Pseudoknot Energy Details for Structure 1:
	Knotted Pairs:
	    18:873 19:872 20:871 460:481 461:480 462:479
	Energy of Broken Structure: -351.8
	Energy of Pseudo-Helices:   -11.9
	Pseudoknot Energy Penalty:  14.6
	Total Free Energy:          -349.1
Details follow for Broken (Pseudoknot-free) Structure.
Thermodynamic details for structure # 1
	Exterior loop = -8.7
		Stack = -1.0  for stack of 1460-1483
		Stack = -2.1  for stack of 1461-1482
		Stack = -3.4  for stack of 1462-1481
		Stack = -3.3  for stack of 1463-1480
		Stack = -2.4  for stack of 1464-1479
		Stack = -2.5  for stack of 1465-1478
		Stack = -1.0  for stack of 1466-1477
		Stack = -2.2  for stack of 1467-1476
		Stack = -2.1  for stack of 1468-1475
	Helix total = -20.0
	Hairpin = 4.7  for closure of 1469-1474
	Helix total = 0.0
	Internal/bulge = 2.3  for closure of 1354-1458	Size = 3
	Helix total = 0.0
	Internal/bulge = 2.6  for closure of 1356-1455	Size = 5
		Stack = -2.4  for stack of 1359-1451
	Helix total = -2.4
	Internal/bulge = 2.1  for closure of 1360-1450	Size = 7
		Stack = -2.1  for stack of 1364-1445
		Stack = -2.2  for stack of 1365-1444
		Stack = -2.1  for stack of 1366-1443
	Helix total = -6.4
	Internal/bulge = 1.9  for closure of 1367-1442	Size = 2
		Stack = 0.3  for stack of 1369-1440
		Stack = -2.1  for stack of 1370-1439
	Helix total = -1.8
	Internal/bulge = -1.2  for closure of 1371-1438	Size = 4
		Stack = -2.5  for stack of 1374-1435
		Stack = -2.1  for stack of 1375-1434
		Stack = -1.0  for stack of 1376-1433
		Stack = -2.1  for stack of 1377-1432
		Stack = -3.4  for stack of 1378-1431
		Stack = -3.3  for stack of 1379-1430
	Helix total = -14.4
	Internal/bulge = 1.2  for closure of 1380-1429	Size = 2
	Helix total = 0.0
	Internal/bulge = 2.6  for closure of 1382-1427	Size = 12
	Helix total = 0.0
	Internal/bulge = 0.5  for closure of 1390-1421	Size = 2
		Stack = -1.4  for stack of 1392-1419
		Stack = 1.3  for stack of 1393-1418
		Stack = -0.5  for stack of 1394-1417
	Helix total = -0.6
	Internal/bulge = 2.3  for closure of 1395-1416	Size = 1 BP stack across bulge = -1.5
		Stack = -2.1  for stack of 1397-1415
		Stack = -1.5  for stack of 1398-1414
		Stack = -2.1  for stack of 1399-1413
	Helix total = -5.7
	Internal/bulge = 2.5  for closure of 1400-1412	Size = 3
		Stack = -3.3  for stack of 1403-1410
	Helix total = -3.3
	Hairpin = 3.3  for closure of 1404-1409
		Stack = -2.1  for stack of 876-1351
	Helix total = -2.1
	Internal/bulge = 1.4  for closure of 877-1350	Size = 1 BP stack across bulge = -2.4
		Stack = -2.2  for stack of 878-1348
		Stack = -1.4  for stack of 879-1347
	Helix total = -3.6
	Internal/bulge = 2.4  for closure of 880-1346	Size = 1 BP stack across bulge = -0.5
		Stack = -2.1  for stack of 882-1345
		Stack = -3.3  for stack of 883-1344
		Stack = -3.4  for stack of 884-1343
		Stack = -3.3  for stack of 885-1342
		Stack = -3.3  for stack of 886-1341
		Stack = -2.4  for stack of 887-1340
	Helix total = -17.8
	Multiloop = 8.5  for closure of 888-1339
		Stack = -1.4  for stack of 1304-1327
		Stack = -1.5  for stack of 1305-1326
		Stack = -2.4  for stack of 1306-1325
		Stack = -3.4  for stack of 1307-1324
		Stack = -3.3  for stack of 1308-1323
		Stack = -2.4  for stack of 1309-1322
