RNA 3D Hub //

9BDP Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_9BDP_0011/A18S/7:17No text annotation
homologous
HL_8C3A_192
NA
HL_9BDP_0021/A18S/69:80No text annotation
geometric
HL_1OOA_001
HL_04783.2
HL_9BDP_0031/A18S/156:162GNRA related
homologous
HL_8C3A_194
NA
HL_9BDP_0041/A18S/197:202GNRA
geometric
HL_4V9F_017
HL_37824.8
HL_9BDP_0051/A18S/288:295T-loop with 1 bulged base
geometric
HL_4V88_191
NA
HL_9BDP_0071/A18S/377:387No text annotation
HL_9BDP_0081/A18S/416:421No text annotation
homologous
HL_4V88_194
NA
HL_9BDP_0091/A18S/441:452No text annotation
homologous
HL_8C3A_201
NA
HL_9BDP_0101/A18S/462:467UNCG
homologous
HL_4V88_196
NA
HL_9BDP_0111/A18S/498:504No text annotation
homologous
HL_8C3A_203
NA
HL_9BDP_0121/A18S/539:544GNRA related
geometric
HL_3OXE_002
HL_04783.2
HL_9BDP_0131/A18S/569:581No text annotation
homologous
HL_4V88_199
NA
HL_9BDP_0141/A18S/618:623GNRA variation
homologous
HL_8C3A_206
NA
HL_9BDP_0151/A18S/820:828No text annotation
homologous
HL_4V88_203
NA
HL_9BDP_0171/A18S/885:901No text annotation
HL_9BDP_0181/A18S/957:966No text annotation
homologous
HL_4V88_206
NA
HL_9BDP_0191/A18S/994:999GNRA
homologous
HL_8C3A_212
NA
HL_9BDP_0201/A18S/1054:1064No text annotation
homologous
HL_4V88_208
NA
HL_9BDP_1261/A18S/1112:1121No text annotation
HL_9BDP_0211/A18S/1114:1119No text annotation
geometric
HL_1GID_008
NA
HL_9BDP_0221/A18S/1141:1146GNRA
homologous
HL_8C3A_215
NA
HL_9BDP_0231/A18S/1178:1183GNRA
homologous
HL_4V88_211
NA
HL_9BDP_0241/A18S/1245:1254No text annotation
geometric
HL_4V88_212
NA
HL_9BDP_0251/A18S/1295:1304Anticodon loop related
homologous
HL_4V88_213
NA
HL_9BDP_0261/A18S/1353:1358GNRA
homologous
HL_4V88_214
NA
HL_9BDP_0271/A18S/1366:1373T-loop related
homologous
HL_8C3A_220
NA
HL_9BDP_0291/A18S/1460:1466No text annotation
homologous
HL_8C3A_222
NA
HL_9BDP_0301/A18S/1565:1570GNRA
homologous
HL_4V88_218
NA
HL_9BDP_0311/A18S/1614:1625No text annotation
homologous
HL_8C3A_224
NA
HL_9BDP_0321/A18S/1658:1666No text annotation
homologous
HL_4V88_220
NA
HL_9BDP_0331/A18S/1846:1853No text annotation
geometric
HL_8KAH_003
NA
HL_9BDP_1291/A28S/37:44No text annotation
homologous
HL_8P9A_113
HL_30068.2
HL_9BDP_0351/A28S/68:73No text annotation
homologous
HL_8C3A_002
NA
HL_9BDP_0361/A28S/89:95No text annotation
homologous
HL_8C3A_003
NA
HL_9BDP_1381/A28S/132:136No text annotation
HL_9BDP_0381/A28S/204:211T-loop with 2 stacked bulged bases
homologous
HL_8C3A_005
NA
HL_9BDP_0391/A28S/222:226No text annotation
homologous
HL_5TBW_006
NA
HL_9BDP_0401/A28S/230:238T-loop with unstacked turn
homologous
HL_5TBW_007
NA
HL_9BDP_0411/A28S/289:298No text annotation
homologous
HL_8C3A_008
NA
HL_9BDP_0421/A28S/314:323Pseudoknot geometry
homologous
HL_8C3A_009
NA
HL_9BDP_0431/A28S/368:373GNRA
homologous
HL_8C3A_010
NA
HL_9BDP_0441/A28S/393:398GNRA
homologous
HL_8C3A_011
NA
HL_9BDP_0461/A28S/758:905No text annotation
geometric
HL_2ZNI_001
HL_75660.5
HL_9BDP_0471/A28S/962:970No text annotation
geometric
HL_8C3A_054
NA
HL_9BDP_1391/A28S/1178:1183No text annotation
HL_9BDP_0501/A28S/1317:1326T-loop with 2 stacked bulged bases
homologous
HL_8C3A_014
NA
HL_9BDP_1301/A28S/1364:1373No text annotation
HL_9BDP_0521/A28S/1389:1394GNRA
homologous
HL_8C3A_016
NA
HL_9BDP_0531/A28S/1436:1448No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_9BDP_0541/A28S/1479:1486No text annotation
HL_9BDP_0551/A28S/1561:1566GNRA
homologous
HL_5TBW_019
NA
HL_9BDP_0561/A28S/1593:1602No text annotation
homologous
HL_5TBW_020
NA
HL_9BDP_0571/A28S/1627:1635No text annotation
homologous
HL_8C3A_021
NA
HL_9BDP_0581/A28S/1675:1680Externally structured
homologous
HL_5TBW_022
NA
HL_9BDP_0591/A28S/1761:1772No text annotation
HL_9BDP_0601/A28S/1816:1823No text annotation
homologous
HL_5TBW_024
NA
HL_9BDP_0611/A28S/1864:1870GNRA
homologous
HL_5TBW_025
NA
HL_9BDP_0621/A28S/1886:1893No text annotation
homologous
HL_5TBW_026
NA
HL_9BDP_0631/A28S/2006:2013GNRA wlth tandem sheared
homologous
HL_8C3A_028
NA
HL_9BDP_0651/A28S/2317:2322GNRA
homologous
HL_8C3A_030
NA
HL_9BDP_0661/A28S/2376:2384T-loop with 2 stacked bulged bases
homologous
HL_8C3A_031
NA
HL_9BDP_1401/A28S/2420:2426Pseudoknot geometry with 3' bulge
homologous
HL_8CRE_031
HL_57176.2
HL_9BDP_0681/A28S/2458:2463GNRA variation
homologous
HL_5TBW_033
NA
HL_9BDP_1311/A28S/2487:2491No text annotation
geometric
HL_2Y8Y_001
HL_81100.2
HL_9BDP_0701/A28S/2523:2532No text annotation
homologous
HL_8C3A_035
NA
HL_9BDP_0711/A28S/2561:2566GNRA
geometric
HL_5F9F_003
HL_37824.8
HL_9BDP_0721/A28S/2578:2583GNRA
homologous
HL_5TBW_036
NA
HL_9BDP_1411/A28S/2624:2632Pseudoknot geometry
homologous
HL_8P9A_148
HL_77082.1
HL_9BDP_0741/A28S/2664:2670No text annotation
homologous
HL_8C3A_038
NA
HL_9BDP_1321/A28S/2704:2712No text annotation
HL_9BDP_0751/A28S/2705:2710No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_9BDP_0761/A28S/2738:2742No text annotation
homologous
HL_8C3A_040
NA
HL_9BDP_0771/A28S/2792:2799No text annotation
homologous
HL_5TBW_041
NA
HL_9BDP_0781/A28S/2810:2816GNRA
homologous
HL_5TBW_042
NA
HL_9BDP_0791/A28S/2872:2877UNCG
homologous
HL_5TBW_043
NA
HL_9BDP_0811/A28S/3614:3618No text annotation
homologous
HL_8C3A_045
NA
HL_9BDP_0821/A28S/3639:3649No text annotation
homologous
HL_8C3A_046
NA
HL_9BDP_0831/A28S/3668:3674GNRA
homologous
HL_8C3A_047
NA
HL_9BDP_0841/A28S/3724:3729GNRA
homologous
HL_8C3A_048
NA
HL_9BDP_0851/A28S/3757:3767No text annotation
geometric
HL_5TBW_049
NA
