Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    307:366 308:365 309:364
	Energy of Broken Structure: -163.9
	Energy of Pseudo-Helices:   -3.2
	Pseudoknot Energy Penalty:  8.4
	Total Free Energy:          -158.7
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -1.8
		Stack = -3.3  for stack of 22-604
		Stack = -3.3  for stack of 23-603
		Stack = -1.4  for stack of 24-602
		Stack = -2.5  for stack of 25-601
		Stack = -2.4  for stack of 26-600
		Stack = -3.3  for stack of 27-599
		Stack = -3.4  for stack of 28-598
	Helix total = -19.6
	Internal/bulge = 1.3  for closure of 29-597	Size = 1 BP stack across bulge = -2.1
		Stack = -2.1  for stack of 31-596
		Stack = -2.4  for stack of 32-595
	Helix total = -4.5
	Internal/bulge = 3.0  for closure of 33-594	Size = 3
		Stack = -3.3  for stack of 35-591
	Helix total = -3.3
	Multiloop = 2.1  for closure of 36-590
		Stack = -2.4  for stack of 567-585
		Stack = -0.9  for stack of 568-584
		Stack = -2.2  for stack of 569-583
	Helix total = -5.5
	Internal/bulge = 1.4  for closure of 570-582	Size = 1 BP stack across bulge = -2.4
		Stack = -2.2  for stack of 571-580
		Stack = -2.4  for stack of 572-579
	Helix total = -4.6
	Hairpin = 3.3  for closure of 573-578
	Helix total = 0.0
	Internal/bulge = 1.8  for closure of 486-561	Size = 1 BP stack across bulge = -1.4
		Stack = -2.1  for stack of 487-559
		Stack = -3.4  for stack of 488-558
		Stack = -2.1  for stack of 489-557
	Helix total = -7.6
	Internal/bulge = 3.3  for closure of 490-556	Size = 2
	Helix total = 0.0
	Internal/bulge = 3.3  for closure of 491-553	Size = 2
		Stack = -1.4  for stack of 492-550
		Stack = -1.5  for stack of 493-549
		Stack = -2.1  for stack of 494-548
		Stack = -2.2  for stack of 495-547
	Helix total = -7.2
	Multiloop = 5.2  for closure of 496-546
		Stack = -1.1  for stack of 526-540
		Stack = -2.1  for stack of 527-539
		Stack = -3.3  for stack of 528-538
		Stack = -3.4  for stack of 529-537
	Helix total = -9.9
	Hairpin = 4.3  for closure of 530-536
		Stack = -3.3  for stack of 499-524
	Helix total = -3.3
	Internal/bulge = 3.3  for closure of 500-523	Size = 2
		Stack = -2.1  for stack of 501-520
		Stack = -3.3  for stack of 502-519
		Stack = -3.3  for stack of 503-518
		Stack = -1.5  for stack of 504-517
		Stack = -2.5  for stack of 505-516
		Stack = -2.1  for stack of 506-515
	Helix total = -14.8
	Hairpin = 4.5  for closure of 507-514
		Stack = -3.4  for stack of 434-475
		Stack = -2.1  for stack of 435-474
	Helix total = -5.5
	Internal/bulge = 3.7  for closure of 436-473	Size = 3
		Stack = -1.4  for stack of 438-470
		Stack = -1.0  for stack of 439-469
		Stack = -2.2  for stack of 440-468
		Stack = -3.3  for stack of 441-467
		Stack = -2.4  for stack of 442-466
		Stack = -3.4  for stack of 443-465
		Stack = -3.3  for stack of 444-464
	Helix total = -17.0
	Internal/bulge = 1.0  for closure of 445-463	Size = 6
		Stack = -2.4  for stack of 449-459
	Helix total = -2.4
	Hairpin = 4.8  for closure of 450-458
		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 = -2.4  for stack of 48-421
	Helix total = -2.4
	Internal/bulge = 3.8  for closure of 49-420	Size = 2
		Stack = -2.2  for stack of 50-417
		Stack = -3.3  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 = 2.7  for closure of 54-413
	Helix total = 0.0
	Multiloop = 6.6  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 = -2.1  for stack of 382-393
