Valid loops

#loop idlocationannotation
(mapped to, source)
motif group
(similar to)
1/B2/7:17
homologous
HL_4V88_186
NA

HL_67265.4*
1/B2/70:81
homologous
HL_4V88_187
NA

HL_07268.1*
1/B2/154:160Other HL
homologous
HL_4V88_188
NA

HL_43074.18*
1/B2/190:195
homologous
HL_4V88_189
NA

HL_39228.1*
1/B2/230:235
geometric
HL_6CZR_082
NA

HL_79299.11*
1/B2/243:250T-loop with 1 bulged base
homologous
HL_4V88_191
NA

HL_68493.6*
1/B2/276:279
geometric
HL_6JOO_002
NA

HL_69353.7*
1/B2/330:338
homologous
HL_4V88_193
NA

HL_93727.5*
1/B2/368:373
homologous
HL_4V88_194
NA

HL_18785.1*
1/B2/393:404
homologous
HL_4V88_195
NA

HL_22443.1*
1/B2/414:419UNCG
homologous
HL_4V88_196
NA

HL_79299.11*
1/B2/450:456
homologous
HL_4V88_197
NA

HL_50374.1*
1/B2/487:500NANA
1/B2/520:532
geometric
HL_4V88_199
NA

HL_17086.2*
1/B2/569:574Other HL
homologous
HL_4V88_200
NA

HL_43074.18*
1/B2/703:735NANA
1/B2/764:772
homologous
HL_4V88_203
NA

HL_72066.1*
1/B2/777:783NANA
1/B2/829:843
homologous
HL_4V88_205
NA

HL_03603.1*
1/B2/900:909
homologous
HL_4V88_206
NA

HL_87219.4*
1/B2/937:942Other HL
homologous
HL_4V88_207
NA

HL_43074.18*
1/B2/997:1007
homologous
HL_4V88_208
NA

HL_87219.4*
1/B2/1054:1065
homologous
HL_5TBW_212
NA
1/B2/1084:1089Other HL
homologous
HL_4V88_210
NA

HL_43074.18*
1/B2/1121:1126GNRA
homologous
HL_4V88_211
NA

HL_43074.18*
1/B2/1188:1197
homologous
HL_4V88_212
NA

HL_96854.1*
1/B2/1238:1247
homologous
HL_4V88_213
NA

HL_30819.1*
1/B2/1296:1301GNRA
homologous
HL_4V88_214
NA

HL_43074.18*
1/B2/1309:1316
homologous
HL_4V88_215
NA

HL_54035.7*
1/B2/1359:1364
homologous
HL_4V88_216
NA

HL_82678.2*
1/B2/1396:1402
homologous
HL_4V88_217
NA

HL_67216.5*
1/B2/1501:1506GNRA
homologous
HL_4V88_218
NA

HL_43074.18*
1/B2/1550:1561
homologous
HL_4V88_219
NA

HL_32458.3*
1/B2/1594:1602
homologous
HL_4V88_220
NA

HL_01181.4*
1/B2/1690:1711NANA
1/B2/1778:1783Other HL
homologous
HL_4V88_222
NA

HL_43074.18*
1/B5/38:45
geometric
HL_5TBW_001
NA

HL_23481.5*
1/B5/69:74
homologous
HL_5TBW_114
NA
1/B5/90:96
homologous
HL_5TBW_115
NA
1/B5/132:136
homologous
HL_5TBW_116
NA
1/B5/194:201
homologous
HL_5TBW_117
NA
1/B5/208:212
homologous
HL_5TBW_118
NA
1/B5/216:224
homologous
HL_5TBW_119
NA
1/B5/278:287
homologous
HL_5TBW_120
NA
1/B5/303:312
homologous
HL_5TBW_121
NA
1/B5/357:362
homologous
HL_5TBW_122
NA
1/B5/382:387
homologous
HL_5TBW_123
NA
1/B5/543:548
geometric
HL_2IZN_001
NA

HL_16568.1*
1/B5/599:604
homologous
HL_5TBW_125
NA
1/B5/640:649
homologous
HL_5TBW_126
NA
1/B5/686:694
homologous
HL_5TBW_127
NA
1/B5/707:712
homologous
HL_5TBW_128
NA
1/B5/732:737
homologous
HL_5TBW_129
NA
1/B5/763:768
homologous
HL_5TBW_130
NA
1/B5/844:849
homologous
HL_5TBW_131
NA
1/B5/876:885
homologous
HL_5TBW_132
NA
1/B5/910:918
homologous
HL_5TBW_133
NA
1/B5/958:963
homologous
HL_5TBW_134
NA
1/B5/1023:1029NANA
1/B5/1076:1083
geometric
HL_5TBW_024
NA