HL_9BDP_0861/A28S/3796:3804No text annotation
homologous
HL_8C3A_050
NA
HL_9BDP_0871/A28S/3839:3843No text annotation
HL_9BDP_0881/A28S/3873:3882No text annotation
homologous
HL_8C3A_051
NA
HL_9BDP_1331/A28S/3968:4053No text annotation
HL_9BDP_0891/A28S/3975:4036No text annotation
HL_9BDP_0911/A28S/4193:4201No text annotation
homologous
HL_8C3A_055
NA
HL_9BDP_1341/A28S/4208:4224No text annotation
HL_9BDP_0921/A28S/4210:4222No text annotation
homologous
HL_5TBW_055
NA
HL_9BDP_0931/A28S/4250:4258No text annotation
homologous
HL_5TBW_056
NA
HL_9BDP_0941/A28S/4270:4277Pseudoknot geometry
homologous
HL_8C3A_058
NA
HL_9BDP_0951/A28S/4301:4309No text annotation
homologous
HL_8C3A_059
NA
HL_9BDP_0961/A28S/4321:4326GNRA
homologous
HL_5TBW_059
NA
HL_9BDP_0971/A28S/4352:4362No text annotation
geometric
HL_2ZZM_002
HL_13963.3
HL_9BDP_0981/A28S/4417:4425No text annotation
homologous
HL_5TBW_061
NA
HL_9BDP_0991/A28S/4473:4482No text annotation
geometric
HL_4V9F_019
HL_80922.2
HL_9BDP_1001/A28S/4497:4503No text annotation
geometric
HL_5TBW_063
NA
HL_9BDP_1011/A28S/4540:4545GNRA
homologous
HL_8C3A_065
NA
HL_9BDP_1021/A28S/4603:4608GNRA
geometric
HL_5VW1_001
HL_37824.8
HL_9BDP_1031/A28S/4646:4651Ribsomal LSU H95
homologous
HL_8C3A_067
NA
HL_9BDP_1041/A28S/4688:4702No text annotation
homologous
HL_8C3A_068
NA
HL_9BDP_1061/A28S/4906:4915No text annotation
HL_9BDP_1071/A28S/4975:4983No text annotation
geometric
HL_5J7L_201
HL_64690.6
HL_9BDP_1091/A58S/47:56Pseudoknot with intercalation
geometric
HL_4V9F_001
HL_93438.2
HL_9BDP_1111/A58S/107:112No text annotation
homologous
HL_8P4V_074
NA
HL_9BDP_1351/A58S/120:130No text annotation
HL_9BDP_1121/A58S/121:129No text annotation
HL_9BDP_1361/A5S/32:45No text annotation
homologous
HL_8C3A_228
NA
HL_9BDP_1131/A5S/36:41No text annotation
homologous
HL_8C3A_073
NA
HL_9BDP_1141/A5S/86:91GNRA
homologous
HL_8C3A_074
NA
HL_9BDP_1151/ETRN/13:22tRNA D-loop
homologous
HL_1QF6_001
HL_20811.4
HL_9BDP_1161/ETRN/31:39tRNA anticodon loop
homologous
HL_6UFG_007
HL_06059.7
HL_9BDP_1171/ETRN/53:61T-loop with 2 stacked bulged bases
homologous
HL_5X6B_003
HL_28252.9
HL_9BDP_1181/PTRN/13:22tRNA D-loop
homologous
HL_6JXM_001
HL_20811.4
HL_9BDP_1191/PTRN/31:39tRNA anticodon loop
homologous
HL_4TUE_034
HL_06059.7
HL_9BDP_1201/PTRN/53:61T-loop with 2 stacked bulged bases
homologous
HL_4WT8_217
HL_28252.9
HL_9BDP_1211/TIRN/13:22tRNA D-loop
homologous
HL_6JXM_001
HL_20811.4
HL_9BDP_1231/TIRN/53:61T-loop with 2 stacked bulged bases
homologous
HL_5AXM_003
HL_28252.9

Problematic loops

#loop idProblemSequence
HL_9BDP_124No text annotation
HL_9BDP_006No text annotation
HL_9BDP_016No text annotation
HL_9BDP_125No text annotation
HL_9BDP_127No text annotation
HL_9BDP_128No text annotation
HL_9BDP_028No text annotation
HL_9BDP_034No text annotation
HL_9BDP_037No text annotation
HL_9BDP_045No text annotation
HL_9BDP_048No text annotation
HL_9BDP_049No text annotation
HL_9BDP_051No text annotation
HL_9BDP_064No text annotation
HL_9BDP_067No text annotation
HL_9BDP_069No text annotation
HL_9BDP_073tRNA D-loop
HL_9BDP_080No text annotation
HL_9BDP_090No text annotation
HL_9BDP_105No text annotation
HL_9BDP_108No text annotation
HL_9BDP_110No text annotation
HL_9BDP_137No text annotation
HL_9BDP_122No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_9BDP_0011/A18S/23:25,
1/A18S/649:651		Isolated non-canonical cWW pair
geometric
IL_4V9F_105
IL_87907.2
IL_9BDP_0021/A18S/34:36,
1/A18S/519:521		Isolated non-canonical cWW pair
homologous
IL_8C3A_393
NA
IL_9BDP_0031/A18S/37:40,
1/A18S/514:518		Double sheared
geometric
IL_4WF9_016
IL_09705.15
IL_9BDP_0041/A18S/41:47,
1/A18S/479:481		No text annotation
homologous
IL_4V88_387
NA
IL_9BDP_0051/A18S/49:51,
1/A18S/476:477		Minor groove platform
homologous
IL_4V88_388
NA
IL_9BDP_0061/A18S/57:62,
1/A18S/86:88		No text annotation
homologous
IL_4V88_389
NA
IL_9BDP_2741/A18S/63:68,
1/A18S/81:85		No text annotation
homologous
IL_8P9A_379
IL_21667.1
IL_9BDP_0081/A18S/108:110,
1/A18S/351:353		Isolated non-canonical cWW pair
geometric
IL_1ZX7_004
NA
IL_9BDP_0091/A18S/110:112,
1/A18S/349:351		No text annotation
geometric
IL_4KR9_001
NA
IL_9BDP_0101/A18S/112:115,
1/A18S/348:349		Multiple bulged bases
homologous
IL_8C3A_400
NA
IL_9BDP_0111/A18S/116:121,
1/A18S/343:347		No text annotation
homologous
IL_8C3A_401
NA
IL_9BDP_0131/A18S/145:151,
1/A18S/167:174		No text annotation
homologous
IL_8C3A_402
NA
IL_9BDP_0141/A18S/152:154,
1/A18S/164:166		Isolated non-canonical cWW contact
homologous
IL_4V88_395
NA
IL_9BDP_0151/A18S/188:192,
1/A18S/207:211		Double sheared with non-canonical cWW
geometric
IL_5J7L_274
IL_17948.2
IL_9BDP_0161/A18S/216:219,
1/A18S/302:309		No text annotation
IL_9BDP_0191/A18S/312:314,
1/A18S/336:337		Single bulged A
homologous
IL_4V88_399
NA
IL_9BDP_0201/A18S/317:320,
1/A18S/331:333		Other IL
geometric
IL_5TBW_064
NA
IL_9BDP_0211/A18S/359:364,
1/A18S/396:403		Kink-turn with non-sequential stacking
homologous
IL_8C3A_410
NA
IL_9BDP_3241/A18S/366:371,
1/A18S/393:394		No text annotation
homologous
IL_8P9A_392
IL_47074.2
IL_9BDP_0231/A18S/411:413,
1/A18S/424:429		No text annotation
homologous
IL_8C3A_412
NA
IL_9BDP_0241/A18S/437:439,
1/A18S/454:456		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_9BDP_0251/A18S/459:461,
1/A18S/468:470		Isolated non-canonical cWW pair
homologous
IL_8C3A_414
NA
IL_9BDP_2761/A18S/487:489,
1/A18S/511:512		Single bulged U
homologous
IL_8C3A_415
NA
IL_9BDP_0271/A18S/491:496,
