Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    48:67 49:66 50:65 51:64 52:63 152:185 153:184 154:183
	    155:182 156:181 157:180 202:233 203:232 204:231 205:230 206:229
	    207:228 253:292 254:291 256:289 257:288 258:287 259:286 260:285
	Energy of Broken Structure: -83.2
	Energy of Pseudo-Helices:   -48.1
	Pseudoknot Energy Penalty:  39.7
	Total Free Energy:          -91.6
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 = 5.0  for closure of 7-346
		Stack = -3.3  for stack of 329-345
		Stack = -3.3  for stack of 330-344
		Stack = -3.3  for stack of 331-343
		Stack = -3.3  for stack of 332-342
	Helix total = -13.2
	Hairpin = 4.4  for closure of 333-341
		Stack = -2.4  for stack of 19-325
		Stack = -1.5  for stack of 20-324
		Stack = -0.5  for stack of 21-323
		Stack = -2.1  for stack of 22-322
		Stack = -3.3  for stack of 23-321
		Stack = -2.5  for stack of 24-320
	Helix total = -12.3
	Internal/bulge = 3.0  for closure of 25-319	Size = 3
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 28-317	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 30-315	Size = 2
		Stack = -1.1  for stack of 32-313
		Stack = -2.4  for stack of 33-312
	Helix total = -3.5
	Internal/bulge = 0.5  for closure of 34-311	Size = 1 BP stack across bulge = -3.3
		Stack = -3.3  for stack of 36-310
		Stack = -2.1  for stack of 37-309
		Stack = -1.4  for stack of 38-308
		Stack = -3.3  for stack of 39-307
	Helix total = -10.1
	Internal/bulge = -0.1  for closure of 40-306	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.2  for closure of 42-304	Size = 3
		Stack = -2.1  for stack of 43-300
		Stack = -1.1  for stack of 44-299
		Stack = -2.1  for stack of 45-298
		Stack = -3.4  for stack of 46-297
	Helix total = -8.7
	Multiloop = 2.4  for closure of 47-296
		Stack = -2.2  for stack of 236-274
		Stack = -2.4  for stack of 237-273
		Stack = -3.3  for stack of 238-272
		Stack = -2.1  for stack of 239-271
	Helix total = -10.0
	Internal/bulge = 1.2  for closure of 240-270	Size = 2
		Stack = -2.4  for stack of 242-268
		Stack = -3.3  for stack of 243-267
		Stack = -2.5  for stack of 244-266
		Stack = 0.3  for stack of 245-265
	Helix total = -7.9
	Internal/bulge = 3.3  for closure of 246-264	Size = 1 BP stack across bulge = -0.5
		Stack = -2.5  for stack of 248-263
	Helix total = -2.5
	Hairpin = 4.6  for closure of 249-262
		Stack = -2.5  for stack of 189-218
		Stack = -2.1  for stack of 190-217
		Stack = -1.4  for stack of 191-216
		Stack = -3.4  for stack of 192-215
		Stack = -2.1  for stack of 193-214
		Stack = -2.1  for stack of 194-213
		Stack = -3.3  for stack of 195-212
		Stack = -2.5  for stack of 196-211
		Stack = -0.5  for stack of 197-210
		Stack = -1.4  for stack of 198-209
	Helix total = -21.3
	Hairpin = 5.0  for closure of 199-208
		Stack = -3.3  for stack of 136-172
		Stack = -3.3  for stack of 137-171
	Helix total = -6.6
	Internal/bulge = 1.9  for closure of 138-170	Size = 3
		Stack = -2.2  for stack of 141-168
	Helix total = -2.2
	Internal/bulge = 2.6  for closure of 142-167	Size = 5
		Stack = -2.1  for stack of 146-164
	Helix total = -2.1
	Internal/bulge = 2.8  for closure of 147-163	Size = 6
	Helix total = 0.0
	Hairpin = 5.8  for closure of 151-159
		Stack = -3.4  for stack of 112-135
		Stack = -2.1  for stack of 113-134
	Helix total = -5.5
	Internal/bulge = 0.9  for closure of 114-133	Size = 4
		Stack = -2.1  for stack of 117-130
		Stack = -3.4  for stack of 118-129
		Stack = -3.3  for stack of 119-128
	Helix total = -8.8
	Hairpin = 3.1  for closure of 120-127
		Stack = -2.5  for stack of 55-80
		Stack = -1.5  for stack of 56-79
		Stack = -2.1  for stack of 57-78
		Stack = -1.4  for stack of 58-77
		Stack = -1.5  for stack of 59-76
	Helix total = -9.0
	Hairpin = 5.5  for closure of 60-75


	Total energy = -83.2



