Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    94:208 95:207 96:206 97:205 98:204 99:203 100:201 101:200
	    102:199
	Energy of Broken Structure: -123.2
	Energy of Pseudo-Helices:   -13.4
	Pseudoknot Energy Penalty:  9.1
	Total Free Energy:          -127.5
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -2.7
		Stack = -3.3  for stack of 384-443
	Helix total = -3.3
	Internal/bulge = 0.1  for closure of 385-442	Size = 4
	Helix total = 0.0
	Internal/bulge = 3.0  for closure of 388-439	Size = 3
		Stack = -2.1  for stack of 391-437
	Helix total = -2.1
	Internal/bulge = 0.4  for closure of 392-436	Size = 1 BP stack across bulge = -3.4
		Stack = -3.3  for stack of 393-434
		Stack = -3.3  for stack of 394-433
	Helix total = -6.6
	Internal/bulge = 4.7  for closure of 395-432	Size = 8
		Stack = -2.2  for stack of 402-429
		Stack = -2.1  for stack of 403-428
		Stack = -3.4  for stack of 404-427
	Helix total = -7.7
	Internal/bulge = 3.0  for closure of 405-426	Size = 4
		Stack = -2.4  for stack of 407-422
		Stack = -3.3  for stack of 408-421
		Stack = -3.3  for stack of 409-420
	Helix total = -9.0
	Hairpin = 4.7  for closure of 410-419
		Stack = -3.3  for stack of 236-373
	Helix total = -3.3
	Internal/bulge = 0.5  for closure of 237-372	Size = 2
		Stack = -3.4  for stack of 239-370
	Helix total = -3.4
	Internal/bulge = 5.7  for closure of 240-369	Size = 12
		Stack = -3.3  for stack of 243-358
		Stack = -2.4  for stack of 244-357
		Stack = -2.2  for stack of 245-356
		Stack = -2.4  for stack of 246-355
		Stack = -3.3  for stack of 247-354
		Stack = -3.3  for stack of 248-353
	Helix total = -16.9
	Internal/bulge = 2.3  for closure of 249-352	Size = 3
		Stack = -3.4  for stack of 251-349
		Stack = -3.3  for stack of 252-348
		Stack = -2.1  for stack of 253-347
		Stack = -1.5  for stack of 254-346
	Helix total = -10.3
	Internal/bulge = 2.3  for closure of 255-345	Size = 8
		Stack = -3.3  for stack of 260-340
		Stack = -3.3  for stack of 261-339
		Stack = -2.4  for stack of 262-338
		Stack = -3.4  for stack of 263-337
	Helix total = -12.4
	Multiloop = 5.7  for closure of 264-336
		Stack = -2.1  for stack of 316-328
		Stack = -2.4  for stack of 317-327
		Stack = -2.1  for stack of 318-326
	Helix total = -6.6
	Hairpin = 4.7  for closure of 319-325
		Stack = -2.4  for stack of 272-314
		Stack = -3.4  for stack of 273-313
		Stack = -2.4  for stack of 274-312
		Stack = -1.5  for stack of 275-311
	Helix total = -9.7
	Internal/bulge = 1.3  for closure of 276-310	Size = 1 BP stack across bulge = -2.5
		Stack = -2.4  for stack of 278-309
		Stack = -3.3  for stack of 279-308
		Stack = -2.5  for stack of 280-307
	Helix total = -8.2
	Internal/bulge = 3.3  for closure of 281-306	Size = 5
		Stack = -3.3  for stack of 284-302
		Stack = -3.3  for stack of 285-301
	Helix total = -6.6
	Hairpin = 6.3  for closure of 286-300
		Stack = -0.9  for stack of 7-235
		Stack = -2.1  for stack of 8-234
		Stack = -3.4  for stack of 9-233
		Stack = -2.4  for stack of 10-232
		Stack = -1.5  for stack of 11-231
		Stack = -2.1  for stack of 12-230
		Stack = -2.4  for stack of 13-229
		Stack = -2.1  for stack of 14-228
	Helix total = -16.9
	Internal/bulge = 2.3  for closure of 15-227	Size = 3
		Stack = -3.4  for stack of 18-225
		Stack = -2.4  for stack of 19-224
		Stack = -2.4  for stack of 20-223
		Stack = -2.1  for stack of 21-222
	Helix total = -10.3
	Internal/bulge = 3.2  for closure of 22-221	Size = 3
		Stack = -2.4  for stack of 23-217
		Stack = -3.3  for stack of 24-216
		Stack = -3.4  for stack of 25-215
		Stack = -3.3  for stack of 26-214
		Stack = -1.4  for stack of 27-213
	Helix total = -13.8
	Internal/bulge = 8.7  for closure of 28-212	Size = 101
		Stack = -3.3  for stack of 52-133
		Stack = -3.4  for stack of 53-132
		Stack = -2.4  for stack of 54-131
	Helix total = -9.1
	Internal/bulge = 0.3  for closure of 55-130	Size = 1 BP stack across bulge = -2.2
		Stack = -1.3  for stack of 56-128
		Stack = -2.1  for stack of 57-127
		Stack = -3.3  for stack of 58-126
		Stack = -2.2  for stack of 59-125
	Helix total = -8.9
	Internal/bulge = 2.2  for closure of 60-124	Size = 10
		Stack = -3.4  for stack of 66-118
		Stack = -3.3  for stack of 67-117
		Stack = -2.1  for stack of 68-116
		Stack = -1.3  for stack of 69-115
	Helix total = -10.1
	Internal/bulge = 5.1  for closure of 70-114	Size = 9
		Stack = -1.4  for stack of 78-111
		Stack = -2.5  for stack of 79-110
		Stack = -3.3  for stack of 80-109
		Stack = -3.3  for stack of 81-108
		Stack = -2.4  for stack of 82-107
		Stack = -3.4  for stack of 83-106
		Stack = -2.1  for stack of 84-105
		Stack = -2.1  for stack of 85-104
	Helix total = -20.5
	Hairpin = 5.4  for closure of 86-103


	Total energy = -123.2



