Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    55:68 56:67 57:66 193:226 194:225 195:224 196:223 197:222
	    198:221 199:220 239:265 240:264 241:263 242:262 283:323 284:322
	    285:321 286:320 287:319 288:318 289:317 290:316
	Energy of Broken Structure: -50.7
	Energy of Pseudo-Helices:   -31.8
	Pseudoknot Energy Penalty:  47.4
	Total Free Energy:          -35.1
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-384
		Stack = -1.5  for stack of 2-383
		Stack = -2.1  for stack of 3-382
		Stack = -2.4  for stack of 4-381
		Stack = -1.1  for stack of 5-380
		Stack = -2.1  for stack of 6-379
	Helix total = -12.5
	Multiloop = 6.5  for closure of 7-378
		Stack = -2.2  for stack of 361-377
		Stack = -2.4  for stack of 362-376
		Stack = -3.3  for stack of 363-375
		Stack = -3.3  for stack of 364-374
	Helix total = -11.2
	Hairpin = 4.4  for closure of 365-373
		Stack = -2.1  for stack of 20-357
		Stack = -1.1  for stack of 21-356
		Stack = -1.3  for stack of 22-355
		Stack = -0.9  for stack of 23-354
	Helix total = -5.4
	Internal/bulge = 0.8  for closure of 24-353	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.7  for closure of 26-351	Size = 6
	Helix total = 0.0
	Internal/bulge = 2.6  for closure of 30-347	Size = 3
		Stack = -1.3  for stack of 33-345
		Stack = -2.2  for stack of 34-344
		Stack = -2.1  for stack of 35-343
		Stack = -0.9  for stack of 36-342
		Stack = -0.9  for stack of 37-341
		Stack = -2.2  for stack of 38-340
		Stack = -2.1  for stack of 39-339
		Stack = -2.1  for stack of 40-338
		Stack = -2.5  for stack of 41-337
	Helix total = -16.3
	Internal/bulge = 5.2  for closure of 42-336	Size = 5
		Stack = -2.5  for stack of 44-331
		Stack = -2.1  for stack of 45-330
		Stack = -1.1  for stack of 46-329
		Stack = -0.9  for stack of 47-328
	Helix total = -6.6
	Multiloop = 9.8  for closure of 48-327
		Stack = -0.9  for stack of 269-305
		Stack = -2.1  for stack of 270-304
		Stack = -2.2  for stack of 271-303
		Stack = -0.9  for stack of 272-302
		Stack = -0.9  for stack of 273-301
		Stack = -2.4  for stack of 274-300
		Stack = -3.3  for stack of 275-299
	Helix total = -12.7
	Internal/bulge = 3.0  for closure of 276-298	Size = 4
		Stack = -2.1  for stack of 278-294
		Stack = -2.4  for stack of 279-293
		Stack = -1.1  for stack of 280-292
	Helix total = -5.6
	Hairpin = 6.2  for closure of 281-291
		Stack = -1.3  for stack of 228-253
		Stack = -2.1  for stack of 229-252
		Stack = -3.3  for stack of 230-251
		Stack = -2.2  for stack of 231-250
		Stack = -0.9  for stack of 232-249
		Stack = -1.3  for stack of 233-248
		Stack = -0.9  for stack of 234-247
		Stack = -0.9  for stack of 235-246
		Stack = -1.1  for stack of 236-245
	Helix total = -14.0
	Hairpin = 5.2  for closure of 237-244
		Stack = -2.2  for stack of 180-212
		Stack = -2.1  for stack of 181-211
		Stack = -2.1  for stack of 182-210
		Stack = -3.4  for stack of 183-209
		Stack = -2.1  for stack of 184-208
		Stack = -1.0  for stack of 185-207
		Stack = -2.1  for stack of 186-206
		Stack = -2.5  for stack of 187-205
		Stack = 0.3  for stack of 188-204
		Stack = -1.3  for stack of 189-203
		Stack = -0.9  for stack of 190-202
		Stack = -1.4  for stack of 191-201
	Helix total = -20.8
	Hairpin = 5.5  for closure of 192-200
	Helix total = 0.0
	Internal/bulge = 3.1  for closure of 150-174	Size = 8
		Stack = -1.3  for stack of 155-169
		Stack = -0.6  for stack of 156-168
	Helix total = -1.9
	Hairpin = 5.5  for closure of 157-167
		Stack = -0.5  for stack of 49-62
		Stack = -2.1  for stack of 50-61
		Stack = -3.3  for stack of 51-60
	Helix total = -5.9
	Hairpin = 4.4  for closure of 52-59


	Total energy = -50.7



