Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    48:67 49:66 50:65 51:64 52:63 152:186 153:185 154:184
	    155:183 156:182 202:233 203:232 204:231 205:230 206:229 207:228
	    250:288 251:287 252:286 253:285 254:283 255:282 256:281
	Energy of Broken Structure: -79.5
	Energy of Pseudo-Helices:   -44.5
	Pseudoknot Energy Penalty:  32.7
	Total Free Energy:          -91.3
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-348
		Stack = -1.5  for stack of 2-347
		Stack = -2.1  for stack of 3-346
		Stack = -3.4  for stack of 4-345
		Stack = -3.3  for stack of 5-344
		Stack = -2.4  for stack of 6-343
	Helix total = -16.0
	Multiloop = 5.1  for closure of 7-342
		Stack = -3.3  for stack of 325-341
		Stack = -3.3  for stack of 326-340
		Stack = -3.3  for stack of 327-339
		Stack = -3.3  for stack of 328-338
	Helix total = -13.2
	Hairpin = 4.4  for closure of 329-337
		Stack = -2.4  for stack of 20-321
		Stack = -3.4  for stack of 21-320
		Stack = -3.3  for stack of 22-319
		Stack = -1.4  for stack of 23-318
		Stack = -2.1  for stack of 24-317
		Stack = -2.5  for stack of 25-316
	Helix total = -15.1
	Internal/bulge = 5.5  for closure of 26-315	Size = 14
		Stack = -0.6  for stack of 35-308
		Stack = -1.0  for stack of 36-307
	Helix total = -1.6
	Internal/bulge = 1.2  for closure of 37-306	Size = 3
		Stack = -3.3  for stack of 39-303
	Helix total = -3.3
	Internal/bulge = 2.9  for closure of 40-302	Size = 7
		Stack = -2.1  for stack of 43-296
		Stack = -1.1  for stack of 44-295
		Stack = -2.1  for stack of 45-294
		Stack = -3.4  for stack of 46-293
	Helix total = -8.7
	Multiloop = 2.6  for closure of 47-292
		Stack = -2.5  for stack of 236-270
		Stack = -3.3  for stack of 237-269
		Stack = -3.3  for stack of 238-268
		Stack = -2.1  for stack of 239-267
	Helix total = -11.2
	Internal/bulge = 3.4  for closure of 240-266	Size = 12
		Stack = -3.3  for stack of 247-259
		Stack = -2.1  for stack of 248-258
	Helix total = -5.4
	Hairpin = 5.7  for closure of 249-257
		Stack = -3.4  for stack of 190-218
		Stack = -3.3  for stack of 191-217
		Stack = -2.4  for stack of 192-216
	Helix total = -9.1
	Internal/bulge = 1.9  for closure of 193-215	Size = 4
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 196-212	Size = 2
		Stack = -2.2  for stack of 198-210
		Stack = -1.3  for stack of 199-209
	Helix total = -3.5
	Hairpin = 5.8  for closure of 200-208
		Stack = -2.1  for stack of 136-172
		Stack = -2.1  for stack of 137-171
		Stack = -2.2  for stack of 138-170
		Stack = -2.4  for stack of 139-169
		Stack = -2.1  for stack of 140-168
		Stack = -2.4  for stack of 141-167
	Helix total = -13.3
	Internal/bulge = 1.5  for closure of 142-166	Size = 5
		Stack = -3.3  for stack of 145-162
		Stack = -3.3  for stack of 146-161
	Helix total = -6.6
	Internal/bulge = 0.1  for closure of 147-160	Size = 4
	Helix total = 0.0
	Hairpin = 5.1  for closure of 150-157
		Stack = -2.1  for stack of 116-135
		Stack = -2.1  for stack of 117-134
		Stack = -3.3  for stack of 118-133
	Helix total = -7.5
	Internal/bulge = 0.5  for closure of 119-132	Size = 1 BP stack across bulge = -3.3
		Stack = -3.3  for stack of 121-131
		Stack = -3.4  for stack of 122-130
	Helix total = -6.7
	Hairpin = 3.6  for closure of 123-129
		Stack = -2.2  for stack of 55-82
		Stack = -1.0  for stack of 56-81
		Stack = -2.1  for stack of 57-80
		Stack = -3.4  for stack of 58-79
		Stack = -2.1  for stack of 59-78
		Stack = -2.1  for stack of 60-77
	Helix total = -12.9
	Hairpin = 5.8  for closure of 61-76


	Total energy = -79.5



