Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    25:40 26:39 27:38 28:37 29:36 132:168 133:167 134:166
	    135:165 136:164 137:163 185:218 186:217 187:216 188:215 189:214
	    190:213 235:272 236:271 237:270 238:269 239:268 240:267 241:266
	Energy of Broken Structure: -32.4
	Energy of Pseudo-Helices:   -39.2
	Pseudoknot Energy Penalty:  37.1
	Total Free Energy:          -34.5
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -0.1
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 8-295	Size = 2
		Stack = -2.5  for stack of 10-293
	Helix total = -2.5
	Internal/bulge = 0.3  for closure of 11-292	Size = 4
		Stack = -1.1  for stack of 14-289
		Stack = -1.3  for stack of 15-288
	Helix total = -2.4
	Internal/bulge = 4.9  for closure of 16-287	Size = 9
		Stack = -2.4  for stack of 20-280
		Stack = -2.2  for stack of 21-279
		Stack = -2.1  for stack of 22-278
		Stack = -2.2  for stack of 23-277
	Helix total = -8.9
	Multiloop = 4.9  for closure of 24-276
		Stack = -2.5  for stack of 221-255
		Stack = -1.0  for stack of 222-254
		Stack = -1.1  for stack of 223-253
		Stack = -2.4  for stack of 224-252
		Stack = -2.1  for stack of 225-251
		Stack = -1.1  for stack of 226-250
		Stack = -2.1  for stack of 227-249
		Stack = -2.5  for stack of 228-248
		Stack = -0.6  for stack of 229-247
	Helix total = -15.4
	Internal/bulge = 2.4  for closure of 230-246	Size = 1 BP stack across bulge = -1.0
		Stack = -2.1  for stack of 231-244
		Stack = -2.5  for stack of 232-243
	Helix total = -4.6
	Hairpin = 4.6  for closure of 233-242
		Stack = -2.1  for stack of 173-201
		Stack = -1.3  for stack of 174-200
		Stack = -0.9  for stack of 175-199
		Stack = -0.9  for stack of 176-198
		Stack = -2.2  for stack of 177-197
		Stack = -2.1  for stack of 178-196
	Helix total = -9.5
	Hairpin = 6.7  for closure of 179-195
		Stack = -1.1  for stack of 116-153
		Stack = -2.4  for stack of 117-152
		Stack = -2.4  for stack of 118-151
		Stack = -3.4  for stack of 119-150
	Helix total = -9.3
	Internal/bulge = 1.2  for closure of 120-149	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.1  for closure of 122-147	Size = 1 BP stack across bulge = -1.3
		Stack = -0.9  for stack of 123-145
		Stack = -2.2  for stack of 124-144
		Stack = -2.1  for stack of 125-143
		Stack = -2.1  for stack of 126-142
		Stack = -3.4  for stack of 127-141
		Stack = -2.1  for stack of 128-140
		Stack = -1.4  for stack of 129-139
	Helix total = -14.2
	Hairpin = 5.9  for closure of 130-138
		Stack = -2.5  for stack of 94-115
		Stack = -1.0  for stack of 95-114
		Stack = -2.1  for stack of 96-113
	Helix total = -5.6
	Internal/bulge = 1.2  for closure of 97-112	Size = 4
		Stack = -3.4  for stack of 100-109
	Helix total = -3.4
	Hairpin = 3.1  for closure of 101-108
		Stack = -0.5  for stack of 30-59
		Stack = 1.3  for stack of 31-58
		Stack = -0.5  for stack of 32-57
		Stack = -1.4  for stack of 33-56
		Stack = -1.5  for stack of 34-55
	Helix total = -2.6
	Hairpin = 6.9  for closure of 35-54


	Total energy = -32.4