1/A18S/506:509		C-loop with extra cWW pair
homologous
IL_4V88_408
NA
IL_9BDP_0281/A18S/529:530,
1/A18S/554:556		Single bulged A
homologous
IL_4V88_409
NA
IL_9BDP_3251/A18S/535:537,
1/A18S/546:549		Isolated non-canonical cWW with bulges
geometric
IL_4V9F_097
IL_07785.1
IL_9BDP_0311/A18S/563:565,
1/A18S/585:592		No text annotation
homologous
IL_8C3A_420
NA
IL_9BDP_0321/A18S/566:569,
1/A18S/581:584		Tandem non-canonical cWW pairs
geometric
IL_5C5W_001
IL_77658.1
IL_9BDP_0341/A18S/599:608,
1/A18S/635:637		No text annotation
IL_9BDP_0351/A18S/611:617,
1/A18S/624:632		Kink-turn related
homologous
IL_8C3A_425
NA
IL_9BDP_2771/A18S/663:665,
1/A18S/1162:1164		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_87907.2
IL_9BDP_0361/A18S/673:675,
1/A18S/1030:1032		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_9BDP_0371/A18S/676:680,
1/A18S/1025:1029		tSH-tHW-tHS
homologous
IL_8C3A_428
NA
IL_9BDP_0381/A18S/692:694,
1/A18S/732:734		Isolated non-canonical cWW pair
geometric
IL_4E48_004
IL_87907.2
IL_9BDP_2781/A18S/752:754,
1/A18S/790:791		No text annotation
IL_9BDP_3261/A18S/802:803,
1/A18S/860:863		No text annotation
homologous
IL_8P9A_412
IL_68140.4
IL_9BDP_0411/A18S/805:807,
1/A18S/856:858		Isolated non-canonical cWW pair
homologous
IL_8C3A_431
NA
IL_9BDP_3271/A18S/807:815,
1/A18S/849:856		No text annotation
homologous
IL_8CRE_430
IL_59049.1
IL_9BDP_0431/A18S/874:876,
1/A18S/910:912		Isolated non-canonical cWW pair
geometric
IL_5AOX_001
IL_87907.2
IL_9BDP_0441/A18S/877:879,
1/A18S/907:909		No text annotation
IL_9BDP_0461/A18S/922:923,
1/A18S/1019:1022		Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA
IL_9BDP_3281/A18S/925:926,
1/A18S/1015:1017		Single bulged U
geometric
IL_7KVT_002
IL_89505.4
IL_9BDP_0481/A18S/928:931,
1/A18S/1010:1013		Tandem non-canonical cWW pairs
homologous
IL_4V88_430
NA
IL_9BDP_0491/A18S/931:935,
1/A18S/1007:1010		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_9BDP_0501/A18S/942:945,
1/A18S/981:984		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_9BDP_0511/A18S/952:956,
1/A18S/967:974		Kink-turn
homologous
IL_4V88_434
NA
IL_9BDP_0521/A18S/1042:1047,
1/A18S/1071:1073		Other IL
geometric
IL_4V88_435
NA
IL_9BDP_0531/A18S/1047:1051,
1/A18S/1067:1071		tSH-tHW-tHS
homologous
IL_8C3A_442
NA
IL_9BDP_0541/A18S/1091:1093,
1/A18S/1152:1158		No text annotation
homologous
IL_8C3A_443
NA
IL_9BDP_0551/A18S/1098:1101,
1/A18S/1131:1134		Tandem non-canonical cWW pairs
homologous
IL_8C3A_444
NA
IL_9BDP_0561/A18S/1101:1103,
1/A18S/1129:1131		Isolated non-canonical cWW pair
geometric
IL_1YZ9_002
IL_87907.2
IL_9BDP_0571/A18S/1108:1110,
1/A18S/1123:1124		Minor groove platform
geometric
IL_4V88_412
NA
IL_9BDP_0591/A18S/1168:1175,
1/A18S/1186:1191		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_9BDP_0601/A18S/1203:1204,
1/A18S/1694:1696		Single bulged A
homologous
IL_4V88_441
NA
IL_9BDP_0611/A18S/1206:1208,
1/A18S/1691:1692		Single bulged G
homologous
IL_8C3A_448
NA
IL_9BDP_3291/A18S/1214:1217,
1/A18S/1681:1685		C-loop
homologous
IL_8CRE_445
IL_63596.11
IL_9BDP_0621/A18S/1230:1232,
1/A18S/1526:1528		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_9BDP_0631/A18S/1235:1236,
1/A18S/1521:1523		Minor groove platform
homologous
IL_4V88_445
NA
IL_9BDP_0641/A18S/1270:1273,
1/A18S/1510:1512		No text annotation
geometric
IL_4N0T_004
IL_99358.1
IL_9BDP_0651/A18S/1281:1287,
1/A18S/1314:1316		No text annotation
IL_9BDP_3301/A18S/1281:1290,
1/A18S/1309:1316		No text annotation
homologous
IL_8P9A_470
IL_28304.1
IL_9BDP_0661/A18S/1287:1290,
1/A18S/1309:1314		No text annotation
IL_9BDP_0671/A18S/1291:1294,
1/A18S/1305:1308		Tandem non-canonical cWW pairs
geometric
IL_6DTD_001
IL_25872.4
IL_9BDP_0681/A18S/1325:1327,
1/A18S/1502:1503		Single bulged U
homologous
IL_8C3A_455
NA
IL_9BDP_2841/A18S/1329:1333,
1/A18S/1498:1500		Isolated cWS basepair
geometric
IL_4LFB_044
IL_76319.5
IL_9BDP_2851/A18S/1329:1335,
1/A18S/1492:1500		No text annotation
geometric
IL_4V88_510
NA
IL_9BDP_2861/A18S/1333:1335,
1/A18S/1492:1498		No text annotation
homologous
IL_8P9A_440
IL_49061.1
IL_9BDP_0701/A18S/1337:1338,
1/A18S/1488:1490		Single bulged A
homologous
IL_8C3A_458
NA
IL_9BDP_0711/A18S/1347:1349,
1/A18S/1380:1382		Isolated cWH basepair
homologous
IL_4V88_453
NA
IL_9BDP_0721/A18S/1363:1365,
1/A18S/1374:1375		Minor groove platform
homologous
IL_8C3A_460
NA
IL_9BDP_0731/A18S/1395:1399,
1/A18S/1447:1450		Tandem non-canonical cWW pairs
geometric
IL_3WBM_003
IL_85033.2
IL_9BDP_2871/A18S/1400:1405,
1/A18S/1441:1446		No text annotation
IL_9BDP_0761/A18S/1412:1413,
1/A18S/1427:1429		Single bulged G
geometric
IL_5J7L_019
IL_00225.14
IL_9BDP_0771/A18S/1537:1539,
1/A18S/1594:1596		Isolated non-canonical cWW pair
geometric
IL_4P3T_001
NA
IL_9BDP_2881/A18S/1541:1550,
1/A18S/1582:1592		No text annotation
IL_9BDP_0781/A18S/1550:1558,
1/A18S/1577:1582		No text annotation
IL_9BDP_3311/A18S/1560:1562,
1/A18S/1573:1575		Isolated non-canonical cWW pair
homologous
IL_8CRE_464
IL_07785.1
IL_9BDP_0801/A18S/1604:1610,
1/A18S/1629:1635		No text annotation
homologous
IL_8C3A_469
NA
IL_9BDP_0811/A18S/1700:1702,
1/A18S/1833:1836		No text annotation
geometric
IL_4V88_463
NA
IL_9BDP_0821/A18S/1702:1705,
1/A18S/1829:1833		No text annotation
homologous
IL_8C3A_471
NA
IL_9BDP_0831/A18S/1706:1708,
1/A18S/1826:1828		Isolated non-canonical cWW pair
geometric
IL_4E59_001
IL_87907.2
IL_9BDP_3321/A18S/1708:1711,
1/A18S/1822:1826		No text annotation
IL_9BDP_0851/A18S/1714:1716,
