9F1C Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9F1C_001 | 1/A2/7:17 | No text annotation | homologous HL_8C3A_192 NA | |
| HL_9F1C_002 | 1/A2/69:80 | No text annotation | geometric HL_361D_002 NA | |
| HL_9F1C_003 | 1/A2/156:162 | GNRA related | homologous HL_8C3A_194 NA | |
| HL_9F1C_005 | 1/A2/289:296 | T-loop with 1 bulged base | homologous HL_4V88_191 NA | |
| HL_9F1C_007 | 1/A2/378:388 | No text annotation | ||
| HL_9F1C_008 | 1/A2/417:422 | No text annotation | homologous HL_4V88_194 NA | |
| HL_9F1C_009 | 1/A2/442:453 | No text annotation | homologous HL_8C3A_201 NA | |
| HL_9F1C_115 | 1/A2/463:468 | UNCG | homologous HL_8P9A_200 HL_61337.3 | |
| HL_9F1C_011 | 1/A2/499:505 | No text annotation | homologous HL_4V88_197 NA | |
| HL_9F1C_116 | 1/A2/567:585 | No text annotation | ||
| HL_9F1C_013 | 1/A2/570:582 | No text annotation | homologous HL_4V88_199 NA | |
| HL_9F1C_014 | 1/A2/619:624 | GNRA variation | homologous HL_8C3A_206 NA | |
| HL_9F1C_015 | 1/A2/821:829 | No text annotation | homologous HL_8C3A_208 NA | |
| HL_9F1C_016 | 1/A2/835:839 | No text annotation | geometric HL_4V88_198 NA | |
| HL_9F1C_117 | 1/A2/958:967 | No text annotation | homologous HL_8C3A_211 NA | |
| HL_9F1C_019 | 1/A2/995:1000 | GNRA | homologous HL_8C3A_212 NA | |
| HL_9F1C_020 | 1/A2/1055:1065 | No text annotation | homologous HL_4V88_208 NA | |
| HL_9F1C_021 | 1/A2/1115:1120 | No text annotation | ||
| HL_9F1C_022 | 1/A2/1142:1147 | GNRA | homologous HL_4V88_210 NA | |
| HL_9F1C_023 | 1/A2/1179:1184 | GNRA | homologous HL_8C3A_216 NA | |
| HL_9F1C_024 | 1/A2/1246:1255 | No text annotation | geometric HL_4V88_212 NA | |
| HL_9F1C_026 | 1/A2/1354:1359 | GNRA | homologous HL_8C3A_219 NA | |
| HL_9F1C_027 | 1/A2/1367:1374 | T-loop related | homologous HL_8C3A_220 NA | |
| HL_9F1C_029 | 1/A2/1461:1467 | No text annotation | homologous HL_8C3A_222 NA | |
| HL_9F1C_030 | 1/A2/1566:1571 | GNRA | homologous HL_8C3A_223 NA | |
| HL_9F1C_118 | 1/A2/1615:1626 | No text annotation | homologous HL_8P9A_222 HL_50951.1 | |
| HL_9F1C_032 | 1/A2/1659:1667 | No text annotation | homologous HL_4V88_220 NA | |
| HL_9F1C_034 | 1/A2/1848:1853 | GNRA variation | homologous HL_8C3A_227 NA | |
| HL_9F1C_119 | 1/B5/30:52 | No text annotation | ||
| HL_9F1C_035 | 1/B5/37:44 | No text annotation | geometric HL_5TBW_001 NA | |
| HL_9F1C_036 | 1/B5/68:73 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_9F1C_037 | 1/B5/89:95 | No text annotation | homologous HL_5TBW_003 NA | |
| HL_9F1C_038 | 1/B5/131:137 | No text annotation | geometric HL_5TBW_006 NA | |
| HL_9F1C_039 | 1/B5/204:211 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_9F1C_040 | 1/B5/222:226 | No text annotation | homologous HL_5TBW_006 NA | |
| HL_9F1C_041 | 1/B5/230:238 | T-loop with unstacked turn | homologous HL_5TBW_007 NA | |
| HL_9F1C_042 | 1/B5/289:298 | No text annotation | homologous HL_8C3A_008 NA | |
| HL_9F1C_043 | 1/B5/314:323 | Pseudoknot geometry | homologous HL_8C3A_009 NA | |
| HL_9F1C_044 | 1/B5/368:373 | GNRA | homologous HL_8C3A_010 NA | |
| HL_9F1C_120 | 1/B5/393:398 | GNRA | homologous HL_8C3A_011 NA | |
| HL_9F1C_047 | 1/B5/862:870 | No text annotation | ||
| HL_9F1C_049 | 1/B5/1069:1074 | Mini UNCG | geometric HL_6AAX_001 HL_12626.2 | |
| HL_9F1C_121 | 1/B5/1261:1270 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_014 NA | |
| HL_9F1C_122 | 1/B5/1308:1317 | No text annotation | ||
| HL_9F1C_052 | 1/B5/1333:1338 | GNRA | homologous HL_8C3A_016 NA | |
| HL_9F1C_053 | 1/B5/1392:1403 | Pseudoknot geometry | geometric HL_1ZCI_001 HL_94376.3 | |
| HL_9F1C_054 | 1/B5/1435:1439 | Mini UNCG with extended bulge | geometric HL_7A0S_017 HL_90436.3 | |
| HL_9F1C_055 | 1/B5/1516:1521 | GNRA | homologous HL_8C3A_019 NA | |
| HL_9F1C_056 | 1/B5/1548:1557 | No text annotation | homologous HL_8C3A_020 NA | |
| HL_9F1C_057 | 1/B5/1582:1590 | No text annotation | homologous HL_8C3A_021 NA | |
| HL_9F1C_058 | 1/B5/1630:1635 | Externally structured | homologous HL_5TBW_022 NA | |
| HL_9F1C_060 | 1/B5/1755:1762 | No text annotation | homologous HL_5TBW_024 NA | |
| HL_9F1C_061 | 1/B5/1803:1809 | GNRA | homologous HL_8C3A_025 NA | |
| HL_9F1C_062 | 1/B5/1825:1832 | No text annotation | homologous HL_5TBW_026 NA | |
| HL_9F1C_065 | 1/B5/2100:2104 | Mini UNCG | geometric HL_5TBW_071 NA | |
| HL_9F1C_066 | 1/B5/2160:2165 | GNRA | homologous HL_8C3A_030 NA | |
| HL_9F1C_067 | 1/B5/2219:2227 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_031 NA | |
| HL_9F1C_068 | 1/B5/2263:2269 | Pseudoknot geometry with 3' bulge | homologous HL_5TBW_032 NA | |
| HL_9F1C_069 | 1/B5/2301:2306 | GNRA variation | homologous HL_8C3A_033 NA | |
| HL_9F1C_070 | 1/B5/2312:2314 | No text annotation | ||
| HL_9F1C_072 | 1/B5/2366:2375 | No text annotation | homologous HL_8C3A_035 NA | |
| HL_9F1C_074 | 1/B5/2421:2426 | GNRA | homologous HL_8C3A_036 NA | |
| HL_9F1C_123 | 1/B5/2467:2475 | Pseudoknot geometry | homologous HL_8P9A_148 HL_22758.1 | |
| HL_9F1C_076 | 1/B5/2507:2513 | No text annotation | homologous HL_8C3A_038 NA | |
| HL_9F1C_077 | 1/B5/2548:2553 | No text annotation | geometric HL_1WZ2_007 HL_75660.7 | |
| HL_9F1C_078 | 1/B5/2581:2585 | No text annotation | homologous HL_8C3A_040 NA | |
| HL_9F1C_079 | 1/B5/2635:2642 | No text annotation | homologous HL_5TBW_041 NA | |
| HL_9F1C_080 | 1/B5/2653:2659 | GNRA | homologous HL_5TBW_042 NA | |
| HL_9F1C_081 | 1/B5/2715:2720 | UNCG | homologous HL_5TBW_043 NA | |
| HL_9F1C_083 | 1/B5/3346:3350 | No text annotation | homologous HL_8C3A_045 NA | |
| HL_9F1C_124 | 1/B5/3371:3381 | No text annotation | homologous HL_8C3A_046 NA | |
| HL_9F1C_085 | 1/B5/3400:3406 | GNRA variation | geometric HL_4QK9_001 HL_34789.4 | |
| HL_9F1C_125 | 1/B5/3456:3461 | GNRA | homologous HL_8P9A_159 HL_34789.4 | |
| HL_9F1C_087 | 1/B5/3489:3499 | No text annotation | homologous HL_5TBW_049 NA | |
| HL_9F1C_088 | 1/B5/3528:3536 | No text annotation | homologous HL_8C3A_050 NA | |
| HL_9F1C_089 | 1/B5/3605:3614 | No text annotation | homologous HL_5TBW_051 NA | |
