Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    52:71 53:70 54:69 55:68 56:67 194:226 195:225 196:224
	    197:223 198:222 199:221 243:276 244:275 245:274 246:273 247:272
	    248:271 249:270 285:302 286:301 287:300 288:299 289:298 303:319
	    304:318 305:317 306:316
	Energy of Broken Structure: -37.1
	Energy of Pseudo-Helices:   -46.3
	Pseudoknot Energy Penalty:  48.3
	Total Free Energy:          -35.1
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.7
		Stack = -3.3  for stack of 1-394
		Stack = -1.5  for stack of 2-393
		Stack = -2.1  for stack of 3-392
		Stack = -3.4  for stack of 4-391
		Stack = -2.1  for stack of 5-390
		Stack = -1.1  for stack of 6-389
	Helix total = -13.5
	Multiloop = 8.1  for closure of 7-388
		Stack = -1.1  for stack of 371-387
		Stack = -2.1  for stack of 372-386
		Stack = -3.3  for stack of 373-385
		Stack = -3.3  for stack of 374-384
	Helix total = -9.8
	Hairpin = 4.4  for closure of 375-383
		Stack = -2.1  for stack of 20-367
		Stack = -0.6  for stack of 21-366
		Stack = -0.5  for stack of 22-365
		Stack = -0.5  for stack of 23-364
		Stack = -1.4  for stack of 24-363
		Stack = -2.1  for stack of 25-362
		Stack = -3.3  for stack of 26-361
		Stack = -2.5  for stack of 27-360
	Helix total = -13.0
	Internal/bulge = 1.9  for closure of 28-359	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.8  for closure of 30-357	Size = 7
		Stack = -2.1  for stack of 34-352
	Helix total = -2.1
	Internal/bulge = 1.3  for closure of 35-351	Size = 4
		Stack = -1.3  for stack of 38-348
	Helix total = -1.3
	Internal/bulge = 2.3  for closure of 39-347	Size = 4
	Helix total = 0.0
	Internal/bulge = -0.7  for closure of 42-344	Size = 2
		Stack = -1.1  for stack of 44-342
	Helix total = -1.1
	Internal/bulge = 3.0  for closure of 45-341	Size = 4
		Stack = -2.1  for stack of 47-337
		Stack = -2.1  for stack of 48-336
		Stack = -3.3  for stack of 49-335
	Helix total = -7.5
	Multiloop = 3.5  for closure of 50-334
		Stack = -3.4  for stack of 309-329
		Stack = -2.1  for stack of 310-328
		Stack = -1.5  for stack of 311-327
		Stack = -2.1  for stack of 312-326
	Helix total = -9.1
	Hairpin = 5.1  for closure of 313-325
		Stack = -1.1  for stack of 278-294
		Stack = -2.4  for stack of 279-293
		Stack = -3.3  for stack of 280-292
		Stack = -3.3  for stack of 281-291
	Helix total = -10.1
	Hairpin = 4.5  for closure of 282-290
		Stack = -2.1  for stack of 231-259
		Stack = -1.3  for stack of 232-258
		Stack = -2.1  for stack of 233-257
		Stack = -3.4  for stack of 234-256
		Stack = -2.1  for stack of 235-255
	Helix total = -11.0
	Internal/bulge = 2.4  for closure of 236-254	Size = 4
	Helix total = 0.0
	Hairpin = 5.7  for closure of 239-251
		Stack = -2.2  for stack of 180-212
		Stack = -2.4  for stack of 181-211
		Stack = -2.1  for stack of 182-210
		Stack = -2.1  for stack of 183-209
		Stack = -2.5  for stack of 184-208
		Stack = 0.3  for stack of 185-207
		Stack = -0.5  for stack of 186-206
		Stack = -1.4  for stack of 187-205
		Stack = -0.9  for stack of 188-204
	Helix total = -13.8
	Hairpin = 5.9  for closure of 189-203
	Helix total = 0.0
	Internal/bulge = 3.0  for closure of 112-163	Size = 8
		Stack = -0.9  for stack of 117-158
		Stack = -0.9  for stack of 118-157
		Stack = -0.9  for stack of 119-156
		Stack = -2.1  for stack of 120-155
	Helix total = -4.8
	Internal/bulge = 1.3  for closure of 121-154	Size = 1 BP stack across bulge = -2.5
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 123-153	Size = 2
		Stack = -1.4  for stack of 125-151
	Helix total = -1.4
	Internal/bulge = 1.9  for closure of 126-150	Size = 2
		Stack = -0.6  for stack of 128-148
	Helix total = -0.6
	Internal/bulge = 3.4  for closure of 129-147	Size = 6
	Helix total = 0.0
	Internal/bulge = 1.9  for closure of 133-143	Size = 2
	Helix total = 0.0
	Hairpin = 5.2  for closure of 135-141
		Stack = -2.1  for stack of 58-86
		Stack = -2.4  for stack of 59-85
		Stack = -2.1  for stack of 60-84
		Stack = -2.2  for stack of 61-83
		Stack = -2.4  for stack of 62-82
	Helix total = -11.2
	Hairpin = 6.1  for closure of 63-81


	Total energy = -37.1