1/A18S/1817:1819		Isolated non-canonical cWW pair
homologous
IL_8C3A_474
NA
IL_9BDP_0861/A18S/1717:1720,
1/A18S/1813:1816		Double sheared
homologous
IL_8C3A_475
NA
IL_9BDP_0871/A18S/1720:1722,
1/A18S/1812:1813		Single bulged U
geometric
IL_4V88_469
NA
IL_9BDP_0891/A18S/1729:1731,
1/A18S/1803:1805		Isolated non-canonical cWW pair
geometric
IL_7A0S_011
IL_07785.1
IL_9BDP_0901/A18S/1733:1736,
1/A18S/1798:1801		Double sheared
geometric
IL_4V88_471
NA
IL_9BDP_0921/A18S/1739:1741,
1/A18S/1793:1795		Isolated non-canonical cWW pair
geometric
IL_3GM7_006
IL_87907.2
IL_9BDP_0931/A18S/1742:1746,
1/A18S/1788:1792		Triple sheared
homologous
IL_4V88_474
NA
IL_9BDP_3331/A18S/1750:1751,
1/A18S/1782:1784		No text annotation
IL_9BDP_0951/A18S/1751:1752,
1/A18S/1780:1782		Single stack bend
geometric
IL_4LFB_041
IL_90729.1
IL_9BDP_0971/A28S/6:7,
1/A58S/149:151		Single bulged C
homologous
IL_8C3A_002
NA
IL_9BDP_2921/A28S/12:14,
1/A58S/143:144		Single bulged U
homologous
IL_8C3A_003
NA
IL_9BDP_1001/A28S/16:18,
1/A58S/139:141		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_87907.2
IL_9BDP_1011/A28S/26:27,
1/A28S/55:57		Single stack bend
homologous
IL_5TBW_004
NA
IL_9BDP_2931/A28S/30:37,
1/A28S/44:52		No text annotation
homologous
IL_8C3A_005
NA
IL_9BDP_1021/A28S/81:88,
1/A28S/96:102		No text annotation
homologous
IL_8C3A_006
NA
IL_9BDP_1031/A28S/118:121,
1/A28S/152:153		Multiple bulged bases
geometric
IL_6CZR_119
NA
IL_9BDP_3341/A28S/118:122,
1/A28S/147:153		No text annotation
IL_9BDP_1041/A28S/121:122,
1/A28S/147:152		No text annotation
geometric
IL_5TBW_007
NA
IL_9BDP_1051/A28S/125:126,
1/A28S/142:144		Single bulged C
geometric
IL_1DQF_001
IL_61258.15
IL_9BDP_1061/A28S/168:173,
1/A28S/263:267		No text annotation
IL_9BDP_1091/A28S/195:196,
1/A28S/244:246		Single bulged C
geometric
IL_1DQF_001
IL_61258.15
IL_9BDP_1101/A28S/199:201,
1/A28S/214:215		Single bulged U
homologous
IL_8C3A_013
NA
IL_9BDP_1111/A28S/339:342,
1/A58S/32:33		Minor groove platform
geometric
IL_4LFB_045
IL_95583.2
IL_9BDP_1121/A28S/348:350,
1/A58S/25:26		Single bulged A
homologous
IL_8C3A_014
NA
IL_9BDP_1131/A28S/387:390,
1/A28S/401:414		No text annotation
homologous
IL_8C3A_015
NA
IL_9BDP_1141/A28S/415:421,
1/A58S/13:19		Triple sheared with non-canonical cWW
homologous
IL_5TBW_015
NA
IL_9BDP_1151/A28S/443:446,
1/A28S/1300:1304		No text annotation
IL_9BDP_1161/A28S/448:450,
1/A28S/1297:1298		Single bulged C
geometric
IL_1KUQ_002
IL_61258.15
IL_9BDP_1171/A28S/459:460,
1/A28S/695:697		No text annotation
IL_9BDP_1181/A28S/462:464,
1/A28S/691:693		Isolated non-canonical cWW pair
geometric
IL_4AOB_005
IL_87907.2
IL_9BDP_1191/A28S/466:472,
1/A28S/682:689		No text annotation
IL_9BDP_1201/A28S/481:482,
1/A28S/672:673		Single bulged C
geometric
IL_7KGA_004
IL_61258.15
IL_9BDP_1211/A28S/482:485,
1/A28S/671:672		Multiple bulged bases
geometric
IL_1R3E_001
IL_84476.1
IL_9BDP_1221/A28S/487:488,
1/A28S/665:669		Multiple bulged bases
geometric
IL_1R3E_002
IL_84476.1
IL_9BDP_1231/A28S/491:493,
1/A28S/661:662		Single bulged U
geometric
IL_4WF9_030
IL_89505.4
IL_9BDP_1241/A28S/497:499,
1/A28S/656:657		Single bulged C
geometric
IL_3SNP_003
IL_61258.15
IL_9BDP_2991/A28S/508:510,
1/A28S/649:650		Single bulged A
geometric
IL_8VM9_003
IL_31462.7
IL_9BDP_1271/A28S/709:710,
1/A28S/1286:1288		Single bulged G
geometric
IL_4LFB_036
IL_00225.14
IL_9BDP_1281/A28S/723:724,
1/A28S/942:945		Multiple bulged bases
geometric
IL_1R3E_001
IL_84476.1
IL_9BDP_3011/A28S/727:731,
1/A28S/938:939		No text annotation
IL_9BDP_1301/A28S/732:735,
1/A28S/928:937		No text annotation
IL_9BDP_1311/A28S/737:739,
1/A28S/923:926		No text annotation
geometric
IL_5J7L_341
IL_42626.2
IL_9BDP_1321/A28S/745:752,
1/A28S/911:919		No text annotation
geometric
IL_5TBW_020
NA
IL_9BDP_1331/A28S/1074:1076,
1/A28S/1235:1236		Single stack bend
geometric
IL_5J7L_032
IL_26793.1
IL_9BDP_3351/A28S/1076:1081,
1/A28S/1218:1235		No text annotation
IL_9BDP_1341/A28S/1077:1081,
1/A28S/1219:1234		No text annotation
IL_9BDP_1351/A28S/1081:1082,
1/A28S/1217:1219		Single stack bend
geometric
IL_5J7L_249
IL_90729.1
IL_9BDP_1361/A28S/1082:1084,
1/A28S/1213:1217		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_87907.2
IL_9BDP_1371/A28S/1086:1087,
1/A28S/1209:1211		Single bulged C
geometric
IL_3W3S_001
IL_61258.15
IL_9BDP_3361/A28S/1097:1098,
1/A28S/1197:1199		Single stack bend
geometric
IL_5J7L_249
IL_90729.1
IL_9BDP_3371/A28S/1100:1168,
1/A28S/1193:1195		No text annotation
IL_9BDP_1401/A28S/1173:1175,
1/A28S/1186:1188		Isolated cWH basepair
geometric
IL_5F5F_003
IL_10167.6
IL_9BDP_1421/A28S/1357:1360,
1/A28S/1379:1382		No text annotation
IL_9BDP_3031/A28S/1357:1361,
1/A28S/1376:1382		No text annotation
IL_9BDP_1431/A28S/1360:1361,
1/A28S/1376:1379		Multiple bulged bases
geometric
IL_1R3E_001
IL_84476.1
IL_9BDP_1441/A28S/1425:1429,
1/A28S/1455:1460		Triple sheared related
geometric
IL_4V9F_018
IL_97631.1
IL_9BDP_1451/A28S/1431:1434,
1/A28S/1450:1453		Double sheared
geometric
IL_4LFB_060
IL_09705.15
IL_9BDP_1461/A28S/1467:1468,
1/A28S/1496:1498		Single bulged A
homologous
IL_8C3A_026
NA
IL_9BDP_1471/A28S/1474:1476,
1/A28S/1489:1490		Single stack bend
geometric
IL_4WF9_007
IL_90729.1
IL_9BDP_1481/A28S/1520:1522,
1/A28S/1655:1657		Isolated non-canonical cWW pair
geometric
IL_5TBW_027
NA
IL_9BDP_1491/A28S/1522:1526,
1/A28S/1648:1655		No text annotation
homologous
IL_8C3A_030
NA
IL_9BDP_1501/A28S/1550:1551,
1/A28S/1576:1578		Single bulged G
homologous
