Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    54:79 55:78 56:77 57:76 58:75 144:178 145:177 146:176
	    147:175 148:174 149:173 194:227 195:226 196:225 197:224 198:223
	    199:222 200:221 201:220 245:281 246:280 247:279 249:277 250:276
	    251:275
	Energy of Broken Structure: -59.9
	Energy of Pseudo-Helices:   -42.9
	Pseudoknot Energy Penalty:  32.3
	Total Free Energy:          -70.5
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-342
		Stack = -1.5  for stack of 2-341
		Stack = -2.1  for stack of 3-340
		Stack = -3.3  for stack of 4-339
		Stack = -3.4  for stack of 5-338
		Stack = -2.4  for stack of 6-337
	Helix total = -16.0
	Multiloop = 5.1  for closure of 7-336
		Stack = -3.3  for stack of 319-335
		Stack = -3.3  for stack of 320-334
		Stack = -3.3  for stack of 321-333
		Stack = -3.3  for stack of 322-332
	Helix total = -13.2
	Hairpin = 4.4  for closure of 323-331
		Stack = -2.4  for stack of 20-315
		Stack = -2.5  for stack of 21-314
		Stack = 0.3  for stack of 22-313
		Stack = -0.5  for stack of 23-312
		Stack = -0.5  for stack of 24-311
		Stack = -1.4  for stack of 25-310
		Stack = -2.1  for stack of 26-309
	Helix total = -9.1
	Internal/bulge = 1.2  for closure of 27-308	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.2  for closure of 29-306	Size = 5
		Stack = -2.5  for stack of 33-303
	Helix total = -2.5
	Internal/bulge = 3.3  for closure of 34-302	Size = 5
		Stack = -0.9  for stack of 37-298
		Stack = -2.1  for stack of 38-297
		Stack = -3.3  for stack of 39-296
	Helix total = -6.3
	Internal/bulge = -0.1  for closure of 40-295	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.2  for closure of 42-293	Size = 3
		Stack = -2.1  for stack of 43-289
		Stack = -1.1  for stack of 44-288
		Stack = -1.3  for stack of 45-287
		Stack = -2.2  for stack of 46-286
	Helix total = -6.7
	Multiloop = 3.5  for closure of 47-285
		Stack = -3.3  for stack of 230-265
		Stack = -2.2  for stack of 231-264
		Stack = -2.4  for stack of 232-263
		Stack = -2.1  for stack of 233-262
	Helix total = -10.0
	Internal/bulge = 2.6  for closure of 234-261	Size = 5
		Stack = -3.3  for stack of 238-258
	Helix total = -3.3
	Internal/bulge = 1.9  for closure of 239-257	Size = 3
		Stack = -0.9  for stack of 241-254
		Stack = -1.3  for stack of 242-253
	Helix total = -2.2
	Hairpin = 5.3  for closure of 243-252
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 179-213	Size = 2
		Stack = -2.1  for stack of 181-211
		Stack = -3.4  for stack of 182-210
		Stack = -1.4  for stack of 183-209
		Stack = -1.4  for stack of 184-208
		Stack = -2.1  for stack of 185-207
		Stack = -2.2  for stack of 186-206
		Stack = -1.3  for stack of 187-205
	Helix total = -13.9
	Internal/bulge = 1.2  for closure of 188-204	Size = 2
	Helix total = 0.0
	Hairpin = 4.4  for closure of 190-202
		Stack = -2.2  for stack of 127-166
		Stack = -2.4  for stack of 128-165
		Stack = -2.4  for stack of 129-164
		Stack = -1.1  for stack of 130-163
		Stack = -2.4  for stack of 131-162
		Stack = -2.1  for stack of 132-161
	Helix total = -12.6
	Internal/bulge = 3.0  for closure of 133-160	Size = 3
		Stack = -3.3  for stack of 135-157
	Helix total = -3.3
	Internal/bulge = -0.4  for closure of 136-156	Size = 4
		Stack = -2.2  for stack of 139-153
		Stack = -2.1  for stack of 140-152
	Helix total = -4.3
	Hairpin = 4.2  for closure of 141-151
		Stack = -2.1  for stack of 106-122
		Stack = -0.9  for stack of 107-121
		Stack = -1.0  for stack of 108-120
	Helix total = -4.0
	Hairpin = 6.2  for closure of 109-119
		Stack = -2.4  for stack of 48-67
		Stack = -1.5  for stack of 49-66
		Stack = -2.1  for stack of 50-65
		Stack = -3.3  for stack of 51-64
	Helix total = -9.3
	Hairpin = 5.4  for closure of 52-63


	Total energy = -59.9



