Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    57:74 58:73 59:72 60:71 162:198 163:197 164:196 165:195
	    166:194 167:193 216:246 217:245 218:244 219:243 220:242 221:241
	    268:306 269:305 270:304 271:303 272:302 273:301
	Energy of Broken Structure: -49.7
	Energy of Pseudo-Helices:   -37.8
	Pseudoknot Energy Penalty:  31.8
	Total Free Energy:          -55.7
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-368
		Stack = -1.5  for stack of 2-367
		Stack = -2.1  for stack of 3-366
		Stack = -2.4  for stack of 4-365
		Stack = -1.1  for stack of 5-364
		Stack = -2.1  for stack of 6-363
	Helix total = -12.5
	Multiloop = 5.1  for closure of 7-362
		Stack = -3.4  for stack of 345-361
		Stack = -2.4  for stack of 346-360
		Stack = -2.4  for stack of 347-359
		Stack = -2.1  for stack of 348-358
	Helix total = -10.3
	Hairpin = 4.4  for closure of 349-357
		Stack = -2.1  for stack of 20-341
		Stack = -0.6  for stack of 21-340
		Stack = -2.1  for stack of 22-339
		Stack = -2.5  for stack of 23-338
		Stack = -1.0  for stack of 24-337
		Stack = -1.1  for stack of 25-336
		Stack = -1.3  for stack of 26-335
	Helix total = -10.7
	Internal/bulge = 2.8  for closure of 27-334	Size = 13
		Stack = -0.6  for stack of 35-327
		Stack = -2.4  for stack of 36-326
		Stack = -2.4  for stack of 37-325
		Stack = -3.3  for stack of 38-324
		Stack = -2.4  for stack of 39-323
		Stack = -1.1  for stack of 40-322
	Helix total = -12.2
	Internal/bulge = 4.0  for closure of 41-321	Size = 7
		Stack = -2.4  for stack of 44-315
		Stack = -3.4  for stack of 45-314
		Stack = -2.1  for stack of 46-313
		Stack = -1.3  for stack of 47-312
	Helix total = -9.2
	Multiloop = 5.8  for closure of 48-311
		Stack = -1.4  for stack of 249-288
		Stack = -2.4  for stack of 250-287
		Stack = -2.1  for stack of 251-286
		Stack = -1.1  for stack of 252-285
	Helix total = -7.0
	Internal/bulge = 4.0  for closure of 253-284	Size = 5
		Stack = 0.3  for stack of 257-281
	Helix total = 0.3
	Internal/bulge = 2.7  for closure of 258-280	Size = 1 BP stack across bulge = -0.5
	Helix total = 0.0
	Internal/bulge = 4.5  for closure of 259-278	Size = 1 BP stack across bulge = 1.3
		Stack = -1.4  for stack of 261-277
		Stack = -3.4  for stack of 262-276
		Stack = -3.3  for stack of 263-275
	Helix total = -8.1
	Hairpin = 5.3  for closure of 264-274
		Stack = -2.1  for stack of 204-230
		Stack = -2.4  for stack of 205-229
	Helix total = -4.5
	Internal/bulge = 1.3  for closure of 206-228	Size = 4
		Stack = -0.6  for stack of 209-225
		Stack = -2.5  for stack of 210-224
		Stack = -2.1  for stack of 211-223
	Helix total = -5.2
	Hairpin = 6.2  for closure of 212-222
		Stack = -2.4  for stack of 147-183
		Stack = -1.4  for stack of 148-182
		Stack = -1.5  for stack of 149-181
		Stack = -3.3  for stack of 150-180
	Helix total = -8.6
	Internal/bulge = 2.6  for closure of 151-179	Size = 6
		Stack = -3.3  for stack of 154-174
		Stack = -2.1  for stack of 155-173
		Stack = -2.1  for stack of 156-172
		Stack = -1.5  for stack of 157-171
		Stack = -1.3  for stack of 158-170
		Stack = -1.4  for stack of 159-169
	Helix total = -11.7
	Hairpin = 6.0  for closure of 160-168
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 118-144	Size = 2
		Stack = -0.9  for stack of 120-142
		Stack = -1.3  for stack of 121-141
		Stack = -0.6  for stack of 122-140
	Helix total = -2.8
	Internal/bulge = 1.9  for closure of 123-139	Size = 2
		Stack = -1.4  for stack of 125-137
		Stack = -3.4  for stack of 126-136
	Helix total = -4.8
	Hairpin = 5.0  for closure of 127-135
		Stack = -2.4  for stack of 49-65
		Stack = -2.2  for stack of 50-64
		Stack = -1.3  for stack of 51-63
		Stack = -2.1  for stack of 52-62
	Helix total = -8.0
	Hairpin = 4.5  for closure of 53-61


	Total energy = -49.7



