4V8Y | Motifs

117 Hairpin loops
250 Internal loops
20 Junction loops

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	HL_4V8Y_001	1/B2/7:17	homologous HL_4V88_186	NA HL_67265.4*
2	HL_4V8Y_002	1/B2/70:81	homologous HL_4V88_187	NA HL_07268.1*
3	HL_4V8Y_003	1/B2/154:160	Other HL homologous HL_4V88_188	NA HL_43074.18*
4	HL_4V8Y_004	1/B2/190:195	homologous HL_4V88_189	NA HL_39228.1*
5	HL_4V8Y_005	1/B2/230:235	geometric HL_6CZR_082	NA HL_79299.11*
6	HL_4V8Y_006	1/B2/243:250	T-loop with 1 bulged base homologous HL_4V88_191	NA HL_68493.6*
7	HL_4V8Y_007	1/B2/276:279	geometric HL_6JOO_002	NA HL_69353.7*
8	HL_4V8Y_008	1/B2/330:338	homologous HL_4V88_193	NA HL_93727.5*
9	HL_4V8Y_009	1/B2/368:373	homologous HL_4V88_194	NA HL_18785.1*
10	HL_4V8Y_010	1/B2/393:404	homologous HL_4V88_195	NA HL_22443.1*
11	HL_4V8Y_011	1/B2/414:419	UNCG homologous HL_4V88_196	NA HL_79299.11*
12	HL_4V8Y_012	1/B2/450:456	homologous HL_4V88_197	NA HL_50374.1*
13	HL_4V8Y_013	1/B2/487:500	NA	NA
14	HL_4V8Y_014	1/B2/520:532	geometric HL_4V88_199	NA HL_17086.2*
15	HL_4V8Y_015	1/B2/569:574	Other HL homologous HL_4V88_200	NA HL_43074.18*
16	HL_4V8Y_016	1/B2/703:735	NA	NA
17	HL_4V8Y_017	1/B2/764:772	homologous HL_4V88_203	NA HL_72066.1*
18	HL_4V8Y_018	1/B2/777:783	NA	NA
19	HL_4V8Y_019	1/B2/829:843	homologous HL_4V88_205	NA HL_03603.1*
20	HL_4V8Y_020	1/B2/900:909	homologous HL_4V88_206	NA HL_87219.4*
21	HL_4V8Y_021	1/B2/937:942	Other HL homologous HL_4V88_207	NA HL_43074.18*
22	HL_4V8Y_022	1/B2/997:1007	homologous HL_4V88_208	NA HL_87219.4*
23	HL_4V8Y_023	1/B2/1054:1065	homologous HL_5TBW_212	NA
24	HL_4V8Y_024	1/B2/1084:1089	Other HL homologous HL_4V88_210	NA HL_43074.18*
25	HL_4V8Y_025	1/B2/1121:1126	GNRA homologous HL_4V88_211	NA HL_43074.18*
26	HL_4V8Y_026	1/B2/1188:1197	homologous HL_4V88_212	NA HL_96854.1*
27	HL_4V8Y_027	1/B2/1238:1247	homologous HL_4V88_213	NA HL_30819.1*
28	HL_4V8Y_028	1/B2/1296:1301	GNRA homologous HL_4V88_214	NA HL_43074.18*
29	HL_4V8Y_029	1/B2/1309:1316	homologous HL_4V88_215	NA HL_54035.7*
30	HL_4V8Y_030	1/B2/1359:1364	homologous HL_4V88_216	NA HL_82678.2*
31	HL_4V8Y_031	1/B2/1396:1402	homologous HL_4V88_217	NA HL_67216.5*
32	HL_4V8Y_032	1/B2/1501:1506	GNRA homologous HL_4V88_218	NA HL_43074.18*
33	HL_4V8Y_033	1/B2/1550:1561	homologous HL_4V88_219	NA HL_32458.3*
34	HL_4V8Y_034	1/B2/1594:1602	homologous HL_4V88_220	NA HL_01181.4*
35	HL_4V8Y_035	1/B2/1690:1711	NA	NA
36	HL_4V8Y_036	1/B2/1778:1783	Other HL homologous HL_4V88_222	NA HL_43074.18*
37	HL_4V8Y_037	1/B5/38:45	geometric HL_5TBW_001	NA HL_23481.5*
38	HL_4V8Y_038	1/B5/69:74	homologous HL_5TBW_114	NA
39	HL_4V8Y_039	1/B5/90:96	homologous HL_5TBW_115	NA
40	HL_4V8Y_040	1/B5/132:136	homologous HL_5TBW_116	NA
41	HL_4V8Y_041	1/B5/194:201	homologous HL_5TBW_117	NA
42	HL_4V8Y_042	1/B5/208:212	homologous HL_5TBW_118	NA
43	HL_4V8Y_043	1/B5/216:224	homologous HL_5TBW_119	NA
44	HL_4V8Y_044	1/B5/278:287	homologous HL_5TBW_120	NA
45	HL_4V8Y_045	1/B5/303:312	homologous HL_5TBW_121	NA
46	HL_4V8Y_046	1/B5/357:362	homologous HL_5TBW_122	NA