HL_54035.7*
1/B5/1126:1132
homologous
HL_5TBW_137
NA
1/B5/1148:1155
homologous
HL_5TBW_138
NA
1/B5/1239:1249NANA
1/B5/1262:1277NANA
1/B5/1347:1357
homologous
HL_5TBW_141
NA
1/B5/1403:1408
homologous
HL_5TBW_142
NA
1/B5/1462:1470
homologous
HL_5TBW_143
NA
1/B5/1506:1512
homologous
HL_5TBW_144
NA
1/B5/1544:1549
homologous
HL_5TBW_145
NA
1/B5/1562:1577NANA
1/B5/1599:1608
homologous
HL_5TBW_147
NA
1/B5/1634:1639
homologous
HL_5TBW_148
NA
1/B5/1680:1688
homologous
HL_5TBW_149
NA
1/B5/1719:1725
homologous
HL_5TBW_150
NA
1/B5/1760:1765GNRA
geometric
HL_4QLM_001
NA

HL_43074.18*
1/B5/1792:1796
homologous
HL_5TBW_152
NA
1/B5/1844:1851
homologous
HL_5TBW_153
NA
1/B5/1862:1868
homologous
HL_5TBW_154
NA
1/B5/1923:1928
homologous
HL_5TBW_155
NA
1/B5/2110:2114
homologous
HL_5TBW_157
NA
1/B5/2135:2145
homologous
HL_5TBW_158
NA
1/B5/2164:2170
homologous
HL_5TBW_159
NA
1/B5/2220:2225
homologous
HL_5TBW_160
NA
1/B5/2253:2263
homologous
HL_5TBW_161
NA
1/B5/2292:2300
homologous
HL_5TBW_162
NA
1/B5/2369:2378
homologous
HL_5TBW_163
NA
1/B5/2534:2545NANA
1/B5/2568:2573
geometric
HL_2Y8W_001
NA

HL_69459.1*
1/B5/2616:2624
homologous
HL_5TBW_167
NA
1/B5/2633:2645
homologous
HL_5TBW_168
NA
1/B5/2673:2681
homologous
HL_5TBW_169
NA
1/B5/2693:2700
homologous
HL_5TBW_170
NA
1/B5/2724:2732
homologous
HL_5TBW_171
NA
1/B5/2744:2749
homologous
HL_5TBW_172
NA
1/B5/2776:2784
homologous
HL_5TBW_173
NA
1/B5/2840:2848
homologous
HL_5TBW_174
NA
1/B5/2897:2904
homologous
HL_5TBW_175
NA
1/B5/2920:2926
homologous
HL_5TBW_176
NA
1/B5/2963:2968
homologous
HL_5TBW_177
NA
1/B5/3025:3030GNRA
geometric
HL_5TBW_065
NA

HL_43074.18*
1/B5/3068:3073
homologous
HL_5TBW_179
NA
1/B5/3110:3124
homologous
HL_5TBW_180
NA
1/B5/3194:3197
homologous
HL_5TBW_181
NA
1/B5/3240:3247
homologous
HL_5TBW_182
NA
1/B5/3303:3311
geometric
HL_5TBW_070
NA

HL_05018.6*
1/B5/3350:3353
geometric
HL_4V88_192
NA

HL_69353.7*
1/B7/36:41
geometric
HL_5TBW_185
NA

HL_02733.5*
1/B7/88:93GNRA
homologous
HL_5TBW_186
NA

HL_43074.18*
1/B8/69:89NANA
1/B8/108:114
homologous
HL_5TBW_075
NA

HL_06569.2*
1/B8/124:129
homologous
HL_5TBW_076
NA

HL_60357.1*
1/CN/2164:2169Other HL
geometric
HL_2CZJ_007
NA

HL_79299.11*
1/CW/31:39NANA
1/CW/53:61NANA

Problematic loops

#loop idProblemSequence
HL_4V8Y_080NA
HL_4V8Y_088NA
HL_4V8Y_115NA

Valid loops

#loop idlocationannotation
(mapped to, source)
motif group
(similar to)
1/B2/24:26,
1/B2/600:601
Single bulged C
homologous
IL_4V88_384
NA

