Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    48:69 49:68 50:67 51:66 52:65 215:250 216:249 217:248
	    218:247 219:246 220:245 221:244 263:293 264:292 265:291 266:290
	    267:289 268:288 269:287 294:331 296:329 301:326 302:325 303:323
	    304:322 305:321
	Energy of Broken Structure: -39.3
	Energy of Pseudo-Helices:   -32.0
	Pseudoknot Energy Penalty:  32.9
	Total Free Energy:          -38.4
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-407
		Stack = -1.5  for stack of 2-406
		Stack = -2.1  for stack of 3-405
		Stack = -2.4  for stack of 4-404
		Stack = -1.1  for stack of 5-403
		Stack = -2.1  for stack of 6-402
	Helix total = -12.5
	Multiloop = 5.1  for closure of 7-401
		Stack = -3.4  for stack of 384-400
		Stack = -2.4  for stack of 385-399
		Stack = -2.4  for stack of 386-398
		Stack = -2.1  for stack of 387-397
	Helix total = -10.3
	Hairpin = 4.4  for closure of 388-396
		Stack = -2.1  for stack of 20-380
		Stack = -0.6  for stack of 21-379
		Stack = -2.1  for stack of 22-378
		Stack = -2.4  for stack of 23-377
		Stack = -1.1  for stack of 24-376
		Stack = -1.3  for stack of 25-375
		Stack = -1.4  for stack of 26-374
		Stack = -1.0  for stack of 27-373
	Helix total = -12.0
	Internal/bulge = 4.0  for closure of 28-372	Size = 5
		Stack = -0.6  for stack of 32-369
		Stack = -1.4  for stack of 33-368
		Stack = -1.3  for stack of 34-367
		Stack = -2.2  for stack of 35-366
		Stack = -2.1  for stack of 36-365
		Stack = -1.1  for stack of 37-364
		Stack = -1.3  for stack of 38-363
		Stack = -1.4  for stack of 39-362
	Helix total = -11.4
	Internal/bulge = 5.3  for closure of 40-361	Size = 7
		Stack = -2.5  for stack of 43-355
		Stack = -2.1  for stack of 44-354
		Stack = -2.1  for stack of 45-353
		Stack = -2.2  for stack of 46-352
	Helix total = -8.9
	Multiloop = 6.3  for closure of 47-351
		Stack = -2.2  for stack of 311-347
		Stack = -0.9  for stack of 312-346
		Stack = -1.3  for stack of 313-345
		Stack = -0.9  for stack of 314-344
		Stack = -1.1  for stack of 315-343
		Stack = -0.9  for stack of 316-342
		Stack = -0.9  for stack of 317-341
		Stack = -0.9  for stack of 318-340
	Helix total = -9.1
	Hairpin = 6.7  for closure of 319-339
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 251-281	Size = 2
		Stack = -2.1  for stack of 253-279
		Stack = -2.4  for stack of 254-278
		Stack = -1.1  for stack of 255-277
		Stack = -1.3  for stack of 256-276
		Stack = -1.1  for stack of 257-275
		Stack = -1.3  for stack of 258-274
		Stack = -1.1  for stack of 259-273
	Helix total = -10.4
	Hairpin = 5.1  for closure of 260-272
		Stack = -1.4  for stack of 186-232
		Stack = -0.9  for stack of 187-231
		Stack = -1.3  for stack of 188-230
		Stack = -1.1  for stack of 189-229
		Stack = -1.3  for stack of 190-228
		Stack = -0.6  for stack of 191-227
	Helix total = -6.6
	Internal/bulge = 6.2  for closure of 192-226	Size = 13
		Stack = -1.1  for stack of 206-225
		Stack = -1.3  for stack of 207-224
		Stack = -0.6  for stack of 208-223
	Helix total = -3.0
	Hairpin = 6.2  for closure of 209-222
		Stack = -0.9  for stack of 152-184
		Stack = -0.9  for stack of 153-183
		Stack = -2.2  for stack of 154-182
		Stack = -2.1  for stack of 155-181
		Stack = -1.3  for stack of 156-180
	Helix total = -7.4
	Internal/bulge = 2.2  for closure of 157-179	Size = 7
		Stack = -2.2  for stack of 161-174
		Stack = -0.9  for stack of 162-173
	Helix total = -3.1
	Hairpin = 4.6  for closure of 163-172
		Stack = -1.0  for stack of 55-79
		Stack = -0.6  for stack of 56-78
		Stack = -1.3  for stack of 57-77
		Stack = -2.2  for stack of 58-76
		Stack = -2.1  for stack of 59-75
	Helix total = -7.2
	Hairpin = 6.3  for closure of 60-74


	Total energy = -39.3