IL_8C3A_032
NA
IL_9BDP_1511/A28S/1551:1555,
1/A28S/1572:1576		Triple sheared
geometric
IL_4V9F_027
IL_50730.2
IL_9BDP_1521/A28S/1586:1589,
1/A28S/1605:1607		Major groove platform with extra cWW
homologous
IL_5TBW_031
NA
IL_9BDP_1531/A28S/1590:1592,
1/A28S/1603:1604		Single bulged U
homologous
IL_8C3A_035
NA
IL_9BDP_1541/A28S/1624:1626,
1/A28S/1636:1640		Multiple bulged bases
geometric
IL_5J7L_265
IL_06549.2
IL_9BDP_1551/A28S/1671:1673,
1/A28S/1682:1684		Isolated non-canonical cWW pair
homologous
IL_5TBW_034
NA
IL_9BDP_1561/A28S/1686:1688,
1/A28S/1848:1851		No text annotation
IL_9BDP_1571/A28S/1694:1721,
1/A28S/1841:1842		No text annotation
IL_9BDP_1581/A28S/1723:1725,
1/A28S/1838:1839		Single bulged G
homologous
IL_8C3A_040
NA
IL_9BDP_1591/A28S/1732:1737,
1/A28S/1792:1797		5x5 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_7A0S_027
NA
IL_9BDP_3051/A28S/1732:1738,
1/A28S/1790:1797		No text annotation
IL_9BDP_1601/A28S/1737:1738,
1/A28S/1790:1792		Minor groove platform
homologous
IL_5TBW_039
NA
IL_9BDP_1611/A28S/1739:1744,
1/A28S/1786:1789		C-loop
homologous
IL_5TBW_040
NA
IL_9BDP_3061/A28S/1746:1749,
1/A28S/1781:1784		No text annotation
homologous
IL_8C3A_481
NA
IL_9BDP_1631/A28S/1749:1751,
1/A28S/1779:1781		Isolated non-canonical cWW pair
homologous
IL_5TBW_042
NA
IL_9BDP_1641/A28S/1753:1756,
1/A28S/1776:1777		Major groove platform
geometric
IL_8DP3_001
IL_02555.1
IL_9BDP_3071/A28S/1758:1760,
1/A28S/1773:1774		No text annotation
geometric
IL_8C3A_038
NA
IL_9BDP_1661/A28S/1814:1816,
1/A28S/1823:1824		Single bulged G
geometric
IL_4V88_442
NA
IL_9BDP_1671/A28S/1858:1860,
1/A28S/1874:1876		Isolated non-canonical cWW pair
homologous
IL_5TBW_046
NA
IL_9BDP_1691/A28S/1905:1909,
1/A28S/2067:2071		UAA/GAN
homologous
IL_5TBW_048
NA
IL_9BDP_1701/A28S/1911:1918,
1/A28S/2064:2065		SSU/LSU pseudoknot
homologous
IL_8C3A_052
NA
IL_9BDP_1711/A28S/1918:1920,
1/A28S/2063:2064		Single bulged G
geometric
IL_7D7V_002
IL_00225.14
IL_9BDP_1721/A28S/1920:1922,
1/A28S/2062:2063		Single bulged C
geometric
IL_4V88_384
NA
IL_9BDP_1731/A28S/1926:1933,
1/A28S/2053:2058		No text annotation
geometric
IL_5TBW_051
NA
IL_9BDP_1741/A28S/1933:1944,
1/A28S/2038:2053		No text annotation
geometric
IL_5TBW_052
NA
IL_9BDP_1751/A28S/1946:1948,
1/A28S/2035:2036		Single bulged U
homologous
IL_5TBW_053
NA
IL_9BDP_1771/A28S/1956:1965,
1/A28S/2022:2027		No text annotation
IL_9BDP_1781/A28S/1969:2001,
1/A28S/2016:2018		No text annotation
IL_9BDP_3101/A28S/1969:2005,
1/A28S/2014:2018		No text annotation
IL_9BDP_3111/A28S/2001:2005,
1/A28S/2014:2016		No text annotation
homologous
IL_8P9A_284
IL_51387.3
IL_9BDP_1801/A28S/2083:2085,
1/A28S/2272:2273		Single bulged U
geometric
IL_6CZR_156
NA
IL_9BDP_1811/A28S/2290:2292,
1/A28S/2342:2345		Isolated cWS basepair
homologous
IL_5TBW_057
NA
IL_9BDP_1821/A28S/2299:2301,
1/A28S/2334:2335		Single bulged A
homologous
IL_8C3A_062
NA
IL_9BDP_1831/A28S/2302:2309,
1/A28S/2329:2333		Kink-turn
homologous
IL_5TBW_059
NA
IL_9BDP_1841/A28S/2312:2314,
1/A28S/2325:2326		Single bulged A
geometric
IL_7RQB_033
NA
IL_9BDP_1851/A28S/2358:2364,
1/A28S/3858:3863		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_061
NA
IL_9BDP_1861/A28S/2415:2419,
1/A28S/2427:2429		C-loop
geometric
IL_7A0S_047
IL_83150.2
IL_9BDP_1871/A28S/2446:2450,
1/A28S/2509:2514		UAA/GAN
homologous
IL_8C3A_067
NA
IL_9BDP_3381/A28S/2477:2479,
1/A28S/2499:2500		Single stack bend
geometric
IL_4V84_420
IL_10569.1
IL_9BDP_1901/A28S/2542:2547,
1/A28S/2772:2774		Isolated non-canonical cWW pair
geometric
IL_4RUM_001
IL_57744.1
IL_9BDP_1911/A28S/2549:2550,
1/A28S/2768:2770		Single bulged U
geometric
IL_2R8S_004
IL_89505.4
IL_9BDP_1931/A28S/2589:2593,
1/A28S/2752:2756		Triple sheared
homologous
IL_5TBW_067
NA
IL_9BDP_1941/A28S/2613:2615,
1/A28S/2722:2726		No text annotation
geometric
IL_6ZDU_001
IL_99358.1
IL_9BDP_1951/A28S/2646:2648,
1/A28S/2685:2688		Isolated tHS basepair with bulges
geometric
IL_4V9F_076
IL_85599.2
IL_9BDP_1961/A28S/2651:2653,
1/A28S/2681:2682		Single bulged G
geometric
IL_4WF9_023
IL_00225.14
IL_9BDP_1971/A28S/2656:2662,
1/A28S/2672:2678		Kink-turn
homologous
IL_5TBW_073
NA
IL_9BDP_1981/A28S/2704:2705,
1/A28S/2710:2712		No text annotation
IL_9BDP_1991/A28S/2832:2838,
1/A28S/3850:3853		No text annotation
homologous
IL_5TBW_074
NA
IL_9BDP_3131/A28S/2844:2846,
1/A28S/3842:3844		No text annotation
homologous
IL_8P9A_303
IL_67095.2
IL_9BDP_3141/A28S/2847:2850,
1/A28S/3840:3841		Major groove platform; stack outside cWW
geometric
IL_5TBW_076
NA
IL_9BDP_3151/A28S/2847:2855,
1/A28S/3837:3841		No text annotation
geometric
IL_8C3A_484
NA
IL_9BDP_3161/A28S/2850:2855,
1/A28S/3837:3840		No text annotation
homologous
IL_8C3A_083
NA
IL_9BDP_2011/A28S/2867:2872,
1/A28S/2877:2883		tSH-tSH-tHH-tHS
geometric
IL_4V9F_063
IL_47346.2
IL_9BDP_2021/A28S/2889:2891,
1/A28S/3610:3612		Isolated non-canonical cWW pair
homologous
IL_5TBW_079
NA
IL_9BDP_2031/A28S/2896:2897,
1/A28S/3602:3605		No text annotation
homologous
IL_5TBW_080
NA
IL_9BDP_2041/A28S/3632:3633,
1/A28S/3827:3829		Single bulged A
homologous
IL_5TBW_082
NA
IL_9BDP_2051/A28S/3660:3665,
1/A28S/3677:3684		Kink-turn related
homologous
IL_5TBW_083
NA
IL_9BDP_2061/A28S/3700:3703,
1/A28S/3749:3750		Major groove intercalation
homologous
IL_5TBW_084
NA
IL_9BDP_2071/A28S/3704:3705,
1/A28S/3745:3748		Multiple bulged bases
homologous
IL_8C3A_090
NA
IL_9BDP_2081/A28S/3708:3714,
1/A28S/3739:3742		No text annotation
IL_9BDP_2091/A28S/3715:3721,
