Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    276:345 278:344 279:343 280:342 281:341 282:340
	Energy of Broken Structure: -61.3
	Energy of Pseudo-Helices:   -8.0
	Pseudoknot Energy Penalty:  7.4
	Total Free Energy:          -61.9
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -7.6
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 347-386	Size = 2
		Stack = -2.2  for stack of 349-384
		Stack = -0.9  for stack of 350-383
		Stack = -2.1  for stack of 351-382
	Helix total = -5.2
	Internal/bulge = 4.6  for closure of 352-381	Size = 12
		Stack = -0.9  for stack of 360-375
		Stack = -2.4  for stack of 361-374
		Stack = -2.1  for stack of 362-373
		Stack = -2.4  for stack of 363-372
		Stack = -2.1  for stack of 364-371
	Helix total = -9.9
	Hairpin = 5.6  for closure of 365-370
		Stack = -2.5  for stack of 294-331
		Stack = 0.3  for stack of 295-330
		Stack = -1.3  for stack of 296-329
		Stack = -0.9  for stack of 297-328
		Stack = -0.9  for stack of 298-327
		Stack = -0.9  for stack of 299-326
		Stack = -0.9  for stack of 300-325
		Stack = -1.1  for stack of 301-324
		Stack = -1.3  for stack of 302-323
		Stack = -1.1  for stack of 303-322
	Helix total = -10.6
	Internal/bulge = 1.7  for closure of 304-321	Size = 2
		Stack = -1.1  for stack of 306-319
		Stack = -0.9  for stack of 307-318
		Stack = -0.9  for stack of 308-317
		Stack = -0.9  for stack of 309-316
	Helix total = -3.8
	Hairpin = 5.6  for closure of 310-315
		Stack = -0.9  for stack of 63-292
		Stack = -2.2  for stack of 64-291
		Stack = -3.3  for stack of 65-290
		Stack = -2.1  for stack of 66-289
	Helix total = -8.5
	Internal/bulge = 1.2  for closure of 67-288	Size = 2
	Helix total = 0.0
	Multiloop = 8.8  for closure of 69-286
		Stack = -2.5  for stack of 220-272
	Helix total = -2.5
	Internal/bulge = 1.0  for closure of 221-271	Size = 6
		Stack = -3.3  for stack of 225-267
		Stack = -2.1  for stack of 226-266
		Stack = -2.2  for stack of 227-265
	Helix total = -7.6
	Internal/bulge = 3.5  for closure of 228-264	Size = 8
		Stack = -2.1  for stack of 234-260
		Stack = -1.1  for stack of 235-259
		Stack = -1.3  for stack of 236-258
	Helix total = -4.5
	Internal/bulge = 1.2  for closure of 237-257	Size = 2
		Stack = -2.4  for stack of 239-255
	Helix total = -2.4
	Internal/bulge = 2.3  for closure of 240-254	Size = 1 BP stack across bulge = -1.1
		Stack = -0.9  for stack of 241-252
		Stack = -0.9  for stack of 242-251
		Stack = -1.3  for stack of 243-250
	Helix total = -3.1
	Hairpin = 5.6  for closure of 244-249
		Stack = -2.1  for stack of 74-219
		Stack = -3.4  for stack of 75-218
		Stack = -1.4  for stack of 76-217
		Stack = -2.1  for stack of 77-216
		Stack = -1.5  for stack of 78-215
	Helix total = -10.5
	Internal/bulge = 3.5  for closure of 79-214	Size = 7
		Stack = -2.2  for stack of 84-210
		Stack = -3.3  for stack of 85-209
	Helix total = -5.5
	Multiloop = 5.7  for closure of 86-208
		Stack = -1.3  for stack of 175-206
	Helix total = -1.3
	Internal/bulge = 0.6  for closure of 176-205	Size = 4
		Stack = -2.1  for stack of 179-202
		Stack = -2.1  for stack of 180-201
		Stack = -2.2  for stack of 181-200
		Stack = -1.3  for stack of 182-199
		Stack = -1.0  for stack of 183-198
		Stack = -0.9  for stack of 184-197
	Helix total = -9.6
	Internal/bulge = 1.6  for closure of 185-196	Size = 1 BP stack across bulge = -2.2
		Stack = -2.1  for stack of 187-195
		Stack = -1.3  for stack of 188-194
	Helix total = -3.4
	Hairpin = 5.9  for closure of 189-193
		Stack = -2.1  for stack of 97-173
		Stack = -2.1  for stack of 98-172
	Helix total = -4.2
	Internal/bulge = 1.6  for closure of 99-171	Size = 1 BP stack across bulge = -2.2
		Stack = -0.9  for stack of 101-170
		Stack = -0.9  for stack of 102-169
		Stack = -2.4  for stack of 103-168
	Helix total = -4.2
	Internal/bulge = 0.1  for closure of 104-167	Size = 1 BP stack across bulge = -2.4
	Helix total = 0.0
	Internal/bulge = 4.1  for closure of 105-165	Size = 4
		Stack = -2.2  for stack of 106-160
		Stack = -3.3  for stack of 107-159
	Helix total = -5.5
	Multiloop = 5.0  for closure of 108-158
		Stack = -2.1  for stack of 136-153
		Stack = -2.2  for stack of 137-152
	Helix total = -4.3
	Internal/bulge = 1.3  for closure of 138-151	Size = 2
		Stack = -2.1  for stack of 140-149
		Stack = -2.2  for stack of 141-148
	Helix total = -4.3
	Hairpin = 5.1  for closure of 142-147
		Stack = -2.2  for stack of 111-133
		Stack = -3.3  for stack of 112-132
		Stack = -2.1  for stack of 113-131
		Stack = -2.1  for stack of 114-130
		Stack = -3.4  for stack of 115-129
	Helix total = -13.1
	Internal/bulge = 1.7  for closure of 116-128	Size = 1 BP stack across bulge = -2.1
		Stack = -1.1  for stack of 117-126
		Stack = -2.1  for stack of 118-125
	Helix total = -3.2
	Hairpin = 3.1  for closure of 119-124
		Stack = -2.5  for stack of 46-60
		Stack = -1.5  for stack of 47-59
		Stack = -2.1  for stack of 48-58
		Stack = -0.9  for stack of 49-57
	Helix total = -7.0
	Hairpin = 5.2  for closure of 50-56
		Stack = -2.1  for stack of 24-44
		Stack = -3.3  for stack of 25-43
		Stack = -3.3  for stack of 26-42
	Helix total = -8.7
	Internal/bulge = 0.8  for closure of 27-41	Size = 2
		Stack = -1.3  for stack of 29-39
		Stack = -0.9  for stack of 30-38
		Stack = -1.1  for stack of 31-37
	Helix total = -3.3
	Hairpin = 5.9  for closure of 32-36
		Stack = -2.4  for stack of 3-20
		Stack = -1.1  for stack of 4-19
		Stack = -1.3  for stack of 5-18
		Stack = -1.0  for stack of 6-17
		Stack = -0.6  for stack of 7-16
	Helix total = -6.4
	Hairpin = 5.4  for closure of 8-15


	Total energy = -61.3



