Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    47:67 48:66 49:65 50:64 51:63 210:244 211:243 212:242
	    213:241 214:240 215:239 263:298 264:297 265:296 266:295 267:294
	    268:293 269:292 316:356 317:355 318:354 319:353 320:352 321:351
	    322:350 323:349
	Energy of Broken Structure: -63.0
	Energy of Pseudo-Helices:   -48.4
	Pseudoknot Energy Penalty:  36.6
	Total Free Energy:          -74.8
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-417
		Stack = -1.5  for stack of 2-416
		Stack = -2.1  for stack of 3-415
		Stack = -3.3  for stack of 4-414
		Stack = -2.2  for stack of 5-413
		Stack = -2.1  for stack of 6-412
	Helix total = -14.5
	Multiloop = 5.1  for closure of 7-411
		Stack = -2.4  for stack of 394-410
		Stack = -2.1  for stack of 395-409
		Stack = -2.4  for stack of 396-408
		Stack = -2.1  for stack of 397-407
	Helix total = -9.0
	Hairpin = 4.4  for closure of 398-406
		Stack = -2.1  for stack of 20-390
		Stack = -0.9  for stack of 21-389
		Stack = -1.3  for stack of 22-388
		Stack = -2.1  for stack of 23-387
	Helix total = -6.4
	Internal/bulge = 1.2  for closure of 24-386	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.3  for closure of 26-384	Size = 1 BP stack across bulge = -0.9
		Stack = -1.4  for stack of 27-382
	Helix total = -1.4
	Internal/bulge = 1.0  for closure of 28-381	Size = 8
		Stack = -2.4  for stack of 33-376
		Stack = -2.5  for stack of 34-375
		Stack = -0.6  for stack of 35-374
		Stack = -1.3  for stack of 36-373
		Stack = -0.9  for stack of 37-372
		Stack = -1.4  for stack of 38-371
		Stack = -0.5  for stack of 39-370
	Helix total = -9.6
	Internal/bulge = 4.5  for closure of 40-369	Size = 5
		Stack = -2.1  for stack of 42-364
		Stack = -1.1  for stack of 43-363
		Stack = -2.1  for stack of 44-362
		Stack = -3.4  for stack of 45-361
	Helix total = -8.7
	Multiloop = 4.6  for closure of 46-360
		Stack = -2.4  for stack of 299-339
		Stack = -2.2  for stack of 300-338
		Stack = -0.9  for stack of 301-337
		Stack = -1.0  for stack of 302-336
	Helix total = -6.5
	Internal/bulge = 3.3  for closure of 303-335	Size = 1 BP stack across bulge = -0.5
		Stack = -1.4  for stack of 304-333
		Stack = -2.4  for stack of 305-332
		Stack = -2.1  for stack of 306-331
		Stack = -2.4  for stack of 307-330
		Stack = -2.1  for stack of 308-329
	Helix total = -10.4
	Internal/bulge = 1.9  for closure of 309-328	Size = 2
		Stack = -1.0  for stack of 311-326
		Stack = -2.1  for stack of 312-325
	Helix total = -3.1
	Hairpin = 5.2  for closure of 313-324
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 245-284	Size = 2
		Stack = -1.3  for stack of 247-282
		Stack = -0.9  for stack of 248-281
		Stack = -1.1  for stack of 249-280
		Stack = -0.9  for stack of 250-279
		Stack = -1.3  for stack of 251-278
		Stack = -2.1  for stack of 252-277
	Helix total = -7.6
	Internal/bulge = -1.9  for closure of 253-276	Size = 4
		Stack = -3.3  for stack of 256-273
		Stack = -2.1  for stack of 257-272
		Stack = -0.6  for stack of 258-271
	Helix total = -6.0
	Hairpin = 6.3  for closure of 259-270
		Stack = -2.4  for stack of 193-231
		Stack = -3.3  for stack of 194-230
		Stack = -2.5  for stack of 195-229
		Stack = -1.4  for stack of 196-228
	Helix total = -9.6
	Internal/bulge = 1.0  for closure of 197-227	Size = 1 BP stack across bulge = -2.2
		Stack = -0.9  for stack of 198-225
		Stack = -2.4  for stack of 199-224
		Stack = -2.4  for stack of 200-223
	Helix total = -5.7
	Internal/bulge = 1.2  for closure of 201-222	Size = 2
		Stack = -1.3  for stack of 203-220
		Stack = -0.6  for stack of 204-219
		Stack = -2.5  for stack of 205-218
		Stack = -2.1  for stack of 206-217
	Helix total = -6.5
	Hairpin = 5.3  for closure of 207-216
		Stack = -0.9  for stack of 135-190
		Stack = -1.3  for stack of 136-189
	Helix total = -2.2
	Internal/bulge = 1.9  for closure of 137-188	Size = 2
		Stack = 0.3  for stack of 139-186
	Helix total = 0.3
	Internal/bulge = 1.9  for closure of 140-185	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 142-183	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.1  for closure of 144-181	Size = 4
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 147-178	Size = 2
		Stack = -2.2  for stack of 149-176
	Helix total = -2.2
	Internal/bulge = 1.9  for closure of 150-175	Size = 2
		Stack = -2.5  for stack of 152-173
	Helix total = -2.5
	Internal/bulge = 1.1  for closure of 153-172	Size = 2
		Stack = -2.5  for stack of 155-170
		Stack = -2.1  for stack of 156-169
		Stack = -0.9  for stack of 157-168
	Helix total = -5.5
	Hairpin = 5.0  for closure of 158-167
		Stack = -2.2  for stack of 54-79
		Stack = -1.3  for stack of 55-78
		Stack = -1.4  for stack of 56-77
		Stack = -3.3  for stack of 57-76
		Stack = -3.4  for stack of 58-75
		Stack = -2.1  for stack of 59-74
	Helix total = -13.7
	Hairpin = 5.2  for closure of 60-73


	Total energy = -63.0



