Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    19:46 20:45 21:44 22:43 23:42
	Energy of Broken Structure: 1347.3
	Energy of Pseudo-Helices:   -10.7
	Pseudoknot Energy Penalty:  7.3
	Total Free Energy:          1343.9
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = 0.5
		Stack = -2.1  for stack of 1-306
		Stack = -3.3  for stack of 2-305
	Helix total = -5.4
	Multiloop = 5.6  for closure of 3-304
		Stack = -2.1  for stack of 63-299
		Stack = -0.9  for stack of 64-298
		Stack = -2.1  for stack of 65-297
		Stack = -3.3  for stack of 66-296
		Stack = -3.3  for stack of 67-295
	Helix total = -11.7
	Internal/bulge = 2.0  for closure of 68-294	Size = 6
		Stack = -1.5  for stack of 72-290
		Stack = -2.5  for stack of 73-289
		Stack = -2.1  for stack of 74-288
	Helix total = -6.1
	Internal/bulge = 1.5  for closure of 75-287	Size = 2
		Stack = -0.9  for stack of 77-285
		Stack = -2.1  for stack of 78-284
	Helix total = -3.0
	Internal/bulge = 2.6  for closure of 79-283	Size = 5
		Stack = -3.3  for stack of 83-280
		Stack = -2.1  for stack of 84-279
		Stack = -0.9  for stack of 85-278
		Stack = -0.9  for stack of 86-277
		Stack = -1.1  for stack of 87-276
		Stack = -1.3  for stack of 88-275
		Stack = -0.6  for stack of 89-274
		Stack = -2.4  for stack of 90-273
		Stack = -2.1  for stack of 91-272
		Stack = -1.1  for stack of 92-271
	Helix total = -15.8
	Internal/bulge = 4.6  for closure of 93-270	Size = 4
		Stack = -1.5  for stack of 94-265
		Stack = -2.1  for stack of 95-264
		Stack = -0.9  for stack of 96-263
		Stack = -1.3  for stack of 97-262
		Stack = -0.9  for stack of 98-261
		Stack = -1.1  for stack of 99-260
		Stack = -0.9  for stack of 100-259
		Stack = -1.3  for stack of 101-258
		Stack = -2.1  for stack of 102-257
		Stack = -2.2  for stack of 103-256
		Stack = -1.3  for stack of 104-255
	Helix total = -15.6
	Internal/bulge = 5.1  for closure of 105-254	Size = 11
		Stack = -2.5  for stack of 113-249
		Stack = -0.5  for stack of 114-248
		Stack = -0.5  for stack of 115-247
		Stack = -1.5  for stack of 116-246
		Stack = -2.4  for stack of 117-245
	Helix total = -7.4
	Internal/bulge = 3.8  for closure of 118-244	Size = 5
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 120-239	Size = 2
		Stack = -0.6  for stack of 122-237
		Stack = -0.9  for stack of 123-236
		Stack = -2.1  for stack of 124-235
		Stack = -1.5  for stack of 125-234
	Helix total = -5.1
	Internal/bulge = 1.9  for closure of 126-233	Size = 3
		Stack = -2.2  for stack of 128-230
	Helix total = -2.2
	Internal/bulge = 1.9  for closure of 129-229	Size = 3
	Helix total = 0.0
	Internal/bulge = 1.0  for closure of 132-227	Size = 1 BP stack across bulge = -2.4
	Helix total = 0.0
	Multiloop = 7.0  for closure of 133-225
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 179-221	Size = 2
		Stack = -0.9  for stack of 181-219
		Stack = -2.4  for stack of 182-218
	Helix total = -3.3
	Internal/bulge = 2.9  for closure of 183-217	Size = 7
		Stack = -3.3  for stack of 189-214
		Stack = -2.4  for stack of 190-213
	Helix total = -5.7
	Internal/bulge = 1.7  for closure of 191-212	Size = 10
		Stack = -3.3  for stack of 197-206
		Stack = -3.3  for stack of 198-205
	Helix total = -6.6
	Hairpin = 3.3  for closure of 199-204
	Helix total = 0.0
	Hairpin = 1400.5  for closure of 174-177
		Stack = -0.9  for stack of 138-173
		Stack = -2.1  for stack of 139-172
		Stack = -2.4  for stack of 140-171
		Stack = -2.1  for stack of 141-170
	Helix total = -7.5
	Internal/bulge = 2.9  for closure of 142-169	Size = 8
		Stack = -2.1  for stack of 146-163
		Stack = -2.4  for stack of 147-162
		Stack = -2.1  for stack of 148-161
		Stack = -0.9  for stack of 149-160
		Stack = -0.9  for stack of 150-159
		Stack = -2.4  for stack of 151-158
	Helix total = -10.8
	Hairpin = 4.6  for closure of 152-157
		Stack = -3.4  for stack of 8-56
		Stack = -2.1  for stack of 9-55
	Helix total = -5.5
	Multiloop = 6.0  for closure of 10-54
		Stack = -2.1  for stack of 34-53
		Stack = -1.3  for stack of 35-52
		Stack = -1.4  for stack of 36-51
	Helix total = -4.8
	Hairpin = 5.4  for closure of 37-50
		Stack = -3.3  for stack of 12-28
		Stack = -2.4  for stack of 13-27
		Stack = -2.1  for stack of 14-26
		Stack = -1.5  for stack of 15-25
	Helix total = -9.3
	Hairpin = 5.9  for closure of 16-24


	Total energy = 1347.3



