Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    49:66 50:65 51:64 52:63 53:62 146:183 147:182 148:181
	    149:180 150:179 151:178 152:177 187:210 188:209 189:208 190:207
	    192:205 244:285 245:284 246:283 247:282 248:281 249:280 250:279
	Energy of Broken Structure: -123.7
	Energy of Pseudo-Helices:   -49.5
	Pseudoknot Energy Penalty:  50.9
	Total Free Energy:          -122.3
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-346
		Stack = -1.5  for stack of 2-345
		Stack = -2.1  for stack of 3-344
		Stack = -3.3  for stack of 4-343
		Stack = -3.4  for stack of 5-342
		Stack = -2.4  for stack of 6-341
	Helix total = -16.0
	Multiloop = 5.0  for closure of 7-340
		Stack = -3.4  for stack of 323-339
		Stack = -2.4  for stack of 324-338
		Stack = -3.3  for stack of 325-337
		Stack = -3.3  for stack of 326-336
	Helix total = -12.4
	Hairpin = 4.4  for closure of 327-335
		Stack = -2.1  for stack of 19-319
		Stack = -2.1  for stack of 20-318
		Stack = -1.5  for stack of 21-317
		Stack = -2.1  for stack of 22-316
		Stack = -2.4  for stack of 23-315
		Stack = -2.1  for stack of 24-314
		Stack = -2.5  for stack of 25-313
		Stack = -1.0  for stack of 26-312
	Helix total = -15.8
	Internal/bulge = 3.8  for closure of 27-311	Size = 2
		Stack = -2.1  for stack of 30-310
		Stack = -1.5  for stack of 31-309
		Stack = -1.3  for stack of 32-308
		Stack = -1.1  for stack of 33-307
		Stack = -2.4  for stack of 34-306
		Stack = -2.1  for stack of 35-305
		Stack = -0.9  for stack of 36-304
		Stack = -0.9  for stack of 37-303
		Stack = -0.9  for stack of 38-302
		Stack = -2.1  for stack of 39-301
		Stack = -3.4  for stack of 40-300
		Stack = -2.1  for stack of 41-299
	Helix total = -20.8
	Internal/bulge = 4.5  for closure of 42-298	Size = 5
		Stack = -2.1  for stack of 44-293
		Stack = -0.9  for stack of 45-292
		Stack = -2.1  for stack of 46-291
		Stack = -3.4  for stack of 47-290
	Helix total = -8.5
	Multiloop = 5.1  for closure of 48-289
		Stack = -3.3  for stack of 227-266
		Stack = -2.5  for stack of 228-265
		Stack = 0.3  for stack of 229-264
		Stack = -2.5  for stack of 230-263
		Stack = -2.1  for stack of 231-262
		Stack = -0.9  for stack of 232-261
		Stack = -1.3  for stack of 233-260
		Stack = -2.2  for stack of 234-259
		Stack = -2.1  for stack of 235-258
		Stack = -2.1  for stack of 236-257
		Stack = -2.4  for stack of 237-256
	Helix total = -21.1
	Internal/bulge = 1.9  for closure of 238-255	Size = 2
		Stack = -2.4  for stack of 240-253
		Stack = -3.3  for stack of 241-252
	Helix total = -5.7
	Hairpin = 4.5  for closure of 242-251
		Stack = -2.4  for stack of 196-224
		Stack = -3.3  for stack of 197-223
		Stack = -3.3  for stack of 198-222
		Stack = -3.3  for stack of 199-221
		Stack = -2.1  for stack of 200-220
		Stack = -1.3  for stack of 201-219
	Helix total = -15.7
	Hairpin = 6.6  for closure of 202-218
		Stack = -1.4  for stack of 131-167
		Stack = -2.5  for stack of 132-166
		Stack = -2.1  for stack of 133-165
		Stack = -1.5  for stack of 134-164
		Stack = -2.1  for stack of 135-163
		Stack = -0.9  for stack of 136-162
		Stack = -2.4  for stack of 137-161
		Stack = -2.1  for stack of 138-160
		Stack = -1.3  for stack of 139-159
		Stack = -0.9  for stack of 140-158
		Stack = -2.2  for stack of 141-157
		Stack = -3.3  for stack of 142-156
		Stack = -3.3  for stack of 143-155
	Helix total = -26.0
	Hairpin = 4.1  for closure of 144-154
		Stack = -1.3  for stack of 109-130
		Stack = -2.1  for stack of 110-129
		Stack = -3.4  for stack of 111-128
		Stack = -2.1  for stack of 112-127
		Stack = -2.1  for stack of 113-126
		Stack = -3.4  for stack of 114-125
		Stack = -2.1  for stack of 115-124
	Helix total = -16.5
	Hairpin = 4.5  for closure of 116-123
		Stack = -2.1  for stack of 54-79
		Stack = -3.4  for stack of 55-78
		Stack = -3.3  for stack of 56-77
		Stack = -2.4  for stack of 57-76
		Stack = -2.2  for stack of 58-75
		Stack = -0.9  for stack of 59-74
	Helix total = -14.3
	Hairpin = 6.4  for closure of 60-73


	Total energy = -123.7



