Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    307:366 308:365 309:364
	Energy of Broken Structure: -198.0
	Energy of Pseudo-Helices:   -2.5
	Pseudoknot Energy Penalty:  8.4
	Total Free Energy:          -192.1
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.1
		Stack = -3.3  for stack of 22-605
		Stack = -3.3  for stack of 23-604
		Stack = -2.4  for stack of 24-603
		Stack = -3.4  for stack of 25-602
		Stack = -2.4  for stack of 26-601
		Stack = -2.4  for stack of 27-600
		Stack = -2.2  for stack of 28-599
	Helix total = -19.4
	Internal/bulge = 1.4  for closure of 29-598	Size = 1 BP stack across bulge = -2.4
		Stack = -3.3  for stack of 31-597
		Stack = -2.4  for stack of 32-596
	Helix total = -5.7
	Internal/bulge = 3.0  for closure of 33-595	Size = 3
		Stack = -3.3  for stack of 35-592
	Helix total = -3.3
	Multiloop = 2.1  for closure of 36-591
		Stack = -2.4  for stack of 568-586
		Stack = -0.9  for stack of 569-585
		Stack = -2.2  for stack of 570-584
	Helix total = -5.5
	Internal/bulge = 1.4  for closure of 571-583	Size = 1 BP stack across bulge = -2.4
		Stack = -2.2  for stack of 572-581
		Stack = -2.4  for stack of 573-580
	Helix total = -4.6
	Hairpin = 3.3  for closure of 574-579
	Helix total = 0.0
	Internal/bulge = 1.8  for closure of 487-562	Size = 1 BP stack across bulge = -1.4
		Stack = -2.1  for stack of 488-560
		Stack = -3.4  for stack of 489-559
		Stack = -2.1  for stack of 490-558
	Helix total = -7.6
	Internal/bulge = 3.3  for closure of 491-557	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.3  for closure of 492-554	Size = 2
		Stack = -1.4  for stack of 493-551
		Stack = -1.5  for stack of 494-550
		Stack = -2.4  for stack of 495-549
		Stack = -3.4  for stack of 496-548
	Helix total = -8.7
	Multiloop = 5.1  for closure of 497-547
		Stack = -2.1  for stack of 527-541
		Stack = -3.3  for stack of 528-540
		Stack = -3.3  for stack of 529-539
		Stack = -3.4  for stack of 530-538
	Helix total = -12.1
	Hairpin = 4.3  for closure of 531-537
		Stack = -3.3  for stack of 500-525
	Helix total = -3.3
	Internal/bulge = 3.3  for closure of 501-524	Size = 2
		Stack = -2.1  for stack of 502-521
		Stack = -3.3  for stack of 503-520
		Stack = -3.3  for stack of 504-519
		Stack = -1.5  for stack of 505-518
		Stack = -2.5  for stack of 506-517
		Stack = -2.1  for stack of 507-516
		Stack = -1.4  for stack of 508-515
	Helix total = -16.2
	Hairpin = 4.0  for closure of 509-514
		Stack = -3.4  for stack of 434-476
		Stack = -2.1  for stack of 435-475
	Helix total = -5.5
	Internal/bulge = 3.0  for closure of 436-474	Size = 3
		Stack = -1.4  for stack of 438-471
		Stack = -1.5  for stack of 439-470
		Stack = -2.1  for stack of 440-469
		Stack = -2.4  for stack of 441-468
		Stack = -3.3  for stack of 442-467
		Stack = -3.3  for stack of 443-466
		Stack = -3.3  for stack of 444-465
	Helix total = -17.3
	Internal/bulge = 1.0  for closure of 445-464	Size = 6
		Stack = -2.4  for stack of 449-460
	Helix total = -2.4
	Hairpin = 4.3  for closure of 450-459
		Stack = -3.3  for stack of 42-426
		Stack = -3.3  for stack of 43-425
		Stack = -3.3  for stack of 44-424
		Stack = -2.4  for stack of 45-423
	Helix total = -12.3
	Internal/bulge = 0.5  for closure of 46-422	Size = 1 BP stack across bulge = -3.3
		Stack = -3.3  for stack of 48-421
	Helix total = -3.3
	Internal/bulge = 3.3  for closure of 49-420	Size = 2
		Stack = -2.1  for stack of 50-417
		Stack = -3.4  for stack of 51-416
		Stack = -2.1  for stack of 52-415
		Stack = -0.9  for stack of 53-414
	Helix total = -8.5
	Multiloop = 1.9  for closure of 54-413
	Helix total = 0.0
	Multiloop = 6.1  for closure of 261-406
		Stack = -2.4  for stack of 374-400
		Stack = -1.5  for stack of 375-399
		Stack = -1.4  for stack of 376-398
		Stack = -2.1  for stack of 377-397
		Stack = -3.3  for stack of 378-396
		Stack = -2.5  for stack of 379-395
	Helix total = -13.2
	Internal/bulge = 1.9  for closure of 380-394	Size = 1 BP stack across bulge = -1.5
		Stack = -3.3  for stack of 382-393
	Helix total = -3.3
	Hairpin = 3.2  for closure of 383-392
		Stack = -3.3  for stack of 263-363
	Helix total = -3.3
	Multiloop = 1.3  for closure of 264-362