47	HL_4V8Y_047	1/B5/382:387	homologous HL_5TBW_123	NA
48	HL_4V8Y_048	1/B5/543:548	geometric HL_2IZN_001	NA HL_16568.1*
49	HL_4V8Y_049	1/B5/599:604	homologous HL_5TBW_125	NA
50	HL_4V8Y_050	1/B5/640:649	homologous HL_5TBW_126	NA
51	HL_4V8Y_051	1/B5/686:694	homologous HL_5TBW_127	NA
52	HL_4V8Y_052	1/B5/707:712	homologous HL_5TBW_128	NA
53	HL_4V8Y_053	1/B5/732:737	homologous HL_5TBW_129	NA
54	HL_4V8Y_054	1/B5/763:768	homologous HL_5TBW_130	NA
55	HL_4V8Y_055	1/B5/844:849	homologous HL_5TBW_131	NA
56	HL_4V8Y_056	1/B5/876:885	homologous HL_5TBW_132	NA
57	HL_4V8Y_057	1/B5/910:918	homologous HL_5TBW_133	NA
58	HL_4V8Y_058	1/B5/958:963	homologous HL_5TBW_134	NA
59	HL_4V8Y_059	1/B5/1023:1029	NA	NA
60	HL_4V8Y_060	1/B5/1076:1083	geometric HL_5TBW_024	NA HL_54035.7*
61	HL_4V8Y_061	1/B5/1126:1132	homologous HL_5TBW_137	NA
62	HL_4V8Y_062	1/B5/1148:1155	homologous HL_5TBW_138	NA
63	HL_4V8Y_063	1/B5/1239:1249	NA	NA
64	HL_4V8Y_064	1/B5/1262:1277	NA	NA
65	HL_4V8Y_065	1/B5/1347:1357	homologous HL_5TBW_141	NA
66	HL_4V8Y_066	1/B5/1403:1408	homologous HL_5TBW_142	NA
67	HL_4V8Y_067	1/B5/1462:1470	homologous HL_5TBW_143	NA
68	HL_4V8Y_068	1/B5/1506:1512	homologous HL_5TBW_144	NA
69	HL_4V8Y_069	1/B5/1544:1549	homologous HL_5TBW_145	NA
70	HL_4V8Y_070	1/B5/1562:1577	NA	NA
71	HL_4V8Y_071	1/B5/1599:1608	homologous HL_5TBW_147	NA
72	HL_4V8Y_072	1/B5/1634:1639	homologous HL_5TBW_148	NA
73	HL_4V8Y_073	1/B5/1680:1688	homologous HL_5TBW_149	NA
74	HL_4V8Y_074	1/B5/1719:1725	homologous HL_5TBW_150	NA
75	HL_4V8Y_075	1/B5/1760:1765	GNRA geometric HL_4QLM_001	NA HL_43074.18*
76	HL_4V8Y_076	1/B5/1792:1796	homologous HL_5TBW_152	NA
77	HL_4V8Y_077	1/B5/1844:1851	homologous HL_5TBW_153	NA
78	HL_4V8Y_078	1/B5/1862:1868	homologous HL_5TBW_154	NA
79	HL_4V8Y_079	1/B5/1923:1928	homologous HL_5TBW_155	NA
80	HL_4V8Y_081	1/B5/2110:2114	homologous HL_5TBW_157	NA
81	HL_4V8Y_082	1/B5/2135:2145	homologous HL_5TBW_158	NA
82	HL_4V8Y_083	1/B5/2164:2170	homologous HL_5TBW_159	NA
83	HL_4V8Y_084	1/B5/2220:2225	homologous HL_5TBW_160	NA
84	HL_4V8Y_085	1/B5/2253:2263	homologous HL_5TBW_161	NA
85	HL_4V8Y_086	1/B5/2292:2300	homologous HL_5TBW_162	NA
86	HL_4V8Y_087	1/B5/2369:2378	homologous HL_5TBW_163	NA
87	HL_4V8Y_089	1/B5/2534:2545	NA	NA
88	HL_4V8Y_090	1/B5/2568:2573	geometric HL_2Y8W_001	NA HL_69459.1*
89	HL_4V8Y_091	1/B5/2616:2624	homologous HL_5TBW_167	NA
90	HL_4V8Y_092	1/B5/2633:2645	homologous HL_5TBW_168	NA
91	HL_4V8Y_093	1/B5/2673:2681	homologous HL_5TBW_169	NA
92	HL_4V8Y_094	1/B5/2693:2700	homologous HL_5TBW_170	NA
93	HL_4V8Y_095	1/B5/2724:2732	homologous HL_5TBW_171	NA
94	HL_4V8Y_096	1/B5/2744:2749	homologous HL_5TBW_172	NA
95	HL_4V8Y_097	1/B5/2776:2784	homologous HL_5TBW_173	NA
96	HL_4V8Y_098	1/B5/2840:2848	homologous HL_5TBW_174	NA
97	HL_4V8Y_099	1/B5/2897:2904	homologous HL_5TBW_175	NA
98	HL_4V8Y_100	1/B5/2920:2926	homologous HL_5TBW_176	NA
99	HL_4V8Y_101	1/B5/2963:2968	homologous HL_5TBW_177	NA
100	HL_4V8Y_102	1/B5/3025:3030	GNRA geometric HL_5TBW_065	NA HL_43074.18*
101	HL_4V8Y_103	1/B5/3068:3073	homologous HL_5TBW_179	NA
