Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    48:64 49:63 50:62 51:61 147:183 148:182 149:181 150:180
	    151:179 152:178 153:177 197:228 198:227 199:226 200:225 201:224
	    202:223 247:285 248:284 249:283 250:282 251:280 252:279 253:278
	Energy of Broken Structure: -38.1
	Energy of Pseudo-Helices:   -40.3
	Pseudoknot Energy Penalty:  44.4
	Total Free Energy:          -34.0
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-346
		Stack = -1.5  for stack of 2-345
		Stack = -2.1  for stack of 3-344
		Stack = -3.3  for stack of 4-343
		Stack = -3.4  for stack of 5-342
		Stack = -2.4  for stack of 6-341
	Helix total = -16.0
	Multiloop = 5.0  for closure of 7-340
		Stack = -3.3  for stack of 323-339
		Stack = -3.3  for stack of 324-338
		Stack = -2.4  for stack of 325-337
		Stack = -2.1  for stack of 326-336
	Helix total = -11.1
	Hairpin = 4.4  for closure of 327-335
		Stack = -2.4  for stack of 19-319
		Stack = -2.4  for stack of 20-318
	Helix total = -4.8
	Internal/bulge = 1.9  for closure of 21-317	Size = 2
		Stack = -1.1  for stack of 23-315
		Stack = -1.3  for stack of 24-314
	Helix total = -2.4
	Internal/bulge = 1.9  for closure of 25-313	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.0  for closure of 27-311	Size = 4
		Stack = -2.1  for stack of 31-309
		Stack = -0.6  for stack of 32-308
	Helix total = -2.7
	Internal/bulge = 2.9  for closure of 33-307	Size = 7
		Stack = -0.9  for stack of 37-302
		Stack = -0.9  for stack of 38-301
		Stack = -1.1  for stack of 39-300
		Stack = -1.0  for stack of 40-299
	Helix total = -3.9
	Internal/bulge = 4.5  for closure of 41-298	Size = 5
		Stack = -2.1  for stack of 43-293
		Stack = -1.4  for stack of 44-292
		Stack = -1.4  for stack of 45-291
		Stack = -3.4  for stack of 46-290
	Helix total = -8.3
	Multiloop = 3.8  for closure of 47-289
		Stack = -2.1  for stack of 231-268
		Stack = -2.5  for stack of 232-267
		Stack = -0.6  for stack of 233-266
		Stack = -0.9  for stack of 234-265
	Helix total = -6.1
	Internal/bulge = 4.0  for closure of 235-264	Size = 5
	Helix total = 0.0
	Internal/bulge = 3.5  for closure of 239-261	Size = 8
		Stack = -0.5  for stack of 243-255
	Helix total = -0.5
	Hairpin = 6.2  for closure of 244-254
		Stack = -1.4  for stack of 186-213
		Stack = -1.3  for stack of 187-212
		Stack = -1.5  for stack of 188-211
		Stack = -2.1  for stack of 189-210
		Stack = -2.1  for stack of 190-209
		Stack = -1.5  for stack of 191-208
		Stack = -1.4  for stack of 192-207
	Helix total = -11.3
	Hairpin = 5.8  for closure of 193-206
		Stack = -2.4  for stack of 130-169
		Stack = -2.5  for stack of 131-168
		Stack = -1.5  for stack of 132-167
		Stack = -3.3  for stack of 133-166
		Stack = -2.1  for stack of 134-165
		Stack = -0.9  for stack of 135-164
	Helix total = -12.7
	Internal/bulge = 1.9  for closure of 136-163	Size = 1 BP stack across bulge = -1.3
		Stack = -2.1  for stack of 137-161
		Stack = -2.5  for stack of 138-160
		Stack = -0.6  for stack of 139-159
	Helix total = -5.2
	Internal/bulge = 1.7  for closure of 140-158	Size = 2
	Helix total = 0.0
	Hairpin = 6.3  for closure of 142-156
		Stack = -1.5  for stack of 107-129
		Stack = -2.5  for stack of 108-128
		Stack = -3.3  for stack of 109-127
		Stack = -1.4  for stack of 110-126
		Stack = -2.5  for stack of 111-125
		Stack = -2.1  for stack of 112-124
	Helix total = -13.3
	Internal/bulge = 2.6  for closure of 113-123	Size = 4
	Helix total = 0.0
	Hairpin = 5.9  for closure of 116-120
		Stack = -3.3  for stack of 54-76
		Stack = -2.1  for stack of 55-75
		Stack = -2.1  for stack of 56-74
		Stack = -2.4  for stack of 57-73
	Helix total = -9.9
	Hairpin = 6.5  for closure of 58-72


	Total energy = -38.1



