Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    49:65 50:64 51:63 52:62 53:61 156:192 157:191 158:190
	    159:189 160:188 161:187 197:223 198:222 199:221 201:219 203:217
	    260:301 261:300 262:299 263:298 264:297 265:296 266:295
	Energy of Broken Structure: -64.3
	Energy of Pseudo-Helices:   -30.6
	Pseudoknot Energy Penalty:  33.9
	Total Free Energy:          -61.0
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-362
		Stack = -1.5  for stack of 2-361
		Stack = -2.1  for stack of 3-360
		Stack = -2.4  for stack of 4-359
		Stack = -1.1  for stack of 5-358
		Stack = -2.1  for stack of 6-357
	Helix total = -12.5
	Multiloop = 6.6  for closure of 7-356
		Stack = -2.1  for stack of 339-355
		Stack = -3.3  for stack of 340-354
		Stack = -3.3  for stack of 341-353
		Stack = -3.3  for stack of 342-352
	Helix total = -12.0
	Hairpin = 4.4  for closure of 343-351
		Stack = -2.1  for stack of 21-335
		Stack = -0.6  for stack of 22-334
		Stack = -0.5  for stack of 23-333
		Stack = -2.5  for stack of 24-332
		Stack = -2.4  for stack of 25-331
		Stack = -2.2  for stack of 26-330
		Stack = -1.3  for stack of 27-329
	Helix total = -11.6
	Internal/bulge = 2.4  for closure of 28-328	Size = 6
	Helix total = 0.0
	Internal/bulge = 1.3  for closure of 32-324	Size = 4
		Stack = -2.4  for stack of 35-321
		Stack = -2.2  for stack of 36-320
		Stack = -0.9  for stack of 37-319
		Stack = -1.0  for stack of 38-318
		Stack = -1.3  for stack of 39-317
		Stack = -2.2  for stack of 40-316
		Stack = -2.1  for stack of 41-315
	Helix total = -12.1
	Internal/bulge = 4.5  for closure of 42-314	Size = 5
		Stack = -2.4  for stack of 44-309
		Stack = -2.4  for stack of 45-308
		Stack = -1.1  for stack of 46-307
		Stack = -1.3  for stack of 47-306
	Helix total = -7.2
	Multiloop = 2.6  for closure of 48-305
		Stack = -2.5  for stack of 241-282
		Stack = -0.6  for stack of 242-281
		Stack = -0.9  for stack of 243-280
		Stack = -0.9  for stack of 244-279
		Stack = -2.1  for stack of 245-278
		Stack = -2.4  for stack of 246-277
		Stack = -1.1  for stack of 247-276
		Stack = -1.3  for stack of 248-275
		Stack = -0.6  for stack of 249-274
	Helix total = -12.4
	Internal/bulge = 1.8  for closure of 250-273	Size = 7
		Stack = -3.4  for stack of 255-269
		Stack = -3.3  for stack of 256-268
	Helix total = -6.7
	Hairpin = 5.6  for closure of 257-267
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 208-239	Size = 2
		Stack = -2.1  for stack of 210-237
		Stack = -0.6  for stack of 211-236
		Stack = -1.3  for stack of 212-235
		Stack = -0.9  for stack of 213-234
	Helix total = -4.9
	Hairpin = 6.8  for closure of 214-233
		Stack = -2.4  for stack of 140-176
		Stack = -1.4  for stack of 141-175
		Stack = -1.5  for stack of 142-174
		Stack = -3.3  for stack of 143-173
	Helix total = -8.6
	Internal/bulge = 1.4  for closure of 144-172	Size = 6
		Stack = -2.4  for stack of 148-168
		Stack = -2.2  for stack of 149-167
		Stack = -1.4  for stack of 150-166
		Stack = -2.1  for stack of 151-165
		Stack = -2.4  for stack of 152-164
		Stack = -1.4  for stack of 153-163
	Helix total = -11.9
	Hairpin = 5.1  for closure of 154-162
		Stack = -2.5  for stack of 117-137
		Stack = -1.0  for stack of 118-136
		Stack = -2.1  for stack of 119-135
		Stack = -3.4  for stack of 120-134
		Stack = -2.1  for stack of 121-133
	Helix total = -11.1
	Hairpin = 5.5  for closure of 122-132
		Stack = -2.2  for stack of 54-77
	Helix total = -2.2
	Internal/bulge = 1.9  for closure of 55-76	Size = 2
		Stack = -2.2  for stack of 57-74
		Stack = -2.4  for stack of 58-73
		Stack = -2.2  for stack of 59-72
	Helix total = -6.8
	Hairpin = 6.3  for closure of 60-71


	Total energy = -64.3