102	HL_4V8Y_104	1/B5/3110:3124	homologous HL_5TBW_180	NA
103	HL_4V8Y_105	1/B5/3194:3197	homologous HL_5TBW_181	NA
104	HL_4V8Y_106	1/B5/3240:3247	homologous HL_5TBW_182	NA
105	HL_4V8Y_107	1/B5/3303:3311	geometric HL_5TBW_070	NA HL_05018.6*
106	HL_4V8Y_108	1/B5/3350:3353	geometric HL_4V88_192	NA HL_69353.7*
107	HL_4V8Y_109	1/B7/36:41	geometric HL_5TBW_185	NA HL_02733.5*
108	HL_4V8Y_110	1/B7/88:93	GNRA homologous HL_5TBW_186	NA HL_43074.18*
109	HL_4V8Y_111	1/B8/69:89	NA	NA
110	HL_4V8Y_112	1/B8/108:114	homologous HL_5TBW_075	NA HL_06569.2*
111	HL_4V8Y_113	1/B8/124:129	homologous HL_5TBW_076	NA HL_60357.1*
112	HL_4V8Y_114	1/CN/2164:2169	Other HL geometric HL_2CZJ_007	NA HL_79299.11*
113	HL_4V8Y_116	1/CW/31:39	NA	NA
114	HL_4V8Y_117	1/CW/53:61	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	HL_4V8Y_080	missing nts	NA
2	HL_4V8Y_088	missing nts	NA
3	HL_4V8Y_115	missing nts	NA

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	IL_4V8Y_001	1/B2/24:26, 1/B2/600:601	Single bulged C homologous IL_4V88_384	NA IL_61258.10*
2	IL_4V8Y_002	1/B2/35:37, 1/B2/471:473	UC cWW homologous IL_4V88_385	NA IL_01312.13*
3	IL_4V8Y_003	1/B2/37:41, 1/B2/466:471	geometric IL_4V88_386	NA IL_53318.1*
4	IL_4V8Y_004	1/B2/42:48, 1/B2/431:433	homologous IL_4V88_387	NA IL_34626.4*
5	IL_4V8Y_005	1/B2/50:52, 1/B2/428:429	Minor groove platform homologous IL_4V88_388	NA IL_06437.11*
6	IL_4V8Y_006	1/B2/58:63, 1/B2/87:89	homologous IL_4V88_389	NA IL_96451.1*
7	IL_4V8Y_007	1/B2/64:69, 1/B2/82:86	homologous IL_4V88_390	NA IL_59423.1*
8	IL_4V8Y_008	1/B2/109:112, 1/B2/302:305	Tandem non-canonical cWW pairs homologous IL_4V88_391	NA IL_85877.10*
9	IL_4V8Y_009	1/B2/113:116, 1/B2/300:301	Multiple bulged bases homologous IL_4V88_392	NA IL_13730.12*
10	IL_4V8Y_010	1/B2/117:122, 1/B2/295:299	homologous IL_4V88_393	NA IL_76386.1*
11	IL_4V8Y_011	1/B2/143:149, 1/B2/165:172	tWH-tWH-tHW-tHW homologous IL_4V88_394	NA IL_92440.5*
12	IL_4V8Y_012	1/B2/150:152, 1/B2/162:164	Isolated cWH basepair geometric IL_6RA4_002	NA IL_42589.6*
13	IL_4V8Y_013	1/B2/186:189, 1/B2/196:199	Double sheared homologous IL_4V88_396	NA IL_09705.7*
14	IL_4V8Y_014	1/B2/204:206, 1/B2/259:263	Major groove platform with extra cWW geometric IL_4V88_397	NA IL_95485.6*
15	IL_4V8Y_015	1/B2/206:208, 1/B2/257:259	homologous IL_4V88_398	NA IL_01312.13*
16	IL_4V8Y_017	1/B2/265:267, 1/B2/288:289	Single bulged A homologous IL_4V88_399	NA IL_80007.16*
17	IL_4V8Y_018	1/B2/270:273, 1/B2/283:285	homologous IL_4V88_400	NA IL_05922.1*
18	IL_4V8Y_019	1/B2/275:276, 1/B2/279:281	Single bulged U homologous IL_4V88_401	NA IL_83039.11*
19	IL_4V8Y_020	1/B2/311:316, 1/B2/348:355	Kink-turn with non-sequential stacking homologous IL_4V88_402	NA IL_29549.9*
20	IL_4V8Y_021	1/B2/318:323, 1/B2/345:346	homologous IL_4V88_403	NA IL_55658.1*
21	IL_4V8Y_022	1/B2/363:365, 1/B2/376:381	homologous IL_4V88_404	NA IL_46732.1*
22	IL_4V8Y_023	1/B2/389:391, 1/B2/406:408	Isolated cWH basepair homologous IL_4V88_405	NA IL_42589.6*
23	IL_4V8Y_024	1/B2/411:413, 1/B2/420:422	Isolated near basepair homologous IL_4V88_406	NA IL_01312.13*