IL_61258.10*
1/B2/35:37,
1/B2/471:473
UC cWW
homologous
IL_4V88_385
NA

IL_01312.13*
1/B2/37:41,
1/B2/466:471

geometric
IL_4V88_386
NA

IL_53318.1*
1/B2/42:48,
1/B2/431:433

homologous
IL_4V88_387
NA

IL_34626.4*
1/B2/50:52,
1/B2/428:429
Minor groove platform
homologous
IL_4V88_388
NA

IL_06437.11*
1/B2/58:63,
1/B2/87:89

homologous
IL_4V88_389
NA

IL_96451.1*
1/B2/64:69,
1/B2/82:86

homologous
IL_4V88_390
NA

IL_59423.1*
1/B2/109:112,
1/B2/302:305
Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA

IL_85877.10*
1/B2/113:116,
1/B2/300:301
Multiple bulged bases
homologous
IL_4V88_392
NA

IL_13730.12*
1/B2/117:122,
1/B2/295:299

homologous
IL_4V88_393
NA

IL_76386.1*
1/B2/143:149,
1/B2/165:172
tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA

IL_92440.5*
1/B2/150:152,
1/B2/162:164
Isolated cWH basepair
geometric
IL_6RA4_002
NA

IL_42589.6*
1/B2/186:189,
1/B2/196:199
Double sheared
homologous
IL_4V88_396
NA

IL_09705.7*
1/B2/204:206,
1/B2/259:263
Major groove platform with extra cWW
geometric
IL_4V88_397
NA

IL_95485.6*
1/B2/206:208,
1/B2/257:259

homologous
IL_4V88_398
NA

IL_01312.13*
1/B2/265:267,
1/B2/288:289
Single bulged A
homologous
IL_4V88_399
NA

IL_80007.16*
1/B2/270:273,
1/B2/283:285

homologous
IL_4V88_400
NA

IL_05922.1*
1/B2/275:276,
1/B2/279:281
Single bulged U
homologous
IL_4V88_401
NA

IL_83039.11*
1/B2/311:316,
1/B2/348:355
Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA

IL_29549.9*
1/B2/318:323,
1/B2/345:346

homologous
IL_4V88_403
NA

IL_55658.1*
1/B2/363:365,
1/B2/376:381

homologous
IL_4V88_404
NA

IL_46732.1*
1/B2/389:391,
1/B2/406:408
Isolated cWH basepair
homologous
IL_4V88_405
NA

IL_42589.6*
1/B2/411:413,
1/B2/420:422
Isolated near basepair
homologous
IL_4V88_406
NA

IL_01312.13*
1/B2/439:441,
1/B2/463:464
Single bulged U
homologous
IL_4V88_407
NA

IL_83039.11*
1/B2/443:448,
1/B2/458:461
C-loop with extra cWW pair
homologous
IL_4V88_408
NA

IL_51590.1*
1/B2/480:485,
1/B2/502:508
NANA
1/B2/517:520,
1/B2/532:535
Double sheared
geometric
IL_4LFB_060
NA

IL_09705.7*
1/B2/550:557,
1/B2/587:588
SSU/LSU pseudoknot
geometric
IL_4V88_413
NA

IL_15861.6*
1/B2/557:559,
1/B2/586:587
Single bulged U
homologous
IL_4V88_414
NA

IL_83039.11*
1/B2/562:568,
1/B2/575:583
NANA
1/B2/616:622,
1/B2/1104:1105

homologous
IL_4V88_416
NA

IL_12418.1*
1/B2/624:626,
1/B2/973:975

homologous
IL_4V88_417
NA

IL_01312.13*
1/B2/627:631,
1/B2/968:972
tSH-tHW-tHS
homologous
IL_4V88_418
NA

IL_39521.5*
1/B2/646:648,
1/B2/686:688

homologous
IL_4V88_419
NA

IL_01312.13*
1/B2/652:658,
1/B2/676:682
NANA
1/B2/746:747,
1/B2/802:805
Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA

