Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    530:551 531:550 532:549
	Energy of Broken Structure: -242.2
	Energy of Pseudo-Helices:   -6.7
	Pseudoknot Energy Penalty:  6.9
	Total Free Energy:          -242.0
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -3.7
		Stack = -3.4  for stack of 29-581
		Stack = -2.4  for stack of 30-580
		Stack = -3.4  for stack of 31-579
	Helix total = -9.2
	Internal/bulge = 1.7  for closure of 32-578	Size = 1 BP stack across bulge = -2.1
		Stack = -0.9  for stack of 34-577
		Stack = -2.2  for stack of 35-576
		Stack = -2.4  for stack of 36-575
		Stack = -3.4  for stack of 37-574
		Stack = -2.1  for stack of 38-573
	Helix total = -11.0
	Multiloop = -0.6  for closure of 39-572
		Stack = -3.3  for stack of 525-570
		Stack = -3.3  for stack of 526-569
		Stack = -2.4  for stack of 527-568
		Stack = -2.2  for stack of 528-567
	Helix total = -11.2
	Internal/bulge = 4.4  for closure of 529-566	Size = 6
		Stack = -2.1  for stack of 536-565
		Stack = -1.3  for stack of 537-564
		Stack = -2.2  for stack of 538-563
		Stack = -2.4  for stack of 539-562
	Helix total = -8.0
	Hairpin = 6.1  for closure of 540-561
	Helix total = 0.0
	Internal/bulge = 3.8  for closure of 464-522	Size = 5
		Stack = -3.3  for stack of 466-517
		Stack = -3.3  for stack of 467-516
		Stack = -3.3  for stack of 468-515
		Stack = -3.3  for stack of 469-514
	Helix total = -13.2
	Internal/bulge = 1.7  for closure of 470-513	Size = 7
	Helix total = 0.0
	Internal/bulge = 3.2  for closure of 474-508	Size = 10
		Stack = -2.2  for stack of 480-502
		Stack = -2.1  for stack of 481-501
		Stack = -2.1  for stack of 482-500
		Stack = -2.2  for stack of 483-499
		Stack = -2.1  for stack of 484-498
		Stack = -3.3  for stack of 485-497
		Stack = -3.3  for stack of 486-496
	Helix total = -17.3
	Hairpin = 4.9  for closure of 487-495
		Stack = -3.3  for stack of 430-460
		Stack = -3.3  for stack of 431-459
		Stack = -3.3  for stack of 432-458
	Helix total = -9.9
	Internal/bulge = 1.9  for closure of 433-457	Size = 11
		Stack = -2.5  for stack of 440-451
		Stack = -3.3  for stack of 441-450
		Stack = -3.3  for stack of 442-449
	Helix total = -9.1
	Hairpin = 2.8  for closure of 443-448
		Stack = -3.4  for stack of 41-427
		Stack = -2.4  for stack of 42-426
		Stack = -3.3  for stack of 43-425
		Stack = -3.4  for stack of 44-424
		Stack = -2.4  for stack of 45-423
	Helix total = -14.9
	Internal/bulge = 1.3  for closure of 46-422	Size = 1 BP stack across bulge = -2.5
		Stack = -1.4  for stack of 47-420
	Helix total = -1.4
	Multiloop = 4.0  for closure of 48-419
	Helix total = 0.0
	Internal/bulge = 0.5  for closure of 391-417	Size = 1 BP stack across bulge = -3.3
		Stack = -3.3  for stack of 393-416
		Stack = -3.3  for stack of 394-415
	Helix total = -6.6
	Internal/bulge = 3.0  for closure of 395-414	Size = 4
		Stack = 0.3  for stack of 399-412
		Stack = -2.1  for stack of 400-411
		Stack = -3.3  for stack of 401-410
		Stack = -3.4  for stack of 402-409
	Helix total = -8.5
	Hairpin = 3.3  for closure of 403-408
	Helix total = 0.0
	Internal/bulge = 3.8  for closure of 49-385	Size = 5
		Stack = -2.1  for stack of 54-383
		Stack = -2.2  for stack of 55-382
	Helix total = -4.3
	Internal/bulge = 1.7  for closure of 56-381	Size = 1 BP stack across bulge = -2.1
		Stack = -2.1  for stack of 58-380
		Stack = -3.4  for stack of 59-379
	Helix total = -5.5
	Multiloop = -0.3  for closure of 60-378
		Stack = -3.3  for stack of 363-374
		Stack = -3.3  for stack of 364-373
		Stack = -3.3  for stack of 365-372
	Helix total = -9.9
	Hairpin = 2.8  for closure of 366-371
		Stack = -3.4  for stack of 340-361
		Stack = -2.4  for stack of 341-360
		Stack = -3.3  for stack of 342-359
		Stack = -3.3  for stack of 343-358
	Helix total = -12.4
	Hairpin = 5.4  for closure of 344-357
		Stack = -2.2  for stack of 113-338
		Stack = -2.1  for stack of 114-337
	Helix total = -4.3
	Multiloop = 1.8  for closure of 115-336
		Stack = -3.4  for stack of 313-335
		Stack = -3.3  for stack of 314-334
