Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    53:72 55:70 56:69 57:68 224:255 225:254 226:253 227:252
	    228:251 229:250 270:306 272:304 273:303 274:302 275:301 276:300
	    277:299 323:360 324:359 325:358 326:357 327:356 328:355 329:354
	    330:353 331:352
	Energy of Broken Structure: -36.6
	Energy of Pseudo-Helices:   -28.1
	Pseudoknot Energy Penalty:  32.4
	Total Free Energy:          -32.3
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-422
		Stack = -1.5  for stack of 2-421
		Stack = -2.1  for stack of 3-420
		Stack = -2.4  for stack of 4-419
		Stack = -1.1  for stack of 5-418
		Stack = -2.1  for stack of 6-417
	Helix total = -12.5
	Multiloop = 7.4  for closure of 7-416
		Stack = -1.1  for stack of 399-415
		Stack = -2.1  for stack of 400-414
		Stack = -3.3  for stack of 401-413
		Stack = -3.3  for stack of 402-412
	Helix total = -9.8
	Hairpin = 4.4  for closure of 403-411
		Stack = -2.1  for stack of 20-395
		Stack = -0.9  for stack of 21-394
		Stack = -0.6  for stack of 22-393
		Stack = -0.5  for stack of 23-392
		Stack = -1.4  for stack of 24-391
		Stack = -2.4  for stack of 25-390
		Stack = -2.1  for stack of 26-389
	Helix total = -10.0
	Internal/bulge = 2.9  for closure of 27-388	Size = 8
		Stack = -0.9  for stack of 32-383
		Stack = -1.1  for stack of 33-382
		Stack = -0.9  for stack of 34-381
		Stack = -0.9  for stack of 35-380
		Stack = -1.3  for stack of 36-379
		Stack = -1.1  for stack of 37-378
		Stack = -1.3  for stack of 38-377
		Stack = -1.1  for stack of 39-376
		Stack = -1.3  for stack of 40-375
	Helix total = -9.9
	Internal/bulge = 5.1  for closure of 41-374	Size = 6
		Stack = -2.1  for stack of 43-368
		Stack = -1.1  for stack of 44-367
		Stack = -1.3  for stack of 45-366
		Stack = -1.1  for stack of 46-365
	Helix total = -5.6
	Multiloop = 3.8  for closure of 47-364
		Stack = -2.5  for stack of 307-343
		Stack = -1.0  for stack of 308-342
		Stack = -0.9  for stack of 309-341
		Stack = -1.1  for stack of 310-340
	Helix total = -5.5
	Internal/bulge = 2.3  for closure of 311-339	Size = 1 BP stack across bulge = -0.9
	Helix total = 0.0
	Internal/bulge = 3.3  for closure of 313-338	Size = 5
		Stack = -1.5  for stack of 316-334
		Stack = -1.3  for stack of 317-333
	Helix total = -2.8
	Hairpin = 5.6  for closure of 318-332
		Stack = -0.9  for stack of 256-292
		Stack = -0.9  for stack of 257-291
		Stack = -2.1  for stack of 258-290
		Stack = -3.4  for stack of 259-289
		Stack = -2.1  for stack of 260-288
	Helix total = -9.4
	Internal/bulge = 3.1  for closure of 261-287	Size = 8
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 266-282	Size = 2
	Helix total = 0.0
	Hairpin = 6.3  for closure of 268-280
		Stack = -3.3  for stack of 210-242
	Helix total = -3.3
	Internal/bulge = 0.0  for closure of 211-241	Size = 6
		Stack = -2.1  for stack of 215-237
		Stack = -0.9  for stack of 216-236
		Stack = -1.3  for stack of 217-235
		Stack = -0.9  for stack of 218-234
		Stack = -0.9  for stack of 219-233
		Stack = -1.1  for stack of 220-232
		Stack = -1.3  for stack of 221-231
	Helix total = -8.5
	Hairpin = 5.7  for closure of 222-230
		Stack = -0.9  for stack of 185-208
		Stack = -1.3  for stack of 186-207
		Stack = -0.6  for stack of 187-206
		Stack = -2.1  for stack of 188-205
		Stack = -3.4  for stack of 189-204
		Stack = -2.1  for stack of 190-203
		Stack = -0.9  for stack of 191-202
		Stack = -1.3  for stack of 192-201
	Helix total = -12.6
	Hairpin = 5.1  for closure of 193-200
		Stack = -2.1  for stack of 48-61
		Stack = -0.9  for stack of 49-60
		Stack = -2.1  for stack of 50-59
	Helix total = -5.1
	Hairpin = 3.2  for closure of 51-58


	Total energy = -36.6