| HL_9F1C_092 | 1/B5/3939:3947 | No text annotation | homologous HL_8C3A_055 NA | |
| HL_9F1C_130 | 1/B5/3956:3968 | No text annotation | homologous HL_8P9A_166 HL_02042.1 | |
| HL_9F1C_094 | 1/B5/3996:4004 | No text annotation | homologous HL_8C3A_057 NA | |
| HL_9F1C_095 | 1/B5/4016:4023 | Pseudoknot geometry | homologous HL_8C3A_058 NA | |
| HL_9F1C_096 | 1/B5/4047:4055 | No text annotation | homologous HL_8C3A_059 NA | |
| HL_9F1C_097 | 1/B5/4067:4072 | GNRA | homologous HL_8C3A_060 NA | |
| HL_9F1C_098 | 1/B5/4098:4108 | Pseudoknot geometry | homologous HL_5TBW_060 NA | |
| HL_9F1C_126 | 1/B5/4158:4176 | No text annotation | ||
| HL_9F1C_099 | 1/B5/4163:4171 | No text annotation | homologous HL_5TBW_061 NA | |
| HL_9F1C_131 | 1/B5/4220:4227 | GNRA variation | homologous HL_8P9A_173 HL_46665.2 | |
| HL_9F1C_127 | 1/B5/4241:4251 | No text annotation | ||
| HL_9F1C_101 | 1/B5/4243:4249 | No text annotation | geometric HL_5TBW_063 NA | |
| HL_9F1C_102 | 1/B5/4286:4291 | GNRA | homologous HL_5TBW_064 NA | |
| HL_9F1C_103 | 1/B5/4349:4354 | GNRA | homologous HL_5TBW_065 NA | |
| HL_9F1C_104 | 1/B5/4392:4397 | Ribsomal LSU H95 | homologous HL_8C3A_067 NA | |
| HL_9F1C_105 | 1/B5/4434:4448 | No text annotation | homologous HL_8C3A_068 NA | |
| HL_9F1C_128 | 1/B5/4645:4654 | No text annotation | geometric HL_5ID6_001 HL_69752.4 | |
| HL_9F1C_107 | 1/B5/4714:4722 | No text annotation | homologous HL_8C3A_071 NA | |
| HL_9F1C_129 | 1/B7/32:45 | No text annotation | homologous HL_8C3A_228 NA | |
| HL_9F1C_109 | 1/B7/36:41 | No text annotation | geometric HL_5TBW_185 NA | |
| HL_9F1C_110 | 1/B7/86:91 | GNRA | homologous HL_8C3A_074 NA | |
| HL_9F1C_111 | 1/B8/47:56 | No text annotation | geometric HL_7RQB_001 NA | |
| HL_9F1C_112 | 1/B8/68:90 | No text annotation | homologous HL_8C3A_075 NA | |
| HL_9F1C_113 | 1/B8/107:112 | No text annotation | homologous HL_8C3A_076 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9F1C_004 | GNRA | ||
| HL_9F1C_006 | No text annotation | ||
| HL_9F1C_010 | No text annotation | ||
| HL_9F1C_012 | No text annotation | ||
| HL_9F1C_017 | Pseudoknot geometry | ||
| HL_9F1C_018 | No text annotation | ||
| HL_9F1C_025 | Anticodon loop related | ||
| HL_9F1C_028 | Mini UNCG | ||
| HL_9F1C_031 | No text annotation | ||
| HL_9F1C_033 | No text annotation | ||
| HL_9F1C_045 | tRNA anticodon loop | ||
| HL_9F1C_046 | UNCG | ||
| HL_9F1C_048 | No text annotation | ||
| HL_9F1C_050 | No text annotation | ||
| HL_9F1C_051 | No text annotation | ||
| HL_9F1C_059 | No text annotation | ||
| HL_9F1C_063 | No text annotation | ||
| HL_9F1C_064 | GNRA wlth tandem sheared | ||
| HL_9F1C_071 | No text annotation | ||
| HL_9F1C_073 | GNRA | ||
| HL_9F1C_075 | No text annotation | ||
| HL_9F1C_082 | No text annotation | ||
| HL_9F1C_084 | No text annotation | ||
| HL_9F1C_086 | No text annotation | ||
| HL_9F1C_090 | No text annotation | ||
| HL_9F1C_091 | No text annotation | ||
| HL_9F1C_093 | No text annotation | ||
| HL_9F1C_100 | tRNA anticodon loop | ||
| HL_9F1C_106 | No text annotation | ||
| HL_9F1C_108 | Mini UNCG | ||
| HL_9F1C_114 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9F1C_306 | 1/A2/23:25, 1/A2/650:652 | Isolated non-canonical cWW pair | geometric IL_8C3A_427 NA | |
| IL_9F1C_307 | 1/A2/34:36, 1/A2/520:522 | Isolated non-canonical cWW pair | homologous IL_8C3A_393 NA | |
| IL_9F1C_003 | 1/A2/37:40, 1/A2/515:519 | Double sheared | geometric IL_4WF9_016 IL_58355.2 | |
| IL_9F1C_004 | 1/A2/41:47, 1/A2/480:482 | No text annotation | homologous IL_8C3A_395 NA | |
| IL_9F1C_005 | 1/A2/49:51, 1/A2/477:478 | Minor groove platform | homologous IL_8C3A_396 NA | |
| IL_9F1C_006 | 1/A2/57:62, 1/A2/86:88 | No text annotation | homologous IL_4V88_389 NA | |
| IL_9F1C_308 | 1/A2/63:68, 1/A2/81:85 | No text annotation | homologous IL_8P9A_379 IL_21667.2 | |
| IL_9F1C_009 | 1/A2/108:110, 1/A2/352:354 | Isolated non-canonical cWW pair | geometric IL_1ZX7_006 IL_71625.3 | |
| IL_9F1C_370 | 1/A2/108:115, 1/A2/349:354 | No text annotation | ||
| IL_9F1C_010 | 1/A2/110:112, 1/A2/350:352 | No text annotation | geometric IL_1N33_070 NA | |
| IL_9F1C_011 | 1/A2/112:115, 1/A2/349:350 | Multiple bulged bases | geometric IL_5WLH_001 IL_71421.2 | |
| IL_9F1C_310 | 1/A2/116:121, 1/A2/344:348 | No text annotation | homologous IL_8C3A_401 NA | |
| IL_9F1C_311 | 1/A2/145:151, 1/A2/167:174 | No text annotation | homologous IL_8C3A_402 NA | |
| IL_9F1C_312 | 1/A2/152:154, 1/A2/164:166 | No text annotation | homologous IL_8P9A_384 IL_87720.1 | |
| IL_9F1C_371 | 1/A2/216:219, 1/A2/303:310 | No text annotation | ||
| IL_9F1C_018 | 1/A2/313:315, 1/A2/337:338 | Single bulged A | homologous IL_4V88_399 NA | |
| IL_9F1C_314 | 1/A2/318:320, 1/A2/333:334 | Single stack bend | geometric IL_5TBW_375 NA | |
| IL_9F1C_020 | 1/A2/360:365, 1/A2/397:404 | Kink-turn with non-sequential stacking | homologous IL_8C3A_410 NA | |
| IL_9F1C_021 | 1/A2/367:372, 1/A2/394:395 | No text annotation | homologous IL_8C3A_411 NA | |
| IL_9F1C_022 | 1/A2/412:414, 1/A2/425:430 | No text annotation | homologous IL_8C3A_412 NA | |
| IL_9F1C_023 | 1/A2/438:440, 1/A2/455:457 | Isolated cWH basepair | homologous IL_8C3A_413 NA | |
| IL_9F1C_315 | 1/A2/460:462, 1/A2/469:471 | Isolated non-canonical cWW pair | homologous IL_8C3A_414 NA | |
| IL_9F1C_316 | 1/A2/488:490, 1/A2/512:513 | Single bulged U | homologous IL_8P9A_396 IL_97561.3 | |
| IL_9F1C_024 | 1/A2/491:496, 1/A2/509:511 | No text annotation | ||
| IL_9F1C_317 | 1/A2/492:497, 1/A2/507:510 | C-loop with extra cWW pair | geometric IL_4V88_408 NA | |
| IL_9F1C_025 | 1/A2/496:497, 1/A2/507:509 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_9F1C_028 | 1/A2/564:566, 1/A2/586:593 | No text annotation | homologous IL_8C3A_420 NA | |
| IL_9F1C_029 | 1/A2/567:570, 1/A2/582:585 | Tandem non-canonical cWW pairs | geometric IL_6JDV_001 IL_71194.2 | |
| IL_9F1C_030 | 1/A2/600:607, 1/A2/637:638 | SSU/LSU pseudoknot | geometric IL_4V88_413 NA | |
| IL_9F1C_031 | 1/A2/607:609, 1/A2/636:637 | Single bulged U | geometric IL_7RQB_038 NA | |
