Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    52:71 53:70 54:69 55:68 56:67 195:226 196:225 197:224
	    198:223 199:222 200:221 244:279 245:278 246:277 247:276 248:275
	    249:274 250:273 288:305 289:304 290:303 291:302 306:322 308:320
	    309:319
	Energy of Broken Structure: -48.6
	Energy of Pseudo-Helices:   -41.6
	Pseudoknot Energy Penalty:  45.7
	Total Free Energy:          -44.5
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-395
		Stack = -1.5  for stack of 2-394
		Stack = -2.1  for stack of 3-393
		Stack = -3.4  for stack of 4-392
		Stack = -3.3  for stack of 5-391
		Stack = -2.4  for stack of 6-390
	Helix total = -16.0
	Multiloop = 6.5  for closure of 7-389
		Stack = -2.1  for stack of 372-388
		Stack = -3.4  for stack of 373-387
		Stack = -2.1  for stack of 374-386
		Stack = -2.1  for stack of 375-385
	Helix total = -9.7
	Hairpin = 4.4  for closure of 376-384
		Stack = -2.1  for stack of 20-368
		Stack = -0.6  for stack of 21-367
		Stack = -0.5  for stack of 22-366
		Stack = 1.3  for stack of 23-365
		Stack = -0.6  for stack of 24-364
		Stack = -2.1  for stack of 25-363
		Stack = -3.3  for stack of 26-362
	Helix total = -7.9
	Internal/bulge = 1.5  for closure of 27-361	Size = 4
	Helix total = 0.0
	Internal/bulge = 4.0  for closure of 30-358	Size = 5
		Stack = -2.5  for stack of 33-354
		Stack = -2.1  for stack of 34-353
		Stack = -0.9  for stack of 35-352
	Helix total = -5.5
	Internal/bulge = 1.2  for closure of 36-351	Size = 2
		Stack = -3.3  for stack of 38-349
	Helix total = -3.3
	Internal/bulge = 0.5  for closure of 39-348	Size = 4
	Helix total = 0.0
	Internal/bulge = -0.7  for closure of 42-345	Size = 2
		Stack = -1.1  for stack of 44-343
	Helix total = -1.1
	Internal/bulge = 3.0  for closure of 45-342	Size = 4
		Stack = -2.1  for stack of 47-338
		Stack = -2.1  for stack of 48-337
		Stack = -3.3  for stack of 49-336
		Stack = -2.2  for stack of 50-335
	Helix total = -9.7
	Multiloop = 5.8  for closure of 51-334
		Stack = -2.2  for stack of 312-330
		Stack = -2.4  for stack of 313-329
		Stack = -3.3  for stack of 314-328
		Stack = -2.1  for stack of 315-327
	Helix total = -10.0
	Hairpin = 5.9  for closure of 316-326
		Stack = -1.1  for stack of 281-297
		Stack = -2.4  for stack of 282-296
		Stack = -3.3  for stack of 283-295
		Stack = -3.3  for stack of 284-294
	Helix total = -10.1
	Hairpin = 4.5  for closure of 285-293
		Stack = -0.9  for stack of 231-261
		Stack = -2.1  for stack of 232-260
		Stack = -2.2  for stack of 233-259
		Stack = -0.9  for stack of 234-258
		Stack = -0.9  for stack of 235-257
		Stack = -1.0  for stack of 236-256
		Stack = -2.1  for stack of 237-255
		Stack = -3.4  for stack of 238-254
		Stack = -2.1  for stack of 239-253
	Helix total = -15.6
	Hairpin = 6.6  for closure of 240-252
		Stack = -2.2  for stack of 181-213
		Stack = -2.1  for stack of 182-212
		Stack = -0.6  for stack of 183-211
		Stack = -2.4  for stack of 184-210
		Stack = -2.1  for stack of 185-209
	Helix total = -9.4
	Internal/bulge = 0.8  for closure of 186-208	Size = 4
		Stack = -2.4  for stack of 189-205
		Stack = -2.1  for stack of 190-204
	Helix total = -4.5
	Hairpin = 5.7  for closure of 191-203
	Helix total = 0.0
	Internal/bulge = 1.1  for closure of 112-164	Size = 4
		Stack = -0.6  for stack of 115-161
	Helix total = -0.6
	Internal/bulge = 2.9  for closure of 116-160	Size = 4
	Helix total = 0.0
	Internal/bulge = 3.5  for closure of 119-157	Size = 14
		Stack = 1.3  for stack of 127-149
		Stack = -1.0  for stack of 128-148
		Stack = -2.1  for stack of 129-147
	Helix total = -1.8
	Internal/bulge = 0.5  for closure of 130-146	Size = 2
	Helix total = 0.0
	Hairpin = 5.1  for closure of 132-144
		Stack = -2.1  for stack of 58-86
		Stack = -2.4  for stack of 59-85
		Stack = -2.1  for stack of 60-84
		Stack = -2.5  for stack of 61-83
		Stack = -1.5  for stack of 62-82
	Helix total = -10.6
	Hairpin = 6.1  for closure of 63-81


	Total energy = -48.6