24	IL_4V8Y_025	1/B2/439:441, 1/B2/463:464	Single bulged U homologous IL_4V88_407	NA IL_83039.11*
25	IL_4V8Y_026	1/B2/443:448, 1/B2/458:461	C-loop with extra cWW pair homologous IL_4V88_408	NA IL_51590.1*
26	IL_4V8Y_027	1/B2/480:485, 1/B2/502:508	NA	NA
27	IL_4V8Y_028	1/B2/517:520, 1/B2/532:535	Double sheared geometric IL_4LFB_060	NA IL_09705.7*
28	IL_4V8Y_029	1/B2/550:557, 1/B2/587:588	SSU/LSU pseudoknot geometric IL_4V88_413	NA IL_15861.6*
29	IL_4V8Y_030	1/B2/557:559, 1/B2/586:587	Single bulged U homologous IL_4V88_414	NA IL_83039.11*
30	IL_4V8Y_031	1/B2/562:568, 1/B2/575:583	NA	NA
31	IL_4V8Y_032	1/B2/616:622, 1/B2/1104:1105	homologous IL_4V88_416	NA IL_12418.1*
32	IL_4V8Y_033	1/B2/624:626, 1/B2/973:975	homologous IL_4V88_417	NA IL_01312.13*
33	IL_4V8Y_034	1/B2/627:631, 1/B2/968:972	tSH-tHW-tHS homologous IL_4V88_418	NA IL_39521.5*
34	IL_4V8Y_035	1/B2/646:648, 1/B2/686:688	homologous IL_4V88_419	NA IL_01312.13*
35	IL_4V8Y_037	1/B2/652:658, 1/B2/676:682	NA	NA
36	IL_4V8Y_039	1/B2/746:747, 1/B2/802:805	Major groove minor groove platform; mini C-loop homologous IL_4V88_423	NA IL_09061.4*
37	IL_4V8Y_040	1/B2/748:750, 1/B2/799:801	homologous IL_4V88_424	NA IL_01312.13*
38	IL_4V8Y_041	1/B2/751:760, 1/B2/790:798	NA	NA
39	IL_4V8Y_042	1/B2/817:824, 1/B2/848:854	NA	NA
40	IL_4V8Y_043	1/B2/825:827, 1/B2/845:847	Isolated cWH basepair geometric IL_4KQ0_005	NA IL_42589.6*
41	IL_4V8Y_044	1/B2/865:866, 1/B2/962:965	Major groove platform; stack outside cWW homologous IL_4V88_428	NA IL_70995.6*
42	IL_4V8Y_045	1/B2/867:870, 1/B2/957:961	Tandem non-canonical cWW pairs homologous IL_4V88_429	NA IL_85877.10*
43	IL_4V8Y_046	1/B2/871:874, 1/B2/953:956	Tandem non-canonical cWW pairs homologous IL_4V88_430	NA IL_85877.10*
44	IL_4V8Y_047	1/B2/874:878, 1/B2/950:953	Tandem non-canonical cWW pairs geometric IL_4V88_431	NA IL_85877.10*
45	IL_4V8Y_048	1/B2/885:888, 1/B2/924:927	Tandem non-canonical cWW pairs homologous IL_4V88_432	NA IL_85877.10*
46	IL_4V8Y_049	1/B2/893:899, 1/B2/910:919	homologous IL_5TBW_430	NA
47	IL_4V8Y_050	1/B2/985:990, 1/B2/1014:1016	Other IL geometric IL_4V88_435	NA IL_51590.1*
48	IL_4V8Y_051	1/B2/990:994, 1/B2/1010:1014	tSH-tHW-tHS homologous IL_4V88_436	NA IL_39521.5*
49	IL_4V8Y_052	1/B2/1034:1036, 1/B2/1095:1101	homologous IL_4V88_437	NA IL_19557.1*
50	IL_4V8Y_053	1/B2/1041:1044, 1/B2/1074:1077	Tandem non-canonical cWW pairs homologous IL_4V88_438	NA IL_85877.10*
51	IL_4V8Y_054	1/B2/1051:1053, 1/B2/1066:1067	Single bulged U homologous IL_4V88_439	NA IL_83039.11*
52	IL_4V8Y_055	1/B2/1111:1118, 1/B2/1129:1134	8x6 Sarcin-Ricin with inserted Y; G-bulge homologous IL_4V88_440	NA IL_24606.1*
53	IL_4V8Y_056	1/B2/1146:1147, 1/B2/1630:1632	Single bulged A homologous IL_4V88_441	NA IL_80007.16*
54	IL_4V8Y_057	1/B2/1149:1151, 1/B2/1627:1628	Single bulged G homologous IL_4V88_442	NA IL_59137.10*
55	IL_4V8Y_058	1/B2/1157:1160, 1/B2/1617:1621	C-loop homologous IL_4V88_443	NA IL_63596.4*
56	IL_4V8Y_059	1/B2/1173:1175, 1/B2/1464:1466	homologous IL_4V88_444	NA IL_01312.13*