| IL_9F1C_033 | 1/A2/612:618, 1/A2/625:633 | Kink-turn related | homologous IL_4V88_415 NA | |
| IL_9F1C_034 | 1/A2/664:666, 1/A2/1163:1165 | Isolated non-canonical cWW pair | geometric IL_1Y27_001 IL_01003.3 | |
| IL_9F1C_035 | 1/A2/666:672, 1/A2/1162:1163 | No text annotation | homologous IL_8C3A_426 NA | |
| IL_9F1C_036 | 1/A2/674:676, 1/A2/1031:1033 | Isolated non-canonical cWW pair | homologous IL_8C3A_427 NA | |
| IL_9F1C_037 | 1/A2/677:681, 1/A2/1026:1030 | tSH-tHW-tHS | homologous IL_8C3A_428 NA | |
| IL_9F1C_319 | 1/A2/803:804, 1/A2/861:864 | Major groove minor groove platform; mini C-loop | homologous IL_8C3A_430 NA | |
| IL_9F1C_044 | 1/A2/806:808, 1/A2/857:859 | Isolated non-canonical cWW pair | homologous IL_8C3A_431 NA | |
| IL_9F1C_372 | 1/A2/808:816, 1/A2/850:857 | No text annotation | homologous IL_8CRE_430 IL_59049.2 | |
| IL_9F1C_046 | 1/A2/834:835, 1/A2/839:842 | Multiple bulged bases | geometric IL_7RQB_106 NA | |
| IL_9F1C_047 | 1/A2/875:877, 1/A2/911:913 | Isolated non-canonical cWW pair | geometric IL_5Y85_006 IL_01003.3 | |
| IL_9F1C_049 | 1/A2/923:924, 1/A2/1020:1023 | Major groove platform; stack outside cWW | homologous IL_4V88_428 NA | |
| IL_9F1C_320 | 1/A2/926:928, 1/A2/1015:1018 | Isolated cWH basepair | homologous IL_8C3A_510 NA | |
| IL_9F1C_321 | 1/A2/929:932, 1/A2/1011:1014 | Tandem non-canonical cWW pairs | homologous IL_8P9A_419 IL_15225.2 | |
| IL_9F1C_052 | 1/A2/932:936, 1/A2/1008:1011 | Tandem non-canonical cWW pairs | geometric IL_4V88_431 NA | |
| IL_9F1C_053 | 1/A2/943:946, 1/A2/982:985 | Tandem non-canonical cWW pairs | homologous IL_8C3A_439 NA | |
| IL_9F1C_054 | 1/A2/953:957, 1/A2/968:975 | Kink-turn | geometric IL_4V88_434 NA | |
| IL_9F1C_055 | 1/A2/1043:1048, 1/A2/1072:1074 | Other IL | geometric IL_4V88_435 NA | |
| IL_9F1C_056 | 1/A2/1048:1052, 1/A2/1068:1072 | tSH-tHW-tHS | homologous IL_8C3A_442 NA | |
| IL_9F1C_057 | 1/A2/1092:1094, 1/A2/1153:1159 | No text annotation | homologous IL_8C3A_443 NA | |
| IL_9F1C_058 | 1/A2/1099:1102, 1/A2/1132:1135 | Tandem non-canonical cWW pairs | homologous IL_8C3A_444 NA | |
| IL_9F1C_322 | 1/A2/1099:1104, 1/A2/1130:1135 | No text annotation | geometric IL_6O5F_001 NA | |
| IL_9F1C_059 | 1/A2/1102:1104, 1/A2/1130:1132 | Isolated non-canonical cWW pair | geometric IL_4E59_001 IL_01003.3 | |
| IL_9F1C_060 | 1/A2/1109:1111, 1/A2/1124:1125 | Minor groove platform | geometric IL_4V88_412 NA | |
| IL_9F1C_061 | 1/A2/1169:1176, 1/A2/1187:1192 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_8C3A_446 NA | |
| IL_9F1C_063 | 1/A2/1204:1205, 1/A2/1695:1697 | Single bulged A | homologous IL_4V88_441 NA | |
| IL_9F1C_323 | 1/A2/1207:1209, 1/A2/1692:1693 | Single bulged G | homologous IL_8C3A_448 NA | |
| IL_9F1C_065 | 1/A2/1215:1218, 1/A2/1682:1686 | C-loop | homologous IL_8C3A_449 NA | |
| IL_9F1C_324 | 1/A2/1231:1233, 1/A2/1527:1529 | Isolated non-canonical cWW pair | homologous IL_8C3A_450 NA | |
| IL_9F1C_068 | 1/A2/1236:1237, 1/A2/1522:1524 | Minor groove platform | homologous IL_4V88_445 NA | |
| IL_9F1C_069 | 1/A2/1271:1273, 1/A2/1511:1513 | Isolated non-canonical cWW pair | geometric IL_5MWI_003 IL_01003.3 | |
| IL_9F1C_325 | 1/A2/1326:1328, 1/A2/1503:1504 | Single bulged U | homologous IL_8C3A_455 NA | |
| IL_9F1C_073 | 1/A2/1330:1334, 1/A2/1499:1501 | Isolated cWS basepair | geometric IL_4V88_450 NA | |
| IL_9F1C_326 | 1/A2/1330:1336, 1/A2/1493:1501 | No text annotation | homologous IL_8P9A_439 IL_99893.1 | |
| IL_9F1C_074 | 1/A2/1334:1336, 1/A2/1493:1499 | Minor groove platform with extra cWW | homologous IL_4V88_451 NA | |
| IL_9F1C_327 | 1/A2/1338:1339, 1/A2/1489:1491 | Single bulged A | homologous IL_8C3A_458 NA | |
| IL_9F1C_328 | 1/A2/1348:1350, 1/A2/1381:1383 | Isolated cWH basepair | homologous IL_8P9A_442 IL_10892.2 | |
| IL_9F1C_077 | 1/A2/1364:1366, 1/A2/1375:1376 | Minor groove platform | homologous IL_8C3A_460 NA | |
| IL_9F1C_329 | 1/A2/1396:1400, 1/A2/1448:1451 | No text annotation | ||
| IL_9F1C_080 | 1/A2/1403:1406, 1/A2/1442:1445 | Minor groove platform | homologous IL_4V88_456 NA | |
| IL_9F1C_082 | 1/A2/1413:1414, 1/A2/1428:1430 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_9F1C_084 | 1/A2/1538:1540, 1/A2/1595:1597 | Isolated non-canonical cWW pair | geometric IL_3SZX_002 IL_01003.3 | |
| IL_9F1C_330 | 1/A2/1542:1551, 1/A2/1583:1593 | No text annotation | ||
| IL_9F1C_085 | 1/A2/1551:1559, 1/A2/1578:1583 | 180 degree turn | geometric IL_5J7L_055 NA | |
| IL_9F1C_086 | 1/A2/1561:1563, 1/A2/1574:1576 | Isolated non-canonical cWW pair | homologous IL_8C3A_468 NA | |
| IL_9F1C_087 | 1/A2/1605:1611, 1/A2/1630:1636 | No text annotation | homologous IL_8C3A_469 NA | |
| IL_9F1C_088 | 1/A2/1701:1703, 1/A2/1834:1837 | No text annotation | homologous IL_8C3A_470 NA | |
| IL_9F1C_089 | 1/A2/1703:1706, 1/A2/1830:1834 | No text annotation | geometric IL_4V88_464 NA | |
| IL_9F1C_090 | 1/A2/1707:1709, 1/A2/1827:1829 | Isolated non-canonical cWW pair | geometric IL_4V88_465 NA | |
| IL_9F1C_091 | 1/A2/1709:1712, 1/A2/1823:1827 | Tandem non-canonical cWW pairs | geometric IL_5J7L_033 NA | |
| IL_9F1C_092 | 1/A2/1715:1717, 1/A2/1818:1820 | Isolated non-canonical cWW pair | homologous IL_8C3A_474 NA | |
| IL_9F1C_093 | 1/A2/1718:1721, 1/A2/1814:1817 | Double sheared | homologous IL_8C3A_475 NA | |
| IL_9F1C_094 | 1/A2/1721:1723, 1/A2/1813:1814 | Single bulged U | geometric IL_4V88_469 NA | |
| IL_9F1C_096 | 1/A2/1730:1732, 1/A2/1804:1806 | Isolated non-canonical cWW pair | homologous IL_8C3A_477 NA | |
| IL_9F1C_097 | 1/A2/1734:1737, 1/A2/1799:1802 | Double sheared | homologous IL_8C3A_478 NA | |
| IL_9F1C_098 | 1/A2/1740:1742, 1/A2/1794:1796 | Isolated non-canonical cWW pair | geometric IL_4E48_002 IL_01003.3 | |
| IL_9F1C_099 | 1/A2/1743:1747, 1/A2/1789:1793 | Triple sheared | homologous IL_8C3A_480 NA | |
| IL_9F1C_105 | 1/B5/6:7, 1/B8/149:151 | Single bulged C | homologous IL_8C3A_002 NA | |
| IL_9F1C_106 | 1/B5/12:14, 1/B8/143:144 | Single bulged U | homologous IL_8C3A_003 NA | |
