Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    49:65 50:64 51:63 52:62 53:61 158:194 159:193 160:192
	    161:191 162:190 163:189 211:241 212:240 213:239 214:238 215:237
	    263:304 264:303 265:302 266:301 267:300 268:299 269:298
	Energy of Broken Structure: -60.3
	Energy of Pseudo-Helices:   -37.2
	Pseudoknot Energy Penalty:  33.0
	Total Free Energy:          -64.5
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-365
		Stack = -1.5  for stack of 2-364
		Stack = -2.1  for stack of 3-363
		Stack = -2.4  for stack of 4-362
		Stack = -1.1  for stack of 5-361
		Stack = -2.1  for stack of 6-360
	Helix total = -12.5
	Multiloop = 6.6  for closure of 7-359
		Stack = -2.1  for stack of 342-358
		Stack = -3.3  for stack of 343-357
		Stack = -3.3  for stack of 344-356
		Stack = -3.3  for stack of 345-355
	Helix total = -12.0
	Hairpin = 4.4  for closure of 346-354
		Stack = -2.1  for stack of 21-338
		Stack = -0.6  for stack of 22-337
		Stack = -0.5  for stack of 23-336
		Stack = -2.5  for stack of 24-335
		Stack = -2.4  for stack of 25-334
		Stack = -2.5  for stack of 26-333
		Stack = -1.0  for stack of 27-332
	Helix total = -11.6
	Internal/bulge = 1.7  for closure of 28-331	Size = 6
	Helix total = 0.0
	Internal/bulge = 0.7  for closure of 32-327	Size = 4
		Stack = -2.1  for stack of 35-324
		Stack = -1.1  for stack of 36-323
		Stack = -0.9  for stack of 37-322
		Stack = -1.0  for stack of 38-321
		Stack = -1.3  for stack of 39-320
		Stack = -2.2  for stack of 40-319
		Stack = -2.1  for stack of 41-318
	Helix total = -10.7
	Internal/bulge = 4.5  for closure of 42-317	Size = 5
		Stack = -2.4  for stack of 44-312
		Stack = -2.4  for stack of 45-311
		Stack = -1.1  for stack of 46-310
		Stack = -1.3  for stack of 47-309
	Helix total = -7.2
	Multiloop = 7.6  for closure of 48-308
		Stack = -2.5  for stack of 244-285
		Stack = -2.1  for stack of 245-284
		Stack = -1.0  for stack of 246-283
		Stack = -2.1  for stack of 247-282
		Stack = -2.2  for stack of 248-281
		Stack = -0.9  for stack of 249-280
		Stack = -2.4  for stack of 250-279
		Stack = -2.1  for stack of 251-278
	Helix total = -15.3
	Internal/bulge = 1.5  for closure of 252-277	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.2  for closure of 254-275	Size = 5
		Stack = -3.4  for stack of 258-272
		Stack = -3.3  for stack of 259-271
	Helix total = -6.7
	Hairpin = 5.6  for closure of 260-270
		Stack = -0.9  for stack of 199-225
		Stack = -0.9  for stack of 200-224
		Stack = -1.3  for stack of 201-223
		Stack = -0.9  for stack of 202-222
		Stack = -2.2  for stack of 203-221
		Stack = -2.1  for stack of 204-220
		Stack = -1.3  for stack of 205-219
	Helix total = -9.6
	Hairpin = 6.5  for closure of 206-218
		Stack = -1.0  for stack of 142-179
		Stack = -2.5  for stack of 143-178
		Stack = -2.1  for stack of 144-177
		Stack = -2.4  for stack of 145-176
	Helix total = -8.0
	Internal/bulge = 3.0  for closure of 146-175	Size = 5
		Stack = -1.3  for stack of 149-171
		Stack = -2.2  for stack of 150-170
		Stack = -3.3  for stack of 151-169
		Stack = -2.1  for stack of 152-168
		Stack = -2.1  for stack of 153-167
		Stack = -2.2  for stack of 154-166
		Stack = -1.3  for stack of 155-165
	Helix total = -14.5
	Hairpin = 5.1  for closure of 156-164
		Stack = -1.0  for stack of 117-138
	Helix total = -1.0
	Internal/bulge = 2.4  for closure of 118-137	Size = 4
		Stack = -1.4  for stack of 121-134
		Stack = -3.4  for stack of 122-133
	Helix total = -4.8
	Hairpin = 4.5  for closure of 123-132
		Stack = -2.2  for stack of 54-77
	Helix total = -2.2
	Internal/bulge = 1.7  for closure of 55-76	Size = 2
		Stack = -2.2  for stack of 57-74
		Stack = -2.4  for stack of 58-73
		Stack = -2.2  for stack of 59-72
	Helix total = -6.8
	Hairpin = 6.3  for closure of 60-71


	Total energy = -60.3