	Helix total = -2.1
	Hairpin = 4.6  for closure of 383-392
		Stack = -2.2  for stack of 263-363
	Helix total = -2.2
	Multiloop = 1.8  for closure of 264-362
		Stack = -2.1  for stack of 351-360
		Stack = -3.4  for stack of 352-359
	Helix total = -5.5
	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 = -3.4  for stack of 332-343
		Stack = -2.4  for stack of 333-342
	Helix total = -5.8
	Hairpin = 4.3  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 = -2.1  for stack of 271-319
		Stack = -3.3  for stack of 272-318
		Stack = -3.4  for stack of 273-317
	Helix total = -14.6
	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 = -1.3  for stack of 275-301
	Helix total = -1.3
	Internal/bulge = 3.7  for closure of 276-300	Size = 4
		Stack = -2.4  for stack of 278-296
		Stack = -3.3  for stack of 279-295
		Stack = -2.1  for stack of 280-294
		Stack = -2.1  for stack of 281-293
		Stack = -1.5  for stack of 282-292
	Helix total = -11.4
	Hairpin = 5.9  for closure of 283-291
		Stack = -2.4  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 = -13.5
	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 = -1.3  for stack of 58-220
		Stack = -1.4  for stack of 59-219
	Helix total = -7.0
	Internal/bulge = 2.6  for closure of 60-218	Size = 3
		Stack = -2.5  for stack of 62-215
		Stack = -2.1  for stack of 63-214
	Helix total = -4.6
	Internal/bulge = 1.1  for closure of 64-213	Size = 2
		Stack = -2.4  for stack of 66-211
		Stack = -2.2  for stack of 67-210
		Stack = -2.1  for stack of 68-209
	Helix total = -6.7
	Multiloop = 6.6  for closure of 69-208
		Stack = -2.4  for stack of 179-202
		Stack = -2.5  for stack of 180-201
	Helix total = -4.9
	Internal/bulge = 3.7  for closure of 181-200	Size = 1 BP stack across bulge = 0.3
		Stack = -1.3  for stack of 183-199
		Stack = -2.2  for stack of 184-198
		Stack = -3.3  for stack of 185-197
		Stack = -3.3  for stack of 186-196
		Stack = -2.4  for stack of 187-195
	Helix total = -12.5
	Hairpin = 4.7  for closure of 188-194
		Stack = -2.4  for stack of 72-175
		Stack = -0.9  for stack of 73-174
		Stack = -2.2  for stack of 74-173
		Stack = -2.1  for stack of 75-172
		Stack = -1.1  for stack of 76-171
		Stack = -1.3  for stack of 77-170
		Stack = 0.3  for stack of 78-169
		Stack = -1.3  for stack of 79-168
		Stack = -0.6  for stack of 80-167
		Stack = -2.5  for stack of 81-166
	Helix total = -14.1
	Internal/bulge = 1.2  for closure of 82-165	Size = 2
		Stack = -0.9  for stack of 84-163
		Stack = -1.0  for stack of 85-162
		Stack = -1.3  for stack of 86-161
	Helix total = -3.2
	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 = -2.1  for stack of 101-155
		Stack = -3.3  for stack of 102-154
	Helix total = -10.9
	Internal/bulge = 3.9  for closure of 103-153	Size = 14
		Stack = -3.3  for stack of 106-140
		Stack = -3.4  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 = -1.4  for stack of 115-134
		Stack = -2.1  for stack of 116-133
		Stack = -2.5  for stack of 117-132
		Stack = 0.3  for stack of 118-131
		Stack = -2.1  for stack of 119-130
		Stack = -2.4  for stack of 120-129
		Stack = -2.2  for stack of 121-128
	Helix total = -12.4
	Hairpin = 3.3  for closure of 122-127
		Stack = -1.4  for stack of 2-19
		Stack = -2.5  for stack of 3-18
		Stack = -2.1  for stack of 4-17
		Stack = -2.1  for stack of 5-16
	Helix total = -8.1
	Hairpin = 4.4  for closure of 6-15


	Total energy = -163.9