IL_09061.4*
1/B2/748:750,
1/B2/799:801

homologous
IL_4V88_424
NA

IL_01312.13*
1/B2/751:760,
1/B2/790:798
NANA
1/B2/817:824,
1/B2/848:854
NANA
1/B2/825:827,
1/B2/845:847
Isolated cWH basepair
geometric
IL_4KQ0_005
NA

IL_42589.6*
1/B2/865:866,
1/B2/962:965
Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA

IL_70995.6*
1/B2/867:870,
1/B2/957:961
Tandem non-canonical cWW pairs
homologous
IL_4V88_429
NA

IL_85877.10*
1/B2/871:874,
1/B2/953:956
Tandem non-canonical cWW pairs
homologous
IL_4V88_430
NA

IL_85877.10*
1/B2/874:878,
1/B2/950:953
Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA

IL_85877.10*
1/B2/885:888,
1/B2/924:927
Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA

IL_85877.10*
1/B2/893:899,
1/B2/910:919

homologous
IL_5TBW_430
NA
1/B2/985:990,
1/B2/1014:1016
Other IL
geometric
IL_4V88_435
NA

IL_51590.1*
1/B2/990:994,
1/B2/1010:1014
tSH-tHW-tHS
homologous
IL_4V88_436
NA

IL_39521.5*
1/B2/1034:1036,
1/B2/1095:1101

homologous
IL_4V88_437
NA

IL_19557.1*
1/B2/1041:1044,
1/B2/1074:1077
Tandem non-canonical cWW pairs
homologous
IL_4V88_438
NA

IL_85877.10*
1/B2/1051:1053,
1/B2/1066:1067
Single bulged U
homologous
IL_4V88_439
NA

IL_83039.11*
1/B2/1111:1118,
1/B2/1129:1134
8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA

IL_24606.1*
1/B2/1146:1147,
1/B2/1630:1632
Single bulged A
homologous
IL_4V88_441
NA

IL_80007.16*
1/B2/1149:1151,
1/B2/1627:1628
Single bulged G
homologous
IL_4V88_442
NA

IL_59137.10*
1/B2/1157:1160,
1/B2/1617:1621
C-loop
homologous
IL_4V88_443
NA

IL_63596.4*
1/B2/1173:1175,
1/B2/1464:1466

homologous
IL_4V88_444
NA

IL_01312.13*
1/B2/1178:1179,
1/B2/1459:1461
Minor groove platform
homologous
IL_4V88_445
NA

IL_06437.11*
1/B2/1213:1215,
1/B2/1448:1450

geometric
IL_4V88_446
NA

IL_01312.13*
1/B2/1223:1230,
1/B2/1257:1260
NANA
1/B2/1230:1233,
1/B2/1252:1257
NANA
1/B2/1234:1236,
1/B2/1249:1251

homologous
IL_4V88_448
NA

IL_01312.13*
1/B2/1268:1270,
1/B2/1440:1441
Single bulged U
homologous
IL_4V88_449
NA

IL_83039.11*
1/B2/1272:1278,
1/B2/1430:1438
NANA
1/B2/1280:1281,
1/B2/1426:1428
Single bulged A
homologous
IL_4V88_452
NA

IL_80007.16*
1/B2/1290:1292,
1/B2/1323:1325
Isolated cWH basepair
homologous
IL_4V88_453
NA

IL_42589.6*
1/B2/1306:1308,
1/B2/1317:1318
Minor groove platform
geometric
IL_5TBW_039
NA

IL_06437.11*
1/B2/1339:1342,
1/B2/1383:1385

homologous
IL_4V88_455
NA

IL_01312.13*
1/B2/1345:1348,
1/B2/1377:1380
Minor groove platform
homologous
IL_4V88_456
NA

IL_69507.1*
1/B2/1352:1354,
1/B2/1369:1373

homologous
IL_4V88_457
NA

IL_01312.13*
1/B2/1389:1391,
1/B2/1407:1412
Major groove platform; stack outside cWW
geometric
IL_4V88_458
NA

IL_60171.1*
1/B2/1480:1487,
1/B2/1519:1527

homologous
IL_4V88_459
NA

IL_69573.1*
1/B2/1488:1494,
1/B2/1513:1518

homologous
IL_4V88_460
NA

IL_75461.2*
1/B2/1495:1498,
1/B2/1509:1512
Tandem non-canonical cWW pairs
homologous
IL_4V88_461
NA

