Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    49:67 50:66 51:65 52:64 53:63 151:190 152:189 153:188
	    154:187 155:186 156:185 206:237 207:236 208:235 209:234 210:233
	    255:292 256:291 257:290 258:289 259:288 260:287 261:286
	Energy of Broken Structure: -75.4
	Energy of Pseudo-Helices:   -38.4
	Pseudoknot Energy Penalty:  31.6
	Total Free Energy:          -82.2
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-352
		Stack = -1.5  for stack of 2-351
		Stack = -2.1  for stack of 3-350
		Stack = -3.3  for stack of 4-349
		Stack = -3.4  for stack of 5-348
		Stack = -2.4  for stack of 6-347
	Helix total = -16.0
	Multiloop = 5.2  for closure of 7-346
		Stack = -3.4  for stack of 329-345
		Stack = -2.4  for stack of 330-344
		Stack = -3.3  for stack of 331-343
		Stack = -3.3  for stack of 332-342
	Helix total = -12.4
	Hairpin = 4.4  for closure of 333-341
		Stack = -2.1  for stack of 21-325
		Stack = -2.1  for stack of 22-324
		Stack = -1.5  for stack of 23-323
		Stack = -1.3  for stack of 24-322
		Stack = -1.4  for stack of 25-321
	Helix total = -8.4
	Internal/bulge = 0.7  for closure of 26-320	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 28-318	Size = 9
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 34-313	Size = 2
		Stack = -3.3  for stack of 36-311
	Helix total = -3.3
	Internal/bulge = 1.1  for closure of 37-310	Size = 2
		Stack = -2.1  for stack of 39-308
		Stack = -3.3  for stack of 40-307
	Helix total = -5.4
	Internal/bulge = 1.0  for closure of 41-306	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.7  for closure of 43-304	Size = 3
		Stack = -2.1  for stack of 44-300
		Stack = -1.1  for stack of 45-299
		Stack = -2.1  for stack of 46-298
		Stack = -3.4  for stack of 47-297
	Helix total = -8.7
	Multiloop = 2.3  for closure of 48-296
		Stack = -2.5  for stack of 240-276
		Stack = -3.3  for stack of 241-275
		Stack = -3.3  for stack of 242-274
		Stack = -2.4  for stack of 243-273
		Stack = -2.4  for stack of 244-272
	Helix total = -13.9
	Internal/bulge = 0.7  for closure of 245-271	Size = 4
		Stack = -0.9  for stack of 248-268
	Helix total = -0.9
	Internal/bulge = 2.6  for closure of 249-267	Size = 3
		Stack = -2.4  for stack of 251-264
		Stack = -3.3  for stack of 252-263
	Helix total = -5.7
	Hairpin = 4.1  for closure of 253-262
		Stack = -3.4  for stack of 193-222
		Stack = -2.4  for stack of 194-221
	Helix total = -5.8
	Internal/bulge = 2.7  for closure of 195-220	Size = 9
		Stack = -2.2  for stack of 201-215
		Stack = -2.1  for stack of 202-214
		Stack = -1.5  for stack of 203-213
		Stack = -3.3  for stack of 204-212
	Helix total = -9.1
	Hairpin = 3.3  for closure of 205-211
		Stack = -3.3  for stack of 133-175
		Stack = -2.1  for stack of 134-174
		Stack = -1.1  for stack of 135-173
		Stack = -2.4  for stack of 136-172
		Stack = -2.1  for stack of 137-171
	Helix total = -11.0
	Internal/bulge = 5.2  for closure of 138-170	Size = 5
		Stack = -2.2  for stack of 140-165
		Stack = -2.1  for stack of 141-164
		Stack = -2.2  for stack of 142-163
	Helix total = -6.5
	Internal/bulge = 1.1  for closure of 143-162	Size = 3
	Helix total = 0.0
	Internal/bulge = 0.4  for closure of 146-160	Size = 1 BP stack across bulge = -3.4
		Stack = -2.1  for stack of 148-159
		Stack = -1.5  for stack of 149-158
	Helix total = -3.6
	Hairpin = 3.3  for closure of 150-157
		Stack = -2.1  for stack of 112-132
		Stack = -1.3  for stack of 113-131
		Stack = -2.1  for stack of 114-130
		Stack = -3.4  for stack of 115-129
	Helix total = -8.9
	Internal/bulge = 2.2  for closure of 116-128	Size = 2
	Helix total = 0.0
	Hairpin = 5.8  for closure of 118-126
		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 = -75.4