1/A28S/3732:3738		No text annotation
homologous
IL_8C3A_093
NA
IL_9BDP_2111/A28S/3780:3781,
1/A28S/3811:3814		No text annotation
homologous
IL_8C3A_094
NA
IL_9BDP_2121/A28S/3781:3792,
1/A28S/3808:3811		No text annotation
geometric
IL_5TBW_090
NA
IL_9BDP_3391/A28S/3895:3898,
1/A28S/4563:4565		No text annotation
homologous
IL_8P9A_319
IL_55516.2
IL_9BDP_2141/A28S/3900:3902,
1/A28S/4558:4561		No text annotation
homologous
IL_8C3A_097
NA
IL_9BDP_2151/A28S/3913:3915,
1/A28S/4388:4389		Single bulged U
homologous
IL_8C3A_098
NA
IL_9BDP_2161/A28S/3916:3917,
1/A28S/4384:4387		Minor groove platform
homologous
IL_5TBW_094
NA
IL_9BDP_2171/A28S/3927:3929,
1/A28S/4181:4184		No text annotation
homologous
IL_8C3A_100
NA
IL_9BDP_3401/A28S/3946:3952,
1/A28S/4060:4067		No text annotation
IL_9BDP_3411/A28S/3954:3968,
1/A28S/4053:4058		No text annotation
IL_9BDP_2211/A28S/3968:3974,
1/A28S/4037:4053		No text annotation
IL_9BDP_2221/A28S/4082:4088,
1/A28S/4161:4164		No text annotation
homologous
IL_8C3A_106
NA
IL_9BDP_2241/A28S/4191:4192,
1/A28S/4202:4204		Single bulged A
homologous
IL_5TBW_098
NA
IL_9BDP_2251/A28S/4243:4245,
1/A28S/4263:4267		Isolated tHS basepair with bulges
geometric
IL_5TBW_099
NA
IL_9BDP_2261/A28S/4291:4293,
1/A28S/4317:4318		Single bulged A
geometric
IL_5TBW_013
NA
IL_9BDP_2271/A28S/4295:4298,
1/A28S/4312:4315		Tandem non-canonical cWW pairs
homologous
IL_8C3A_109
NA
IL_9BDP_3421/A28S/4347:4350,
1/A28S/4364:4365		Single stack bend
geometric
IL_9DFE_057
IL_26793.1
IL_9BDP_2291/A28S/4400:4401,
1/A28S/4442:4444		Major groove platform
geometric
IL_5TBW_102
NA
IL_9BDP_2301/A28S/4401:4403,
1/A28S/4440:4442		Isolated non-canonical cWW pair
geometric
IL_7A0S_026
IL_87907.2
IL_9BDP_2311/A28S/4403:4405,
1/A28S/4439:4440		Major groove platform
homologous
IL_8C3A_112
NA
IL_9BDP_2321/A28S/4405:4407,
1/A28S/4435:4439		Major groove minor groove platform with extra cWW
geometric
IL_5TBW_105
NA
IL_9BDP_2331/A28S/4412:4416,
1/A28S/4426:4430		No text annotation
homologous
IL_8C3A_114
NA
IL_9BDP_2341/A28S/4453:4454,
1/A28S/4526:4528		Major groove platform
homologous
IL_5TBW_107
NA
IL_9BDP_2351/A28S/4456:4458,
1/A28S/4520:4524		Isolated non-canonical cWW with bulges
homologous
IL_5TBW_108
NA
IL_9BDP_2361/A28S/4458:4459,
1/A28S/4517:4520		Multiple bulged bases
geometric
IL_5TBW_109
NA
IL_9BDP_2381/A28S/4466:4468,
1/A28S/4489:4491		No text annotation
geometric
IL_4KR9_002
NA
IL_9BDP_3201/A28S/4466:4470,
1/A28S/4485:4491		No text annotation
IL_9BDP_2391/A28S/4468:4470,
1/A28S/4485:4489		No text annotation
geometric
IL_3DD2_004
IL_55516.2
IL_9BDP_2401/A28S/4495:4497,
1/A28S/4503:4505		Isolated non-canonical cWW pair
homologous
IL_8C3A_120
NA
IL_9BDP_2411/A28S/4537:4538,
1/A28S/4547:4549		Single bulged A
geometric
IL_4V88_409
NA
IL_9BDP_2421/A28S/4580:4582,
1/A28S/4721:4723		Isolated cWH basepair
geometric
IL_3CZW_002
NA
IL_9BDP_2431/A28S/4582:4585,
1/A28S/4717:4721		Double sheared
geometric
IL_5TBW_114
NA
IL_9BDP_2441/A28S/4590:4592,
1/A28S/4618:4620		Isolated non-canonical cWW pair
homologous
IL_8C3A_124
NA
IL_9BDP_2451/A28S/4596:4603,
1/A28S/4608:4614		8x7 Sarcin-Ricin; G-bulge
homologous
IL_8C3A_125
NA
IL_9BDP_2461/A28S/4624:4629,
1/A28S/4669:4673		No text annotation
IL_9BDP_2471/A28S/4632:4637,
1/A28S/4662:4666		UAA/GAN related
homologous
IL_5TBW_118
NA
IL_9BDP_2481/A28S/4638:4640,
1/A28S/4659:4661		Isolated cWH basepair
geometric
IL_3R1C_012
IL_10167.6
IL_9BDP_2491/A28S/4641:4642,
1/A28S/4655:4658		Multiple bulged bases
homologous
IL_5TBW_119
NA
IL_9BDP_2501/A28S/4680:4685,
1/A28S/4705:4710		UAA/GAN with extra cWW
geometric
IL_5J7L_350
IL_49767.8
IL_9BDP_2511/A28S/4739:4740,
1/A28S/4958:4960		Single stack bend
geometric
IL_5J7L_032
IL_26793.1
IL_9BDP_3211/A28S/4739:4746,
1/A28S/4954:4960		No text annotation
IL_9BDP_2521/A28S/4740:4746,
1/A28S/4954:4958		No text annotation
IL_9BDP_2531/A28S/4756:4766,
1/A28S/4868:4877		No text annotation
homologous
IL_8P9A_352
IL_42231.1
IL_9BDP_3431/A28S/4769:4771,
1/A28S/4863:4865		Isolated non-canonical cWW pair
geometric
IL_4PDQ_004
IL_87907.2
IL_9BDP_2551/A28S/4771:4773,
1/A28S/4862:4863		Minor groove platform related
geometric
IL_3K0J_002
IL_51454.3
IL_9BDP_2561/A28S/4885:4888,
1/A28S/4931:4934		Tandem non-canonical cWW pairs
geometric
IL_5TBW_128
NA
IL_9BDP_2571/A28S/4890:4896,
1/A28S/4924:4929		No text annotation
IL_9BDP_2581/A28S/4896:4902,
1/A28S/4919:4924		No text annotation
IL_9BDP_2591/A28S/4972:4975,
1/A28S/4983:4986		Tandem non-canonical cWW pairs
homologous
IL_8C3A_135
NA
IL_9BDP_2601/A28S/4992:4994,
1/A28S/5057:5059		Isolated non-canonical cWW pair
geometric
IL_5UNE_007
IL_87907.2
IL_9BDP_2611/A28S/4996:4997,
1/A28S/5053:5055		Single bulged C
geometric
IL_1KUQ_002
IL_61258.15
IL_9BDP_2621/A28S/5000:5002,
1/A28S/5045:5050		Isolated non-canonical cWW pair
homologous
IL_5TBW_132
NA
IL_9BDP_2631/A28S/5003:5009,
1/A28S/5039:5044		No text annotation
IL_9BDP_3221/A28S/5012:5014,
1/A28S/5035:5036		Single bulged U
homologous
IL_8P9A_361
IL_89505.4
IL_9BDP_3231/A28S/5014:5017,
1/A28S/5032:5035		Double sheared; A in syn
homologous
IL_8P9A_362
IL_09705.15
IL_9BDP_3441/A58S/64:66,
1/A58S/92:95		Isolated non-canonical cWW with bulges
homologous
IL_8P9A_371
IL_07785.1
IL_9BDP_2661/A5S/15:16,
1/A5S/62:64		Single bulged A
homologous
IL_8C3A_143
NA
IL_9BDP_2671/A5S/21:27,
1/A5S/52:57		Minor groove platform related
homologous
IL_5TBW_373
NA
IL_9BDP_2681/A5S/28:29,
1/A5S/48:51		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_357