IL_85877.10*
1/B2/1540:1545,
1/B2/1566:1571

geometric
IL_4V88_462
NA

IL_19954.1*
1/B2/1636:1638,
1/B2/1764:1767

geometric
IL_4V88_463
NA

IL_36143.2*
1/B2/1638:1641,
1/B2/1760:1764

homologous
IL_4V88_464
NA

IL_59281.1*
1/B2/1642:1644,
1/B2/1757:1759

homologous
IL_4V88_465
NA

IL_01312.13*
1/B2/1644:1647,
1/B2/1753:1757
Non canonical cWW and near pair
geometric
IL_4V88_466
NA

IL_85877.10*
1/B2/1650:1652,
1/B2/1748:1750
AA cWW
homologous
IL_4V88_467
NA

IL_01312.13*
1/B2/1653:1656,
1/B2/1744:1747
Double sheared
homologous
IL_4V88_468
NA

IL_09705.7*
1/B2/1656:1658,
1/B2/1743:1744
Single bulged U
geometric
IL_6CZR_156
NA

IL_83039.11*
1/B2/1665:1667,
1/B2/1734:1736

homologous
IL_4V88_470
NA

IL_01312.13*
1/B2/1669:1672,
1/B2/1729:1732
Double sheared
homologous
IL_4V88_471
NA

IL_09705.7*
1/B2/1672:1674,
1/B2/1727:1729

geometric
IL_4V88_472
NA

IL_01312.13*
1/B2/1675:1678,
1/B2/1723:1726
Tandem non-canonical cWW pairs
homologous
IL_4V88_473
NA

IL_85877.10*
1/B2/1678:1682,
1/B2/1719:1723
Triple sheared
geometric
IL_4V88_474
NA

IL_56467.6*
1/B2/1683:1685,
1/B2/1716:1718

homologous
IL_4V88_475
NA

IL_01312.13*
1/B2/1687:1690,
1/B2/1711:1714
Tandem non-canonical cWW pairs
geometric
IL_1JID_002
NA

IL_85877.10*
1/B5/7:8,
1/B8/150:152
Single bulged C
homologous
IL_5TBW_002
NA

IL_61258.10*
1/B5/13:15,
1/B8/144:145
Single bulged U
homologous
IL_5TBW_003
NA

IL_83039.11*
1/B5/27:28,
1/B5/56:58

homologous
IL_5TBW_240
NA
1/B5/31:38,
1/B5/45:53

homologous
IL_5TBW_241
NA
1/B5/82:89,
1/B5/97:103

homologous
IL_5TBW_242
NA
1/B5/123:124,
1/B5/144:149

geometric
IL_5TBW_007
NA

IL_19724.1*
1/B5/125:127,
1/B5/141:143

homologous
IL_5TBW_244
NA
1/B5/163:165,
1/B5/257:258

homologous
IL_5TBW_245
NA
1/B5/169:174,
1/B5/244:253
NANA
1/B5/177:179,
1/B5/237:241

homologous
IL_5TBW_247
NA
1/B5/189:191,
1/B5/204:205

homologous
IL_5TBW_248
NA
1/B5/337:339,
1/B8/25:26
Single bulged A
homologous
IL_5TBW_013
NA

IL_80007.16*
1/B5/376:379,
1/B5/390:403

homologous
IL_5TBW_250
NA
1/B5/404:410,
1/B8/13:19
Triple sheared with non-canonical cWW
homologous
IL_5TBW_015
NA

IL_66414.5*
1/B5/429:431,
1/B5/628:630

homologous
IL_5TBW_252
NA
1/B5/512:513,
1/B5/577:579

homologous
IL_5TBW_254
NA
1/B5/517:525,
1/B5/567:573

homologous
IL_5TBW_255
NA
1/B5/531:538,
1/B5/553:561

homologous
IL_5TBW_256
NA
1/B5/668:670,
1/B5/792:794

homologous
IL_5TBW_257
NA
1/B5/680:684,
1/B5/696:700

homologous
IL_5TBW_258
NA
1/B5/725:728,
1/B5/741:745

homologous
IL_5TBW_259
NA
1/B5/752:753,
1/B5/779:781

homologous
IL_5TBW_260
NA
1/B5/755:756,
1/B5/775:777

homologous
IL_5TBW_261
NA
1/B5/758:763,
1/B5/768:773

geometric
IL_5TBW_026
NA

IL_19954.1*
1/B5/803:805,
1/B5/938:940

geometric
IL_5TBW_027
NA

IL_01312.13*
1/B5/805:809,
1/B5/931:938

homologous
IL_5TBW_264
NA
1/B5/828:829,
1/B5/895:897
Single bulged A
geometric
IL_5J7L_261
NA