| IL_9F1C_107 | 1/B5/16:18, 1/B8/139:141 | No text annotation | geometric IL_3ICQ_003 NA | |
| IL_9F1C_108 | 1/B5/26:27, 1/B5/55:57 | No text annotation | homologous IL_8C3A_004 NA | |
| IL_9F1C_109 | 1/B5/30:37, 1/B5/44:52 | 9x8 Sarcin-Ricin; G-bulge | geometric IL_4WF9_008 IL_93502.1 | |
| IL_9F1C_110 | 1/B5/81:88, 1/B5/96:102 | No text annotation | homologous IL_8C3A_006 NA | |
| IL_9F1C_111 | 1/B5/118:121, 1/B5/152:153 | Major groove intercalation | geometric IL_1NBS_009 IL_71421.2 | |
| IL_9F1C_332 | 1/B5/118:122, 1/B5/147:153 | No text annotation | ||
| IL_9F1C_112 | 1/B5/121:122, 1/B5/147:152 | No text annotation | geometric IL_4V9F_009 IL_10396.1 | |
| IL_9F1C_113 | 1/B5/125:126, 1/B5/142:144 | Single bulged C | geometric IL_1DQF_001 NA | |
| IL_9F1C_114 | 1/B5/168:173, 1/B5/263:267 | No text annotation | ||
| IL_9F1C_117 | 1/B5/195:196, 1/B5/244:246 | Single bulged C | geometric IL_1DQF_001 NA | |
| IL_9F1C_118 | 1/B5/199:201, 1/B5/214:215 | Single bulged U | homologous IL_8C3A_013 NA | |
| IL_9F1C_119 | 1/B5/339:342, 1/B8/32:33 | Minor groove platform, major groove intercalation | geometric IL_1U9S_005 IL_55206.1 | |
| IL_9F1C_120 | 1/B5/348:350, 1/B8/25:26 | Single bulged A | homologous IL_8C3A_014 NA | |
| IL_9F1C_121 | 1/B5/387:390, 1/B5/401:414 | No text annotation | homologous IL_5TBW_014 NA | |
| IL_9F1C_123 | 1/B5/415:421, 1/B8/13:19 | Triple sheared with non-canonical cWW | homologous IL_8C3A_016 NA | |
| IL_9F1C_124 | 1/B5/443:446, 1/B5/1244:1248 | No text annotation | ||
| IL_9F1C_125 | 1/B5/448:450, 1/B5/1241:1242 | Single bulged C | geometric IL_4C7O_003 IL_05642.2 | |
| IL_9F1C_127 | 1/B5/462:464, 1/B5/685:687 | Isolated non-canonical cWW pair | geometric IL_5TBW_042 NA | |
| IL_9F1C_128 | 1/B5/466:472, 1/B5/676:683 | No text annotation | ||
| IL_9F1C_129 | 1/B5/481:483, 1/B5/666:667 | Single bulged U | geometric IL_2R8S_004 IL_97561.3 | |
| IL_9F1C_131 | 1/B5/488:489, 1/B5/659:663 | Multiple bulged bases | geometric IL_1R3E_001 IL_05670.1 | |
| IL_9F1C_132 | 1/B5/492:494, 1/B5/655:656 | Single bulged U | geometric IL_3WBM_001 IL_97561.3 | |
| IL_9F1C_134 | 1/B5/501:506, 1/B5/648:649 | Multiple bulged bases | geometric IL_1R3E_001 IL_05670.1 | |
| IL_9F1C_135 | 1/B5/510:512, 1/B5/643:644 | Single bulged A | geometric IL_6WPI_001 IL_14190.2 | |
| IL_9F1C_141 | 1/B5/703:704, 1/B5/1230:1232 | Single bulged G | geometric IL_4LFB_036 IL_28408.2 | |
| IL_9F1C_142 | 1/B5/717:718, 1/B5/842:845 | Multiple bulged bases | geometric IL_1R3E_001 IL_05670.1 | |
| IL_9F1C_143 | 1/B5/721:725, 1/B5/838:839 | No text annotation | ||
| IL_9F1C_144 | 1/B5/726:729, 1/B5/827:837 | No text annotation | ||
| IL_9F1C_145 | 1/B5/731:734, 1/B5/822:825 | No text annotation | geometric IL_5J7L_341 NA | |
| IL_9F1C_146 | 1/B5/740:747, 1/B5/808:816 | No text annotation | geometric IL_8C3A_022 NA | |
| IL_9F1C_148 | 1/B5/988:989, 1/B5/1123:1125 | Single bulged A | geometric IL_2VPL_002 IL_14190.2 | |
| IL_9F1C_151 | 1/B5/1001:1002, 1/B5/1100:1102 | Single bulged C | geometric IL_3W3S_001 IL_05642.2 | |
| IL_9F1C_156 | 1/B5/1301:1304, 1/B5/1323:1326 | No text annotation | ||
| IL_9F1C_335 | 1/B5/1301:1305, 1/B5/1320:1326 | No text annotation | ||
| IL_9F1C_157 | 1/B5/1304:1305, 1/B5/1320:1323 | Major groove intercalation | geometric IL_1U9S_003 IL_71421.2 | |
| IL_9F1C_158 | 1/B5/1380:1384, 1/B5/1410:1415 | Triple sheared related | geometric IL_4V9F_018 IL_67427.1 | |
| IL_9F1C_159 | 1/B5/1386:1389, 1/B5/1405:1408 | Double sheared | geometric IL_4LFB_060 IL_58355.2 | |
| IL_9F1C_160 | 1/B5/1390:1392, 1/B5/1403:1404 | Single bulged C | geometric IL_1S03_006 IL_05642.2 | |
| IL_9F1C_161 | 1/B5/1422:1423, 1/B5/1451:1453 | Single bulged A | homologous IL_5TBW_024 NA | |
| IL_9F1C_162 | 1/B5/1429:1431, 1/B5/1444:1445 | Single base bend | geometric IL_5IBB_340 IL_15011.2 | |
| IL_9F1C_163 | 1/B5/1434:1435, 1/B5/1439:1441 | No text annotation | ||
| IL_9F1C_336 | 1/B5/1475:1477, 1/B5/1610:1612 | Isolated non-canonical cWW pair | homologous IL_8C3A_029 NA | |
| IL_9F1C_337 | 1/B5/1477:1481, 1/B5/1603:1610 | No text annotation | homologous IL_8C3A_030 NA | |
| IL_9F1C_165 | 1/B5/1500:1501, 1/B5/1567:1569 | Single bulged A | geometric IL_7RQB_019 NA | |
| IL_9F1C_166 | 1/B5/1505:1506, 1/B5/1531:1533 | Single bulged G | geometric IL_4V9F_026 IL_28408.2 | |
| IL_9F1C_167 | 1/B5/1506:1510, 1/B5/1527:1531 | Triple sheared | homologous IL_8C3A_033 NA | |
| IL_9F1C_168 | 1/B5/1541:1544, 1/B5/1560:1562 | Major groove platform with extra cWW | homologous IL_8C3A_034 NA | |
| IL_9F1C_169 | 1/B5/1545:1547, 1/B5/1558:1559 | Single bulged U | homologous IL_8C3A_035 NA | |
| IL_9F1C_170 | 1/B5/1579:1581, 1/B5/1591:1595 | Multiple bulged bases | geometric IL_5TBW_033 NA | |
| IL_9F1C_171 | 1/B5/1626:1628, 1/B5/1637:1639 | Isolated non-canonical cWW pair | homologous IL_8C3A_037 NA | |
| IL_9F1C_172 | 1/B5/1641:1643, 1/B5/1787:1790 | No text annotation | ||
| IL_9F1C_173 | 1/B5/1649:1660, 1/B5/1780:1781 | No text annotation | ||
| IL_9F1C_174 | 1/B5/1662:1664, 1/B5/1777:1778 | Single bulged G | homologous IL_8C3A_040 NA | |
| IL_9F1C_176 | 1/B5/1671:1677, 1/B5/1729:1736 | No text annotation | ||
| IL_9F1C_338 | 1/B5/1678:1683, 1/B5/1725:1728 | C-loop with bulged stacked A's | homologous IL_8C3A_043 NA | |
| IL_9F1C_377 | 1/B5/1685:1690, 1/B5/1718:1723 | No text annotation | geometric IL_3IGI_015 IL_95349.1 | |
| IL_9F1C_340 | 1/B5/1692:1695, 1/B5/1715:1716 | Major groove minor groove platform; mini C-loop | geometric IL_4LFB_025 IL_73108.2 | |
| IL_9F1C_182 | 1/B5/1753:1755, 1/B5/1762:1763 | Single bulged G | geometric IL_4V88_442 NA | |
| IL_9F1C_341 | 1/B5/1797:1799, 1/B5/1813:1815 | Isolated non-canonical cWW pair | homologous IL_8P9A_274 IL_01003.3 | |
| IL_9F1C_185 | 1/B5/1844:1848, 1/B5/2006:2010 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_9F1C_343 | 1/B5/1850:1857, 1/B5/2003:2004 | SSU/LSU pseudoknot | homologous IL_8C3A_052 NA | |
| IL_9F1C_344 | 1/B5/1857:1859, 1/B5/2002:2003 | No text annotation | ||
