Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    56:82 57:81 58:80 59:79 60:78 152:192 153:191 154:190
	    155:189 156:188 157:187 209:238 210:237 211:236 212:235 256:295
	    257:294 259:292 260:289 261:288 262:287
	Energy of Broken Structure: 1349.6
	Energy of Pseudo-Helices:   -29.4
	Pseudoknot Energy Penalty:  35.7
	Total Free Energy:          1355.9
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-355
		Stack = -1.5  for stack of 2-354
		Stack = -2.1  for stack of 3-353
		Stack = -2.4  for stack of 4-352
		Stack = -1.1  for stack of 5-351
		Stack = -2.1  for stack of 6-350
	Helix total = -12.5
	Multiloop = 5.1  for closure of 7-349
		Stack = -3.4  for stack of 332-348
		Stack = -2.4  for stack of 333-347
		Stack = -3.3  for stack of 334-346
		Stack = -3.3  for stack of 335-345
	Helix total = -12.4
	Hairpin = 4.4  for closure of 336-344
		Stack = -2.4  for stack of 20-328
		Stack = -3.4  for stack of 21-327
		Stack = -2.1  for stack of 22-326
		Stack = 0.3  for stack of 23-325
		Stack = -2.1  for stack of 24-324
		Stack = -2.2  for stack of 25-323
		Stack = -1.3  for stack of 26-322
	Helix total = -13.2
	Internal/bulge = 4.5  for closure of 27-321	Size = 14
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 36-314	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.7  for closure of 38-312	Size = 3
		Stack = -1.3  for stack of 40-309
		Stack = -1.1  for stack of 41-308
	Helix total = -2.4
	Internal/bulge = 3.0  for closure of 42-307	Size = 4
		Stack = -2.1  for stack of 44-303
		Stack = -1.1  for stack of 45-302
		Stack = -2.1  for stack of 46-301
		Stack = -2.5  for stack of 47-300
	Helix total = -7.8
	Multiloop = 7.6  for closure of 48-299
		Stack = -1.4  for stack of 242-276
		Stack = -2.4  for stack of 243-275
		Stack = -3.3  for stack of 244-274
	Helix total = -7.1
	Internal/bulge = 3.0  for closure of 245-273	Size = 3
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 248-271	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 250-269	Size = 7
		Stack = -2.1  for stack of 254-264
	Helix total = -2.1
	Hairpin = 5.7  for closure of 255-263
		Stack = -3.4  for stack of 196-224
		Stack = -3.3  for stack of 197-223
		Stack = -2.1  for stack of 198-222
		Stack = -0.9  for stack of 199-221
		Stack = -0.9  for stack of 200-220
		Stack = -0.9  for stack of 201-219
		Stack = -1.1  for stack of 202-218
		Stack = -1.3  for stack of 203-217
		Stack = -1.0  for stack of 204-216
	Helix total = -14.9
	Hairpin = 5.2  for closure of 205-215
		Stack = -1.3  for stack of 135-174
		Stack = -2.1  for stack of 136-173
		Stack = -3.3  for stack of 137-172
		Stack = -2.4  for stack of 138-171
	Helix total = -9.1
	Internal/bulge = 1.9  for closure of 139-170	Size = 2
		Stack = -2.1  for stack of 141-168
		Stack = -3.4  for stack of 142-167
		Stack = -2.1  for stack of 143-166
	Helix total = -7.6
	Internal/bulge = 2.9  for closure of 144-165	Size = 5
		Stack = -0.9  for stack of 147-161
	Helix total = -0.9
	Internal/bulge = 1.2  for closure of 148-160	Size = 2
	Helix total = 0.0
	Hairpin = 4.9  for closure of 150-158
		Stack = -2.1  for stack of 117-134
		Stack = -3.4  for stack of 118-133
		Stack = -2.1  for stack of 119-132
		Stack = -2.1  for stack of 120-131
		Stack = -3.4  for stack of 121-130
		Stack = -2.1  for stack of 122-129
		Stack = -0.5  for stack of 123-128
	Helix total = -15.7
	Hairpin = 1400.5  for closure of 124-127
		Stack = -2.1  for stack of 49-67
		Stack = -0.9  for stack of 50-66
		Stack = -2.1  for stack of 51-65
		Stack = -2.4  for stack of 52-64
	Helix total = -7.5
	Hairpin = 5.9  for closure of 53-63


	Total energy = 1349.6