57	IL_4V8Y_060	1/B2/1178:1179, 1/B2/1459:1461	Minor groove platform homologous IL_4V88_445	NA IL_06437.11*
58	IL_4V8Y_061	1/B2/1213:1215, 1/B2/1448:1450	geometric IL_4V88_446	NA IL_01312.13*
59	IL_4V8Y_062	1/B2/1223:1230, 1/B2/1257:1260	NA	NA
60	IL_4V8Y_063	1/B2/1230:1233, 1/B2/1252:1257	NA	NA
61	IL_4V8Y_064	1/B2/1234:1236, 1/B2/1249:1251	homologous IL_4V88_448	NA IL_01312.13*
62	IL_4V8Y_065	1/B2/1268:1270, 1/B2/1440:1441	Single bulged U homologous IL_4V88_449	NA IL_83039.11*
63	IL_4V8Y_066	1/B2/1272:1278, 1/B2/1430:1438	NA	NA
64	IL_4V8Y_067	1/B2/1280:1281, 1/B2/1426:1428	Single bulged A homologous IL_4V88_452	NA IL_80007.16*
65	IL_4V8Y_068	1/B2/1290:1292, 1/B2/1323:1325	Isolated cWH basepair homologous IL_4V88_453	NA IL_42589.6*
66	IL_4V8Y_069	1/B2/1306:1308, 1/B2/1317:1318	Minor groove platform geometric IL_5TBW_039	NA IL_06437.11*
67	IL_4V8Y_070	1/B2/1339:1342, 1/B2/1383:1385	homologous IL_4V88_455	NA IL_01312.13*
68	IL_4V8Y_071	1/B2/1345:1348, 1/B2/1377:1380	Minor groove platform homologous IL_4V88_456	NA IL_69507.1*
69	IL_4V8Y_072	1/B2/1352:1354, 1/B2/1369:1373	homologous IL_4V88_457	NA IL_01312.13*
70	IL_4V8Y_073	1/B2/1389:1391, 1/B2/1407:1412	Major groove platform; stack outside cWW geometric IL_4V88_458	NA IL_60171.1*
71	IL_4V8Y_074	1/B2/1480:1487, 1/B2/1519:1527	homologous IL_4V88_459	NA IL_69573.1*
72	IL_4V8Y_075	1/B2/1488:1494, 1/B2/1513:1518	homologous IL_4V88_460	NA IL_75461.2*
73	IL_4V8Y_076	1/B2/1495:1498, 1/B2/1509:1512	Tandem non-canonical cWW pairs homologous IL_4V88_461	NA IL_85877.10*
74	IL_4V8Y_077	1/B2/1540:1545, 1/B2/1566:1571	geometric IL_4V88_462	NA IL_19954.1*
75	IL_4V8Y_078	1/B2/1636:1638, 1/B2/1764:1767	geometric IL_4V88_463	NA IL_36143.2*
76	IL_4V8Y_079	1/B2/1638:1641, 1/B2/1760:1764	homologous IL_4V88_464	NA IL_59281.1*
77	IL_4V8Y_080	1/B2/1642:1644, 1/B2/1757:1759	homologous IL_4V88_465	NA IL_01312.13*
78	IL_4V8Y_081	1/B2/1644:1647, 1/B2/1753:1757	Non canonical cWW and near pair geometric IL_4V88_466	NA IL_85877.10*
79	IL_4V8Y_082	1/B2/1650:1652, 1/B2/1748:1750	AA cWW homologous IL_4V88_467	NA IL_01312.13*
80	IL_4V8Y_083	1/B2/1653:1656, 1/B2/1744:1747	Double sheared homologous IL_4V88_468	NA IL_09705.7*
81	IL_4V8Y_084	1/B2/1656:1658, 1/B2/1743:1744	Single bulged U geometric IL_6CZR_156	NA IL_83039.11*
82	IL_4V8Y_085	1/B2/1665:1667, 1/B2/1734:1736	homologous IL_4V88_470	NA IL_01312.13*
83	IL_4V8Y_086	1/B2/1669:1672, 1/B2/1729:1732	Double sheared homologous IL_4V88_471	NA IL_09705.7*
84	IL_4V8Y_087	1/B2/1672:1674, 1/B2/1727:1729	geometric IL_4V88_472	NA IL_01312.13*
85	IL_4V8Y_088	1/B2/1675:1678, 1/B2/1723:1726	Tandem non-canonical cWW pairs homologous IL_4V88_473	NA IL_85877.10*
86	IL_4V8Y_089	1/B2/1678:1682, 1/B2/1719:1723	Triple sheared geometric IL_4V88_474	NA IL_56467.6*
87	IL_4V8Y_090	1/B2/1683:1685, 1/B2/1716:1718	homologous IL_4V88_475	NA IL_01312.13*
88	IL_4V8Y_091	1/B2/1687:1690, 1/B2/1711:1714	Tandem non-canonical cWW pairs geometric IL_1JID_002	NA IL_85877.10*
