stack of 396-454
		Stack = -1.5  for stack of 397-453
		Stack = -2.5  for stack of 398-452
		Stack = -2.4  for stack of 399-451
		Stack = -3.4  for stack of 400-450
		Stack = -3.3  for stack of 401-449
	Helix total = -23.4
	Internal/bulge = 5.9  for closure of 402-448	Size = 15
		Stack = -3.3  for stack of 416-445
		Stack = -2.4  for stack of 417-444
		Stack = -3.4  for stack of 418-443
		Stack = -2.4  for stack of 419-442
		Stack = -3.4  for stack of 420-441
	Helix total = -14.9
	Internal/bulge = 0.0  for closure of 421-440	Size = 2
		Stack = -3.3  for stack of 423-438
		Stack = -3.3  for stack of 424-437
		Stack = -3.3  for stack of 425-436
	Helix total = -9.9
	Hairpin = 3.4  for closure of 426-435
		Stack = -2.1  for stack of 261-380
		Stack = -2.1  for stack of 262-379
		Stack = -3.3  for stack of 263-378
		Stack = -3.3  for stack of 264-377
		Stack = -3.3  for stack of 265-376
	Helix total = -14.1
	Internal/bulge = 6.5  for closure of 266-375	Size = 25
		Stack = -3.3  for stack of 269-351
		Stack = -3.3  for stack of 270-350
		Stack = -2.4  for stack of 271-349
		Stack = -3.4  for stack of 272-348
	Helix total = -12.4
	Internal/bulge = 4.9  for closure of 273-347	Size = 6
		Stack = -1.5  for stack of 274-340
		Stack = -2.4  for stack of 275-339
	Helix total = -3.9
	Multiloop = 6.3  for closure of 276-338
		Stack = -2.1  for stack of 317-329
		Stack = -2.4  for stack of 318-328
		Stack = -2.1  for stack of 319-327
	Helix total = -6.6
	Hairpin = 4.7  for closure of 320-326
		Stack = -2.4  for stack of 283-315
		Stack = -3.4  for stack of 284-314
		Stack = -2.4  for stack of 285-313
		Stack = -3.3  for stack of 286-312
	Helix total = -11.5
	Internal/bulge = 0.4  for closure of 287-311	Size = 1 BP stack across bulge = -3.4
		Stack = -2.4  for stack of 289-310
		Stack = -3.3  for stack of 290-309
		Stack = -3.4  for stack of 291-308
	Helix total = -9.1
	Internal/bulge = 2.3  for closure of 292-307	Size = 4
		Stack = -3.3  for stack of 294-303
		Stack = -3.4  for stack of 295-302
	Helix total = -6.7
	Hairpin = 4.1  for closure of 296-301
		Stack = -1.4  for stack of 5-255
	Helix total = -1.4
	Internal/bulge = -1.4  for closure of 6-254	Size = 2
	Helix total = 0.0
	Internal/bulge = 0.5  for closure of 8-252	Size = 1 BP stack across bulge = -3.3
		Stack = -3.3  for stack of 10-251
		Stack = -3.3  for stack of 11-250
		Stack = -2.5  for stack of 12-249
		Stack = -1.4  for stack of 13-248
		Stack = -1.5  for stack of 14-247
	Helix total = -12.0
	Internal/bulge = 3.3  for closure of 15-246	Size = 5
		Stack = -1.5  for stack of 18-242
		Stack = -2.5  for stack of 19-241
		Stack = -2.1  for stack of 20-240
		Stack = -1.5  for stack of 21-239
	Helix total = -7.6
	Internal/bulge = 7.3  for closure of 22-238	Size = 135
		Stack = -2.1  for stack of 59-138
	Helix total = -2.1
	Internal/bulge = 3.7  for closure of 60-137	Size = 4
		Stack = -1.5  for stack of 62-133
	Helix total = -1.5
	Internal/bulge = 3.6  for closure of 63-132	Size = 13
		Stack = -3.4  for stack of 69-123
		Stack = -2.1  for stack of 70-122
		Stack = -2.4  for stack of 71-121
		Stack = -3.3  for stack of 72-120
	Helix total = -11.2
	Internal/bulge = 4.9  for closure of 73-119	Size = 10
		Stack = -2.4  for stack of 81-115
		Stack = -3.4  for stack of 82-114
		Stack = -3.3  for stack of 83-113
		Stack = -3.3  for stack of 84-112
		Stack = -2.4  for stack of 85-111
		Stack = -3.4  for stack of 86-110
		Stack = -2.1  for stack of 87-109
		Stack = -2.1  for stack of 88-108
	Helix total = -22.4
	Hairpin = 5.5  for closure of 89-107


	Total energy = -106.6