IL_80007.16*
1/B5/833:834,
1/B5/859:861
Single bulged G
geometric
IL_5TBW_029
NA

IL_99645.1*
1/B5/834:838,
1/B5/855:859

homologous
IL_5TBW_266
NA
1/B5/869:872,
1/B5/888:890

homologous
IL_5TBW_267
NA
1/B5/873:875,
1/B5/886:887

homologous
IL_5TBW_268
NA
1/B5/907:909,
1/B5/919:923
Multiple bulged bases
geometric
IL_5TBW_033
NA

IL_90991.5*
1/B5/954:956,
1/B5/965:967

homologous
IL_5TBW_270
NA
1/B5/969:970,
1/B5/1111:1113

homologous
IL_5TBW_271
NA
1/B5/977:982,
1/B5/1101:1104
NANA
1/B5/983:985,
1/B5/1099:1100

homologous
IL_5TBW_273
NA
1/B5/991:997,
1/B5/1052:1058

homologous
IL_5TBW_274
NA
1/B5/997:998,
1/B5/1050:1052
Minor groove platform
geometric
IL_5TBW_039
NA

IL_06437.11*
1/B5/999:1004,
1/B5/1046:1049

homologous
IL_5TBW_276
NA
1/B5/1006:1009,
1/B5/1041:1044

homologous
IL_5TBW_277
NA
1/B5/1009:1011,
1/B5/1039:1041

geometric
IL_5TBW_042
NA

IL_01312.13*
1/B5/1013:1015,
1/B5/1035:1037

geometric
IL_4KR9_002
NA

IL_01312.13*
1/B5/1015:1018,
1/B5/1034:1035
Multiple bulged bases
geometric
IL_4LFB_005
NA

IL_13730.12*
1/B5/1018:1020,
1/B5/1032:1034

geometric
IL_5UNE_004
NA

IL_01312.13*
1/B5/1069:1071,
1/B5/1087:1089

homologous
IL_5TBW_280
NA
1/B5/1074:1076,
1/B5/1083:1084

homologous
IL_5TBW_281
NA
1/B5/1120:1122,
1/B5/1136:1138

homologous
IL_5TBW_282
NA
1/B5/1123:1125,
1/B5/1133:1135

homologous
IL_5TBW_283
NA
1/B5/1167:1171,
1/B5/1328:1332

homologous
IL_5TBW_284
NA
1/B5/1173:1180,
1/B5/1325:1326
SSU/LSU pseudoknot
geometric
IL_5TBW_049
NA

IL_15861.6*
1/B5/1180:1182,
1/B5/1324:1325

homologous
IL_5TBW_286
NA
1/B5/1187:1194,
1/B5/1314:1319

homologous
IL_5TBW_287
NA
1/B5/1194:1205,
1/B5/1299:1314

geometric
IL_5TBW_052
NA

IL_94878.1*
1/B5/1207:1209,
1/B5/1296:1297

homologous
IL_5TBW_289
NA
1/B5/1234:1238,
1/B5/1250:1254

homologous
IL_5TBW_291
NA
1/B5/1376:1378,
1/B5/1428:1431

homologous
IL_5TBW_293
NA
1/B5/1385:1387,
1/B5/1420:1421

homologous
IL_5TBW_294
NA
1/B5/1388:1395,
1/B5/1415:1419

homologous
IL_5TBW_295
NA
1/B5/1398:1400,
1/B5/1411:1412

homologous
IL_5TBW_296
NA
1/B5/1444:1450,
1/B5/2354:2359

homologous
IL_5TBW_297
NA
1/B5/1492:1495,
1/B5/1835:1836
Major groove platform; stack outside cWW
geometric
IL_4V9F_050
NA

IL_70995.6*
1/B5/1500:1505,
1/B5/1513:1516

homologous
IL_5TBW_298
NA
1/B5/1532:1536,
1/B5/1585:1590

homologous
IL_5TBW_299
NA
1/B5/1618:1621,
1/B5/1824:1826

homologous
IL_5TBW_300
NA
1/B5/1623:1625,
1/B5/1818:1822
Isolated non-canonical cWW with bulges
geometric
IL_5TBW_145
NA