IL_68140.4
IL_9BDP_2691/A5S/32:36,
1/A5S/41:45		Symmetric double minor groove platform
geometric
IL_7RQB_114
NA
IL_9BDP_2701/A5S/71:78,
1/A5S/98:104		8x7 Sarcin-Ricin; G-bulge
homologous
IL_8C3A_148
NA
IL_9BDP_2711/A5S/79:81,
1/A5S/95:97		Isolated non-canonical cWW pair
geometric
IL_5TBW_034
NA
IL_9BDP_2721/A5S/82:85,
1/A5S/92:94		Isolated non-canonical cWW pair
homologous
IL_8C3A_149
NA
IL_9BDP_2731/TIRN/5:7,
1/TIRN/66:68		No text annotation
homologous
IL_4WSM_380
NA

Problematic loops

#loop idProblemSequence
IL_9BDP_007No text annotation
IL_9BDP_012No text annotation
IL_9BDP_275No text annotation
IL_9BDP_017Isolated non-canonical cWW pair
IL_9BDP_018No text annotation
IL_9BDP_022No text annotation
IL_9BDP_026Isolated non-canonical cWW pair
IL_9BDP_029Isolated cWS basepair
IL_9BDP_030No text annotation
IL_9BDP_033Isolated non-canonical cWW pair
IL_9BDP_039Isolated non-canonical cWW pair
IL_9BDP_040Major groove minor groove platform with extra cWW
IL_9BDP_042No text annotation
IL_9BDP_045No text annotation
IL_9BDP_279Isolated non-canonical cWW pair
IL_9BDP_047Isolated cWH basepair
IL_9BDP_280Triple non-canonical cWW pairs
IL_9BDP_281Tandem non-canonical cWW pairs
IL_9BDP_058Isolated non-canonical cWW contact
IL_9BDP_282No text annotation
IL_9BDP_283No text annotation
IL_9BDP_069No text annotation
IL_9BDP_074No text annotation
IL_9BDP_075Tandem non-canonical cWW pairs
IL_9BDP_079Tandem non-canonical cWW pairs
IL_9BDP_084No text annotation
IL_9BDP_289No text annotation
IL_9BDP_088Isolated non-canonical cWW pair
IL_9BDP_290Triple non-canonical cWW pairs
IL_9BDP_091Isolated non-canonical cWW pair
IL_9BDP_094Isolated non-canonical cWW pair
IL_9BDP_291No text annotation
IL_9BDP_096Isolated non-canonical cWW pair
IL_9BDP_098Isolated non-canonical cWW pair
IL_9BDP_099Isolated non-canonical cWW pair
IL_9BDP_294No text annotation
IL_9BDP_295No text annotation
IL_9BDP_107Isolated non-canonical cWW pair
IL_9BDP_108No text annotation
IL_9BDP_296No text annotation
IL_9BDP_297Isolated non-canonical cWW pair
IL_9BDP_298Tandem non-canonical cWW pairs
IL_9BDP_125Other IL
IL_9BDP_126Stack and bulge
IL_9BDP_300No text annotation
IL_9BDP_129No text annotation
IL_9BDP_302No text annotation
IL_9BDP_138No text annotation
IL_9BDP_139No text annotation
IL_9BDP_141Isolated non-canonical cWW pair
IL_9BDP_304Double sheared with non-canonical cWW
IL_9BDP_162No text annotation
IL_9BDP_165No text annotation
IL_9BDP_168No text annotation
IL_9BDP_308UAA/GAN with extra cWW
IL_9BDP_309Partly complementary
IL_9BDP_176Isolated non-canonical cWW pair
IL_9BDP_179No text annotation
IL_9BDP_188No text annotation
IL_9BDP_189Isolated non-canonical cWW pair
IL_9BDP_312Partly complementary
IL_9BDP_192No text annotation
IL_9BDP_200Isolated non-canonical cWW pair
IL_9BDP_317No text annotation
IL_9BDP_318Isolated non-canonical cWW with bulges
IL_9BDP_210Isolated cWH basepair
IL_9BDP_213Multiple bulged bases with near cWW
IL_9BDP_218Isolated non-canonical cWW pair
IL_9BDP_319No text annotation
IL_9BDP_219No text annotation
IL_9BDP_220No text annotation
IL_9BDP_223No text annotation
IL_9BDP_228No text annotation
IL_9BDP_237Isolated non-canonical cWW pair
IL_9BDP_254Tandem non-canonical cWW pairs
IL_9BDP_264No text annotation
IL_9BDP_265No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_9BDP_0201/A18S/40:41,
1/A18S/481:487,
1/A18S/512:514		No text annotation
geometric
J3_4V88_078
NA
J3_9BDP_0211/A18S/40:47,
1/A18S/479:487,
1/A18S/512:514		No text annotation
homologous
J3_8C3A_083
NA
J3_9BDP_0441/A18S/682:684,
1/A18S/918:922,
1/A18S/1022:1023		No text annotation
geometric
J3_8P9A_071
J3_56052.5
J3_9BDP_0451/A18S/682:684,
1/A18S/918:923,
1/A18S/1019:1023		No text annotation
homologous
J3_8P9A_072
J3_17385.4
J3_9BDP_0011/A18S/816:819,
1/A18S/829:831,
1/A18S/843:848		No text annotation
homologous
J3_4V88_032
NA
J3_9BDP_0021/A18S/938:941,
1/A18S/985:993,
1/A18S/1000:1004		No text annotation
homologous
J3_4V88_033
NA
J3_9BDP_0031/A18S/1094:1096,
1/A18S/1136:1140,
1/A18S/1147:1151		No text annotation
J3_9BDP_0241/A18S/1218:1221,
1/A18S/1645:1651,
1/A18S/1673:1680		No text annotation
homologous
J3_8P9A_076
J3_25303.4
J3_9BDP_0251/A18S/1225:1228,
1/A18S/1530:1532,
1/A18S/1638:1641		No text annotation
homologous
J3_8C3A_039
NA
J3_9BDP_0261/A18S/1237:1244,
1/A18S/1255:1266,
1/A18S/1516:1520		No text annotation
homologous
J3_8C3A_040
NA
J3_9BDP_0461/A18S/1270:1277,
1/A18S/1320:1324,
1/A18S/1504:1512		No text annotation
J3_9BDP_0061/A18S/1273:1277,
1/A18S/1320:1324,
1/A18S/1504:1510		No text annotation
J3_9BDP_0071/A18S/1340:1345,
1/A18S/1384:1389,
1/A18S/1481:1486		No text annotation
homologous
J3_8P9A_080
J3_99563.1
J3_9BDP_0281/A18S/1350:1351,
1/A18S/1360:1363,
1/A18S/1375:1379		No text annotation
homologous
J3_8P9A_081
J3_76043.3
J3_9BDP_0081/A18S/1391:1395,
1/A18S/1450:1456,
1/A18S/1470:1479		No text annotation
J3_9BDP_0291/A18S/1391:1399,
1/A18S/1447:1456,
1/A18S/1470:1479		No text annotation
J3_9BDP_0091/A18S/1532:1536,
1/A18S/1597:1604,
1/A18S/1635:1638		No text annotation
homologous
J3_8P9A_084
J3_37047.6
J3_9BDP_0101/A28S/112:116,
1/A28S/155:160,
1/A28S/275:278		No text annotation
J3_9BDP_0301/A28S/351:367,
1/A28S/374:379,
1/A58S/21:24		No text annotation
homologous
J3_8C3A_047
NA
J3_9BDP_0311/A28S/380:387,
1/A28S/414:415,
1/A58S/19:20		No text annotation
geometric
J3_5TBW_002
NA
J3_9BDP_0321/A28S/380:390,
1/A28S/401:415,
