Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    48:66 49:65 50:64 51:63 52:62 153:190 154:189 155:188
	    156:185 157:184 207:238 208:237 209:236 210:235 211:234 258:290
	    259:289 260:288 261:287 262:286
	Energy of Broken Structure: -63.1
	Energy of Pseudo-Helices:   -33.3
	Pseudoknot Energy Penalty:  32.5
	Total Free Energy:          -63.9
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-353
		Stack = -1.5  for stack of 2-352
		Stack = -2.1  for stack of 3-351
		Stack = -3.4  for stack of 4-350
		Stack = -2.1  for stack of 5-349
		Stack = -2.1  for stack of 6-348
	Helix total = -14.5
	Multiloop = 5.1  for closure of 7-347
		Stack = -3.3  for stack of 330-346
		Stack = -3.3  for stack of 331-345
		Stack = -3.3  for stack of 332-344
		Stack = -3.3  for stack of 333-343
	Helix total = -13.2
	Hairpin = 4.4  for closure of 334-342
		Stack = -2.4  for stack of 20-326
		Stack = -1.5  for stack of 21-325
		Stack = -1.3  for stack of 22-324
		Stack = -0.9  for stack of 23-323
	Helix total = -6.1
	Internal/bulge = 0.8  for closure of 24-322	Size = 4
	Helix total = 0.0
	Internal/bulge = 2.9  for closure of 27-319	Size = 9
		Stack = -2.5  for stack of 33-314
		Stack = -3.3  for stack of 34-313
	Helix total = -5.8
	Internal/bulge = 1.0  for closure of 35-312	Size = 6
		Stack = -3.3  for stack of 39-308
		Stack = -2.2  for stack of 40-307
		Stack = -1.0  for stack of 41-306
	Helix total = -6.5
	Internal/bulge = 3.7  for closure of 42-305	Size = 3
		Stack = -2.1  for stack of 43-301
		Stack = -1.1  for stack of 44-300
		Stack = -2.1  for stack of 45-299
		Stack = -2.5  for stack of 46-298
	Helix total = -7.8
	Multiloop = 6.1  for closure of 47-297
		Stack = -2.5  for stack of 241-276
		Stack = -3.3  for stack of 242-275
		Stack = -2.1  for stack of 243-274
		Stack = -0.9  for stack of 244-273
	Helix total = -8.8
	Internal/bulge = 2.4  for closure of 245-272	Size = 12
		Stack = -3.3  for stack of 252-265
		Stack = -2.4  for stack of 253-264
	Helix total = -5.7
	Hairpin = 4.5  for closure of 254-263
		Stack = -2.5  for stack of 193-223
		Stack = -2.4  for stack of 194-222
	Helix total = -4.9
	Internal/bulge = 1.2  for closure of 195-221	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.6  for closure of 197-219	Size = 6
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 202-216	Size = 2
		Stack = -3.3  for stack of 204-214
		Stack = -2.1  for stack of 205-213
	Helix total = -5.4
	Hairpin = 4.6  for closure of 206-212
		Stack = -1.4  for stack of 135-174
		Stack = -2.5  for stack of 136-173
		Stack = -2.1  for stack of 137-172
		Stack = -2.4  for stack of 138-171
		Stack = -3.3  for stack of 139-170
	Helix total = -11.7
	Internal/bulge = 4.5  for closure of 140-169	Size = 5
		Stack = -2.4  for stack of 142-164
		Stack = -2.1  for stack of 143-163
		Stack = -1.3  for stack of 144-162
	Helix total = -5.8
	Internal/bulge = 5.8  for closure of 145-161	Size = 6
		Stack = -2.4  for stack of 151-159
	Helix total = -2.4
	Hairpin = 4.7  for closure of 152-158
		Stack = -2.1  for stack of 114-134
		Stack = -1.3  for stack of 115-133
		Stack = -2.1  for stack of 116-132
		Stack = -3.4  for stack of 117-131
	Helix total = -8.9
	Internal/bulge = 1.4  for closure of 118-130	Size = 1 BP stack across bulge = -2.4
		Stack = -3.3  for stack of 119-128
		Stack = -3.4  for stack of 120-127
	Helix total = -6.7
	Hairpin = 3.5  for closure of 121-126
		Stack = -2.1  for stack of 53-79
		Stack = -3.4  for stack of 54-78
		Stack = -2.4  for stack of 55-77
		Stack = -3.3  for stack of 56-76
		Stack = -2.5  for stack of 57-75
		Stack = -0.6  for stack of 58-74
	Helix total = -14.3
	Hairpin = 6.7  for closure of 59-73


	Total energy = -63.1