IL_55456.1*
1/B5/1625:1627,
1/B5/1816:1818

geometric
IL_7A0S_031
NA

IL_01312.13*
1/B5/1627:1631,
1/B5/1811:1816

homologous
IL_5TBW_302
NA
1/B5/1645:1649,
1/B5/1806:1810

homologous
IL_5TBW_303
NA
1/B5/1661:1663,
1/B5/1786:1788

homologous
IL_5TBW_304
NA
1/B5/1669:1670,
1/B5/1778:1780
Single bulged C
geometric
IL_5TBW_069
NA

IL_61258.10*
1/B5/1670:1671,
1/B5/1776:1778

homologous
IL_5TBW_306
NA
1/B5/1694:1698,
1/B5/1747:1752

homologous
IL_5TBW_307
NA
1/B5/1702:1707,
1/B5/1737:1743

homologous
IL_5TBW_308
NA
1/B5/1711:1717,
1/B5/1727:1733

homologous
IL_5TBW_309
NA
1/B5/1883:1889,
1/B5/2346:2349

homologous
IL_5TBW_310
NA
1/B5/1895:1897,
1/B5/2338:2340

homologous
IL_5TBW_311
NA
1/B5/1898:1901,
1/B5/2336:2337
Major groove platform; stack outside cWW
geometric
IL_5TBW_076
NA

IL_80663.10*
1/B5/1901:1906,
1/B5/2333:2336

homologous
IL_5TBW_313
NA
1/B5/1918:1923,
1/B5/1928:1934
tSH-tSH-tHH-tHS
geometric
IL_5TBW_078
NA

IL_66584.5*
1/B5/1940:1942,
1/B5/2106:2108

homologous
IL_5TBW_315
NA
1/B5/1947:1948,
1/B5/2098:2101

homologous
IL_5TBW_316
NA
1/B5/2128:2129,
1/B5/2323:2325

homologous
IL_5TBW_318
NA
1/B5/2156:2161,
1/B5/2173:2180

homologous
IL_5TBW_319
NA
1/B5/2196:2199,
1/B5/2245:2246

homologous
IL_5TBW_320
NA
1/B5/2200:2201,
1/B5/2241:2244

homologous
IL_5TBW_321
NA
1/B5/2204:2206,
1/B5/2237:2238
Single bulged U
geometric
IL_5TBW_134
NA

IL_83039.11*
1/B5/2276:2277,
1/B5/2307:2310

homologous
IL_5TBW_325
NA
1/B5/2277:2288,
1/B5/2304:2307

geometric
IL_5TBW_090
NA

IL_45481.1*
1/B5/2391:2394,
1/B5/2986:2988

homologous
IL_5TBW_327
NA
1/B5/2396:2398,
1/B5/2981:2984

homologous
IL_5TBW_328
NA
1/B5/2409:2411,
1/B5/2811:2812

homologous
IL_5TBW_329
NA
1/B5/2412:2413,
1/B5/2807:2810

homologous
IL_5TBW_330
NA
1/B5/2423:2425,
1/B5/2604:2607

homologous
IL_5TBW_331
NA
1/B5/2520:2526,
1/B5/2584:2587

homologous
IL_5TBW_332
NA
1/B5/2614:2615,
1/B5/2625:2627

homologous
IL_5TBW_333
NA
1/B5/2666:2668,
1/B5/2686:2690
Isolated tHS basepair with bulges
geometric
IL_5TBW_099
NA

IL_38958.6*
1/B5/2714:2716,
1/B5/2740:2741
Single bulged A
geometric
IL_5WWT_001
NA

IL_80007.16*
1/B5/2718:2721,
1/B5/2735:2738

homologous
IL_5TBW_335
NA
1/B5/2770:2773,
1/B5/2787:2788

homologous
IL_5TBW_336
NA
1/B5/2823:2824,
1/B5/2865:2867
Major groove platform
geometric
IL_5TBW_102
NA

IL_80663.10*
1/B5/2824:2826,
1/B5/2863:2865

homologous
IL_5TBW_338
NA
1/B5/2826:2828,
1/B5/2862:2863
Major groove platform
geometric
IL_4V9F_083
NA

