Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    306:355 307:354 308:353 309:352 310:351
	Energy of Broken Structure: -75.7
	Energy of Pseudo-Helices:   -8.0
	Pseudoknot Energy Penalty:  7.9
	Total Free Energy:          -75.8
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = 0.4
		Stack = -3.3  for stack of 359-484
		Stack = -3.3  for stack of 360-483
		Stack = -2.1  for stack of 361-482
	Helix total = -8.7
	Multiloop = 5.8  for closure of 362-481
		Stack = -0.9  for stack of 446-477
		Stack = -1.1  for stack of 447-476
		Stack = -2.4  for stack of 448-475
	Helix total = -4.4
	Internal/bulge = 2.6  for closure of 449-474	Size = 6
		Stack = -2.2  for stack of 454-471
		Stack = -1.3  for stack of 455-470
		Stack = -1.1  for stack of 456-469
		Stack = -1.0  for stack of 457-468
		Stack = -1.3  for stack of 458-467
	Helix total = -6.9
	Hairpin = 4.2  for closure of 459-466
		Stack = -2.1  for stack of 426-440
		Stack = -3.3  for stack of 427-439
		Stack = -3.3  for stack of 428-438
	Helix total = -8.7
	Hairpin = 4.5  for closure of 429-437
		Stack = -1.5  for stack of 406-425
		Stack = -1.3  for stack of 407-424
		Stack = -1.1  for stack of 408-423
		Stack = -1.3  for stack of 409-422
		Stack = -0.9  for stack of 410-421
		Stack = -1.1  for stack of 411-420
		Stack = -1.3  for stack of 412-419
	Helix total = -8.5
	Hairpin = 4.4  for closure of 413-418
		Stack = -2.2  for stack of 375-400
		Stack = -2.1  for stack of 376-399
		Stack = -2.1  for stack of 377-398
	Helix total = -6.4
	Internal/bulge = 1.0  for closure of 378-397	Size = 1 BP stack across bulge = -2.4
		Stack = -0.9  for stack of 380-396
		Stack = -1.1  for stack of 381-395
		Stack = -1.3  for stack of 382-394
		Stack = -1.1  for stack of 383-393
		Stack = -0.9  for stack of 384-392
	Helix total = -5.3
	Hairpin = 4.8  for closure of 385-391
		Stack = -1.1  for stack of 363-374
		Stack = -2.4  for stack of 364-373
		Stack = -3.3  for stack of 365-372
	Helix total = -6.8
	Hairpin = 3.3  for closure of 366-371
		Stack = -2.1  for stack of 321-343
		Stack = -2.2  for stack of 322-342
		Stack = -1.3  for stack of 323-341
		Stack = -1.1  for stack of 324-340
		Stack = -0.9  for stack of 325-339
		Stack = -1.3  for stack of 326-338
		Stack = -1.1  for stack of 327-337
	Helix total = -10.0
	Hairpin = 5.9  for closure of 328-336
		Stack = -0.9  for stack of 134-320
		Stack = -2.2  for stack of 135-319
		Stack = -3.3  for stack of 136-318
		Stack = -2.1  for stack of 137-317
		Stack = -1.4  for stack of 138-316
		Stack = -1.5  for stack of 139-315
	Helix total = -11.4
	Multiloop = 8.8  for closure of 140-314
		Stack = -2.5  for stack of 259-300
	Helix total = -2.5
	Internal/bulge = 1.7  for closure of 260-299	Size = 6
		Stack = 1.3  for stack of 264-295
		Stack = 0.3  for stack of 265-294
		Stack = -2.5  for stack of 266-293
		Stack = -3.3  for stack of 267-292
		Stack = -2.1  for stack of 268-291
		Stack = -1.1  for stack of 269-290
	Helix total = -7.4
	Internal/bulge = 2.9  for closure of 270-289	Size = 1 BP stack across bulge = -0.9
		Stack = -1.3  for stack of 272-288
		Stack = -1.4  for stack of 273-287
		Stack = -0.6  for stack of 274-286
		Stack = -0.9  for stack of 275-285
		Stack = -1.3  for stack of 276-284
