Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    48:68 49:67 50:66 51:65 52:64 167:203 168:202 169:201
	    170:200 171:199 172:198 173:197 219:250 220:249 221:248 222:247
	    223:246 224:245 271:311 272:310 273:309 274:308 275:307 276:306
	    277:305
	Energy of Broken Structure: -74.3
	Energy of Pseudo-Helices:   -48.6
	Pseudoknot Energy Penalty:  36.2
	Total Free Energy:          -86.7
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 = -2.4  for stack of 4-369
		Stack = -1.1  for stack of 5-368
		Stack = -2.1  for stack of 6-367
	Helix total = -12.5
	Multiloop = 4.9  for closure of 7-366
		Stack = -2.4  for stack of 349-365
		Stack = -3.3  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 19-345
		Stack = -1.4  for stack of 20-344
		Stack = -0.6  for stack of 21-343
		Stack = -2.1  for stack of 22-342
		Stack = -3.4  for stack of 23-341
	Helix total = -9.6
	Internal/bulge = 1.9  for closure of 24-340	Size = 6
	Helix total = 0.0
	Internal/bulge = 2.4  for closure of 28-336	Size = 7
		Stack = -2.1  for stack of 33-332
		Stack = -2.1  for stack of 34-331
		Stack = -3.4  for stack of 35-330
		Stack = -2.4  for stack of 36-329
	Helix total = -10.0
	Internal/bulge = 3.1  for closure of 37-328	Size = 12
		Stack = -2.4  for stack of 43-320
		Stack = -3.3  for stack of 44-319
		Stack = -3.3  for stack of 45-318
		Stack = -2.2  for stack of 46-317
	Helix total = -11.2
	Multiloop = 5.4  for closure of 47-316
		Stack = -3.3  for stack of 253-291
		Stack = -3.4  for stack of 254-290
		Stack = -3.3  for stack of 255-289
		Stack = -3.3  for stack of 256-288
	Helix total = -13.3
	Internal/bulge = 2.8  for closure of 257-287	Size = 2
		Stack = -2.4  for stack of 260-286
		Stack = -3.3  for stack of 261-285
		Stack = -2.4  for stack of 262-284
	Helix total = -8.1
	Internal/bulge = 0.8  for closure of 263-283	Size = 2
	Helix total = 0.0
	Hairpin = 5.4  for closure of 265-281
		Stack = -2.1  for stack of 207-235
		Stack = -1.4  for stack of 208-234
		Stack = -3.4  for stack of 209-233
		Stack = -2.4  for stack of 210-232
		Stack = -3.4  for stack of 211-231
		Stack = -2.4  for stack of 212-230
		Stack = -3.3  for stack of 213-229
		Stack = -2.5  for stack of 214-228
		Stack = -1.5  for stack of 215-227
	Helix total = -22.4
	Hairpin = 4.0  for closure of 216-226
		Stack = -2.4  for stack of 152-189
		Stack = -2.5  for stack of 153-188
		Stack = -1.5  for stack of 154-187
		Stack = -2.4  for stack of 155-186
		Stack = -2.4  for stack of 156-185
	Helix total = -11.2
	Internal/bulge = 4.5  for closure of 157-184	Size = 5
		Stack = -3.3  for stack of 159-179
		Stack = -2.4  for stack of 160-178
		Stack = -3.3  for stack of 161-177
	Helix total = -9.0
	Hairpin = 5.2  for closure of 162-176
	Helix total = 0.0
	Internal/bulge = 2.6  for closure of 112-148	Size = 4
		Stack = -0.9  for stack of 115-145
	Helix total = -0.9
	Internal/bulge = 1.2  for closure of 116-144	Size = 2
		Stack = -2.2  for stack of 118-142
	Helix total = -2.2
	Internal/bulge = 1.2  for closure of 119-141	Size = 2
	Helix total = 0.0
	Internal/bulge = 0.0  for closure of 121-139	Size = 2
	Helix total = 0.0
	Internal/bulge = -0.1  for closure of 123-137	Size = 2
	Helix total = 0.0
	Hairpin = 5.0  for closure of 125-135
		Stack = -2.1  for stack of 54-83
		Stack = -3.4  for stack of 55-82
		Stack = -2.1  for stack of 56-81
		Stack = -2.1  for stack of 57-80
		Stack = -1.5  for stack of 58-79
	Helix total = -11.2
	Hairpin = 6.6  for closure of 59-78


	Total energy = -74.3