89	IL_4V8Y_093	1/B5/7:8, 1/B8/150:152	Single bulged C homologous IL_5TBW_002	NA IL_61258.10*
90	IL_4V8Y_094	1/B5/13:15, 1/B8/144:145	Single bulged U homologous IL_5TBW_003	NA IL_83039.11*
91	IL_4V8Y_095	1/B5/27:28, 1/B5/56:58	homologous IL_5TBW_240	NA
92	IL_4V8Y_096	1/B5/31:38, 1/B5/45:53	homologous IL_5TBW_241	NA
93	IL_4V8Y_097	1/B5/82:89, 1/B5/97:103	homologous IL_5TBW_242	NA
94	IL_4V8Y_098	1/B5/123:124, 1/B5/144:149	geometric IL_5TBW_007	NA IL_19724.1*
95	IL_4V8Y_099	1/B5/125:127, 1/B5/141:143	homologous IL_5TBW_244	NA
96	IL_4V8Y_100	1/B5/163:165, 1/B5/257:258	homologous IL_5TBW_245	NA
97	IL_4V8Y_102	1/B5/169:174, 1/B5/244:253	NA	NA
98	IL_4V8Y_103	1/B5/177:179, 1/B5/237:241	homologous IL_5TBW_247	NA
99	IL_4V8Y_104	1/B5/189:191, 1/B5/204:205	homologous IL_5TBW_248	NA
100	IL_4V8Y_105	1/B5/337:339, 1/B8/25:26	Single bulged A homologous IL_5TBW_013	NA IL_80007.16*
101	IL_4V8Y_106	1/B5/376:379, 1/B5/390:403	homologous IL_5TBW_250	NA
102	IL_4V8Y_107	1/B5/404:410, 1/B8/13:19	Triple sheared with non-canonical cWW homologous IL_5TBW_015	NA IL_66414.5*
103	IL_4V8Y_108	1/B5/429:431, 1/B5/628:630	homologous IL_5TBW_252	NA
104	IL_4V8Y_110	1/B5/512:513, 1/B5/577:579	homologous IL_5TBW_254	NA
105	IL_4V8Y_111	1/B5/517:525, 1/B5/567:573	homologous IL_5TBW_255	NA
106	IL_4V8Y_112	1/B5/531:538, 1/B5/553:561	homologous IL_5TBW_256	NA
107	IL_4V8Y_113	1/B5/668:670, 1/B5/792:794	homologous IL_5TBW_257	NA
108	IL_4V8Y_114	1/B5/680:684, 1/B5/696:700	homologous IL_5TBW_258	NA
109	IL_4V8Y_115	1/B5/725:728, 1/B5/741:745	homologous IL_5TBW_259	NA
110	IL_4V8Y_116	1/B5/752:753, 1/B5/779:781	homologous IL_5TBW_260	NA
111	IL_4V8Y_117	1/B5/755:756, 1/B5/775:777	homologous IL_5TBW_261	NA
112	IL_4V8Y_118	1/B5/758:763, 1/B5/768:773	geometric IL_5TBW_026	NA IL_19954.1*
113	IL_4V8Y_119	1/B5/803:805, 1/B5/938:940	geometric IL_5TBW_027	NA IL_01312.13*
114	IL_4V8Y_120	1/B5/805:809, 1/B5/931:938	homologous IL_5TBW_264	NA
115	IL_4V8Y_121	1/B5/828:829, 1/B5/895:897	Single bulged A geometric IL_5J7L_261	NA IL_80007.16*
116	IL_4V8Y_122	1/B5/833:834, 1/B5/859:861	Single bulged G geometric IL_5TBW_029	NA IL_99645.1*
117	IL_4V8Y_123	1/B5/834:838, 1/B5/855:859	homologous IL_5TBW_266	NA
118	IL_4V8Y_124	1/B5/869:872, 1/B5/888:890	homologous IL_5TBW_267	NA
119	IL_4V8Y_125	1/B5/873:875, 1/B5/886:887	homologous IL_5TBW_268	NA
120	IL_4V8Y_126	1/B5/907:909, 1/B5/919:923	Multiple bulged bases geometric IL_5TBW_033	NA IL_90991.5*
121	IL_4V8Y_127	1/B5/954:956, 1/B5/965:967	homologous IL_5TBW_270	NA
122	IL_4V8Y_128	1/B5/969:970, 1/B5/1111:1113	homologous IL_5TBW_271	NA
123	IL_4V8Y_129	1/B5/977:982, 1/B5/1101:1104	NA	NA
124	IL_4V8Y_130	1/B5/983:985, 1/B5/1099:1100	homologous IL_5TBW_273	NA
125	IL_4V8Y_131	1/B5/991:997, 1/B5/1052:1058	homologous IL_5TBW_274	NA
126	IL_4V8Y_132	1/B5/997:998, 1/B5/1050:1052	Minor groove platform geometric IL_5TBW_039	NA IL_06437.11*
127	IL_4V8Y_133	1/B5/999:1004, 1/B5/1046:1049	homologous IL_5TBW_276	NA
128	IL_4V8Y_134	1/B5/1006:1009, 1/B5/1041:1044	homologous IL_5TBW_277	NA
129	IL_4V8Y_135	1/B5/1009:1011, 1/B5/1039:1041	geometric IL_5TBW_042	NA IL_01312.13*