1/A58S/19:20		No text annotation
homologous
J3_8C3A_049
NA
J3_9BDP_0331/A28S/448:455,
1/A28S/701:705,
1/A28S/1292:1298		No text annotation
J3_9BDP_0111/A28S/1531:1537,
1/A28S/1622:1624,
1/A28S/1640:1643		No text annotation
homologous
J3_8C3A_003
NA
J3_9BDP_0121/A28S/1545:1548,
1/A28S/1580:1584,
1/A28S/1609:1614		No text annotation
homologous
J3_5TBW_005
NA
J3_9BDP_0341/A28S/1726:1727,
1/A28S/1802:1806,
1/A28S/1832:1837		No text annotation
homologous
J3_8P9A_051
J3_09667.1
J3_9BDP_0131/A28S/2393:2399,
1/A28S/2805:2807,
1/A28S/2819:2822		No text annotation
homologous
J3_8C3A_006
NA
J3_9BDP_0141/A28S/2402:2405,
1/A28S/2785:2791,
1/A28S/2800:2802		No text annotation
homologous
J3_5TBW_009
NA
J3_9BDP_0351/A28S/2440:2445,
1/A28S/2515:2519,
1/A28S/2536:2537		No text annotation
homologous
J3_8P9A_055
J3_31965.2
J3_9BDP_0361/A28S/2451:2456,
1/A28S/2465:2476,
1/A28S/2501:2508		No text annotation
homologous
J3_8C3A_053
NA
J3_9BDP_0151/A28S/2551:2555,
1/A28S/2572:2575,
1/A28S/2757:2767		No text annotation
J3_9BDP_0381/A28S/2575:2576,
1/A28S/2585:2589,
1/A28S/2756:2757		No text annotation
homologous
J3_8C3A_054
NA
J3_9BDP_0471/A28S/2598:2602,
1/A28S/2737:2738,
1/A28S/2742:2747		No text annotation
homologous
J3_8CRE_018
J3_12393.2
J3_9BDP_0161/A28S/3937:3939,
1/A28S/4074:4078,
1/A28S/4168:4173		No text annotation
geometric
J3_7A0S_009
J3_89368.5
J3_9BDP_0171/A28S/4241:4243,
1/A28S/4267:4269,
1/A28S/4278:4283		No text annotation
homologous
J3_5TBW_013
NA
J3_9BDP_0181/A28S/4463:4466,
1/A28S/4491:4493,
1/A28S/4507:4513		No text annotation
homologous
J3_8C3A_011
NA
J3_9BDP_0481/A28S/4749:4754,
1/A28S/4879:4883,
1/A28S/4936:4951		No text annotation
J3_9BDP_0191/A28S/4970:4972,
1/A28S/4986:4992,
1/A28S/5059:5063		No text annotation
J3_9BDP_0411/A28S/4970:4972,
1/A28S/4986:4994,
1/A28S/5057:5063		No text annotation
J3_9BDP_0421/A58S/44:45,
1/A58S/58:64,
1/A58S/95:99		No text annotation
homologous
J3_8C3A_060
NA
J3_9BDP_0431/A5S/9:14,
1/A5S/65:66,
1/A5S/109:110		No text annotation
homologous
J3_8P9A_066
J3_12003.2
J4_9BDP_0011/A18S/98:106,
1/A18S/355:357,
1/A18S/405:409,
1/A18S/431:432		No text annotation
homologous
J4_8C3A_021
NA
J4_9BDP_0021/A18S/665:673,
1/A18S/1032:1037,
1/A18S/1078:1089,
1/A18S/1160:1162		No text annotation
J4_9BDP_0031/A28S/111:112,
1/A28S/278:283,
1/A28S/304:310,
1/A28S/327:330		No text annotation
homologous
J4_8P9A_012
J4_45801.6
J4_9BDP_0041/A28S/196:199,
1/A28S/215:222,
1/A28S/226:228,
1/A28S/240:244		No text annotation
J4_9BDP_0051/A28S/2365:2371,
1/A28S/2389:2391,
1/A28S/2824:2829,
1/A28S/3856:3857		No text annotation
J4_9BDP_0061/A28S/2406:2410,
1/A28S/2434:2439,
1/A28S/2538:2539,
1/A28S/2777:2784		No text annotation
homologous
J4_8C3A_004
NA
J4_9BDP_0071/A28S/2618:2619,
1/A28S/2637:2642,
1/A28S/2692:2698,
1/A28S/2718:2719		No text annotation
J4_9BDP_0151/A28S/3634:3638,
1/A28S/3650:3654,
1/A28S/3690:3694,
1/A28S/3821:3826		No text annotation
homologous
J4_8P9A_017
J4_07509.2
J4_9BDP_0091/A28S/3696:3698,
1/A28S/3752:3753,
1/A28S/3771:3780,
1/A28S/3814:3819		No text annotation
homologous
J4_8C3A_007
NA
J4_9BDP_0161/A28S/4231:4235,
1/A28S/4289:4291,
1/A28S/4318:4319,
1/A28S/4328:4330		No text annotation
J4_9BDP_0111/A28S/4587:4590,
1/A28S/4620:4621,
1/A28S/4676:4678,
1/A28S/4712:4715		No text annotation
J4_9BDP_0171/ETRN/7:10,
1/ETRN/25:27,
1/ETRN/43:49,
1/ETRN/65:66		tRNA junction
homologous
J4_6UFH_001
J4_70449.29
J4_9BDP_0131/PTRN/7:10,
1/PTRN/25:27,
1/PTRN/43:49,
1/PTRN/65:66		tRNA junction
homologous
J4_7VNV_001
J4_70449.29
J4_9BDP_0141/TIRN/5:10,
1/TIRN/25:27,
1/TIRN/43:49,
1/TIRN/65:68		No text annotation
homologous
J4_6GSK_031
J4_13620.1
J5_9BDP_0011/A18S/30:34,
1/A18S/521:527,
1/A18S/558:569,
1/A18S/581:595,
1/A18S/641:644		No text annotation
J5_9BDP_0021/A18S/53:56,
1/A18S/89:96,
1/A18S/434:436,
1/A18S/457:461,
1/A18S/468:474		No text annotation
J5_9BDP_0031/A28S/19:21,
1/A58S/35:42,
1/A58S/101:106,
1/A58S/113:114,
1/A58S/136:138		No text annotation
homologous
J5_8P9A_010
J5_01737.2
J5_9BDP_0041/A28S/1335:1340,
1/A28S/1516:1519,
1/A28S/1658:1661,
1/A28S/2288:2290,
1/A28S/2345:2351		No text annotation
homologous
J5_8C3A_002
NA
J5_9BDP_0051/A28S/2855:2863,
1/A28S/2887:2888,
1/A28S/3613:3614,
1/A28S/3618:3626,
1/A28S/3835:3837		No text annotation
homologous
J5_8C3A_004
NA
J5_9BDP_0071/A28S/3903:3910,
1/A28S/4392:4400,
1/A28S/4444:4453,
1/A28S/4528:4534,
1/A28S/4552:4557		No text annotation
J6_9BDP_0011/A28S/21:26,
1/A28S/57:67,
1/A28S/74:78,
1/A28S/105:109,
1/A28S/332:339,
1/A58S/33:35		No text annotation
J6_9BDP_0021/A28S/1352:1355,
1/A28S/1384:1388,
1/A28S/1395:1399,
1/A28S/1418:1421,
1/A28S/1464:1466,
1/A28S/1499:1504		No text annotation
J6_9BDP_0041/A28S/3920:3923,
1/A28S/4188:4191,
1/A28S/4204:4205,
1/A28S/4227:4230,
1/A28S/4331:4342,
1/A28S/4370:4381		No text annotation
J7_9BDP_0011/A28S/1666:1671,
1/A28S/1684:1685,
1/A28S/1852:1855,
1/A28S/1879:1884,
1/A28S/1895:1899,
1/A28S/2077:2078,
1/A28S/2278:2283		No text annotation

Problematic loops

#loop idProblemSequence
J3_9BDP_022No text annotation
J3_9BDP_023No text annotation
J3_9BDP_004No text annotation
J3_9BDP_005No text annotation
J3_9BDP_027No text annotation
J3_9BDP_037No text annotation
J3_9BDP_039No text annotation
J3_9BDP_040No text annotation
J4_9BDP_008No text annotation
J4_9BDP_010No text annotation
J4_9BDP_012No text annotation
J5_9BDP_006No text annotation
J6_9BDP_003No text annotation

Coloring options:
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