| IL_9F1C_187 | 1/B5/1859:1861, 1/B5/2001:2002 | No text annotation | ||
| IL_9F1C_188 | 1/B5/1865:1872, 1/B5/1992:1997 | No text annotation | geometric IL_5TBW_051 NA | |
| IL_9F1C_189 | 1/B5/1872:1883, 1/B5/1977:1992 | No text annotation | geometric IL_5TBW_052 NA | |
| IL_9F1C_190 | 1/B5/1885:1887, 1/B5/1974:1975 | Single bulged U | homologous IL_5TBW_053 NA | |
| IL_9F1C_191 | 1/B5/1896:1904, 1/B5/1961:1965 | Kink-turn | homologous IL_5TBW_054 NA | |
| IL_9F1C_194 | 1/B5/2022:2024, 1/B5/2115:2116 | Single bulged U | geometric IL_6CZR_156 NA | |
| IL_9F1C_195 | 1/B5/2133:2135, 1/B5/2185:2188 | Isolated cWS basepair | homologous IL_5TBW_057 NA | |
| IL_9F1C_196 | 1/B5/2142:2144, 1/B5/2177:2178 | Single bulged A | homologous IL_8C3A_062 NA | |
| IL_9F1C_197 | 1/B5/2145:2152, 1/B5/2172:2176 | Kink-turn | homologous IL_8C3A_063 NA | |
| IL_9F1C_198 | 1/B5/2155:2157, 1/B5/2168:2169 | Single bulged A | homologous IL_5TBW_060 NA | |
| IL_9F1C_345 | 1/B5/2201:2207, 1/B5/3590:3595 | No text annotation | homologous IL_8C3A_065 NA | |
| IL_9F1C_200 | 1/B5/2249:2252, 1/B5/2626:2627 | Major groove platform; stack outside cWW | geometric IL_7A0S_046 IL_74641.2 | |
| IL_9F1C_346 | 1/B5/2258:2262, 1/B5/2270:2272 | C-loop | homologous IL_8P9A_290 IL_63596.12 | |
| IL_9F1C_202 | 1/B5/2289:2293, 1/B5/2352:2357 | UAA/GAN | homologous IL_5TBW_063 NA | |
| IL_9F1C_205 | 1/B5/2385:2390, 1/B5/2615:2617 | No text annotation | homologous IL_8C3A_070 NA | |
| IL_9F1C_206 | 1/B5/2392:2393, 1/B5/2611:2613 | Single bulged U | geometric IL_2R8S_004 IL_97561.3 | |
| IL_9F1C_208 | 1/B5/2432:2436, 1/B5/2595:2599 | Triple sheared | homologous IL_5TBW_067 NA | |
| IL_9F1C_210 | 1/B5/2456:2457, 1/B5/2567:2569 | Single bulged A | geometric IL_7A0S_012 IL_14190.2 | |
| IL_9F1C_211 | 1/B5/2457:2458, 1/B5/2565:2567 | Single stack bend | homologous IL_8C3A_076 NA | |
| IL_9F1C_212 | 1/B5/2489:2491, 1/B5/2528:2531 | Isolated tHS basepair with bulges | geometric IL_4V9F_076 IL_87316.2 | |
| IL_9F1C_213 | 1/B5/2494:2496, 1/B5/2524:2525 | Single bulged G | geometric IL_3NDB_004 NA | |
| IL_9F1C_214 | 1/B5/2499:2505, 1/B5/2515:2521 | Kink-turn | homologous IL_5TBW_073 NA | |
| IL_9F1C_215 | 1/B5/2547:2548, 1/B5/2553:2555 | No text annotation | ||
| IL_9F1C_347 | 1/B5/2675:2681, 1/B5/3582:3585 | No text annotation | homologous IL_8P9A_302 IL_89862.1 | |
| IL_9F1C_348 | 1/B5/2687:2689, 1/B5/3574:3576 | No text annotation | homologous IL_8C3A_081 NA | |
| IL_9F1C_349 | 1/B5/2690:2693, 1/B5/3572:3573 | Major groove platform; stack outside cWW | geometric IL_8C3A_082 NA | |
| IL_9F1C_350 | 1/B5/2690:2698, 1/B5/3569:3573 | No text annotation | homologous IL_8C3A_484 NA | |
| IL_9F1C_219 | 1/B5/2693:2698, 1/B5/3569:3572 | No text annotation | homologous IL_8C3A_083 NA | |
| IL_9F1C_220 | 1/B5/2710:2715, 1/B5/2720:2726 | tSH-tSH-tHH-tHS | geometric IL_4V9F_063 IL_20700.1 | |
| IL_9F1C_221 | 1/B5/2732:2734, 1/B5/3342:3344 | Isolated non-canonical cWW pair | homologous IL_5TBW_079 NA | |
| IL_9F1C_222 | 1/B5/2739:2740, 1/B5/3334:3337 | No text annotation | homologous IL_8C3A_086 NA | |
| IL_9F1C_225 | 1/B5/3364:3365, 1/B5/3559:3561 | Single bulged A | geometric IL_4V9F_064 IL_14190.2 | |
| IL_9F1C_226 | 1/B5/3392:3397, 1/B5/3409:3416 | Kink-turn related | homologous IL_5TBW_083 NA | |
| IL_9F1C_229 | 1/B5/3432:3435, 1/B5/3481:3482 | Major groove intercalation | homologous IL_5TBW_084 NA | |
| IL_9F1C_378 | 1/B5/3436:3437, 1/B5/3477:3480 | No text annotation | homologous IL_8CRE_090 NA | |
| IL_9F1C_231 | 1/B5/3440:3442, 1/B5/3473:3474 | Single stack bend | homologous IL_8C3A_091 NA | |
| IL_9F1C_232 | 1/B5/3442:3446, 1/B5/3471:3473 | Minor groove platform with extra cWW | geometric IL_4WF9_003 IL_82096.1 | |
| IL_9F1C_352 | 1/B5/3447:3453, 1/B5/3464:3470 | No text annotation | homologous IL_8P9A_316 IL_65359.1 | |
| IL_9F1C_236 | 1/B5/3512:3513, 1/B5/3543:3546 | Bulged stacked bases | geometric IL_5TBW_089 NA | |
| IL_9F1C_353 | 1/B5/3513:3524, 1/B5/3540:3543 | No text annotation | homologous IL_8C3A_095 NA | |
| IL_9F1C_239 | 1/B5/3627:3630, 1/B5/4309:4311 | Major groove platform with extra pair | geometric IL_5TBW_091 NA | |
| IL_9F1C_241 | 1/B5/3632:3634, 1/B5/4304:4307 | Major groove platform with intercalation | geometric IL_5TBW_092 NA | |
| IL_9F1C_242 | 1/B5/3645:3647, 1/B5/4134:4135 | Single bulged U | homologous IL_8C3A_098 NA | |
| IL_9F1C_243 | 1/B5/3648:3649, 1/B5/4130:4133 | Minor groove platform | homologous IL_5TBW_094 NA | |
| IL_9F1C_245 | 1/B5/3659:3661, 1/B5/3927:3930 | No text annotation | homologous IL_8C3A_100 NA | |
| IL_9F1C_248 | 1/B5/3810:3816, 1/B5/3907:3910 | No text annotation | homologous IL_5TBW_096 NA | |
| IL_9F1C_250 | 1/B5/3861:3863, 1/B5/3895:3897 | Isolated cWH basepair | geometric IL_4E5C_001 IL_10892.2 | |
| IL_9F1C_252 | 1/B5/3937:3938, 1/B5/3948:3950 | Single bulged A | homologous IL_5TBW_098 NA | |
| IL_9F1C_253 | 1/B5/3989:3991, 1/B5/4009:4013 | No text annotation | homologous IL_8C3A_108 NA | |
| IL_9F1C_355 | 1/B5/4037:4039, 1/B5/4063:4064 | Single bulged A | geometric IL_8C3A_014 NA | |
| IL_9F1C_356 | 1/B5/4041:4044, 1/B5/4058:4061 | Tandem non-canonical cWW pairs | homologous IL_8P9A_327 IL_15225.2 | |
| IL_9F1C_256 | 1/B5/4093:4096, 1/B5/4110:4111 | Single stack bend | geometric IL_7RQB_058 NA | |
| IL_9F1C_357 | 1/B5/4146:4149, 1/B5/4186:4190 | No text annotation | homologous IL_8C3A_111 NA | |
| IL_9F1C_358 | 1/B5/4149:4151, 1/B5/4185:4186 | Major groove platform | homologous IL_8C3A_112 NA | |
| IL_9F1C_359 | 1/B5/4151:4153, 1/B5/4181:4185 | Major groove minor groove platform with extra cWW | homologous IL_8C3A_113 NA | |
| IL_9F1C_260 | 1/B5/4158:4162, 1/B5/4172:4176 | No text annotation | homologous IL_8C3A_114 NA | |
| IL_9F1C_261 | 1/B5/4199:4200, 1/B5/4272:4274 | Major groove platform | homologous IL_5TBW_107 NA | |
| IL_9F1C_360 | 1/B5/4202:4204, 1/B5/4266:4270 | Isolated non-canonical cWW with bulges | homologous IL_8P9A_335 IL_68118.3 | |
| IL_9F1C_263 | 1/B5/4204:4205, 1/B5/4263:4266 | Multiple bulged bases | geometric IL_5TBW_109 NA | |
