Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    54:76 55:75 56:74 147:186 148:185 149:184 150:183 151:182
	    153:180 204:236 205:235 206:234 207:233 208:232 209:231 254:293
	    255:292 256:291 257:290 258:289 259:288 260:287
	Energy of Broken Structure: -66.9
	Energy of Pseudo-Helices:   -33.7
	Pseudoknot Energy Penalty:  31.1
	Total Free Energy:          -69.5
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-355
		Stack = -1.5  for stack of 2-354
		Stack = -2.1  for stack of 3-353
		Stack = -2.4  for stack of 4-352
		Stack = -2.2  for stack of 5-351
		Stack = -2.4  for stack of 6-350
	Helix total = -13.9
	Multiloop = 5.1  for closure of 7-349
		Stack = -2.2  for stack of 332-348
		Stack = -2.1  for stack of 333-347
		Stack = -3.3  for stack of 334-346
		Stack = -3.3  for stack of 335-345
	Helix total = -10.9
	Hairpin = 4.4  for closure of 336-344
		Stack = -2.4  for stack of 20-328
		Stack = -1.5  for stack of 21-327
		Stack = -0.5  for stack of 22-326
		Stack = -2.1  for stack of 23-325
		Stack = -3.3  for stack of 24-324
		Stack = -2.5  for stack of 25-323
		Stack = -1.0  for stack of 26-322
	Helix total = -13.3
	Internal/bulge = 1.9  for closure of 27-321	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.8  for closure of 29-319	Size = 4
	Helix total = 0.0
	Internal/bulge = 0.6  for closure of 32-316	Size = 4
		Stack = -2.1  for stack of 35-313
		Stack = -0.9  for stack of 36-312
	Helix total = -3.0
	Internal/bulge = 0.9  for closure of 37-311	Size = 4
		Stack = -2.5  for stack of 40-308
	Helix total = -2.5
	Internal/bulge = 3.6  for closure of 41-307	Size = 7
		Stack = -2.4  for stack of 44-301
		Stack = -2.2  for stack of 45-300
		Stack = -2.1  for stack of 46-299
		Stack = -2.2  for stack of 47-298
	Helix total = -8.9
	Multiloop = 2.1  for closure of 48-297
		Stack = -2.2  for stack of 239-274
		Stack = -2.4  for stack of 240-273
		Stack = -2.4  for stack of 241-272
	Helix total = -7.0
	Internal/bulge = 1.9  for closure of 242-271	Size = 6
	Helix total = 0.0
	Internal/bulge = 3.9  for closure of 247-268	Size = 6
		Stack = -3.4  for stack of 250-263
		Stack = -3.3  for stack of 251-262
	Helix total = -6.7
	Hairpin = 3.4  for closure of 252-261
		Stack = -2.1  for stack of 191-219
		Stack = -1.3  for stack of 192-218
	Helix total = -3.4
	Internal/bulge = 1.7  for closure of 193-217	Size = 6
		Stack = -3.3  for stack of 197-213
		Stack = -3.3  for stack of 198-212
		Stack = -2.1  for stack of 199-211
	Helix total = -8.7
	Hairpin = 6.2  for closure of 200-210
		Stack = -2.4  for stack of 131-171
		Stack = -1.4  for stack of 132-170
		Stack = -1.5  for stack of 133-169
		Stack = -3.3  for stack of 134-168
		Stack = -2.1  for stack of 135-167
	Helix total = -10.7
	Internal/bulge = 4.6  for closure of 136-166	Size = 4
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 137-161	Size = 2
		Stack = -2.1  for stack of 139-159
		Stack = -2.1  for stack of 140-158
		Stack = -3.4  for stack of 141-157
		Stack = -3.3  for stack of 142-156
		Stack = -2.4  for stack of 143-155
	Helix total = -13.3
	Hairpin = 4.8  for closure of 144-154
		Stack = -2.4  for stack of 107-130
	Helix total = -2.4
	Internal/bulge = 1.2  for closure of 108-129	Size = 2
		Stack = -2.1  for stack of 110-127
	Helix total = -2.1
	Internal/bulge = 1.2  for closure of 111-126	Size = 2
		Stack = -2.1  for stack of 113-124
		Stack = -3.4  for stack of 114-123
		Stack = -2.1  for stack of 115-122
	Helix total = -7.6
	Hairpin = 4.7  for closure of 116-121
		Stack = -2.4  for stack of 49-64
		Stack = -2.4  for stack of 50-63
		Stack = -2.1  for stack of 51-62
		Stack = -3.3  for stack of 52-61
	Helix total = -10.2
	Hairpin = 3.2  for closure of 53-60


	Total energy = -66.9