	Helix total = -14.4
	Hairpin = 4.0  for closure of 1310-1321
		Stack = -2.1  for stack of 893-1299
		Stack = -3.4  for stack of 894-1298
		Stack = -2.4  for stack of 895-1297
		Stack = -1.5  for stack of 896-1296
		Stack = -1.4  for stack of 897-1295
	Helix total = -10.8
	Multiloop = 6.7  for closure of 898-1294
	Helix total = 0.0
	Internal/bulge = 1.4  for closure of 1257-1288	Size = 8
		Stack = -2.1  for stack of 1262-1283
		Stack = -3.4  for stack of 1263-1282
		Stack = -2.1  for stack of 1264-1281
		Stack = -2.1  for stack of 1265-1280
		Stack = -3.3  for stack of 1266-1279
		Stack = -3.4  for stack of 1267-1278
	Helix total = -16.4
	Hairpin = 4.1  for closure of 1268-1277
		Stack = -3.3  for stack of 1195-1250
		Stack = -3.4  for stack of 1196-1249
		Stack = -3.3  for stack of 1197-1248
		Stack = -2.4  for stack of 1198-1247
		Stack = -3.3  for stack of 1199-1246
		Stack = -3.3  for stack of 1200-1245
	Helix total = -19.0
	Internal/bulge = 2.5  for closure of 1201-1244	Size = 10
		Stack = -1.5  for stack of 1207-1238
		Stack = -2.1  for stack of 1208-1237
	Helix total = -3.6
	Internal/bulge = 3.2  for closure of 1209-1236	Size = 6
		Stack = -3.4  for stack of 1212-1231
	Helix total = -3.4
	Internal/bulge = 1.0  for closure of 1213-1230	Size = 6
		Stack = -2.1  for stack of 1217-1226
		Stack = -2.4  for stack of 1218-1225
	Helix total = -4.5
	Hairpin = 3.3  for closure of 1219-1224
		Stack = -2.1  for stack of 901-1189
		Stack = -3.4  for stack of 902-1188
		Stack = -2.1  for stack of 903-1187
		Stack = -1.4  for stack of 904-1186
		Stack = -1.4  for stack of 905-1185
		Stack = -2.2  for stack of 906-1184
		Stack = -2.1  for stack of 907-1183
	Helix total = -14.7
	Internal/bulge = 0.5  for closure of 908-1182	Size = 1 BP stack across bulge = -3.3
		Stack = -2.2  for stack of 909-1180
	Helix total = -2.2
	Multiloop = 7.9  for closure of 910-1179
		Stack = -3.3  for stack of 939-1175
		Stack = -2.1  for stack of 940-1174
		Stack = -2.1  for stack of 941-1173
		Stack = -3.3  for stack of 942-1172
		Stack = -3.3  for stack of 943-1171
		Stack = -3.4  for stack of 944-1170
	Helix total = -17.5
	Multiloop = 7.0  for closure of 945-1169
		Stack = -3.3  for stack of 1002-1164
	Helix total = -3.3
	Internal/bulge = 0.5  for closure of 1003-1163	Size = 1 BP stack across bulge = -3.3
		Stack = -3.3  for stack of 1005-1162
		Stack = -2.5  for stack of 1006-1161
		Stack = 0.3  for stack of 1007-1160
	Helix total = -5.5
	Internal/bulge = 3.8  for closure of 1008-1159	Size = 2
		Stack = -2.1  for stack of 1011-1158
	Helix total = -2.1
	Internal/bulge = 3.7  for closure of 1012-1157	Size = 3
		Stack = -2.5  for stack of 1013-1153
		Stack = -2.1  for stack of 1014-1152
	Helix total = -4.6
	Internal/bulge = 1.3  for closure of 1015-1151	Size = 1 BP stack across bulge = -2.1
	Helix total = 0.0
	Internal/bulge = -0.6  for closure of 1016-1149	Size = 2
		Stack = -2.4  for stack of 1018-1147
		Stack = -2.2  for stack of 1019-1146
	Helix total = -4.6
	Multiloop = 6.1  for closure of 1020-1145
		Stack = -3.3  for stack of 1068-1141
		Stack = -2.1  for stack of 1069-1140
		Stack = -2.4  for stack of 1070-1139
	Helix total = -7.8
	Multiloop = 5.7  for closure of 1071-1138
		Stack = -3.3  for stack of 1115-1129
