Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    230:331 232:330 233:329 234:328 235:327 236:326
	Energy of Broken Structure: -68.7
	Energy of Pseudo-Helices:   -8.0
	Pseudoknot Energy Penalty:  7.6
	Total Free Energy:          -69.1
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -4.2
		Stack = -1.3  for stack of 390-425
		Stack = -0.9  for stack of 391-424
		Stack = -0.9  for stack of 392-423
		Stack = -0.9  for stack of 393-422
		Stack = -1.1  for stack of 394-421
		Stack = -1.3  for stack of 395-420
		Stack = -0.9  for stack of 396-419
		Stack = -0.9  for stack of 397-418
		Stack = -0.9  for stack of 398-417
		Stack = -0.9  for stack of 399-416
	Helix total = -10.0
	Internal/bulge = 1.9  for closure of 400-415	Size = 2
		Stack = -0.9  for stack of 402-413
		Stack = -1.3  for stack of 403-412
		Stack = -0.9  for stack of 404-411
	Helix total = -3.1
	Hairpin = 5.6  for closure of 405-410
		Stack = -2.1  for stack of 352-389
		Stack = -2.2  for stack of 353-388
		Stack = -0.9  for stack of 354-387
		Stack = -0.9  for stack of 355-386
		Stack = -0.9  for stack of 356-385
		Stack = -2.1  for stack of 357-384
	Helix total = -9.1
	Internal/bulge = 3.0  for closure of 358-383	Size = 4
		Stack = -0.9  for stack of 360-379
		Stack = -2.1  for stack of 361-378
		Stack = -2.2  for stack of 362-377
		Stack = -0.9  for stack of 363-376
		Stack = -0.9  for stack of 364-375
		Stack = -2.4  for stack of 365-374
	Helix total = -9.4
	Hairpin = 3.3  for closure of 366-373
		Stack = -2.1  for stack of 336-351
		Stack = -0.9  for stack of 337-350
		Stack = -1.3  for stack of 338-349
		Stack = -1.1  for stack of 339-348
		Stack = -2.1  for stack of 340-347
	Helix total = -7.5
	Hairpin = 4.5  for closure of 341-346
		Stack = -2.1  for stack of 246-319
		Stack = -2.2  for stack of 247-318
		Stack = -3.3  for stack of 248-317
		Stack = -3.3  for stack of 249-316
	Helix total = -10.9
	Internal/bulge = 3.3  for closure of 250-315	Size = 2
		Stack = -1.3  for stack of 253-314
		Stack = -0.9  for stack of 254-313
		Stack = -0.9  for stack of 255-312
	Helix total = -3.1
	Internal/bulge = 2.9  for closure of 256-311	Size = 1 BP stack across bulge = -0.9
		Stack = -0.9  for stack of 257-309
		Stack = -0.9  for stack of 258-308
	Helix total = -1.8
	Internal/bulge = 3.2  for closure of 259-307	Size = 6
		Stack = -1.3  for stack of 264-304
		Stack = -1.1  for stack of 265-303
		Stack = -0.9  for stack of 266-302
		Stack = -1.3  for stack of 267-301
		Stack = -1.1  for stack of 268-300
		Stack = -1.3  for stack of 269-299
	Helix total = -7.0
	Internal/bulge = 3.0  for closure of 270-298	Size = 4
		Stack = -2.2  for stack of 272-294
		Stack = -1.3  for stack of 273-293
		Stack = -0.9  for stack of 274-292
		Stack = -0.9  for stack of 275-291
		Stack = -2.2  for stack of 276-290
		Stack = -2.1  for stack of 277-289
		Stack = -2.2  for stack of 278-288
		Stack = -2.4  for stack of 279-287
		Stack = -3.4  for stack of 280-286
	Helix total = -17.6
	Hairpin = 5.4  for closure of 281-285
		Stack = -2.4  for stack of 42-245
		Stack = -2.1  for stack of 43-244
		Stack = -1.4  for stack of 44-243
		Stack = -3.3  for stack of 45-242
		Stack = -3.4  for stack of 46-241
	Helix total = -12.6
	Multiloop = 7.1  for closure of 47-240
		Stack = -3.3  for stack of 194-226
	Helix total = -3.3
	Internal/bulge = 5.6  for closure of 195-225	Size = 10
		Stack = -1.0  for stack of 203-221
		Stack = -1.1  for stack of 204-220
		Stack = -1.0  for stack of 205-219
		Stack = -1.3  for stack of 206-218
		Stack = -2.2  for stack of 207-217
		Stack = -2.1  for stack of 208-216
		Stack = -0.9  for stack of 209-215
	Helix total = -9.6
	Hairpin = 5.9  for closure of 210-214
		Stack = -2.1  for stack of 52-193
		Stack = -3.4  for stack of 53-192
		Stack = -2.1  for stack of 54-191
		Stack = -2.1  for stack of 55-190
		Stack = -1.5  for stack of 56-189
	Helix total = -11.2
	Internal/bulge = 3.1  for closure of 57-188	Size = 7
		Stack = -2.4  for stack of 62-184
		Stack = -3.3  for stack of 63-183
	Helix total = -5.7
	Hairpin = 7.7  for closure of 64-182
		Stack = -0.9  for stack of 17-34
		Stack = -1.3  for stack of 18-33
		Stack = -2.1  for stack of 19-32
		Stack = -2.4  for stack of 20-31
		Stack = -1.1  for stack of 21-30
		Stack = -1.3  for stack of 22-29
	Helix total = -9.1
	Hairpin = 4.4  for closure of 23-28
		Stack = -3.4  for stack of 1-14
		Stack = -2.1  for stack of 2-13
		Stack = -0.5  for stack of 3-12
		Stack = -1.5  for stack of 4-11
	Helix total = -7.5
	Hairpin = 4.1  for closure of 5-10


	Total energy = -68.7



