Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    106:161 107:160 108:159 109:158 110:157 111:156 112:154 113:153
	    114:152
	Energy of Broken Structure: -100.0
	Energy of Pseudo-Helices:   -14.0
	Pseudoknot Energy Penalty:  8.5
	Total Free Energy:          -105.5
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -2.7
		Stack = -3.3  for stack of 372-441
		Stack = -3.3  for stack of 373-440
		Stack = -1.5  for stack of 374-439
		Stack = -2.5  for stack of 375-438
	Helix total = -10.6
	Internal/bulge = 1.1  for closure of 376-437	Size = 4
		Stack = -3.4  for stack of 379-434
		Stack = -2.1  for stack of 380-433
		Stack = -2.1  for stack of 381-432
		Stack = -1.5  for stack of 382-431
	Helix total = -9.1
	Internal/bulge = 6.9  for closure of 383-430	Size = 17
		Stack = -1.4  for stack of 399-427
		Stack = -1.4  for stack of 400-426
		Stack = -3.4  for stack of 401-425
	Helix total = -6.2
	Internal/bulge = 2.7  for closure of 402-424	Size = 5
		Stack = -2.4  for stack of 405-420
		Stack = -3.3  for stack of 406-419
		Stack = -3.3  for stack of 407-418
	Helix total = -9.0
	Hairpin = 3.4  for closure of 408-417
		Stack = -3.3  for stack of 191-360
	Helix total = -3.3
	Internal/bulge = 1.2  for closure of 192-359	Size = 2
		Stack = -2.5  for stack of 194-357
		Stack = -2.1  for stack of 195-356
		Stack = -1.5  for stack of 196-355
	Helix total = -6.1
	Internal/bulge = 6.3  for closure of 197-354	Size = 20
		Stack = -3.3  for stack of 212-347
		Stack = -3.3  for stack of 213-346
		Stack = -2.4  for stack of 214-345
		Stack = -3.3  for stack of 215-344
		Stack = -1.5  for stack of 216-343
	Helix total = -13.8
	Internal/bulge = 3.8  for closure of 217-342	Size = 2
		Stack = -0.6  for stack of 218-339
		Stack = -1.3  for stack of 219-338
		Stack = -0.5  for stack of 220-337
	Helix total = -2.4
	Internal/bulge = 6.3  for closure of 221-336	Size = 14
		Stack = -1.4  for stack of 232-331
		Stack = -2.5  for stack of 233-330
		Stack = -1.0  for stack of 234-329
		Stack = -1.4  for stack of 235-328
		Stack = -1.5  for stack of 236-327
		Stack = -2.1  for stack of 237-326
		Stack = -2.1  for stack of 238-325
		Stack = -3.3  for stack of 239-324
	Helix total = -15.3
	Internal/bulge = 3.2  for closure of 240-323	Size = 6
		Stack = -3.3  for stack of 245-320
		Stack = -3.3  for stack of 246-319
		Stack = -3.3  for stack of 247-318
		Stack = -1.4  for stack of 248-317
	Helix total = -11.3
	Multiloop = 6.9  for closure of 249-316
		Stack = -2.1  for stack of 294-306
		Stack = -2.4  for stack of 295-305
		Stack = -2.1  for stack of 296-304
	Helix total = -6.6
	Hairpin = 4.1  for closure of 297-303
		Stack = -2.4  for stack of 267-292
		Stack = -3.4  for stack of 268-291
		Stack = -2.4  for stack of 269-290
		Stack = -1.5  for stack of 270-289
	Helix total = -9.7
	Internal/bulge = 1.3  for closure of 271-288	Size = 1 BP stack across bulge = -2.5
		Stack = -1.4  for stack of 273-287
		Stack = -2.1  for stack of 274-286
		Stack = -3.4  for stack of 275-285
	Helix total = -6.9
	Hairpin = 4.5  for closure of 276-284
		Stack = -2.1  for stack of 21-182
		Stack = -2.5  for stack of 22-181
		Stack = -1.4  for stack of 23-180
		Stack = -1.5  for stack of 24-179
		Stack = -1.3  for stack of 25-178
		Stack = -2.2  for stack of 26-177
		Stack = -2.4  for stack of 27-176
		Stack = -3.3  for stack of 28-175
		Stack = -2.4  for stack of 29-174
		Stack = -2.1  for stack of 30-173
		Stack = -3.3  for stack of 31-172
	Helix total = -24.5
	Internal/bulge = 3.3  for closure of 32-171	Size = 2
		Stack = -2.4  for stack of 33-168
		Stack = -2.1  for stack of 34-167
		Stack = -2.4  for stack of 35-166
		Stack = -2.1  for stack of 36-165
	Helix total = -9.0
	Internal/bulge = 6.4  for closure of 37-164	Size = 69
		Stack = -3.4  for stack of 75-131
		Stack = -2.1  for stack of 76-130
		Stack = -2.4  for stack of 77-129
		Stack = -2.1  for stack of 78-128
	Helix total = -10.0
	Internal/bulge = 7.1  for closure of 79-127	Size = 12
		Stack = -2.1  for stack of 89-123
		Stack = -3.4  for stack of 90-122
		Stack = -3.3  for stack of 91-121
		Stack = -2.1  for stack of 92-120
		Stack = -1.4  for stack of 93-119
		Stack = -2.5  for stack of 94-118
		Stack = -0.6  for stack of 95-117
		Stack = -2.1  for stack of 96-116
	Helix total = -17.5
	Hairpin = 5.5  for closure of 97-115


	Total energy = -100.0



