Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    49:67 50:66 51:65 52:64 53:63 142:168 145:165 148:164
	    149:163 151:162 207:238 208:237 209:236 210:235 211:234 257:292
	    258:291 259:290 260:289 262:287
	Energy of Broken Structure: -48.7
	Energy of Pseudo-Helices:   -25.2
	Pseudoknot Energy Penalty:  30.8
	Total Free Energy:          -43.1
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 = 5.2  for closure of 7-347
		Stack = -3.4  for stack of 330-346
		Stack = -2.4  for stack of 331-345
		Stack = -3.3  for stack of 332-344
		Stack = -3.3  for stack of 333-343
	Helix total = -12.4
	Hairpin = 4.4  for closure of 334-342
		Stack = -2.1  for stack of 21-326
		Stack = -0.9  for stack of 22-325
		Stack = -0.6  for stack of 23-324
		Stack = -1.3  for stack of 24-323
	Helix total = -4.9
	Internal/bulge = 0.0  for closure of 25-322	Size = 4
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 28-319	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.6  for closure of 30-317	Size = 3
		Stack = -0.5  for stack of 33-315
		Stack = -2.5  for stack of 34-314
		Stack = -2.1  for stack of 35-313
	Helix total = -5.1
	Internal/bulge = 1.9  for closure of 36-312	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 38-310	Size = 2
		Stack = -3.3  for stack of 40-308
		Stack = -2.2  for stack of 41-307
		Stack = -1.0  for stack of 42-306
	Helix total = -6.5
	Internal/bulge = 3.7  for closure of 43-305	Size = 3
		Stack = -2.1  for stack of 44-301
		Stack = -1.1  for stack of 45-300
		Stack = -2.1  for stack of 46-299
		Stack = -3.4  for stack of 47-298
	Helix total = -8.7
	Multiloop = 3.3  for closure of 48-297
		Stack = -2.5  for stack of 241-277
		Stack = -2.1  for stack of 242-276
		Stack = -1.3  for stack of 243-275
		Stack = -1.1  for stack of 244-274
	Helix total = -7.0
	Internal/bulge = 2.7  for closure of 245-273	Size = 8
	Helix total = 0.0
	Internal/bulge = 2.6  for closure of 250-268	Size = 3
		Stack = -2.4  for stack of 252-265
		Stack = -3.3  for stack of 253-264
	Helix total = -5.7
	Hairpin = 4.1  for closure of 254-263
		Stack = -3.4  for stack of 194-223
		Stack = -2.4  for stack of 195-222
	Helix total = -5.8
	Internal/bulge = 2.7  for closure of 196-221	Size = 9
		Stack = -2.2  for stack of 202-216
		Stack = -3.3  for stack of 203-215
		Stack = -2.1  for stack of 204-214
		Stack = -0.6  for stack of 205-213
	Helix total = -8.2
	Hairpin = 4.2  for closure of 206-212
		Stack = -0.9  for stack of 154-191
		Stack = -2.4  for stack of 155-190
		Stack = -2.1  for stack of 156-189
		Stack = -2.1  for stack of 157-188
		Stack = -3.4  for stack of 158-187
	Helix total = -10.9
	Hairpin = 6.5  for closure of 159-186
	Helix total = 0.0
	Internal/bulge = 1.0  for closure of 109-138	Size = 4
		Stack = -2.1  for stack of 112-135
	Helix total = -2.1
	Internal/bulge = 1.9  for closure of 113-134	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.3  for closure of 115-132	Size = 1 BP stack across bulge = -2.5
		Stack = -3.3  for stack of 116-130
		Stack = -2.4  for stack of 117-129
	Helix total = -5.7
	Hairpin = 5.7  for closure of 118-128
		Stack = -3.4  for stack of 55-78
		Stack = -2.4  for stack of 56-77
		Stack = -3.3  for stack of 57-76
		Stack = -2.5  for stack of 58-75
		Stack = -0.6  for stack of 59-74
	Helix total = -12.2
	Hairpin = 6.5  for closure of 60-73


	Total energy = -48.7