| IL_9F1C_264 | 1/B5/4212:4214, 1/B5/4235:4237 | Isolated non-canonical cWW pair | homologous IL_8C3A_118 NA | |
| IL_9F1C_361 | 1/B5/4212:4216, 1/B5/4231:4237 | No text annotation | ||
| IL_9F1C_265 | 1/B5/4214:4216, 1/B5/4231:4235 | No text annotation | ||
| IL_9F1C_268 | 1/B5/4241:4243, 1/B5/4249:4251 | Isolated non-canonical cWW pair | geometric IL_5TBW_112 NA | |
| IL_9F1C_270 | 1/B5/4283:4284, 1/B5/4293:4295 | Single bulged A | geometric IL_7RQB_101 NA | |
| IL_9F1C_273 | 1/B5/4326:4328, 1/B5/4467:4469 | Isolated cWH basepair | geometric IL_4E5C_001 IL_10892.2 | |
| IL_9F1C_274 | 1/B5/4328:4331, 1/B5/4463:4467 | Double sheared | geometric IL_5TBW_114 NA | |
| IL_9F1C_362 | 1/B5/4336:4338, 1/B5/4364:4366 | Isolated non-canonical cWW pair | homologous IL_8P9A_343 IL_71625.3 | |
| IL_9F1C_275 | 1/B5/4342:4349, 1/B5/4354:4360 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5TBW_116 NA | |
| IL_9F1C_363 | 1/B5/4370:4375, 1/B5/4415:4419 | No text annotation | ||
| IL_9F1C_364 | 1/B5/4378:4383, 1/B5/4408:4412 | No text annotation | homologous IL_8P9A_346 IL_98200.1 | |
| IL_9F1C_278 | 1/B5/4384:4386, 1/B5/4405:4407 | Isolated cWH basepair | geometric IL_3R1C_012 IL_10892.2 | |
| IL_9F1C_279 | 1/B5/4387:4388, 1/B5/4401:4404 | Multiple bulged bases | homologous IL_5TBW_119 NA | |
| IL_9F1C_280 | 1/B5/4426:4431, 1/B5/4451:4456 | UAA/GAN with extra cWW | geometric IL_5J7L_350 NA | |
| IL_9F1C_282 | 1/B5/4490:4493, 1/B5/4693:4696 | Tandem non-canonical cWW pairs | geometric IL_4V88_438 NA | |
| IL_9F1C_283 | 1/B5/4496:4498, 1/B5/4687:4690 | No text annotation | ||
| IL_9F1C_284 | 1/B5/4503:4513, 1/B5/4607:4616 | No text annotation | ||
| IL_9F1C_287 | 1/B5/4630:4635, 1/B5/4663:4667 | No text annotation | ||
| IL_9F1C_366 | 1/B5/4711:4714, 1/B5/4722:4725 | Tandem non-canonical cWW pairs | geometric IL_8C3A_135 NA | |
| IL_9F1C_289 | 1/B5/4731:4733, 1/B5/4796:4798 | Isolated non-canonical cWW pair | geometric IL_3DIL_006 IL_01003.3 | |
| IL_9F1C_290 | 1/B5/4735:4736, 1/B5/4792:4794 | Single bulged C | geometric IL_1KUQ_002 IL_05642.2 | |
| IL_9F1C_291 | 1/B5/4739:4741, 1/B5/4784:4789 | Isolated non-canonical cWW pair | homologous IL_5TBW_132 NA | |
| IL_9F1C_292 | 1/B5/4742:4748, 1/B5/4778:4783 | No text annotation | ||
| IL_9F1C_294 | 1/B5/4751:4753, 1/B5/4774:4775 | Single bulged U | homologous IL_8C3A_140 NA | |
| IL_9F1C_295 | 1/B5/4753:4756, 1/B5/4771:4774 | Double sheared | geometric IL_4V9F_100 IL_58355.2 | |
| IL_9F1C_296 | 1/B7/15:16, 1/B7/62:64 | Single bulged A | homologous IL_8C3A_143 NA | |
| IL_9F1C_297 | 1/B7/21:26, 1/B7/56:57 | No text annotation | ||
| IL_9F1C_367 | 1/B7/21:27, 1/B7/52:57 | Minor groove platform related | geometric IL_8C3A_144 NA | |
| IL_9F1C_298 | 1/B7/26:27, 1/B7/52:56 | C-loop | geometric IL_4LFB_015 IL_26900.1 | |
| IL_9F1C_299 | 1/B7/28:29, 1/B7/48:51 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_357 NA | |
| IL_9F1C_300 | 1/B7/32:36, 1/B7/41:45 | No text annotation | homologous IL_8VTW_113 NA | |
| IL_9F1C_302 | 1/B7/71:78, 1/B7/98:104 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8C3A_148 NA | |
| IL_9F1C_303 | 1/B7/79:81, 1/B7/95:97 | Isolated non-canonical cWW pair | geometric IL_4V88_470 NA | |
| IL_9F1C_304 | 1/B7/82:85, 1/B7/92:94 | Isolated non-canonical cWW pair | homologous IL_8C3A_149 NA | |
| IL_9F1C_305 | 1/B8/64:66, 1/B8/92:95 | Isolated non-canonical cWW pair | homologous IL_5TBW_145 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9F1C_001 | No text annotation | ||
| IL_9F1C_002 | Isolated non-canonical cWW pair | ||
| IL_9F1C_007 | No text annotation | ||
| IL_9F1C_008 | Isolated non-canonical cWW pair | ||
| IL_9F1C_309 | No text annotation | ||
| IL_9F1C_012 | No text annotation | ||
| IL_9F1C_013 | No text annotation | ||
| IL_9F1C_014 | No text annotation | ||
| IL_9F1C_015 | No text annotation | ||
| IL_9F1C_016 | Double sheared with non-canonical cWW | ||
| IL_9F1C_017 | No text annotation | ||
| IL_9F1C_313 | No text annotation | ||
| IL_9F1C_019 | No text annotation | ||
| IL_9F1C_026 | Single bulged A | ||
| IL_9F1C_027 | Isolated non-canonical cWW pair | ||
| IL_9F1C_032 | Isolated non-canonical cWW pair | ||
| IL_9F1C_038 | Isolated non-canonical cWW pair | ||
| IL_9F1C_318 | Isolated non-canonical cWW pair | ||
| IL_9F1C_039 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_040 | No text annotation | ||
| IL_9F1C_041 | Isolated non-canonical cWW contact | ||
| IL_9F1C_042 | Isolated non-canonical cWW pair | ||
| IL_9F1C_043 | No text annotation | ||
| IL_9F1C_045 | No text annotation | ||
| IL_9F1C_048 | Isolated non-canonical cWW pair | ||
| IL_9F1C_050 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_051 | No text annotation | ||
| IL_9F1C_062 | Isolated non-canonical cWW pair | ||
| IL_9F1C_064 | Isolated non-canonical cWW pair | ||
| IL_9F1C_066 | Isolated non-canonical cWW pair | ||
| IL_9F1C_067 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_070 | No text annotation | ||
| IL_9F1C_373 | No text annotation | ||
| IL_9F1C_071 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_374 | No text annotation | ||
| IL_9F1C_072 | Isolated non-canonical cWW pair | ||
| IL_9F1C_075 | Isolated non-canonical cWW pair | ||
| IL_9F1C_076 | No text annotation | ||
| IL_9F1C_078 | No text annotation | ||
| IL_9F1C_079 | Isolated non-canonical cWW pair | ||
| IL_9F1C_081 | Multiple bulged bases | ||
| IL_9F1C_083 | No text annotation | ||
| IL_9F1C_095 | Isolated non-canonical cWW pair | ||
| IL_9F1C_100 | Single bulged C | ||
| IL_9F1C_375 | Single stack bend | ||
| IL_9F1C_101 | No text annotation | ||
| IL_9F1C_102 | Isolated non-canonical cWW pair | ||
| IL_9F1C_103 | Isolated non-canonical cWW pair | ||
| IL_9F1C_104 | Isolated non-canonical cWW pair | ||
| IL_9F1C_331 | Isolated non-canonical cWW contact | ||
| IL_9F1C_115 | Single stack bend | ||
| IL_9F1C_116 | No text annotation | ||
| IL_9F1C_333 | No text annotation | ||
| IL_9F1C_122 | Isolated non-canonical cWW pair | ||
| IL_9F1C_126 | Single bulged C | ||