		Stack = -2.4  for stack of 351-360
		Stack = -2.2  for stack of 352-359
	Helix total = -4.6
	Hairpin = 3.3  for closure of 353-358
		Stack = -2.1  for stack of 326-349
		Stack = -2.1  for stack of 327-348
		Stack = -3.4  for stack of 328-347
	Helix total = -7.6
	Internal/bulge = -0.7  for closure of 329-346	Size = 4
		Stack = -2.4  for stack of 332-343
		Stack = -2.2  for stack of 333-342
	Helix total = -4.6
	Hairpin = 4.4  for closure of 334-341
		Stack = -0.6  for stack of 267-323
		Stack = -2.1  for stack of 268-322
		Stack = -2.5  for stack of 269-321
		Stack = -0.6  for stack of 270-320
		Stack = -2.4  for stack of 271-319
		Stack = -3.3  for stack of 272-318
		Stack = -3.3  for stack of 273-317
	Helix total = -14.8
	Multiloop = 6.0  for closure of 274-316
		Stack = -2.5  for stack of 302-311
	Helix total = -2.5
	Hairpin = 4.3  for closure of 303-310
		Stack = -2.4  for stack of 275-301
	Helix total = -2.4
	Internal/bulge = 2.3  for closure of 276-300	Size = 4
		Stack = -2.4  for stack of 278-296
		Stack = -0.9  for stack of 279-295
		Stack = -1.1  for stack of 280-294
		Stack = -2.1  for stack of 281-293
		Stack = -1.5  for stack of 282-292
	Helix total = -8.0
	Hairpin = 5.9  for closure of 283-291
		Stack = -3.4  for stack of 238-260
		Stack = -3.3  for stack of 239-259
		Stack = -2.1  for stack of 240-258
		Stack = -2.4  for stack of 241-257
		Stack = -3.3  for stack of 242-256
	Helix total = -14.5
	Hairpin = 5.2  for closure of 243-255
		Stack = -2.4  for stack of 225-237
		Stack = -2.2  for stack of 226-236
		Stack = -2.1  for stack of 227-235
		Stack = -1.4  for stack of 228-234
	Helix total = -8.1
	Hairpin = 5.4  for closure of 229-233
		Stack = -2.2  for stack of 56-222
		Stack = -2.1  for stack of 57-221
		Stack = -2.1  for stack of 58-220
		Stack = -3.4  for stack of 59-219
	Helix total = -9.8
	Internal/bulge = 1.9  for closure of 60-218	Size = 3
		Stack = -2.5  for stack of 62-215
		Stack = -3.3  for stack of 63-214
		Stack = -2.1  for stack of 64-213
		Stack = -2.1  for stack of 65-212
		Stack = -2.4  for stack of 66-211
		Stack = -1.4  for stack of 67-210
		Stack = -1.0  for stack of 68-209
	Helix total = -14.8
	Multiloop = 6.9  for closure of 69-208
		Stack = -3.3  for stack of 180-201
	Helix total = -3.3
	Internal/bulge = -1.5  for closure of 181-200	Size = 1 BP stack across bulge = -3.3
		Stack = -3.3  for stack of 183-199
		Stack = -2.4  for stack of 184-198
		Stack = -3.4  for stack of 185-197
		Stack = -3.3  for stack of 186-196
		Stack = -3.3  for stack of 187-195
	Helix total = -15.7
	Hairpin = 4.3  for closure of 188-194
		Stack = -2.4  for stack of 72-175
		Stack = -0.9  for stack of 73-174
	Helix total = -3.3
	Internal/bulge = 1.2  for closure of 74-173	Size = 2
		Stack = -2.2  for stack of 76-171
		Stack = -1.3  for stack of 77-170
		Stack = 0.3  for stack of 78-169
		Stack = -0.5  for stack of 79-168
		Stack = -1.4  for stack of 80-167
		Stack = -1.3  for stack of 81-166
		Stack = -2.2  for stack of 82-165
		Stack = -2.1  for stack of 83-164
		Stack = -2.1  for stack of 84-163
		Stack = -3.4  for stack of 85-162
		Stack = -2.1  for stack of 86-161
	Helix total = -18.3
	Internal/bulge = 5.9  for closure of 87-160	Size = 13
		Stack = -3.3  for stack of 99-157
		Stack = -2.2  for stack of 100-156
		Stack = -1.3  for stack of 101-155
		Stack = -2.1  for stack of 102-154
	Helix total = -8.9
	Internal/bulge = 4.9  for closure of 103-153	Size = 14
		Stack = -3.4  for stack of 106-140
		Stack = -3.3  for stack of 107-139
		Stack = -2.1  for stack of 108-138
	Helix total = -8.8
	Internal/bulge = 4.3  for closure of 109-137	Size = 7
		Stack = -2.2  for stack of 115-134
		Stack = -3.3  for stack of 116-133
		Stack = -2.4  for stack of 117-132
		Stack = -1.5  for stack of 118-131
		Stack = -1.3  for stack of 119-130
		Stack = -2.1  for stack of 120-129
		Stack = -3.4  for stack of 121-128
	Helix total = -16.2
	Hairpin = 3.3  for closure of 122-127
		Stack = -2.2  for stack of 2-19
		Stack = -3.3  for stack of 3-18
		Stack = -2.1  for stack of 4-17
		Stack = -2.1  for stack of 5-16
	Helix total = -9.7
	Hairpin = 4.4  for closure of 6-15


	Total energy = -198.0