		Stack = -2.4  for stack of 315-333
	Helix total = -9.1
	Internal/bulge = 3.7  for closure of 316-332	Size = 3
		Stack = -2.5  for stack of 317-328
		Stack = -3.3  for stack of 318-327
		Stack = -2.1  for stack of 319-326
	Helix total = -7.9
	Hairpin = 4.7  for closure of 320-325
		Stack = -3.3  for stack of 264-310
		Stack = -3.3  for stack of 265-309
	Helix total = -6.6
	Internal/bulge = 3.7  for closure of 266-308	Size = 10
		Stack = -3.3  for stack of 271-301
		Stack = -2.5  for stack of 272-300
	Helix total = -5.8
	Internal/bulge = 3.8  for closure of 273-299	Size = 2
		Stack = -0.9  for stack of 276-298
		Stack = -2.1  for stack of 277-297
		Stack = -3.3  for stack of 278-296
		Stack = -2.2  for stack of 279-295
		Stack = -2.1  for stack of 280-294
		Stack = -3.3  for stack of 281-293
		Stack = -3.3  for stack of 282-292
	Helix total = -17.2
	Hairpin = 3.8  for closure of 283-291
		Stack = -2.4  for stack of 123-262
		Stack = -2.5  for stack of 124-261
		Stack = -1.4  for stack of 125-260
		Stack = -3.3  for stack of 126-259
		Stack = -3.3  for stack of 127-258
		Stack = -2.5  for stack of 128-257
	Helix total = -15.4
	Internal/bulge = 3.3  for closure of 129-256	Size = 2
		Stack = -3.3  for stack of 132-255
	Helix total = -3.3
	Internal/bulge = 2.3  for closure of 133-254	Size = 5
		Stack = -3.3  for stack of 137-251
		Stack = -3.3  for stack of 138-250
		Stack = -3.3  for stack of 139-249
		Stack = -2.1  for stack of 140-248
		Stack = -2.1  for stack of 141-247
		Stack = -3.3  for stack of 142-246
	Helix total = -17.4
	Multiloop = 2.7  for closure of 143-245
		Stack = -3.3  for stack of 215-243
		Stack = -3.3  for stack of 216-242
		Stack = -1.5  for stack of 217-241
		Stack = -2.1  for stack of 218-240
		Stack = -3.4  for stack of 219-239
	Helix total = -13.6
	Internal/bulge = 3.0  for closure of 220-238	Size = 4
		Stack = -2.1  for stack of 224-236
		Stack = -3.3  for stack of 225-235
		Stack = -3.3  for stack of 226-234
		Stack = -3.4  for stack of 227-233
	Helix total = -12.1
	Hairpin = 5.4  for closure of 228-232
		Stack = -3.4  for stack of 185-210
		Stack = -3.3  for stack of 186-209
		Stack = -2.4  for stack of 187-208
		Stack = -3.4  for stack of 188-207
		Stack = -3.3  for stack of 189-206
	Helix total = -15.8
	Internal/bulge = 0.5  for closure of 190-205	Size = 1 BP stack across bulge = -3.3
		Stack = -2.4  for stack of 191-203
		Stack = -3.4  for stack of 192-202
		Stack = -3.3  for stack of 193-201
	Helix total = -9.1
	Hairpin = 4.2  for closure of 194-200
		Stack = -3.3  for stack of 145-179
		Stack = -3.3  for stack of 146-178
		Stack = -3.3  for stack of 147-177
	Helix total = -9.9
	Internal/bulge = 2.2  for closure of 148-176	Size = 11
		Stack = -3.3  for stack of 154-169
		Stack = -3.3  for stack of 155-168
		Stack = -3.3  for stack of 156-167
		Stack = -2.4  for stack of 157-166
		Stack = -3.3  for stack of 158-165
	Helix total = -15.6
	Hairpin = 3.1  for closure of 159-164
		Stack = -2.5  for stack of 63-106
		Stack = -1.5  for stack of 64-105
	Helix total = -4.0
	Internal/bulge = 2.8  for closure of 65-104	Size = 2
		Stack = -3.4  for stack of 68-103
	Helix total = -3.4
	Internal/bulge = -0.1  for closure of 69-102	Size = 2
		Stack = -2.1  for stack of 71-100
		Stack = -2.1  for stack of 72-99
	Helix total = -4.2
	Internal/bulge = 2.3  for closure of 73-98	Size = 1 BP stack across bulge = -1.5
		Stack = -2.5  for stack of 74-96
		Stack = -2.1  for stack of 75-95
		Stack = -1.5  for stack of 76-94
		Stack = -2.4  for stack of 77-93
		Stack = -3.4  for stack of 78-92
		Stack = -2.1  for stack of 79-91
		Stack = -2.4  for stack of 80-90
		Stack = -3.3  for stack of 81-89
		Stack = -3.3  for stack of 82-88
	Helix total = -23.0
	Hairpin = 5.4  for closure of 83-87
		Stack = -2.4  for stack of 11-27
		Stack = -2.1  for stack of 12-26
		Stack = -2.5  for stack of 13-25
		Stack = -0.5  for stack of 14-24
	Helix total = -7.5
	Hairpin = 5.1  for closure of 15-23


	Total energy = -242.2



