Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    47:67 48:66 49:65 50:64 51:63 216:250 217:249 218:248
	    219:247 220:246 221:245 269:303 270:302 271:301 272:300 273:299
	    274:298 275:297 321:360 322:359 323:358 324:357 325:356 326:355
	    327:354 328:353
	Energy of Broken Structure: -62.5
	Energy of Pseudo-Helices:   -44.3
	Pseudoknot Energy Penalty:  36.6
	Total Free Energy:          -70.2
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-421
		Stack = -1.5  for stack of 2-420
		Stack = -2.1  for stack of 3-419
		Stack = -3.3  for stack of 4-418
		Stack = -2.2  for stack of 5-417
		Stack = -2.1  for stack of 6-416
	Helix total = -14.5
	Multiloop = 5.1  for closure of 7-415
		Stack = -2.4  for stack of 398-414
		Stack = -2.1  for stack of 399-413
		Stack = -2.4  for stack of 400-412
		Stack = -2.1  for stack of 401-411
	Helix total = -9.0
	Hairpin = 4.4  for closure of 402-410
		Stack = -2.1  for stack of 20-394
		Stack = -0.9  for stack of 21-393
		Stack = -1.0  for stack of 22-392
		Stack = -2.1  for stack of 23-391
	Helix total = -6.1
	Internal/bulge = 1.2  for closure of 24-390	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.3  for closure of 26-388	Size = 1 BP stack across bulge = -0.9
		Stack = -1.4  for stack of 27-386
	Helix total = -1.4
	Internal/bulge = 1.7  for closure of 28-385	Size = 8
		Stack = -2.1  for stack of 33-380
		Stack = -2.5  for stack of 34-379
		Stack = -0.6  for stack of 35-378
		Stack = -1.3  for stack of 36-377
		Stack = -0.9  for stack of 37-376
		Stack = -1.4  for stack of 38-375
		Stack = -0.5  for stack of 39-374
	Helix total = -9.3
	Internal/bulge = 4.5  for closure of 40-373	Size = 5
		Stack = -2.1  for stack of 42-368
		Stack = -1.1  for stack of 43-367
		Stack = -2.1  for stack of 44-366
		Stack = -3.4  for stack of 45-365
	Helix total = -8.7
	Multiloop = 4.5  for closure of 46-364
		Stack = -1.4  for stack of 304-344
		Stack = -1.4  for stack of 305-343
		Stack = -0.9  for stack of 306-342
		Stack = -2.1  for stack of 307-341
	Helix total = -5.8
	Internal/bulge = 1.9  for closure of 308-340	Size = 1 BP stack across bulge = -1.5
		Stack = -2.5  for stack of 309-338
		Stack = -2.1  for stack of 310-337
		Stack = -0.9  for stack of 311-336
		Stack = -2.4  for stack of 312-335
		Stack = -3.3  for stack of 313-334
	Helix total = -11.2
	Internal/bulge = 0.6  for closure of 314-333	Size = 2
		Stack = -1.0  for stack of 316-331
		Stack = -2.1  for stack of 317-330
	Helix total = -3.1
	Hairpin = 5.2  for closure of 318-329
	Helix total = 0.0
	Internal/bulge = -1.4  for closure of 251-290	Size = 2
		Stack = -2.4  for stack of 253-288
		Stack = -0.9  for stack of 254-287
		Stack = -1.1  for stack of 255-286
	Helix total = -4.4
	Internal/bulge = 1.6  for closure of 256-285	Size = 4
		Stack = -2.2  for stack of 259-282
		Stack = -3.3  for stack of 260-281
		Stack = -2.1  for stack of 261-280
		Stack = -1.3  for stack of 262-279
		Stack = -1.5  for stack of 263-278
		Stack = -2.1  for stack of 264-277
	Helix total = -12.5
	Hairpin = 6.3  for closure of 265-276
		Stack = -2.4  for stack of 199-237
		Stack = -3.3  for stack of 200-236
		Stack = -2.2  for stack of 201-235
		Stack = -2.1  for stack of 202-234
	Helix total = -10.0
	Internal/bulge = 3.0  for closure of 203-233	Size = 3
		Stack = -2.4  for stack of 205-230
		Stack = -2.1  for stack of 206-229
		Stack = -1.4  for stack of 207-228
		Stack = -1.0  for stack of 208-227
		Stack = -0.6  for stack of 209-226
		Stack = -1.3  for stack of 210-225
		Stack = -2.2  for stack of 211-224
		Stack = -2.1  for stack of 212-223
	Helix total = -13.1
	Hairpin = 5.3  for closure of 213-222
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 130-196	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 132-194	Size = 2
		Stack = -2.1  for stack of 134-192
	Helix total = -2.1
	Internal/bulge = 3.0  for closure of 135-191	Size = 8
	Helix total = 0.0
	Internal/bulge = 2.4  for closure of 140-186	Size = 4
	Helix total = 0.0
	Internal/bulge = 3.4  for closure of 143-183	Size = 6
	Helix total = 0.0
	Internal/bulge = 3.4  for closure of 147-179	Size = 4
		Stack = -1.0  for stack of 150-176
		Stack = -0.6  for stack of 151-175
		Stack = -2.5  for stack of 152-174
	Helix total = -4.1
	Internal/bulge = 1.1  for closure of 153-173	Size = 2
		Stack = -2.5  for stack of 155-171
		Stack = -2.1  for stack of 156-170
		Stack = -0.9  for stack of 157-169
	Helix total = -5.5
	Hairpin = 5.9  for closure of 158-168
		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 = -62.5



