Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    55:73 56:72 146:179 147:178 148:177 149:176 150:175 151:174
	    197:229 198:228 199:227 200:226 201:225 246:283 247:282 248:281
	    249:280 250:279 251:278 252:277
	Energy of Broken Structure: -95.9
	Energy of Pseudo-Helices:   -41.3
	Pseudoknot Energy Penalty:  35.7
	Total Free Energy:          -101.5
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-347
		Stack = -1.5  for stack of 2-346
		Stack = -2.1  for stack of 3-345
		Stack = -3.3  for stack of 4-344
		Stack = -3.4  for stack of 5-343
		Stack = -2.4  for stack of 6-342
	Helix total = -16.0
	Multiloop = 5.1  for closure of 7-341
		Stack = -3.3  for stack of 324-340
		Stack = -3.3  for stack of 325-339
		Stack = -3.3  for stack of 326-338
		Stack = -3.3  for stack of 327-337
	Helix total = -13.2
	Hairpin = 4.4  for closure of 328-336
		Stack = -2.4  for stack of 20-320
		Stack = -1.5  for stack of 21-319
		Stack = -2.5  for stack of 22-318
		Stack = -2.1  for stack of 23-317
		Stack = -0.9  for stack of 24-316
		Stack = -2.1  for stack of 25-315
		Stack = -2.4  for stack of 26-314
		Stack = -2.1  for stack of 27-313
		Stack = -3.4  for stack of 28-312
	Helix total = -19.4
	Internal/bulge = 3.3  for closure of 29-311	Size = 2
		Stack = -0.6  for stack of 30-308
		Stack = -2.1  for stack of 31-307
		Stack = -3.4  for stack of 32-306
		Stack = -2.1  for stack of 33-305
	Helix total = -8.2
	Internal/bulge = 3.7  for closure of 34-304	Size = 3
		Stack = -2.1  for stack of 36-301
		Stack = -3.3  for stack of 37-300
		Stack = -3.3  for stack of 38-299
	Helix total = -8.7
	Internal/bulge = 1.2  for closure of 39-298	Size = 2
	Helix total = 0.0
	Internal/bulge = 4.5  for closure of 41-296	Size = 5
		Stack = -2.1  for stack of 43-291
		Stack = -1.1  for stack of 44-290
		Stack = -2.1  for stack of 45-289
		Stack = -3.4  for stack of 46-288
	Helix total = -8.7
	Multiloop = 1.8  for closure of 47-287
		Stack = -3.4  for stack of 232-266
		Stack = -2.1  for stack of 233-265
		Stack = -0.9  for stack of 234-264
	Helix total = -6.4
	Internal/bulge = 3.7  for closure of 235-263	Size = 3
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 237-260	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.6  for closure of 239-258	Size = 4
		Stack = -2.4  for stack of 242-255
		Stack = -3.3  for stack of 243-254
	Helix total = -5.7
	Hairpin = 4.5  for closure of 244-253
		Stack = -3.3  for stack of 183-214
		Stack = -2.4  for stack of 184-213
		Stack = -2.1  for stack of 185-212
		Stack = -3.3  for stack of 186-211
		Stack = -2.2  for stack of 187-210
		Stack = -0.9  for stack of 188-209
		Stack = -1.0  for stack of 189-208
		Stack = -2.5  for stack of 190-207
		Stack = -3.3  for stack of 191-206
	Helix total = -21.0
	Hairpin = 5.2  for closure of 192-205
		Stack = -2.4  for stack of 130-166
		Stack = -2.5  for stack of 131-165
		Stack = -1.5  for stack of 132-164
		Stack = -3.3  for stack of 133-163
	Helix total = -9.7
	Internal/bulge = 2.6  for closure of 134-162	Size = 5
		Stack = -3.3  for stack of 137-158
		Stack = -3.3  for stack of 138-157
		Stack = -1.4  for stack of 139-156
		Stack = -2.1  for stack of 140-155
		Stack = -2.5  for stack of 141-154
		Stack = -0.5  for stack of 142-153
	Helix total = -13.1
	Hairpin = 5.3  for closure of 143-152
		Stack = -2.4  for stack of 107-129
		Stack = -2.4  for stack of 108-128
		Stack = -3.4  for stack of 109-127
		Stack = -2.1  for stack of 110-126
		Stack = -2.1  for stack of 111-125
		Stack = -3.4  for stack of 112-124
	Helix total = -15.8
	Hairpin = 5.0  for closure of 113-123
		Stack = -2.4  for stack of 48-64
		Stack = -2.2  for stack of 49-63
		Stack = -1.3  for stack of 50-62
		Stack = -2.1  for stack of 51-61
	Helix total = -8.0
	Hairpin = 4.9  for closure of 52-60


	Total energy = -95.9