130	IL_4V8Y_136	1/B5/1013:1015, 1/B5/1035:1037	geometric IL_4KR9_002	NA IL_01312.13*
131	IL_4V8Y_137	1/B5/1015:1018, 1/B5/1034:1035	Multiple bulged bases geometric IL_4LFB_005	NA IL_13730.12*
132	IL_4V8Y_138	1/B5/1018:1020, 1/B5/1032:1034	geometric IL_5UNE_004	NA IL_01312.13*
133	IL_4V8Y_140	1/B5/1069:1071, 1/B5/1087:1089	homologous IL_5TBW_280	NA
134	IL_4V8Y_141	1/B5/1074:1076, 1/B5/1083:1084	homologous IL_5TBW_281	NA
135	IL_4V8Y_142	1/B5/1120:1122, 1/B5/1136:1138	homologous IL_5TBW_282	NA
136	IL_4V8Y_143	1/B5/1123:1125, 1/B5/1133:1135	homologous IL_5TBW_283	NA
137	IL_4V8Y_144	1/B5/1167:1171, 1/B5/1328:1332	homologous IL_5TBW_284	NA
138	IL_4V8Y_145	1/B5/1173:1180, 1/B5/1325:1326	SSU/LSU pseudoknot geometric IL_5TBW_049	NA IL_15861.6*
139	IL_4V8Y_146	1/B5/1180:1182, 1/B5/1324:1325	homologous IL_5TBW_286	NA
140	IL_4V8Y_147	1/B5/1187:1194, 1/B5/1314:1319	homologous IL_5TBW_287	NA
141	IL_4V8Y_148	1/B5/1194:1205, 1/B5/1299:1314	geometric IL_5TBW_052	NA IL_94878.1*
142	IL_4V8Y_149	1/B5/1207:1209, 1/B5/1296:1297	homologous IL_5TBW_289	NA
143	IL_4V8Y_150	1/B5/1234:1238, 1/B5/1250:1254	homologous IL_5TBW_291	NA
144	IL_4V8Y_151	1/B5/1376:1378, 1/B5/1428:1431	homologous IL_5TBW_293	NA
145	IL_4V8Y_152	1/B5/1385:1387, 1/B5/1420:1421	homologous IL_5TBW_294	NA
146	IL_4V8Y_153	1/B5/1388:1395, 1/B5/1415:1419	homologous IL_5TBW_295	NA
147	IL_4V8Y_154	1/B5/1398:1400, 1/B5/1411:1412	homologous IL_5TBW_296	NA
148	IL_4V8Y_155	1/B5/1444:1450, 1/B5/2354:2359	homologous IL_5TBW_297	NA
149	IL_4V8Y_156	1/B5/1492:1495, 1/B5/1835:1836	Major groove platform; stack outside cWW geometric IL_4V9F_050	NA IL_70995.6*
150	IL_4V8Y_157	1/B5/1500:1505, 1/B5/1513:1516	homologous IL_5TBW_298	NA
151	IL_4V8Y_158	1/B5/1532:1536, 1/B5/1585:1590	homologous IL_5TBW_299	NA
152	IL_4V8Y_160	1/B5/1618:1621, 1/B5/1824:1826	homologous IL_5TBW_300	NA
153	IL_4V8Y_161	1/B5/1623:1625, 1/B5/1818:1822	Isolated non-canonical cWW with bulges geometric IL_5TBW_145	NA IL_55456.1*
154	IL_4V8Y_162	1/B5/1625:1627, 1/B5/1816:1818	geometric IL_7A0S_031	NA IL_01312.13*
155	IL_4V8Y_163	1/B5/1627:1631, 1/B5/1811:1816	homologous IL_5TBW_302	NA
156	IL_4V8Y_164	1/B5/1645:1649, 1/B5/1806:1810	homologous IL_5TBW_303	NA
157	IL_4V8Y_165	1/B5/1661:1663, 1/B5/1786:1788	homologous IL_5TBW_304	NA
158	IL_4V8Y_166	1/B5/1669:1670, 1/B5/1778:1780	Single bulged C geometric IL_5TBW_069	NA IL_61258.10*
159	IL_4V8Y_167	1/B5/1670:1671, 1/B5/1776:1778	homologous IL_5TBW_306	NA
160	IL_4V8Y_168	1/B5/1694:1698, 1/B5/1747:1752	homologous IL_5TBW_307	NA
161	IL_4V8Y_169	1/B5/1702:1707, 1/B5/1737:1743	homologous IL_5TBW_308	NA
162	IL_4V8Y_170	1/B5/1711:1717, 1/B5/1727:1733	homologous IL_5TBW_309	NA
163	IL_4V8Y_171	1/B5/1883:1889, 1/B5/2346:2349	homologous IL_5TBW_310	NA
164	IL_4V8Y_172	1/B5/1895:1897, 1/B5/2338:2340	homologous IL_5TBW_311	NA
165	IL_4V8Y_173	1/B5/1898:1901, 1/B5/2336:2337	Major groove platform; stack outside cWW geometric IL_5TBW_076	NA IL_80663.10*
166	IL_4V8Y_174	1/B5/1901:1906, 1/B5/2333:2336	homologous IL_5TBW_313	NA
