Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    52:71 53:70 54:69 55:68 56:67 181:215 182:214 183:213
	    184:212 185:211 186:210 232:266 233:265 234:264 235:263 236:262
	    237:261 238:260 269:283 270:282 271:281 272:280 293:309 295:307
	    296:306
	Energy of Broken Structure: -54.9
	Energy of Pseudo-Helices:   -45.2
	Pseudoknot Energy Penalty:  51.8
	Total Free Energy:          -48.3
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-382
		Stack = -1.5  for stack of 2-381
		Stack = -2.1  for stack of 3-380
		Stack = -3.4  for stack of 4-379
		Stack = -3.3  for stack of 5-378
		Stack = -2.4  for stack of 6-377
	Helix total = -16.0
	Multiloop = 6.5  for closure of 7-376
		Stack = -2.1  for stack of 359-375
		Stack = -3.4  for stack of 360-374
		Stack = -2.1  for stack of 361-373
		Stack = -2.1  for stack of 362-372
	Helix total = -9.7
	Hairpin = 4.4  for closure of 363-371
		Stack = -2.1  for stack of 20-355
		Stack = -2.1  for stack of 21-354
		Stack = -1.5  for stack of 22-353
		Stack = -2.5  for stack of 23-352
		Stack = -2.1  for stack of 24-351
		Stack = -2.1  for stack of 25-350
		Stack = -3.3  for stack of 26-349
	Helix total = -15.7
	Internal/bulge = 1.5  for closure of 27-348	Size = 4
	Helix total = 0.0
	Internal/bulge = 2.8  for closure of 30-345	Size = 7
		Stack = -3.3  for stack of 34-340
	Helix total = -3.3
	Internal/bulge = 1.2  for closure of 35-339	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 37-337	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.0  for closure of 39-335	Size = 4
	Helix total = 0.0
	Internal/bulge = -0.7  for closure of 42-332	Size = 2
		Stack = -1.1  for stack of 44-330
		Stack = -0.9  for stack of 45-329
	Helix total = -2.0
	Internal/bulge = 3.3  for closure of 46-328	Size = 2
		Stack = -2.1  for stack of 47-325
		Stack = -2.1  for stack of 48-324
		Stack = -3.3  for stack of 49-323
		Stack = -2.5  for stack of 50-322
	Helix total = -10.0
	Multiloop = 4.9  for closure of 51-321
		Stack = -2.2  for stack of 299-317
		Stack = -2.4  for stack of 300-316
		Stack = -2.1  for stack of 301-315
	Helix total = -6.7
	Hairpin = 5.1  for closure of 302-314
		Stack = -2.4  for stack of 275-292
		Stack = -2.5  for stack of 276-291
		Stack = -0.6  for stack of 277-290
		Stack = -2.4  for stack of 278-289
	Helix total = -7.9
	Hairpin = 4.0  for closure of 279-288
		Stack = -2.1  for stack of 220-249
		Stack = -1.3  for stack of 221-248
		Stack = -1.0  for stack of 222-247
		Stack = -0.9  for stack of 223-246
		Stack = -1.4  for stack of 224-245
		Stack = -1.0  for stack of 225-244
		Stack = -2.1  for stack of 226-243
		Stack = -3.4  for stack of 227-242
		Stack = -2.1  for stack of 228-241
		Stack = -1.0  for stack of 229-240
	Helix total = -16.3
	Hairpin = 5.3  for closure of 230-239
		Stack = -2.2  for stack of 167-200
		Stack = -3.3  for stack of 168-199
		Stack = -2.1  for stack of 169-198
		Stack = -2.4  for stack of 170-197
		Stack = -2.1  for stack of 171-196
	Helix total = -12.1
	Internal/bulge = 4.1  for closure of 172-195	Size = 1 BP stack across bulge = 0.3
	Helix total = 0.0
	Internal/bulge = 2.1  for closure of 173-193	Size = 4
		Stack = -2.1  for stack of 176-190
	Helix total = -2.1
	Hairpin = 5.7  for closure of 177-189
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 114-158	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.1  for closure of 116-156	Size = 12
		Stack = -2.1  for stack of 123-149
	Helix total = -2.1
	Internal/bulge = -0.1  for closure of 124-148	Size = 4
	Helix total = 0.0
	Internal/bulge = 0.0  for closure of 127-145	Size = 6
		Stack = -3.4  for stack of 131-141
		Stack = -2.1  for stack of 132-140
		Stack = -2.1  for stack of 133-139
	Helix total = -7.6
	Hairpin = 5.4  for closure of 134-138
		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 = -2.2  for stack of 61-83
		Stack = -2.4  for stack of 62-82
	Helix total = -11.2
	Hairpin = 6.1  for closure of 63-81


	Total energy = -54.9



