Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    443:464 444:463 445:462
	Energy of Broken Structure: -175.6
	Energy of Pseudo-Helices:   -6.7
	Pseudoknot Energy Penalty:  7.2
	Total Free Energy:          -175.1
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -4.0
		Stack = -3.3  for stack of 22-494
		Stack = -2.2  for stack of 23-493
		Stack = -2.4  for stack of 24-492
		Stack = -2.1  for stack of 25-491
		Stack = -1.1  for stack of 26-490
		Stack = -1.3  for stack of 27-489
		Stack = 0.3  for stack of 28-488
		Stack = -2.5  for stack of 29-487
		Stack = -2.1  for stack of 30-486
	Helix total = -16.7
	Multiloop = 3.5  for closure of 31-485
		Stack = -2.4  for stack of 437-483
		Stack = -2.1  for stack of 438-482
		Stack = -3.4  for stack of 439-481
		Stack = -2.1  for stack of 440-480
		Stack = -2.1  for stack of 441-479
	Helix total = -12.1
	Internal/bulge = 4.6  for closure of 442-478	Size = 7
		Stack = -3.3  for stack of 450-477
		Stack = -2.4  for stack of 451-476
		Stack = -3.3  for stack of 452-475
	Helix total = -9.0
	Hairpin = 6.1  for closure of 453-474
		Stack = -2.4  for stack of 411-429
		Stack = -2.4  for stack of 412-428
		Stack = -2.4  for stack of 413-427
		Stack = -2.2  for stack of 414-426
		Stack = -3.3  for stack of 415-425
	Helix total = -12.7
	Hairpin = 4.5  for closure of 416-424
		Stack = -3.4  for stack of 385-405
		Stack = -2.4  for stack of 386-404
		Stack = -2.4  for stack of 387-403
		Stack = -2.1  for stack of 388-402
		Stack = -3.3  for stack of 389-401
		Stack = -1.5  for stack of 390-400
		Stack = -2.5  for stack of 391-399
	Helix total = -17.6
	Hairpin = 4.2  for closure of 392-398
		Stack = -0.9  for stack of 33-382
		Stack = -2.1  for stack of 34-381
		Stack = -3.3  for stack of 35-380
		Stack = -3.3  for stack of 36-379
		Stack = -3.3  for stack of 37-378
		Stack = -2.2  for stack of 38-377
		Stack = -2.4  for stack of 39-376
		Stack = -3.3  for stack of 40-375
	Helix total = -20.8
	Multiloop = 4.3  for closure of 41-374
		Stack = -3.3  for stack of 345-373
	Helix total = -3.3
	Internal/bulge = 1.1  for closure of 346-372	Size = 1 BP stack across bulge = -2.1
		Stack = -0.9  for stack of 348-371
		Stack = -1.3  for stack of 349-370
	Helix total = -2.2
	Internal/bulge = 3.7  for closure of 350-369	Size = 4
		Stack = -1.4  for stack of 354-367
		Stack = -3.4  for stack of 355-366
		Stack = -2.1  for stack of 356-365
		Stack = -2.2  for stack of 357-364
	Helix total = -9.1
	Hairpin = 3.3  for closure of 358-363
	Helix total = 0.0
	Internal/bulge = 4.4  for closure of 42-340	Size = 6
		Stack = -3.4  for stack of 48-338
		Stack = -3.3  for stack of 49-337
	Helix total = -6.7
	Internal/bulge = 1.7  for closure of 50-336	Size = 1 BP stack across bulge = -2.1
		Stack = -2.1  for stack of 52-335
		Stack = -3.4  for stack of 53-334
	Helix total = -5.5
	Multiloop = 0.2  for closure of 54-333
		Stack = -3.4  for stack of 318-329
		Stack = -3.3  for stack of 319-328
		Stack = -3.3  for stack of 320-327
	Helix total = -10.0
	Hairpin = 2.8  for closure of 321-326
		Stack = -2.4  for stack of 295-316
		Stack = -3.3  for stack of 296-315
		Stack = -2.4  for stack of 297-314
		Stack = -0.9  for stack of 298-313
		Stack = -1.1  for stack of 299-312
	Helix total = -10.1
	Hairpin = 6.3  for closure of 300-311