| IL_9F1C_130 | Multiple bulged bases | ||
| IL_9F1C_133 | No text annotation | ||
| IL_9F1C_136 | Major groove intercalation | ||
| IL_9F1C_137 | Multiple bulged bases | ||
| IL_9F1C_138 | Isolated non-canonical cWW pair | ||
| IL_9F1C_139 | Isolated cWH basepair | ||
| IL_9F1C_140 | Isolated non-canonical cWW pair | ||
| IL_9F1C_147 | No text annotation | ||
| IL_9F1C_149 | Major groove platform with extra pair | ||
| IL_9F1C_150 | Isolated cWS basepair | ||
| IL_9F1C_152 | Isolated cWH basepair | ||
| IL_9F1C_153 | Single bulged U | ||
| IL_9F1C_376 | Isolated cWH basepair | ||
| IL_9F1C_334 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_154 | No text annotation | ||
| IL_9F1C_155 | No text annotation | ||
| IL_9F1C_164 | No text annotation | ||
| IL_9F1C_175 | Isolated non-canonical cWW pair | ||
| IL_9F1C_177 | No text annotation | ||
| IL_9F1C_339 | No text annotation | ||
| IL_9F1C_178 | No text annotation | ||
| IL_9F1C_179 | No text annotation | ||
| IL_9F1C_180 | Isolated non-canonical cWW pair | ||
| IL_9F1C_181 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_183 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_342 | No text annotation | ||
| IL_9F1C_184 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_186 | Isolated non-canonical cWW pair | ||
| IL_9F1C_192 | No text annotation | ||
| IL_9F1C_193 | Major groove platform with extra cWW | ||
| IL_9F1C_199 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_201 | No text annotation | ||
| IL_9F1C_203 | Minor groove platform | ||
| IL_9F1C_204 | Isolated cWH basepair | ||
| IL_9F1C_207 | Isolated non-canonical cWW pair | ||
| IL_9F1C_209 | Isolated non-canonical cWW pair | ||
| IL_9F1C_216 | No text annotation | ||
| IL_9F1C_217 | No text annotation | ||
| IL_9F1C_218 | No text annotation | ||
| IL_9F1C_223 | Isolated non-canonical cWW pair | ||
| IL_9F1C_224 | Isolated non-canonical cWW pair | ||
| IL_9F1C_227 | Isolated non-canonical cWW pair | ||
| IL_9F1C_228 | Isolated non-canonical cWW pair | ||
| IL_9F1C_351 | No text annotation | ||
| IL_9F1C_230 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_233 | No text annotation | ||
| IL_9F1C_234 | Isolated cWH basepair | ||
| IL_9F1C_235 | Isolated non-canonical cWW pair | ||
| IL_9F1C_237 | No text annotation | ||
| IL_9F1C_238 | Isolated non-canonical cWW pair | ||
| IL_9F1C_240 | Isolated non-canonical cWW pair | ||
| IL_9F1C_244 | Isolated non-canonical cWW pair | ||
| IL_9F1C_246 | Isolated non-canonical cWW pair | ||
| IL_9F1C_247 | Isolated non-canonical cWW pair | ||
| IL_9F1C_249 | No text annotation | ||
| IL_9F1C_251 | Single bulged C | ||
| IL_9F1C_354 | Isolated non-canonical cWW contact | ||
| IL_9F1C_254 | Decoding loop related | ||
| IL_9F1C_255 | Tandem non-canonical cWW pairs with near WC pairs | ||
| IL_9F1C_257 | No text annotation | ||
| IL_9F1C_258 | No text annotation | ||
| IL_9F1C_259 | Isolated non-canonical cWW pair | ||
| IL_9F1C_262 | No text annotation | ||
| IL_9F1C_266 | No text annotation | ||
| IL_9F1C_267 | Isolated non-canonical cWW pair | ||
| IL_9F1C_269 | No text annotation | ||
| IL_9F1C_271 | Isolated non-canonical cWW pair | ||
| IL_9F1C_272 | Isolated non-canonical cWW pair | ||
| IL_9F1C_276 | No text annotation | ||
| IL_9F1C_277 | Triple sheared related | ||
| IL_9F1C_281 | Multiple bulged bases | ||
| IL_9F1C_365 | No text annotation | ||
| IL_9F1C_285 | Major groove platform with extra cWW | ||
| IL_9F1C_286 | Tandem non-canonical cWW pairs | ||
| IL_9F1C_288 | Single bulged C | ||
| IL_9F1C_293 | Isolated non-canonical cWW pair | ||
| IL_9F1C_368 | No text annotation | ||
| IL_9F1C_369 | No text annotation | ||
| IL_9F1C_301 | Isolated non-canonical cWW pair |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9F1C_024 | 1/A2/40:41, 1/A2/482:488, 1/A2/513:515 | No text annotation | homologous J3_8P9A_068 J3_58657.1 | |
| J3_9F1C_025 | 1/A2/223:239, 1/A2/280:289, 1/A2/296:299 | No text annotation | ||
| J3_9F1C_048 | 1/A2/683:685, 1/A2/919:923, 1/A2/1023:1024 | No text annotation | geometric J3_8P9A_071 J3_01633.1 | |
| J3_9F1C_049 | 1/A2/683:685, 1/A2/919:924, 1/A2/1020:1024 | No text annotation | homologous J3_8P9A_072 J3_17385.5 | |
| J3_9F1C_001 | 1/A2/817:820, 1/A2/830:832, 1/A2/844:849 | No text annotation | homologous J3_4V88_032 NA | |
| J3_9F1C_028 | 1/A2/939:942, 1/A2/986:994, 1/A2/1001:1005 | No text annotation | homologous J3_8P9A_074 J3_23895.1 | |
| J3_9F1C_003 | 1/A2/1095:1097, 1/A2/1137:1141, 1/A2/1148:1152 | No text annotation | ||
| J3_9F1C_004 | 1/A2/1219:1222, 1/A2/1646:1652, 1/A2/1674:1681 | No text annotation | homologous J3_4V88_035 NA | |
| J3_9F1C_005 | 1/A2/1226:1229, 1/A2/1531:1533, 1/A2/1639:1642 | No text annotation | homologous J3_8C3A_039 NA | |
| J3_9F1C_029 | 1/A2/1238:1245, 1/A2/1256:1267, 1/A2/1517:1521 | No text annotation | homologous J3_8C3A_040 NA | |
| J3_9F1C_007 | 1/A2/1273:1278, 1/A2/1321:1325, 1/A2/1505:1511 | No text annotation | homologous J3_4V88_038 NA | |
| J3_9F1C_008 | 1/A2/1341:1346, 1/A2/1385:1390, 1/A2/1482:1487 | No text annotation | homologous J3_4V88_039 NA | |
| J3_9F1C_031 | 1/A2/1351:1352, 1/A2/1361:1364, 1/A2/1376:1380 | No text annotation | homologous J3_8P9A_081 J3_76043.4 | |
| J3_9F1C_032 | 1/A2/1392:1396, 1/A2/1451:1457, 1/A2/1471:1480 | No text annotation | ||
| J3_9F1C_010 | 1/A2/1533:1537, 1/A2/1598:1605, 1/A2/1636:1639 | No text annotation | homologous J3_8C3A_044 NA | |
| J3_9F1C_011 | 1/B5/112:116, 1/B5/155:160, 1/B5/275:278 | No text annotation | ||
| J3_9F1C_033 | 1/B5/196:199, 1/B5/215:228, 1/B5/240:244 | No text annotation | ||
| J3_9F1C_034 | 1/B5/351:367, 1/B5/374:379, 1/B8/21:24 | No text annotation | homologous J3_8P9A_045 J3_07616.1 | |
| J3_9F1C_035 | 1/B5/380:387, 1/B5/414:415, 1/B8/19:20 | No text annotation | geometric J3_5TBW_002 NA | |
| J3_9F1C_036 | 1/B5/380:390, 1/B5/401:415, 1/B8/19:20 | No text annotation | homologous J3_8C3A_049 NA | |
| J3_9F1C_012 | 1/B5/1486:1492, 1/B5/1577:1579, 1/B5/1595:1598 | No text annotation | homologous J3_5TBW_004 NA | |