IL_95601.1*
1/B5/2828:2830,
1/B5/2858:2862

homologous
IL_5TBW_340
NA
1/B5/2835:2839,
1/B5/2849:2853

homologous
IL_5TBW_341
NA
1/B5/2876:2877,
1/B5/2949:2951

homologous
IL_5TBW_342
NA
1/B5/2879:2881,
1/B5/2943:2947

homologous
IL_5TBW_343
NA
1/B5/2881:2882,
1/B5/2940:2943
Multiple bulged bases
geometric
IL_5TBW_109
NA

IL_13730.12*
1/B5/2889:2891,
1/B5/2912:2914

geometric
IL_5TBW_110
NA

IL_01312.13*
1/B5/2891:2892,
1/B5/2909:2912

homologous
IL_5TBW_346
NA
1/B5/2918:2920,
1/B5/2926:2928

geometric
IL_5TBW_112
NA

IL_01312.13*
1/B5/2960:2961,
1/B5/2970:2972

homologous
IL_5TBW_348
NA
1/B5/3004:3007,
1/B5/3139:3144

homologous
IL_5TBW_349
NA
1/B5/3012:3014,
1/B5/3040:3042

homologous
IL_5TBW_350
NA
1/B5/3018:3025,
1/B5/3030:3036

homologous
IL_5TBW_351
NA
1/B5/3047:3051,
1/B5/3091:3094

homologous
IL_5TBW_352
NA
1/B5/3054:3059,
1/B5/3084:3088

homologous
IL_5TBW_353
NA
1/B5/3063:3064,
1/B5/3077:3080

homologous
IL_5TBW_354
NA
1/B5/3103:3107,
1/B5/3127:3131

homologous
IL_5TBW_355
NA
1/B5/3161:3166,
1/B5/3284:3289

homologous
IL_5TBW_356
NA
1/B5/3168:3170,
1/B5/3280:3282

homologous
IL_5TBW_357
NA
1/B5/3177:3179,
1/B5/3210:3211
Single bulged A
geometric
IL_5TBW_123
NA

IL_80007.16*
1/B5/3179:3188,
1/B5/3204:3210

homologous
IL_5TBW_359
NA
1/B5/3193:3194,
1/B5/3197:3199
Single bulged U
geometric
IL_5TBW_125
NA

IL_83039.11*
1/B5/3225:3229,
1/B5/3258:3260

homologous
IL_5TBW_361
NA
1/B5/3233:3235,
1/B5/3252:3254

homologous
IL_5TBW_362
NA
1/B5/3235:3238,
1/B5/3249:3252
Tandem non-canonical cWW pairs
geometric
IL_6MWN_005
NA

IL_85877.10*
1/B5/3300:3303,
1/B5/3311:3314

homologous
IL_5TBW_364
NA
1/B5/3318:3320,
1/B5/3387:3388

homologous
IL_5TBW_365
NA
1/B5/3324:3325,
1/B5/3381:3383

homologous
IL_5TBW_366
NA
1/B5/3328:3330,
1/B5/3373:3378

homologous
IL_5TBW_367
NA
1/B5/3332:3337,
1/B5/3367:3371

homologous
IL_5TBW_368
NA
1/B5/3340:3342,
1/B5/3363:3364

homologous
IL_5TBW_369
NA
1/B5/3342:3345,
1/B5/3360:3363
Double sheared
geometric
IL_4V9F_100
NA

IL_09705.7*
1/B5/3349:3350,
1/B5/3353:3356

homologous
IL_5TBW_371
NA
1/B7/15:16,
1/B7/63:65
Single bulged A
homologous
IL_5TBW_372
NA

IL_80007.16*
1/B7/21:27,
1/B7/53:58

homologous
IL_5TBW_373
NA

IL_05523.1*
1/B7/28:29,
1/B7/49:52
Minor groove platform
geometric
IL_5TBW_374
NA

IL_94431.4*
1/B7/29:30,
1/B7/47:49
Single stack bend
homologous
IL_5TBW_375
NA

IL_04038.4*
1/B7/32:36,
1/B7/41:45
Symmetric double minor groove platform
homologous
IL_5TBW_376
NA

IL_58103.5*
1/B7/72:80,
1/B7/100:106
8x7 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_377
NA

IL_04346.5*
1/B7/84:87,
1/B7/94:96

homologous
IL_5TBW_378
NA

IL_01312.13*
1/B8/44:64,
1/B8/96:100

homologous