		Stack = -2.4  for stack of 1116-1128
		Stack = -3.3  for stack of 1117-1127
		Stack = -2.5  for stack of 1118-1126
	Helix total = -11.5
	Hairpin = 4.8  for closure of 1119-1125
		Stack = -2.1  for stack of 1073-1109
		Stack = -2.2  for stack of 1074-1108
		Stack = -0.9  for stack of 1075-1107
		Stack = -0.9  for stack of 1076-1106
		Stack = -1.3  for stack of 1077-1105
		Stack = -2.1  for stack of 1078-1104
	Helix total = -9.5
	Internal/bulge = 3.0  for closure of 1079-1103	Size = 3
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 1081-1100	Size = 2
		Stack = -3.3  for stack of 1083-1098
		Stack = -2.1  for stack of 1084-1097
	Helix total = -5.4
	Hairpin = 5.3  for closure of 1085-1096
		Stack = -3.4  for stack of 1023-1062
		Stack = -2.1  for stack of 1024-1061
		Stack = -2.4  for stack of 1025-1060
		Stack = -2.4  for stack of 1026-1059
		Stack = -2.2  for stack of 1027-1058
	Helix total = -12.5
	Multiloop = 8.5  for closure of 1028-1057
		Stack = -1.4  for stack of 1041-1054
		Stack = -3.3  for stack of 1042-1053
		Stack = -3.3  for stack of 1043-1052
	Helix total = -8.0
	Hairpin = 3.8  for closure of 1044-1051
		Stack = -2.5  for stack of 1029-1038
		Stack = -3.3  for stack of 1030-1037
	Helix total = -5.8
	Hairpin = 3.3  for closure of 1031-1036
		Stack = -2.1  for stack of 952-999
	Helix total = -2.1
	Internal/bulge = 0.4  for closure of 953-998	Size = 1 BP stack across bulge = -3.4
		Stack = -3.3  for stack of 954-996
		Stack = -2.4  for stack of 955-995
		Stack = -2.5  for stack of 956-994
		Stack = -1.4  for stack of 957-993
	Helix total = -9.6
	Multiloop = 5.6  for closure of 958-992
	Helix total = 0.0
	Internal/bulge = 1.2  for closure of 980-991	Size = 2
		Stack = -3.3  for stack of 982-989
	Helix total = -3.3
	Hairpin = 3.7  for closure of 983-988
		Stack = -2.4  for stack of 961-978
		Stack = -2.1  for stack of 962-977
		Stack = -0.9  for stack of 963-976
		Stack = -0.9  for stack of 964-975
		Stack = -0.9  for stack of 965-974
		Stack = -1.3  for stack of 966-973
	Helix total = -8.5
	Hairpin = 4.7  for closure of 967-972
		Stack = -0.9  for stack of 915-930
		Stack = -2.4  for stack of 916-929
		Stack = -2.4  for stack of 917-928
	Helix total = -5.7
	Hairpin = 4.2  for closure of 918-927
		Stack = -1.4  for stack of 849-860
		Stack = -0.9  for stack of 850-859
		Stack = -2.4  for stack of 851-858
	Helix total = -4.7
	Hairpin = 3.3  for closure of 852-857
		Stack = -3.3  for stack of 522-838
		Stack = -3.4  for stack of 523-837
	Helix total = -6.7
	Internal/bulge = 4.0  for closure of 524-836	Size = 5
	Helix total = 0.0
	Multiloop = 3.4  for closure of 530-835
		Stack = -3.3  for stack of 776-834
		Stack = -2.4  for stack of 777-833
		Stack = -1.1  for stack of 778-832
		Stack = -1.3  for stack of 779-831
		Stack = -2.2  for stack of 780-830
		Stack = -2.1  for stack of 781-829
	Helix total = -12.4
	Multiloop = 5.3  for closure of 782-828
		Stack = -3.4  for stack of 816-823
	Helix total = -3.4
	Hairpin = 4.2  for closure of 817-822
		Stack = -2.1  for stack of 784-812
		Stack = -3.4  for stack of 785-811
		Stack = -1.4  for stack of 786-810
		Stack = -2.5  for stack of 787-809
		Stack = -2.1  for stack of 788-808
		Stack = -2.1  for stack of 789-807
		Stack = -2.5  for stack of 790-806
		Stack = 0.3  for stack of 791-805
		Stack = -2.5  for stack of 792-804
	Helix total = -18.3
	Hairpin = 5.0  for closure of 793-803
		Stack = -3.4  for stack of 724-765
		Stack = -2.1  for stack of 725-764
		Stack = -1.3  for stack of 726-763
		Stack = -2.1  for stack of 727-762
		Stack = -3.3  for stack of 728-761
		Stack = -1.5  for stack of 729-760
	Helix total = -13.7
	Internal/bulge = 3.7  for closure of 730-759	Size = 3
	Helix total = 0.0
	Internal/bulge = 1.7  for closure of 734-758	Size = 6
		Stack = -2.1  for stack of 738-754
		Stack = -3.3  for stack of 739-753
		Stack = -3.3  for stack of 740-752
	Helix total = -8.7
	Hairpin = 4.9  for closure of 741-751
		Stack = -2.2  for stack of 532-719
		Stack = -2.4  for stack of 533-718
		Stack = -2.1  for stack of 534-717
	Helix total = -6.7
	Internal/bulge = 1.4  for closure of 535-716	Size = 6
		Stack = -2.1  for stack of 539-712
		Stack = -2.2  for stack of 540-711
		Stack = -2.1  for stack of 541-710
	Helix total = -6.4
	Multiloop = 5.3  for closure of 542-709
		Stack = -2.1  for stack of 610-706
		Stack = -2.2  for stack of 611-705
	Helix total = -4.3
	Internal/bulge = 3.0  for closure of 612-704	Size = 3
		Stack = -2.4  for stack of 614-701
		Stack = -3.3  for stack of 615-700
		Stack = -2.5  for stack of 616-699
	Helix total = -8.2
	Internal/bulge = 2.8  for closure of 617-698	Size = 5
		Stack = -2.1  for stack of 621-695
	Helix total = -2.1
	Internal/bulge = 1.2  for closure of 622-694	Size = 2
		Stack = -2.1  for stack of 624-692
		Stack = -2.4  for stack of 625-691
		Stack = -2.1  for stack of 626-690
	Helix total = -6.6
	Multiloop = 4.0  for closure of 627-689
		Stack = -3.4  for stack of 680-687
	Helix total = -3.4
	Hairpin = 3.3  for closure of 681-686
	Helix total = 0.0
	Internal/bulge = 0.7  for closure of 628-672	Size = 6
		Stack = -0.9  for stack of 632-668
		Stack = -0.9  for stack of 633-667
		Stack = -2.4  for stack of 634-666
		Stack = -3.3  for stack of 635-665
		Stack = -2.4  for stack of 636-664
		Stack = -1.5  for stack of 637-663
		Stack = -1.4  for stack of 638-662
	Helix total = -12.8
	Internal/bulge = 2.9  for closure of 639-661	Size = 9
		Stack = -3.4  for stack of 643-654
		Stack = -1.4  for stack of 644-653
	Helix total = -4.8
	Hairpin = 4.4  for closure of 645-652
		Stack = -3.4  for stack of 543-606
		Stack = -2.1  for stack of 544-605
		Stack = -0.9  for stack of 545-604
	Helix total = -6.4
	Internal/bulge = 2.6  for closure of 546-603	Size = 4
	Helix total = 0.0
	Internal/bulge = 2.1  for closure of 549-600	Size = 1 BP stack across bulge = -1.3
		Stack = -2.1  for stack of 551-599
	Helix total = -2.1
	Internal/bulge = 3.3  for closure of 552-598	Size = 2
		Stack = -2.4  for stack of 553-595
		Stack = -3.3  for stack of 554-594
		Stack = -1.4  for stack of 555-593
		Stack = -2.5  for stack of 556-592
		Stack = -3.3  for stack of 557-591
		Stack = -2.4  for stack of 558-590
		Stack = -2.5  for stack of 559-589
		Stack = -1.5  for stack of 560-588
	Helix total = -19.3
	Internal/bulge = 3.5  for closure of 561-587	Size = 8
		Stack = -3.3  for stack of 567-583
		Stack = -2.1  for stack of 568-582
		Stack = -2.1  for stack of 569-581