| J3_9F1C_013 | 1/B5/1501:1503, 1/B5/1535:1539, 1/B5/1564:1567 | No text annotation | homologous J3_8C3A_004 NA | |
| J3_9F1C_038 | 1/B5/1665:1666, 1/B5/1741:1745, 1/B5/1771:1776 | No text annotation | homologous J3_8P9A_051 J3_84137.1 | |
| J3_9F1C_015 | 1/B5/2236:2242, 1/B5/2648:2650, 1/B5/2662:2665 | No text annotation | homologous J3_8C3A_006 NA | |
| J3_9F1C_016 | 1/B5/2245:2248, 1/B5/2628:2634, 1/B5/2643:2645 | No text annotation | homologous J3_5TBW_009 NA | |
| J3_9F1C_039 | 1/B5/2283:2288, 1/B5/2358:2362, 1/B5/2379:2380 | No text annotation | homologous J3_8P9A_055 J3_94309.1 | |
| J3_9F1C_040 | 1/B5/2294:2299, 1/B5/2308:2319, 1/B5/2344:2351 | No text annotation | ||
| J3_9F1C_050 | 1/B5/2394:2398, 1/B5/2415:2418, 1/B5/2600:2610 | No text annotation | ||
| J3_9F1C_041 | 1/B5/2418:2419, 1/B5/2428:2432, 1/B5/2599:2600 | No text annotation | homologous J3_8C3A_054 NA | |
| J3_9F1C_042 | 1/B5/2441:2445, 1/B5/2580:2581, 1/B5/2585:2590 | No text annotation | homologous J3_8P9A_058 J3_08594.1 | |
| J3_9F1C_018 | 1/B5/3669:3671, 1/B5/3802:3806, 1/B5/3914:3919 | No text annotation | geometric J3_8VTW_006 NA | |
| J3_9F1C_019 | 1/B5/3819:3822, 1/B5/3842:3857, 1/B5/3901:3904 | No text annotation | homologous J3_8C3A_009 NA | |
| J3_9F1C_043 | 1/B5/3974:3976, 1/B5/4077:4088, 1/B5/4116:4121 | No text annotation | homologous J3_8C3A_056 NA | |
| J3_9F1C_020 | 1/B5/3987:3989, 1/B5/4013:4015, 1/B5/4024:4029 | No text annotation | homologous J3_8P9A_062 J3_05327.1 | |
| J3_9F1C_021 | 1/B5/4209:4212, 1/B5/4237:4239, 1/B5/4253:4259 | No text annotation | homologous J3_8C3A_011 NA | |
| J3_9F1C_044 | 1/B5/4498:4501, 1/B5/4618:4622, 1/B5/4675:4687 | No text annotation | ||
| J3_9F1C_051 | 1/B5/4709:4711, 1/B5/4725:4730, 1/B5/4799:4802 | No text annotation | ||
| J3_9F1C_046 | 1/B7/9:14, 1/B7/65:66, 1/B7/109:110 | No text annotation | homologous J3_8P9A_066 J3_26985.1 | |
| J3_9F1C_047 | 1/B8/44:45, 1/B8/58:64, 1/B8/95:99 | No text annotation | homologous J3_8C3A_060 NA | |
| J4_9F1C_001 | 1/A2/98:106, 1/A2/356:358, 1/A2/406:410, 1/A2/432:433 | No text annotation | homologous J4_8P9A_021 J4_15241.2 | |
| J4_9F1C_002 | 1/A2/672:674, 1/A2/1033:1038, 1/A2/1079:1090, 1/A2/1161:1162 | No text annotation | homologous J4_8C3A_022 NA | |
| J4_9F1C_003 | 1/B5/111:112, 1/B5/278:283, 1/B5/304:310, 1/B5/327:330 | No text annotation | homologous J4_8P9A_012 J4_94698.1 | |
| J4_9F1C_004 | 1/B5/196:199, 1/B5/215:222, 1/B5/226:228, 1/B5/240:244 | No text annotation | ||
| J4_9F1C_016 | 1/B5/706:707, 1/B5/855:861, 1/B5/871:878, 1/B5/1222:1228 | No text annotation | ||
| J4_9F1C_006 | 1/B5/883:885, 1/B5/985:987, 1/B5/1126:1127, 1/B5/1212:1217 | No text annotation | ||
| J4_9F1C_007 | 1/B5/2208:2214, 1/B5/2232:2234, 1/B5/2667:2672, 1/B5/3588:3589 | No text annotation | ||
| J4_9F1C_008 | 1/B5/2249:2253, 1/B5/2277:2282, 1/B5/2381:2382, 1/B5/2620:2627 | No text annotation | ||
| J4_9F1C_009 | 1/B5/2252:2253, 1/B5/2277:2282, 1/B5/2381:2382, 1/B5/2620:2626 | No text annotation | ||
| J4_9F1C_010 | 1/B5/2461:2462, 1/B5/2480:2485, 1/B5/2535:2541, 1/B5/2561:2562 | No text annotation | ||
| J4_9F1C_011 | 1/B5/3366:3370, 1/B5/3382:3386, 1/B5/3422:3426, 1/B5/3553:3558 | No text annotation | homologous J4_8C3A_006 NA | |
| J4_9F1C_012 | 1/B5/3428:3430, 1/B5/3484:3485, 1/B5/3503:3512, 1/B5/3546:3551 | No text annotation | homologous J4_8C3A_007 NA | |
| J4_9F1C_013 | 1/B5/3977:3981, 1/B5/4035:4037, 1/B5/4064:4065, 1/B5/4074:4076 | No text annotation | ||
| J4_9F1C_014 | 1/B5/3977:3981, 1/B5/4035:4039, 1/B5/4063:4065, 1/B5/4074:4076 | No text annotation | homologous J4_8C3A_008 NA | |
| J4_9F1C_015 | 1/B5/4333:4336, 1/B5/4366:4367, 1/B5/4422:4424, 1/B5/4458:4461 | No text annotation | ||
| J5_9F1C_001 | 1/A2/30:34, 1/A2/522:528, 1/A2/559:564, 1/A2/593:596, 1/A2/642:645 | No text annotation | homologous J5_8C3A_018 NA | |
| J5_9F1C_002 | 1/A2/30:34, 1/A2/522:528, 1/A2/559:566, 1/A2/586:596, 1/A2/642:645 | No text annotation | ||
| J5_9F1C_003 | 1/A2/53:56, 1/A2/89:96, 1/A2/435:437, 1/A2/458:460, 1/A2/471:475 | No text annotation | homologous J5_8C3A_020 NA | |
| J5_9F1C_004 | 1/A2/123:129, 1/A2/183:185, 1/A2/214:215, 1/A2/311:313, 1/A2/338:342 | No text annotation | ||
| J5_9F1C_005 | 1/B5/19:21, 1/B8/35:42, 1/B8/101:106, 1/B8/113:114, 1/B8/136:138 | No text annotation | homologous J5_8P9A_010 J5_27223.1 | |
| J5_9F1C_006 | 1/B5/1279:1284, 1/B5/1471:1474, 1/B5/1613:1616, 1/B5/2131:2133, 1/B5/2188:2194 | No text annotation | homologous J5_8C3A_002 NA | |
| J5_9F1C_007 | 1/B5/2698:2706, 1/B5/2730:2731, 1/B5/3345:3346, 1/B5/3350:3358, 1/B5/3567:3569 | No text annotation | homologous J5_8C3A_004 NA | |
| J5_9F1C_008 | 1/B5/3635:3642, 1/B5/4138:4146, 1/B5/4190:4199, 1/B5/4274:4280, 1/B5/4298:4303 | No text annotation | ||
| J5_9F1C_009 | 1/B5/3652:3655, 1/B5/3934:3937, 1/B5/3950:3951, 1/B5/3973:3974, 1/B5/4121:4127 | No text annotation | homologous J5_8P9A_015 J5_96125.1 | |
| J6_9F1C_001 | 1/B5/21:26, 1/B5/57:67, 1/B5/74:78, 1/B5/105:109, 1/B5/332:339, 1/B8/33:35 | No text annotation | ||
| J6_9F1C_002 | 1/B5/1296:1299, 1/B5/1328:1332, 1/B5/1339:1343, 1/B5/1373:1376, 1/B5/1419:1421, 1/B5/1454:1459 | No text annotation | ||
| J6_9F1C_003 | 1/B5/3652:3655, 1/B5/3934:3937, 1/B5/3950:3951, 1/B5/3973:3976, 1/B5/4077:4088, 1/B5/4116:4127 | No text annotation | ||
| J7_9F1C_001 | 1/B5/1621:1626, 1/B5/1639:1640, 1/B5/1791:1794, 1/B5/1818:1823, 1/B5/1834:1838, 1/B5/2016:2017, 1/B5/2121:2126 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_9F1C_026 | No text annotation | ||
| J3_9F1C_027 | No text annotation | ||
| J3_9F1C_002 | No text annotation | ||
| J3_9F1C_006 | No text annotation | ||
| J3_9F1C_030 | No text annotation | ||
| J3_9F1C_009 | No text annotation | ||
| J3_9F1C_037 | No text annotation | ||
| J3_9F1C_014 | No text annotation | ||
| J3_9F1C_017 | No text annotation | ||
| J3_9F1C_045 | No text annotation | ||
| J3_9F1C_022 | No text annotation | ||
| J3_9F1C_023 | No text annotation | ||
| J4_9F1C_005 | No text annotation |
Coloring options: