Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    59:84 60:83 61:82 62:81 63:80 189:223 190:222 191:221
	    192:220 193:219 194:218 239:273 240:272 241:271 242:270 243:269
	    244:268 245:267 282:299 283:298 284:297 285:296 286:295 306:325
	    307:324 308:323 309:322
	Energy of Broken Structure: -47.0
	Energy of Pseudo-Helices:   -48.7
	Pseudoknot Energy Penalty:  39.1
	Total Free Energy:          -56.6
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-390
		Stack = -1.5  for stack of 2-389
		Stack = -2.1  for stack of 3-388
		Stack = -3.4  for stack of 4-387
		Stack = -2.1  for stack of 5-386
		Stack = -2.1  for stack of 6-385
	Helix total = -14.5
	Multiloop = 6.5  for closure of 7-384
		Stack = -2.1  for stack of 367-383
		Stack = -3.4  for stack of 368-382
		Stack = -2.4  for stack of 369-381
		Stack = -3.3  for stack of 370-380
	Helix total = -11.2
	Hairpin = 4.4  for closure of 371-379
		Stack = -2.4  for stack of 20-363
		Stack = -2.5  for stack of 21-362
		Stack = 0.3  for stack of 22-361
		Stack = -1.4  for stack of 23-360
		Stack = -0.9  for stack of 24-359
		Stack = -2.1  for stack of 25-358
		Stack = -1.5  for stack of 26-357
		Stack = 1.3  for stack of 27-356
	Helix total = -9.2
	Internal/bulge = 1.9  for closure of 28-355	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.4  for closure of 30-353	Size = 7
		Stack = -2.1  for stack of 34-348
		Stack = -0.9  for stack of 35-347
	Helix total = -3.0
	Internal/bulge = -0.3  for closure of 36-346	Size = 4
	Helix total = 0.0
	Internal/bulge = 0.5  for closure of 39-343	Size = 4
	Helix total = 0.0
	Internal/bulge = 1.0  for closure of 42-340	Size = 4
		Stack = -0.9  for stack of 45-337
	Helix total = -0.9
	Internal/bulge = 3.3  for closure of 46-336	Size = 2
		Stack = -2.1  for stack of 47-333
		Stack = -2.1  for stack of 48-332
		Stack = -3.3  for stack of 49-331
		Stack = -3.4  for stack of 50-330
	Helix total = -10.9
	Multiloop = 4.0  for closure of 51-329
		Stack = -2.5  for stack of 300-316
		Stack = -2.1  for stack of 301-315
		Stack = -1.5  for stack of 302-314
	Helix total = -6.1
	Hairpin = 5.6  for closure of 303-313
		Stack = -1.1  for stack of 275-291
		Stack = -2.4  for stack of 276-290
		Stack = -3.3  for stack of 277-289
		Stack = -3.3  for stack of 278-288
	Helix total = -10.1
	Hairpin = 3.6  for closure of 279-287
		Stack = -2.4  for stack of 228-256
		Stack = -2.4  for stack of 229-255
		Stack = -2.1  for stack of 230-254
	Helix total = -6.9
	Internal/bulge = -0.1  for closure of 231-253	Size = 2
		Stack = -3.3  for stack of 233-251
	Helix total = -3.3
	Internal/bulge = -0.5  for closure of 234-250	Size = 4
	Helix total = 0.0
	Hairpin = 5.7  for closure of 237-247
		Stack = -2.2  for stack of 175-207
		Stack = -2.4  for stack of 176-206
		Stack = -2.1  for stack of 177-205
		Stack = -1.3  for stack of 178-204
		Stack = -2.1  for stack of 179-203
	Helix total = -10.1
	Internal/bulge = 0.5  for closure of 180-202	Size = 2
		Stack = -2.4  for stack of 182-200
		Stack = -2.2  for stack of 183-199
		Stack = -1.3  for stack of 184-198
	Helix total = -5.9
	Hairpin = 5.4  for closure of 185-197
	Helix total = 0.0
	Internal/bulge = 3.1  for closure of 111-162	Size = 8
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 116-157	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 118-155	Size = 2
		Stack = -3.4  for stack of 120-153
	Helix total = -3.4
	Internal/bulge = 1.9  for closure of 121-152	Size = 6
		Stack = -1.3  for stack of 125-148
		Stack = -0.9  for stack of 126-147
		Stack = -2.1  for stack of 127-146
	Helix total = -4.3
	Hairpin = 4.8  for closure of 128-145
		Stack = -2.4  for stack of 52-71
		Stack = -2.4  for stack of 53-70
		Stack = -2.1  for stack of 54-69
		Stack = -2.4  for stack of 55-68
	Helix total = -9.3
	Hairpin = 6.0  for closure of 56-67


	Total energy = -47.0