		Stack = -3.3  for stack of 570-580
		Stack = -3.3  for stack of 571-579
	Helix total = -14.1
	Hairpin = 4.6  for closure of 572-578
		Stack = -3.3  for stack of 28-511
		Stack = -2.4  for stack of 29-510
		Stack = -1.1  for stack of 30-509
	Helix total = -6.8
	Internal/bulge = 2.5  for closure of 31-508	Size = 1 BP stack across bulge = -1.3
		Stack = -0.9  for stack of 33-507
		Stack = -2.2  for stack of 34-506
		Stack = -2.4  for stack of 35-505
		Stack = -3.4  for stack of 36-504
		Stack = -2.1  for stack of 37-503
	Helix total = -11.0
	Multiloop = 2.2  for closure of 38-502
		Stack = -3.4  for stack of 455-500
		Stack = -2.1  for stack of 456-499
		Stack = -1.1  for stack of 457-498
		Stack = -2.4  for stack of 458-497
	Helix total = -9.0
	Internal/bulge = 4.4  for closure of 459-496	Size = 6
		Stack = -2.1  for stack of 466-495
		Stack = -2.4  for stack of 467-494
		Stack = -2.1  for stack of 468-493
		Stack = -2.1  for stack of 469-492
	Helix total = -8.7
	Hairpin = 6.1  for closure of 470-491
		Stack = -2.4  for stack of 420-447
		Stack = -2.1  for stack of 421-446
		Stack = -2.1  for stack of 422-445
		Stack = -2.4  for stack of 423-444
	Helix total = -9.0
	Internal/bulge = 1.4  for closure of 424-443	Size = 7
	Helix total = 0.0
	Hairpin = 5.3  for closure of 428-438
		Stack = -3.3  for stack of 384-414
		Stack = -2.4  for stack of 385-413
		Stack = -2.1  for stack of 386-412
	Helix total = -7.8
	Internal/bulge = 1.2  for closure of 387-411	Size = 11
		Stack = -1.5  for stack of 394-405
		Stack = -2.5  for stack of 395-404
		Stack = -2.1  for stack of 396-403
	Helix total = -6.1
	Hairpin = 5.4  for closure of 397-402
		Stack = -3.4  for stack of 40-381
		Stack = -2.4  for stack of 41-380
		Stack = -3.3  for stack of 42-379
		Stack = -3.4  for stack of 43-378
		Stack = -2.1  for stack of 44-377
	Helix total = -14.6
	Internal/bulge = 2.3  for closure of 45-376	Size = 1 BP stack across bulge = -1.1
		Stack = -2.1  for stack of 46-374
	Helix total = -2.1
	Multiloop = 5.2  for closure of 47-373
	Helix total = 0.0
	Internal/bulge = 0.6  for closure of 346-371	Size = 1 BP stack across bulge = -2.4
		Stack = -3.3  for stack of 348-370
		Stack = -2.4  for stack of 349-369
	Helix total = -5.7
	Internal/bulge = 3.0  for closure of 350-368	Size = 4
		Stack = 0.3  for stack of 354-366
	Helix total = 0.3
	Hairpin = 5.3  for closure of 355-365
	Helix total = 0.0
	Internal/bulge = 3.8  for closure of 48-340	Size = 5
		Stack = -2.1  for stack of 53-338
		Stack = -2.2  for stack of 54-337
	Helix total = -4.3
	Internal/bulge = 1.7  for closure of 55-336	Size = 1 BP stack across bulge = -2.1
		Stack = -2.1  for stack of 57-335
		Stack = -3.4  for stack of 58-334
	Helix total = -5.5
	Multiloop = -0.3  for closure of 59-333
		Stack = -2.1  for stack of 318-329
		Stack = -2.4  for stack of 319-328
		Stack = -2.1  for stack of 320-327
	Helix total = -6.6
	Hairpin = 5.4  for closure of 321-326
		Stack = -2.1  for stack of 295-316
		Stack = -2.1  for stack of 296-315
		Stack = -3.3  for stack of 297-314
		Stack = -3.3  for stack of 298-313
	Helix total = -10.8
	Hairpin = 5.4  for closure of 299-312
		Stack = -2.2  for stack of 105-293
		Stack = -2.1  for stack of 106-292
	Helix total = -4.3
