Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    49:67 50:66 51:65 52:64 53:63 161:200 162:199 163:198
	    164:197 165:196 216:249 217:248 218:247 219:246 220:245 221:244
	    266:303 267:302 268:301 269:300 270:298 271:297 272:296
	Energy of Broken Structure: -81.9
	Energy of Pseudo-Helices:   -39.6
	Pseudoknot Energy Penalty:  33.8
	Total Free Energy:          -87.7
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 = -3.4  for stack of 340-356
		Stack = -2.4  for stack of 341-355
		Stack = -3.3  for stack of 342-354
		Stack = -3.3  for stack of 343-353
	Helix total = -12.4
	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 = -1.1  for stack of 25-332
		Stack = -0.9  for stack of 26-331
		Stack = -0.9  for stack of 27-330
	Helix total = -8.6
	Internal/bulge = 2.4  for closure of 28-329	Size = 9
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 34-324	Size = 2
		Stack = -3.3  for stack of 36-322
	Helix total = -3.3
	Internal/bulge = 0.6  for closure of 37-321	Size = 4
		Stack = -3.3  for stack of 40-318
		Stack = -2.5  for stack of 41-317
		Stack = 0.3  for stack of 42-316
	Helix total = -5.5
	Internal/bulge = 3.7  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 = -3.4  for stack of 47-308
	Helix total = -8.7
	Multiloop = 2.9  for closure of 48-307
		Stack = -2.5  for stack of 251-286
		Stack = -2.1  for stack of 252-285
		Stack = -0.9  for stack of 253-284
		Stack = -1.3  for stack of 254-283
		Stack = -1.4  for stack of 255-282
		Stack = -0.6  for stack of 256-281
		Stack = -0.9  for stack of 257-280
		Stack = -2.1  for stack of 258-279
		Stack = -2.5  for stack of 259-278
	Helix total = -14.3
	Internal/bulge = 1.2  for closure of 260-277	Size = 2
		Stack = -3.4  for stack of 262-275
		Stack = -2.4  for stack of 263-274
	Helix total = -5.8
	Hairpin = 4.5  for closure of 264-273
		Stack = -2.4  for stack of 205-232
		Stack = -2.5  for stack of 206-231
	Helix total = -4.9
	Internal/bulge = 2.1  for closure of 207-230	Size = 8
		Stack = -2.5  for stack of 212-225
		Stack = -3.3  for stack of 213-224
		Stack = -2.1  for stack of 214-223
	Helix total = -7.9
	Hairpin = 4.8  for closure of 215-222
		Stack = -2.1  for stack of 142-185
		Stack = -1.3  for stack of 143-184
		Stack = -1.5  for stack of 144-183
		Stack = -2.1  for stack of 145-182
		Stack = -2.4  for stack of 146-181
		Stack = -2.1  for stack of 147-180
	Helix total = -11.5
	Internal/bulge = 4.1  for closure of 148-179	Size = 4
		Stack = -3.3  for stack of 149-174
		Stack = -3.3  for stack of 150-173
		Stack = -2.1  for stack of 151-172
	Helix total = -8.7
	Internal/bulge = 0.7  for closure of 152-171	Size = 4
		Stack = -2.1  for stack of 155-168
		Stack = -0.9  for stack of 156-167
	Helix total = -3.0
	Hairpin = 5.5  for closure of 157-166
		Stack = -3.4  for stack of 112-141
	Helix total = -3.4
	Internal/bulge = 0.9  for closure of 113-140	Size = 2
		Stack = -2.1  for stack of 115-138
		Stack = -1.3  for stack of 116-137
	Helix total = -3.4
	Internal/bulge = 0.4  for closure of 117-136	Size = 1 BP stack across bulge = -2.1
		Stack = -3.4  for stack of 118-134
		Stack = -2.1  for stack of 119-133
		Stack = -2.1  for stack of 120-132
	Helix total = -7.6
	Hairpin = 5.7  for closure of 121-131
		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 = -81.9



