Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    50:69 51:68 52:67 53:66 54:65 256:295 258:293 260:289
	    261:288 262:287
	Energy of Broken Structure: 1360.5
	Energy of Pseudo-Helices:   -13.9
	Pseudoknot Energy Penalty:  14.7
	Total Free Energy:          1361.3
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-356
		Stack = -1.5  for stack of 2-355
		Stack = -2.1  for stack of 3-354
		Stack = -2.4  for stack of 4-353
		Stack = -1.1  for stack of 5-352
		Stack = -2.1  for stack of 6-351
	Helix total = -12.5
	Multiloop = 5.2  for closure of 7-350
		Stack = -3.4  for stack of 333-349
		Stack = -2.4  for stack of 334-348
		Stack = -3.3  for stack of 335-347
		Stack = -3.3  for stack of 336-346
	Helix total = -12.4
	Hairpin = 4.4  for closure of 337-345
		Stack = -2.4  for stack of 21-329
		Stack = -3.4  for stack of 22-328
		Stack = -2.1  for stack of 23-327
		Stack = 0.3  for stack of 24-326
		Stack = -2.1  for stack of 25-325
		Stack = -2.5  for stack of 26-324
		Stack = 0.3  for stack of 27-323
	Helix total = -11.9
	Internal/bulge = 1.9  for closure of 28-322	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.9  for closure of 30-320	Size = 5
		Stack = -2.5  for stack of 34-317
		Stack = -2.1  for stack of 35-316
		Stack = -2.4  for stack of 36-315
	Helix total = -7.0
	Internal/bulge = 2.7  for closure of 37-314	Size = 6
		Stack = -1.3  for stack of 41-310
		Stack = -1.1  for stack of 42-309
		Stack = -1.0  for stack of 43-308
	Helix total = -3.4
	Internal/bulge = 3.7  for closure of 44-307	Size = 3
		Stack = -2.1  for stack of 45-303
		Stack = -1.1  for stack of 46-302
		Stack = -2.1  for stack of 47-301
		Stack = -3.4  for stack of 48-300
	Helix total = -8.7
	Multiloop = 4.8  for closure of 49-299
		Stack = -2.5  for stack of 242-276
		Stack = -2.1  for stack of 243-275
		Stack = -1.4  for stack of 244-274
		Stack = -1.5  for stack of 245-273
	Helix total = -7.5
	Internal/bulge = 1.3  for closure of 246-272	Size = 1 BP stack across bulge = -2.1
		Stack = 0.3  for stack of 248-271
	Helix total = 0.3
	Internal/bulge = 3.4  for closure of 249-270	Size = 7
		Stack = -3.3  for stack of 253-265
		Stack = -2.1  for stack of 254-264
	Helix total = -5.4
	Hairpin = 5.7  for closure of 255-263
	Helix total = 0.0
	Internal/bulge = 3.2  for closure of 171-194	Size = 11
		Stack = -2.5  for stack of 177-187
	Helix total = -2.5
	Hairpin = 5.7  for closure of 178-186
		Stack = -3.3  for stack of 146-167
		Stack = -2.1  for stack of 147-166
		Stack = -1.3  for stack of 148-165
		Stack = -0.6  for stack of 149-164
		Stack = -1.3  for stack of 150-163
	Helix total = -8.6
	Internal/bulge = 1.9  for closure of 151-162	Size = 2
		Stack = -1.0  for stack of 153-160
	Helix total = -1.0
	Hairpin = 5.5  for closure of 154-159
	Helix total = 0.0
	Internal/bulge = 0.2  for closure of 114-141	Size = 4
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 117-138	Size = 2
		Stack = -0.6  for stack of 119-136
		Stack = -2.5  for stack of 120-135
		Stack = -2.1  for stack of 121-134
		Stack = -2.1  for stack of 122-133
		Stack = -3.4  for stack of 123-132
		Stack = -3.3  for stack of 124-131
		Stack = -2.1  for stack of 125-130
	Helix total = -16.1
	Hairpin = 1400.5  for closure of 126-129
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 57-81	Size = 2
		Stack = -1.1  for stack of 59-79
		Stack = -0.9  for stack of 60-78
		Stack = -0.9  for stack of 61-77
		Stack = -0.9  for stack of 62-76
	Helix total = -3.8
	Hairpin = 6.6  for closure of 63-75


	Total energy = 1360.5



