Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    57:83 58:82 59:81 60:80 166:200 167:199 168:198 169:197
	    170:196 171:195 216:249 217:248 218:247 219:246 220:245 221:244
	    222:243 223:242 270:312 271:311 272:310 273:309 274:308 275:307
	    277:305
	Energy of Broken Structure: -93.8
	Energy of Pseudo-Helices:   -48.9
	Pseudoknot Energy Penalty:  35.9
	Total Free Energy:          -106.8
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-372
		Stack = -1.5  for stack of 2-371
		Stack = -2.1  for stack of 3-370
		Stack = -3.4  for stack of 4-369
		Stack = -2.1  for stack of 5-368
		Stack = -2.1  for stack of 6-367
	Helix total = -14.5
	Multiloop = 5.0  for closure of 7-366
		Stack = -3.3  for stack of 349-365
		Stack = -2.4  for stack of 350-364
		Stack = -3.3  for stack of 351-363
		Stack = -3.3  for stack of 352-362
	Helix total = -12.3
	Hairpin = 4.4  for closure of 353-361
		Stack = -2.1  for stack of 20-345
		Stack = -1.3  for stack of 21-344
		Stack = -2.2  for stack of 22-343
		Stack = -2.4  for stack of 23-342
		Stack = -2.5  for stack of 24-341
		Stack = -0.6  for stack of 25-340
		Stack = -1.0  for stack of 26-339
	Helix total = -12.1
	Internal/bulge = 1.9  for closure of 27-338	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.3  for closure of 29-336	Size = 5
		Stack = -3.4  for stack of 33-333
		Stack = -3.3  for stack of 34-332
		Stack = -2.1  for stack of 35-331
		Stack = -2.1  for stack of 36-330
		Stack = -3.3  for stack of 37-329
		Stack = -3.3  for stack of 38-328
	Helix total = -17.5
	Internal/bulge = 1.7  for closure of 39-327	Size = 10
		Stack = -2.4  for stack of 44-320
		Stack = -2.2  for stack of 45-319
		Stack = -2.1  for stack of 46-318
		Stack = -3.4  for stack of 47-317
	Helix total = -10.1
	Multiloop = 2.9  for closure of 48-316
		Stack = -3.3  for stack of 252-290
		Stack = -3.4  for stack of 253-289
		Stack = -3.3  for stack of 254-288
		Stack = -3.3  for stack of 255-287
	Helix total = -13.3
	Internal/bulge = 4.1  for closure of 256-286	Size = 4
		Stack = -2.4  for stack of 261-285
		Stack = -3.3  for stack of 262-284
		Stack = -2.4  for stack of 263-283
		Stack = -3.3  for stack of 264-282
	Helix total = -11.4
	Internal/bulge = 1.2  for closure of 265-281	Size = 2
	Helix total = 0.0
	Hairpin = 6.3  for closure of 267-279
		Stack = -2.1  for stack of 204-233
		Stack = -1.0  for stack of 205-232
		Stack = -1.1  for stack of 206-231
		Stack = -2.4  for stack of 207-230
		Stack = -3.3  for stack of 208-229
		Stack = -2.1  for stack of 209-228
		Stack = -0.9  for stack of 210-227
		Stack = -2.2  for stack of 211-226
		Stack = -3.3  for stack of 212-225
	Helix total = -18.4
	Hairpin = 4.1  for closure of 213-224
		Stack = -2.1  for stack of 151-187
		Stack = -2.5  for stack of 152-186
		Stack = -1.5  for stack of 153-185
		Stack = -2.1  for stack of 154-184
		Stack = -2.1  for stack of 155-183
	Helix total = -10.3
	Internal/bulge = 2.3  for closure of 156-182	Size = 4
		Stack = -3.3  for stack of 158-178
		Stack = -2.4  for stack of 159-177
		Stack = -3.3  for stack of 160-176
		Stack = -3.3  for stack of 161-175
		Stack = -3.3  for stack of 162-174
	Helix total = -15.6
	Hairpin = 5.1  for closure of 163-173
		Stack = -2.2  for stack of 115-147
	Helix total = -2.2
	Internal/bulge = 2.0  for closure of 116-146	Size = 6
	Helix total = 0.0
	Internal/bulge = 0.5  for closure of 120-142	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 122-140	Size = 2
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 124-138	Size = 2
		Stack = -2.5  for stack of 126-136
	Helix total = -2.5
	Hairpin = 5.0  for closure of 127-135
		Stack = -2.4  for stack of 49-70
		Stack = -3.3  for stack of 50-69
		Stack = -2.2  for stack of 51-68
		Stack = -2.1  for stack of 52-67
	Helix total = -10.0
	Hairpin = 5.2  for closure of 53-66


	Total energy = -93.8



