Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    49:67 50:66 51:65 52:64 53:63 159:199 160:198 161:197
	    162:196 163:195 216:247 217:246 218:245 219:244 220:243 265:301
	    266:300 267:299 269:297 270:296 271:295
	Energy of Broken Structure: -90.0
	Energy of Pseudo-Helices:   -37.8
	Pseudoknot Energy Penalty:  32.1
	Total Free Energy:          -95.7
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-361
		Stack = -1.5  for stack of 2-360
		Stack = -2.1  for stack of 3-359
		Stack = -3.4  for stack of 4-358
		Stack = -2.1  for stack of 5-357
		Stack = -2.1  for stack of 6-356
	Helix total = -14.5
	Multiloop = 5.2  for closure of 7-355
		Stack = -3.4  for stack of 338-354
		Stack = -2.4  for stack of 339-353
		Stack = -3.3  for stack of 340-352
		Stack = -3.3  for stack of 341-351
	Helix total = -12.4
	Hairpin = 4.4  for closure of 342-350
		Stack = -2.4  for stack of 21-334
		Stack = -1.5  for stack of 22-333
		Stack = -0.5  for stack of 23-332
		Stack = -1.3  for stack of 24-331
		Stack = -1.1  for stack of 25-330
		Stack = -0.9  for stack of 26-329
		Stack = -2.4  for stack of 27-328
	Helix total = -10.1
	Internal/bulge = 1.7  for closure of 28-327	Size = 9
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 34-322	Size = 2
		Stack = -3.3  for stack of 36-320
	Helix total = -3.3
	Internal/bulge = 0.2  for closure of 37-319	Size = 4
		Stack = -3.3  for stack of 40-316
		Stack = -2.2  for stack of 41-315
		Stack = -1.0  for stack of 42-314
	Helix total = -6.5
	Internal/bulge = 3.7  for closure of 43-313	Size = 3
		Stack = -2.1  for stack of 44-309
		Stack = -1.1  for stack of 45-308
		Stack = -2.1  for stack of 46-307
		Stack = -3.4  for stack of 47-306
	Helix total = -8.7
	Multiloop = 2.8  for closure of 48-305
		Stack = -2.5  for stack of 250-285
		Stack = -1.5  for stack of 251-284
		Stack = -2.1  for stack of 252-283
		Stack = -2.1  for stack of 253-282
		Stack = -3.3  for stack of 254-281
		Stack = -2.5  for stack of 255-280
		Stack = -1.0  for stack of 256-279
	Helix total = -15.0
	Internal/bulge = -0.7  for closure of 257-278	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 259-276	Size = 2
		Stack = -3.4  for stack of 261-274
		Stack = -2.4  for stack of 262-273
	Helix total = -5.8
	Hairpin = 4.5  for closure of 263-272
		Stack = -2.4  for stack of 204-231
		Stack = -2.5  for stack of 205-230
	Helix total = -4.9
	Internal/bulge = 2.1  for closure of 206-229	Size = 8
		Stack = -2.5  for stack of 211-224
		Stack = -3.3  for stack of 212-223
		Stack = -3.3  for stack of 213-222
	Helix total = -9.1
	Hairpin = 4.4  for closure of 214-221
		Stack = -3.3  for stack of 140-184
		Stack = -2.1  for stack of 141-183
		Stack = -2.4  for stack of 142-182
		Stack = -2.1  for stack of 143-181
		Stack = -2.4  for stack of 144-180
		Stack = -2.1  for stack of 145-179
	Helix total = -14.4
	Internal/bulge = 4.5  for closure of 146-178	Size = 5
		Stack = -3.3  for stack of 147-172
		Stack = -3.3  for stack of 148-171
		Stack = -2.1  for stack of 149-170
	Helix total = -8.7
	Internal/bulge = 0.7  for closure of 150-169	Size = 4
		Stack = -2.1  for stack of 153-166
		Stack = -0.9  for stack of 154-165
	Helix total = -3.0
	Hairpin = 5.5  for closure of 155-164
		Stack = -3.4  for stack of 110-139
		Stack = -2.1  for stack of 111-138
		Stack = -1.3  for stack of 112-137
		Stack = -0.6  for stack of 113-136
	Helix total = -7.4
	Internal/bulge = 3.0  for closure of 114-135	Size = 3
		Stack = -3.4  for stack of 116-132
		Stack = -2.1  for stack of 117-131
		Stack = -2.1  for stack of 118-130
	Helix total = -7.6
	Hairpin = 5.7  for closure of 119-129
		Stack = -2.1  for stack of 54-80
		Stack = -3.4  for stack of 55-79
		Stack = -2.4  for stack of 56-78
		Stack = -3.3  for stack of 57-77
		Stack = -2.2  for stack of 58-76
	Helix total = -13.4
	Hairpin = 6.4  for closure of 59-75


	Total energy = -90.0



