Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    49:67 50:66 51:65 52:64 53:63 157:199 158:198 159:197
	    160:196 161:195 162:194 217:248 218:247 219:246 220:245 221:244
	    267:303 268:302 269:301 270:300 271:299 272:298 273:297
	Energy of Broken Structure: -63.8
	Energy of Pseudo-Helices:   -41.5
	Pseudoknot Energy Penalty:  32.1
	Total Free Energy:          -73.2
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-363
		Stack = -1.5  for stack of 2-362
		Stack = -2.1  for stack of 3-361
		Stack = -3.4  for stack of 4-360
		Stack = -2.1  for stack of 5-359
		Stack = -2.1  for stack of 6-358
	Helix total = -14.5
	Multiloop = 5.2  for closure of 7-357
		Stack = -3.3  for stack of 340-356
		Stack = -3.3  for stack of 341-355
		Stack = -3.3  for stack of 342-354
		Stack = -3.3  for stack of 343-353
	Helix total = -13.2
	Hairpin = 4.4  for closure of 344-352
		Stack = -2.4  for stack of 21-336
		Stack = -1.5  for stack of 22-335
		Stack = -0.5  for stack of 23-334
		Stack = -1.3  for stack of 24-333
		Stack = -0.9  for stack of 25-332
		Stack = -1.1  for stack of 26-331
		Stack = -1.3  for stack of 27-330
	Helix total = -9.0
	Internal/bulge = 1.9  for closure of 28-329	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.8  for closure of 30-327	Size = 5
		Stack = -2.2  for stack of 34-324
		Stack = -3.3  for stack of 35-323
	Helix total = -5.5
	Internal/bulge = 2.0  for closure of 36-322	Size = 6
		Stack = -3.3  for stack of 40-318
	Helix total = -3.3
	Internal/bulge = -0.1  for closure of 41-317	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.2  for closure of 43-315	Size = 3
		Stack = -2.1  for stack of 44-311
		Stack = -1.1  for stack of 45-310
		Stack = -2.1  for stack of 46-309
		Stack = -2.2  for stack of 47-308
	Helix total = -7.5
	Multiloop = 4.8  for closure of 48-307
		Stack = -2.5  for stack of 252-287
		Stack = -3.3  for stack of 253-286
	Helix total = -5.8
	Internal/bulge = 1.2  for closure of 254-285	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.1  for closure of 256-283	Size = 1 BP stack across bulge = -1.3
		Stack = -0.6  for stack of 258-282
		Stack = -1.3  for stack of 259-281
	Helix total = -1.9
	Internal/bulge = 3.0  for closure of 260-280	Size = 5
		Stack = -3.4  for stack of 263-276
		Stack = -2.4  for stack of 264-275
	Helix total = -5.8
	Hairpin = 3.9  for closure of 265-274
		Stack = -2.4  for stack of 202-233
		Stack = -0.9  for stack of 203-232
	Helix total = -3.3
	Internal/bulge = 3.3  for closure of 204-231	Size = 10
		Stack = -2.4  for stack of 210-225
		Stack = -2.1  for stack of 211-224
		Stack = -2.4  for stack of 212-223
	Helix total = -6.9
	Hairpin = 4.5  for closure of 213-222
		Stack = -2.4  for stack of 139-183
		Stack = -2.1  for stack of 140-182
		Stack = -1.5  for stack of 141-181
		Stack = -3.3  for stack of 142-180
		Stack = -2.1  for stack of 143-179
		Stack = -2.1  for stack of 144-178
	Helix total = -13.5
	Internal/bulge = 4.0  for closure of 145-177	Size = 5
		Stack = -3.3  for stack of 146-171
		Stack = -3.3  for stack of 147-170
		Stack = -2.1  for stack of 148-169
	Helix total = -8.7
	Internal/bulge = 0.7  for closure of 149-168	Size = 4
		Stack = -2.1  for stack of 152-165
		Stack = -0.9  for stack of 153-164
	Helix total = -3.0
	Hairpin = 5.5  for closure of 154-163
		Stack = -3.4  for stack of 109-138
	Helix total = -3.4
	Internal/bulge = 0.9  for closure of 110-137	Size = 2
		Stack = -2.1  for stack of 112-135
	Helix total = -2.1
	Internal/bulge = 1.9  for closure of 113-134	Size = 3
		Stack = -3.4  for stack of 115-131
		Stack = -2.1  for stack of 116-130
		Stack = -2.1  for stack of 117-129
	Helix total = -7.6
	Hairpin = 5.7  for closure of 118-128
		Stack = -3.4  for stack of 55-78
		Stack = -2.4  for stack of 56-77
		Stack = -3.3  for stack of 57-76
		Stack = -2.5  for stack of 58-75
		Stack = -0.6  for stack of 59-74
	Helix total = -12.2
	Hairpin = 5.2  for closure of 60-73


	Total energy = -63.8