		Stack = -1.1  for stack of 277-283
	Helix total = -6.6
	Hairpin = 5.9  for closure of 278-282
		Stack = -2.1  for stack of 145-258
	Helix total = -2.1
	Internal/bulge = 0.4  for closure of 146-257	Size = 1 BP stack across bulge = -3.4
		Stack = -2.4  for stack of 148-256
		Stack = -3.3  for stack of 149-255
		Stack = -1.5  for stack of 150-254
	Helix total = -7.2
	Internal/bulge = 2.9  for closure of 151-253	Size = 5
		Stack = -2.5  for stack of 155-250
		Stack = -3.3  for stack of 156-249
		Stack = -2.1  for stack of 157-248
	Helix total = -7.9
	Internal/bulge = 5.6  for closure of 158-247	Size = 21
		Stack = -2.1  for stack of 164-230
		Stack = -1.3  for stack of 165-229
		Stack = -1.1  for stack of 166-228
		Stack = -0.9  for stack of 167-227
		Stack = -0.9  for stack of 168-226
		Stack = -1.3  for stack of 169-225
	Helix total = -7.6
	Internal/bulge = 6.5  for closure of 170-224	Size = 7
		Stack = -2.2  for stack of 172-217
		Stack = -2.1  for stack of 173-216
		Stack = -1.3  for stack of 174-215
	Helix total = -5.6
	Multiloop = 5.3  for closure of 175-214
		Stack = -2.1  for stack of 201-210
		Stack = -2.4  for stack of 202-209
	Helix total = -4.5
	Hairpin = 3.3  for closure of 203-208
		Stack = -2.5  for stack of 177-198
		Stack = -2.1  for stack of 178-197
		Stack = -0.9  for stack of 179-196
	Helix total = -5.5
	Internal/bulge = 2.2  for closure of 180-195	Size = 4
		Stack = -1.3  for stack of 183-192
		Stack = -0.9  for stack of 184-191
	Helix total = -2.2
	Hairpin = 4.4  for closure of 185-190
		Stack = -2.1  for stack of 4-130
		Stack = -3.3  for stack of 5-129
		Stack = -2.5  for stack of 6-128
		Stack = -1.5  for stack of 7-127
	Helix total = -9.4
	Multiloop = 7.8  for closure of 8-126
		Stack = -0.9  for stack of 101-125
		Stack = -0.9  for stack of 102-124
		Stack = -1.1  for stack of 103-123
		Stack = -1.3  for stack of 104-122
		Stack = -0.9  for stack of 105-121
		Stack = -0.9  for stack of 106-120
		Stack = -2.1  for stack of 107-119
	Helix total = -8.1
	Hairpin = 5.3  for closure of 108-118
		Stack = -1.4  for stack of 54-98
		Stack = -0.6  for stack of 55-97
		Stack = -1.3  for stack of 56-96
		Stack = -1.1  for stack of 57-95
		Stack = -0.9  for stack of 58-94
		Stack = -1.3  for stack of 59-93
		Stack = -1.1  for stack of 60-92
		Stack = -0.9  for stack of 61-91
		Stack = -0.9  for stack of 62-90
		Stack = -1.3  for stack of 63-89
		Stack = -2.2  for stack of 64-88
		Stack = -2.1  for stack of 65-87
	Helix total = -15.1
	Internal/bulge = 4.6  for closure of 66-86	Size = 6
		Stack = -1.3  for stack of 71-83
		Stack = -2.2  for stack of 72-82
		Stack = -2.1  for stack of 73-81
	Helix total = -5.6
	Hairpin = 4.8  for closure of 74-80
		Stack = -2.4  for stack of 21-53
		Stack = -2.1  for stack of 22-52
		Stack = -2.4  for stack of 23-51
		Stack = -2.1  for stack of 24-50
	Helix total = -9.0
	Internal/bulge = 1.3  for closure of 25-49	Size = 4
		Stack = -0.9  for stack of 28-46
		Stack = -2.4  for stack of 29-45
		Stack = -2.1  for stack of 30-44
		Stack = -0.9  for stack of 31-43
		Stack = -0.9  for stack of 32-42
		Stack = -0.9  for stack of 33-41
	Helix total = -8.1
	Hairpin = 5.2  for closure of 34-40


	Total energy = -75.7