		Stack = -2.1  for stack of 87-293
		Stack = -2.4  for stack of 88-292
	Helix total = -4.5
	Multiloop = 1.8  for closure of 89-291
		Stack = -2.4  for stack of 268-290
		Stack = -3.3  for stack of 269-289
		Stack = -3.3  for stack of 270-288
	Helix total = -9.0
	Internal/bulge = 3.7  for closure of 271-287	Size = 3
		Stack = -0.9  for stack of 272-283
		Stack = -2.1  for stack of 273-282
		Stack = -2.5  for stack of 274-281
	Helix total = -5.5
	Hairpin = 4.7  for closure of 275-280
		Stack = -3.3  for stack of 219-265
		Stack = -2.4  for stack of 220-264
	Helix total = -5.7
	Internal/bulge = 2.7  for closure of 221-263	Size = 10
		Stack = -3.3  for stack of 226-256
		Stack = -2.5  for stack of 227-255
	Helix total = -5.8
	Internal/bulge = 3.8  for closure of 228-254	Size = 2
		Stack = -2.2  for stack of 231-253
		Stack = -2.4  for stack of 232-252
		Stack = -3.3  for stack of 233-251
		Stack = -2.2  for stack of 234-250
		Stack = -2.1  for stack of 235-249
		Stack = -3.3  for stack of 236-248
		Stack = -3.3  for stack of 237-247
	Helix total = -18.8
	Hairpin = 3.8  for closure of 238-246
		Stack = -2.4  for stack of 97-217
		Stack = -2.5  for stack of 98-216
		Stack = 0.3  for stack of 99-215
		Stack = -2.1  for stack of 100-214
		Stack = -3.4  for stack of 101-213
		Stack = -3.3  for stack of 102-212
	Helix total = -13.4
	Internal/bulge = 3.3  for closure of 103-211	Size = 2
		Stack = -2.2  for stack of 106-210
	Helix total = -2.2
	Internal/bulge = 2.3  for closure of 107-209	Size = 5
		Stack = -3.3  for stack of 111-206
		Stack = -2.1  for stack of 112-205
		Stack = -1.3  for stack of 113-204
		Stack = -2.2  for stack of 114-203
		Stack = -2.1  for stack of 115-202
		Stack = -2.1  for stack of 116-201
	Helix total = -13.1
	Multiloop = 2.3  for closure of 117-200
		Stack = -3.4  for stack of 191-198
	Helix total = -3.4
	Hairpin = 3.7  for closure of 192-197
		Stack = -3.3  for stack of 158-184
		Stack = -3.3  for stack of 159-183
		Stack = -2.4  for stack of 160-182
		Stack = -2.1  for stack of 161-181
		Stack = -2.2  for stack of 162-180
		Stack = -2.4  for stack of 163-179
	Helix total = -15.7
	Internal/bulge = 2.3  for closure of 164-178	Size = 3
		Stack = -3.4  for stack of 167-176
	Helix total = -3.4
	Hairpin = 3.3  for closure of 168-175
		Stack = -2.4  for stack of 119-153
		Stack = -0.9  for stack of 120-152
		Stack = -2.2  for stack of 121-151
	Helix total = -5.5
	Internal/bulge = 2.2  for closure of 122-150	Size = 11
		Stack = -3.3  for stack of 128-143
		Stack = -2.1  for stack of 129-142
		Stack = -2.4  for stack of 130-141
		Stack = -1.4  for stack of 131-140
		Stack = -2.1  for stack of 132-139
	Helix total = -11.3
	Hairpin = 3.1  for closure of 133-138
		Stack = -2.5  for stack of 57-80
		Stack = -0.5  for stack of 58-79
	Helix total = -3.0
	Internal/bulge = 3.8  for closure of 59-78	Size = 2
		Stack = -2.2  for stack of 62-77
		Stack = -2.4  for stack of 63-76
		Stack = -2.4  for stack of 64-75
		Stack = -2.1  for stack of 65-74
		Stack = -2.2  for stack of 66-73
	Helix total = -11.3
	Hairpin = 4.7  for closure of 67-72
		Stack = -3.3  for stack of 4-20
		Stack = -2.4  for stack of 5-19
		Stack = -3.3  for stack of 6-18
		Stack = -2.5  for stack of 7-17
	Helix total = -11.5
	Hairpin = 5.1  for closure of 8-16


	Total energy = -175.6



