Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    11:319 12:318 13:317 14:316 15:315 16:314 17:313
	Energy of Broken Structure: -43.5
	Energy of Pseudo-Helices:   -8.0
	Pseudoknot Energy Penalty:  8.7
	Total Free Energy:          -42.8
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = 0.0
		Stack = -2.1  for stack of 1-389
		Stack = -2.4  for stack of 2-388
		Stack = -1.1  for stack of 3-387
		Stack = -1.3  for stack of 4-386
		Stack = -1.1  for stack of 5-385
		Stack = -0.9  for stack of 6-384
		Stack = -0.9  for stack of 7-383
		Stack = -2.4  for stack of 8-382
	Helix total = -12.2
	Internal/bulge = 2.4  for closure of 9-381	Size = 1 BP stack across bulge = -1.4
	Helix total = 0.0
	Multiloop = 6.3  for closure of 10-379
		Stack = -0.9  for stack of 36-377
		Stack = -2.1  for stack of 37-376
	Helix total = -3.0
	Internal/bulge = 0.4  for closure of 38-375	Size = 1 BP stack across bulge = -3.4
		Stack = -3.3  for stack of 40-374
		Stack = -2.1  for stack of 41-373
		Stack = -1.1  for stack of 42-372
		Stack = -2.1  for stack of 43-371
	Helix total = -8.6
	Multiloop = 2.2  for closure of 44-370
		Stack = -3.3  for stack of 321-362
	Helix total = -3.3
	Internal/bulge = 0.4  for closure of 322-361	Size = 6
		Stack = -2.2  for stack of 326-357
		Stack = -1.3  for stack of 327-356
		Stack = -2.2  for stack of 328-355
	Helix total = -5.7
	Internal/bulge = 4.4  for closure of 329-354	Size = 9
		Stack = -2.2  for stack of 332-346
		Stack = -2.1  for stack of 333-345
		Stack = -2.5  for stack of 334-344
		Stack = 0.3  for stack of 335-343
	Helix total = -6.5
	Hairpin = 5.4  for closure of 336-342
		Stack = -2.2  for stack of 279-304
		Stack = -2.1  for stack of 280-303
	Helix total = -4.3
	Internal/bulge = 1.2  for closure of 281-302	Size = 1 BP stack across bulge = -2.2
		Stack = -2.1  for stack of 282-300
		Stack = -2.2  for stack of 283-299
		Stack = -2.1  for stack of 284-298
		Stack = -0.9  for stack of 285-297
		Stack = -2.4  for stack of 286-296
		Stack = -1.4  for stack of 287-295
	Helix total = -11.1
	Hairpin = 5.6  for closure of 288-294
		Stack = -2.1  for stack of 248-278
		Stack = -1.3  for stack of 249-277
		Stack = -1.4  for stack of 250-276
		Stack = -2.2  for stack of 251-275
		Stack = -0.9  for stack of 252-274
		Stack = -0.9  for stack of 253-273
	Helix total = -8.8
	Hairpin = 6.8  for closure of 254-272
		Stack = -2.4  for stack of 229-244
		Stack = -3.3  for stack of 230-243
	Helix total = -5.7
	Hairpin = 5.0  for closure of 231-242
		Stack = -2.1  for stack of 45-225
		Stack = -2.4  for stack of 46-224
		Stack = -2.1  for stack of 47-223
		Stack = -2.2  for stack of 48-222
	Helix total = -8.8
	Multiloop = 7.5  for closure of 49-221
		Stack = -2.4  for stack of 73-220
		Stack = -2.4  for stack of 74-219
	Helix total = -4.8
	Internal/bulge = -0.1  for closure of 75-218	Size = 2
	Helix total = 0.0
	Multiloop = 0.3  for closure of 77-216
		Stack = -3.3  for stack of 113-215
	Helix total = -3.3
	Multiloop = 5.9  for closure of 114-214
		Stack = -2.2  for stack of 161-213
	Helix total = -2.2
	Internal/bulge = 3.8  for closure of 162-212	Size = 2
		Stack = -2.5  for stack of 163-209
		Stack = -3.3  for stack of 164-208
	Helix total = -5.8
	Internal/bulge = 4.1  for closure of 165-207	Size = 21
		Stack = -2.1  for stack of 178-197
		Stack = -0.9  for stack of 179-196
		Stack = -0.9  for stack of 180-195
		Stack = -0.9  for stack of 181-194
		Stack = -1.3  for stack of 182-193
		Stack = -1.1  for stack of 183-192
		Stack = -1.3  for stack of 184-191
	Helix total = -8.5
	Hairpin = 4.4  for closure of 185-190
		Stack = -0.9  for stack of 116-155
		Stack = -1.1  for stack of 117-154
	Helix total = -2.0
	Internal/bulge = 3.8  for closure of 118-153	Size = 13
		Stack = -2.4  for stack of 125-145
		Stack = -3.3  for stack of 126-144
	Helix total = -5.7
	Internal/bulge = 3.0  for closure of 127-143	Size = 5
		Stack = -1.4  for stack of 131-140
		Stack = -2.4  for stack of 132-139
	Helix total = -3.8
	Hairpin = 4.2  for closure of 133-138
	Helix total = 0.0
	Internal/bulge = 0.4  for closure of 100-112	Size = 1 BP stack across bulge = -3.4
		Stack = -2.1  for stack of 101-110
	Helix total = -2.1
	Hairpin = 4.2  for closure of 102-109
		Stack = -2.1  for stack of 78-99
		Stack = -0.9  for stack of 79-98
		Stack = -2.1  for stack of 80-97
		Stack = -2.4  for stack of 81-96
		Stack = -1.1  for stack of 82-95
	Helix total = -8.6
	Hairpin = 5.0  for closure of 83-94
		Stack = -2.2  for stack of 50-67
		Stack = -2.1  for stack of 51-66
		Stack = -0.6  for stack of 52-65
		Stack = -1.4  for stack of 53-64
		Stack = -2.4  for stack of 54-63
	Helix total = -8.7
	Hairpin = 3.3  for closure of 55-62
		Stack = -2.1  for stack of 19-31
		Stack = -1.3  for stack of 20-30
		Stack = -1.1  for stack of 21-29
		Stack = -1.3  for stack of 22-28
	Helix total = -5.8
	Hairpin = 5.9  for closure of 23-27


	Total energy = -43.5



