Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    55:73 56:72 149:183 150:182 151:181 152:180 153:179 202:232
	    203:231 204:230 205:229 206:228 207:227 250:290 251:289 252:288
	    253:287 254:286 255:285 256:284
	Energy of Broken Structure: -71.3
	Energy of Pseudo-Helices:   -36.5
	Pseudoknot Energy Penalty:  31.0
	Total Free Energy:          -76.8
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-351
		Stack = -1.5  for stack of 2-350
		Stack = -2.1  for stack of 3-349
		Stack = -2.4  for stack of 4-348
		Stack = -2.2  for stack of 5-347
		Stack = -2.4  for stack of 6-346
	Helix total = -13.9
	Multiloop = 5.1  for closure of 7-345
		Stack = -2.2  for stack of 328-344
		Stack = -2.1  for stack of 329-343
		Stack = -3.3  for stack of 330-342
		Stack = -3.3  for stack of 331-341
	Helix total = -10.9
	Hairpin = 4.4  for closure of 332-340
		Stack = -2.1  for stack of 20-324
		Stack = -2.1  for stack of 21-323
		Stack = -1.5  for stack of 22-322
		Stack = -2.1  for stack of 23-321
		Stack = -2.4  for stack of 24-320
		Stack = -1.1  for stack of 25-319
		Stack = -1.3  for stack of 26-318
		Stack = -0.6  for stack of 27-317
	Helix total = -13.2
	Internal/bulge = 3.3  for closure of 28-316	Size = 5
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 32-313	Size = 2
		Stack = -2.5  for stack of 34-311
		Stack = -2.1  for stack of 35-310
		Stack = -0.9  for stack of 36-309
		Stack = -1.0  for stack of 37-308
		Stack = -2.5  for stack of 38-307
		Stack = -2.4  for stack of 39-306
		Stack = -2.5  for stack of 40-305
		Stack = -0.6  for stack of 41-304
	Helix total = -14.5
	Internal/bulge = 4.5  for closure of 42-303	Size = 5
		Stack = -2.4  for stack of 44-298
		Stack = -2.4  for stack of 45-297
		Stack = -2.1  for stack of 46-296
		Stack = -3.4  for stack of 47-295
	Helix total = -10.3
	Multiloop = 2.2  for closure of 48-294
		Stack = -3.4  for stack of 235-271
		Stack = -2.1  for stack of 236-270
		Stack = -1.0  for stack of 237-269
	Helix total = -6.5
	Internal/bulge = 3.8  for closure of 238-268	Size = 13
		Stack = -2.1  for stack of 245-260
		Stack = -3.4  for stack of 246-259
		Stack = -3.3  for stack of 247-258
	Helix total = -8.8
	Hairpin = 4.5  for closure of 248-257
		Stack = -2.1  for stack of 190-215
		Stack = -0.9  for stack of 191-214
		Stack = -1.3  for stack of 192-213
	Helix total = -4.3
	Internal/bulge = 1.9  for closure of 193-212	Size = 2
		Stack = -1.5  for stack of 195-210
		Stack = -3.3  for stack of 196-209
	Helix total = -4.8
	Hairpin = 5.5  for closure of 197-208
		Stack = -2.4  for stack of 135-168
		Stack = -2.1  for stack of 136-167
		Stack = -2.4  for stack of 137-166
	Helix total = -6.9
	Internal/bulge = 2.8  for closure of 138-165	Size = 2
		Stack = -2.1  for stack of 139-162
	Helix total = -2.1
	Internal/bulge = 1.9  for closure of 140-161	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.3  for closure of 142-159	Size = 1 BP stack across bulge = -1.5
		Stack = -3.3  for stack of 143-157
		Stack = -2.1  for stack of 144-156
		Stack = -1.4  for stack of 145-155
	Helix total = -6.8
	Hairpin = 6.0  for closure of 146-154
		Stack = -2.4  for stack of 108-131
		Stack = -3.4  for stack of 109-130
		Stack = -2.1  for stack of 110-129
	Helix total = -7.9
	Internal/bulge = 2.9  for closure of 111-128	Size = 1 BP stack across bulge = -0.9
		Stack = -1.3  for stack of 113-127
		Stack = -2.1  for stack of 114-126
		Stack = -3.4  for stack of 115-125
		Stack = -2.1  for stack of 116-124
	Helix total = -8.9
	Hairpin = 4.2  for closure of 117-123
		Stack = -2.4  for stack of 49-64
		Stack = -2.4  for stack of 50-63
		Stack = -2.1  for stack of 51-62
		Stack = -3.3  for stack of 52-61
	Helix total = -10.2
	Hairpin = 3.2  for closure of 53-60


	Total energy = -71.3



