Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    107:183 108:182 109:181 110:180 111:179 112:178 113:176 114:175
	    115:174
	Energy of Broken Structure: -163.2
	Energy of Pseudo-Helices:   -14.0
	Pseudoknot Energy Penalty:  8.7
	Total Free Energy:          -168.5
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -4.2
		Stack = -2.4  for stack of 381-443
		Stack = -2.1  for stack of 382-442
		Stack = -3.4  for stack of 383-441
	Helix total = -7.9
	Internal/bulge = 1.0  for closure of 384-440	Size = 1 BP stack across bulge = -2.4
		Stack = -2.4  for stack of 385-438
		Stack = -2.1  for stack of 386-437
		Stack = -2.2  for stack of 387-436
		Stack = -2.4  for stack of 388-435
		Stack = -3.3  for stack of 389-434
	Helix total = -12.4
	Internal/bulge = 4.5  for closure of 390-433	Size = 14
		Stack = -3.4  for stack of 400-427
		Stack = -1.4  for stack of 401-426
		Stack = -2.5  for stack of 402-425
		Stack = -2.4  for stack of 403-424
	Helix total = -9.7
	Internal/bulge = 3.3  for closure of 404-423	Size = 2
		Stack = -2.4  for stack of 407-422
		Stack = -3.3  for stack of 408-421
		Stack = -3.3  for stack of 409-420
	Helix total = -9.0
	Hairpin = 3.4  for closure of 410-419
		Stack = -3.3  for stack of 211-370
		Stack = -2.1  for stack of 212-369
		Stack = -2.1  for stack of 213-368
		Stack = -3.4  for stack of 214-367
		Stack = -2.4  for stack of 215-366
		Stack = -3.3  for stack of 216-365
	Helix total = -16.6
	Internal/bulge = 7.0  for closure of 217-364	Size = 20
		Stack = -2.5  for stack of 224-349
		Stack = -3.3  for stack of 225-348
		Stack = -2.1  for stack of 226-347
	Helix total = -7.9
	Internal/bulge = 1.7  for closure of 227-346	Size = 1 BP stack across bulge = -2.1
		Stack = -3.4  for stack of 228-344
		Stack = -3.3  for stack of 229-343
		Stack = -3.3  for stack of 230-342
	Helix total = -10.0
	Internal/bulge = 1.1  for closure of 231-341	Size = 3
		Stack = -3.4  for stack of 233-338
		Stack = -3.3  for stack of 234-337
		Stack = -3.3  for stack of 235-336
		Stack = -3.3  for stack of 236-335
		Stack = -3.3  for stack of 237-334
		Stack = -2.4  for stack of 238-333
		Stack = -2.4  for stack of 239-332
	Helix total = -21.4
	Internal/bulge = 3.9  for closure of 240-331	Size = 6
		Stack = -3.3  for stack of 243-326
		Stack = -3.3  for stack of 244-325
		Stack = -2.4  for stack of 245-324
		Stack = -3.4  for stack of 246-323
	Helix total = -12.4
	Multiloop = 5.8  for closure of 247-322
		Stack = -2.1  for stack of 302-314
		Stack = -2.4  for stack of 303-313
		Stack = -2.1  for stack of 304-312
		Stack = -2.5  for stack of 305-311
	Helix total = -9.1
	Hairpin = 5.9  for closure of 306-310
		Stack = -2.4  for stack of 256-300
		Stack = -3.4  for stack of 257-299
		Stack = -2.4  for stack of 258-298
		Stack = -3.3  for stack of 259-297
	Helix total = -11.5
	Internal/bulge = 2.3  for closure of 260-296	Size = 3
		Stack = -3.3  for stack of 263-294
		Stack = -3.4  for stack of 264-293
	Helix total = -6.7
	Internal/bulge = 2.6  for closure of 265-292	Size = 5
		Stack = -3.3  for stack of 268-288
		Stack = -3.3  for stack of 269-287
	Helix total = -6.6
	Hairpin = 4.4  for closure of 270-286
		Stack = -3.3  for stack of 18-208
		Stack = -2.1  for stack of 19-207
		Stack = -1.4  for stack of 20-206
		Stack = -3.3  for stack of 21-205
		Stack = -3.3  for stack of 22-204
		Stack = -2.4  for stack of 23-203
		Stack = -2.1  for stack of 24-202
		Stack = -3.3  for stack of 25-201
		Stack = -3.3  for stack of 26-200
		Stack = -3.3  for stack of 27-199
		Stack = -2.5  for stack of 28-198
		Stack = -1.4  for stack of 29-197
		Stack = -1.5  for stack of 30-196
	Helix total = -33.2
	Internal/bulge = 3.0  for closure of 31-195	Size = 4
		Stack = -3.3  for stack of 33-191
		Stack = -3.4  for stack of 34-190
		Stack = -3.3  for stack of 35-189
		Stack = -2.1  for stack of 36-188
	Helix total = -12.1
	Internal/bulge = 8.2  for closure of 37-187	Size = 67
		Stack = -3.3  for stack of 64-145
		Stack = -3.4  for stack of 65-144
		Stack = -2.4  for stack of 66-143
	Helix total = -9.1
	Internal/bulge = 0.0  for closure of 67-142	Size = 1 BP stack across bulge = -2.5
		Stack = -1.0  for stack of 68-140
		Stack = -2.1  for stack of 69-139
		Stack = -3.3  for stack of 70-138
		Stack = -3.4  for stack of 71-137
	Helix total = -9.8
	Internal/bulge = 2.0  for closure of 72-136	Size = 9
		Stack = -3.4  for stack of 78-131
		Stack = -2.1  for stack of 79-130
		Stack = -0.9  for stack of 80-129
		Stack = -0.9  for stack of 81-128
	Helix total = -7.3
	Internal/bulge = 6.1  for closure of 82-127	Size = 9
		Stack = -2.4  for stack of 90-124
		Stack = -3.4  for stack of 91-123
	Helix total = -5.8
	Internal/bulge = -2.2  for closure of 92-122	Size = 2
		Stack = -2.4  for stack of 94-120
		Stack = -3.4  for stack of 95-119
		Stack = -2.1  for stack of 96-118
		Stack = -2.1  for stack of 97-117
	Helix total = -10.0
	Hairpin = 5.5  for closure of 98-116


	Total energy = -163.2