	Multiloop = 4.4  for closure of 107-291
		Stack = -3.4  for stack of 268-290
		Stack = -2.1  for stack of 269-289
		Stack = -2.1  for stack of 270-288
	Helix total = -7.6
	Internal/bulge = 3.7  for closure of 271-287	Size = 3
		Stack = -1.4  for stack of 272-283
		Stack = -2.4  for stack of 273-282
		Stack = -2.1  for stack of 274-281
	Helix total = -5.9
	Hairpin = 4.7  for closure of 275-280
		Stack = -2.1  for stack of 219-265
		Stack = -2.1  for stack of 220-264
	Helix total = -4.2
	Internal/bulge = 2.7  for closure of 221-263	Size = 10
		Stack = -3.4  for stack of 226-256
		Stack = -2.1  for stack of 227-255
	Helix total = -5.5
	Internal/bulge = 3.8  for closure of 228-254	Size = 2
		Stack = -0.9  for stack of 231-253
		Stack = -2.1  for stack of 232-252
		Stack = -3.3  for stack of 233-251
		Stack = -2.2  for stack of 234-250
		Stack = -1.0  for stack of 235-249
		Stack = -1.3  for stack of 236-248
		Stack = -2.1  for stack of 237-247
	Helix total = -12.9
	Hairpin = 3.8  for closure of 238-246
		Stack = -2.5  for stack of 114-218
		Stack = -2.4  for stack of 115-217
		Stack = -2.5  for stack of 116-216
		Stack = -1.0  for stack of 117-215
		Stack = -0.9  for stack of 118-214
		Stack = -2.1  for stack of 119-213
	Helix total = -11.4
	Internal/bulge = 1.1  for closure of 120-212	Size = 3
		Stack = -3.3  for stack of 123-210
	Helix total = -3.3
	Internal/bulge = 2.6  for closure of 124-209	Size = 5
		Stack = -3.3  for stack of 128-206
		Stack = -2.1  for stack of 129-205
		Stack = -0.9  for stack of 130-204
		Stack = -1.0  for stack of 131-203
		Stack = -2.1  for stack of 132-202
		Stack = -3.3  for stack of 133-201
	Helix total = -12.7
	Multiloop = 1.4  for closure of 134-200
		Stack = -3.3  for stack of 189-198
		Stack = -2.4  for stack of 190-197
	Helix total = -5.7
	Hairpin = 4.4  for closure of 191-196
		Stack = -3.4  for stack of 175-184
		Stack = -2.1  for stack of 176-183
	Helix total = -5.5
	Hairpin = 4.1  for closure of 177-182
		Stack = -3.3  for stack of 136-170
		Stack = -3.3  for stack of 137-169
		Stack = -3.3  for stack of 138-168
	Helix total = -9.9
	Internal/bulge = 2.2  for closure of 139-167	Size = 11
		Stack = -2.1  for stack of 145-160
		Stack = -0.6  for stack of 146-159
		Stack = -2.5  for stack of 147-158
		Stack = -2.1  for stack of 148-157
		Stack = -1.4  for stack of 149-156
	Helix total = -8.7
	Hairpin = 3.1  for closure of 150-155
		Stack = -2.5  for stack of 62-98
		Stack = -1.5  for stack of 63-97
	Helix total = -4.0
	Internal/bulge = 3.3  for closure of 64-96	Size = 2
		Stack = -2.2  for stack of 67-95
	Helix total = -2.2
	Internal/bulge = 0.5  for closure of 68-94	Size = 2
		Stack = -3.3  for stack of 70-92
		Stack = -2.4  for stack of 71-91
		Stack = -0.9  for stack of 72-90
		Stack = -0.6  for stack of 73-89
	Helix total = -7.2
	Internal/bulge = -0.7  for closure of 74-88	Size = 2
		Stack = -1.4  for stack of 76-86
		Stack = -1.5  for stack of 77-85
	Helix total = -2.9
	Hairpin = 4.9  for closure of 78-84
		Stack = -2.4  for stack of 10-26
		Stack = -2.1  for stack of 11-25
		Stack = -2.5  for stack of 12-24
		Stack = -0.5  for stack of 13-23
	Helix total = -7.5
	Hairpin = 5.1  for closure of 14-22


	Total energy = -351.8