167	IL_4V8Y_175	1/B5/1918:1923, 1/B5/1928:1934	tSH-tSH-tHH-tHS geometric IL_5TBW_078	NA IL_66584.5*
168	IL_4V8Y_176	1/B5/1940:1942, 1/B5/2106:2108	homologous IL_5TBW_315	NA
169	IL_4V8Y_177	1/B5/1947:1948, 1/B5/2098:2101	homologous IL_5TBW_316	NA
170	IL_4V8Y_178	1/B5/2128:2129, 1/B5/2323:2325	homologous IL_5TBW_318	NA
171	IL_4V8Y_179	1/B5/2156:2161, 1/B5/2173:2180	homologous IL_5TBW_319	NA
172	IL_4V8Y_180	1/B5/2196:2199, 1/B5/2245:2246	homologous IL_5TBW_320	NA
173	IL_4V8Y_181	1/B5/2200:2201, 1/B5/2241:2244	homologous IL_5TBW_321	NA
174	IL_4V8Y_182	1/B5/2204:2206, 1/B5/2237:2238	Single bulged U geometric IL_5TBW_134	NA IL_83039.11*
175	IL_4V8Y_183	1/B5/2276:2277, 1/B5/2307:2310	homologous IL_5TBW_325	NA
176	IL_4V8Y_184	1/B5/2277:2288, 1/B5/2304:2307	geometric IL_5TBW_090	NA IL_45481.1*
177	IL_4V8Y_185	1/B5/2391:2394, 1/B5/2986:2988	homologous IL_5TBW_327	NA
178	IL_4V8Y_186	1/B5/2396:2398, 1/B5/2981:2984	homologous IL_5TBW_328	NA
179	IL_4V8Y_187	1/B5/2409:2411, 1/B5/2811:2812	homologous IL_5TBW_329	NA
180	IL_4V8Y_188	1/B5/2412:2413, 1/B5/2807:2810	homologous IL_5TBW_330	NA
181	IL_4V8Y_189	1/B5/2423:2425, 1/B5/2604:2607	homologous IL_5TBW_331	NA
182	IL_4V8Y_190	1/B5/2520:2526, 1/B5/2584:2587	homologous IL_5TBW_332	NA
183	IL_4V8Y_192	1/B5/2614:2615, 1/B5/2625:2627	homologous IL_5TBW_333	NA
184	IL_4V8Y_193	1/B5/2666:2668, 1/B5/2686:2690	Isolated tHS basepair with bulges geometric IL_5TBW_099	NA IL_38958.6*
185	IL_4V8Y_194	1/B5/2714:2716, 1/B5/2740:2741	Single bulged A geometric IL_5WWT_001	NA IL_80007.16*
186	IL_4V8Y_195	1/B5/2718:2721, 1/B5/2735:2738	homologous IL_5TBW_335	NA
187	IL_4V8Y_196	1/B5/2770:2773, 1/B5/2787:2788	homologous IL_5TBW_336	NA
188	IL_4V8Y_197	1/B5/2823:2824, 1/B5/2865:2867	Major groove platform geometric IL_5TBW_102	NA IL_80663.10*
189	IL_4V8Y_198	1/B5/2824:2826, 1/B5/2863:2865	homologous IL_5TBW_338	NA
190	IL_4V8Y_199	1/B5/2826:2828, 1/B5/2862:2863	Major groove platform geometric IL_4V9F_083	NA IL_95601.1*
191	IL_4V8Y_200	1/B5/2828:2830, 1/B5/2858:2862	homologous IL_5TBW_340	NA
192	IL_4V8Y_201	1/B5/2835:2839, 1/B5/2849:2853	homologous IL_5TBW_341	NA
193	IL_4V8Y_202	1/B5/2876:2877, 1/B5/2949:2951	homologous IL_5TBW_342	NA
194	IL_4V8Y_203	1/B5/2879:2881, 1/B5/2943:2947	homologous IL_5TBW_343	NA
195	IL_4V8Y_204	1/B5/2881:2882, 1/B5/2940:2943	Multiple bulged bases geometric IL_5TBW_109	NA IL_13730.12*
196	IL_4V8Y_205	1/B5/2889:2891, 1/B5/2912:2914	geometric IL_5TBW_110	NA IL_01312.13*
197	IL_4V8Y_206	1/B5/2891:2892, 1/B5/2909:2912	homologous IL_5TBW_346	NA
198	IL_4V8Y_207	1/B5/2918:2920, 1/B5/2926:2928	geometric IL_5TBW_112	NA IL_01312.13*
199	IL_4V8Y_208	1/B5/2960:2961, 1/B5/2970:2972	homologous IL_5TBW_348	NA
200	IL_4V8Y_209	1/B5/3004:3007, 1/B5/3139:3144	homologous IL_5TBW_349	NA
201	IL_4V8Y_210	1/B5/3012:3014, 1/B5/3040:3042	homologous IL_5TBW_350	NA
202	IL_4V8Y_211	1/B5/3018:3025, 1/B5/3030:3036	homologous IL_5TBW_351	NA
203	IL_4V8Y_212	1/B5/3047:3051, 1/B5/3091:3094	homologous IL_5TBW_352	NA
204	IL_4V8Y_213	1/B5/3054:3059, 1/B5/3084:3088	homologous IL_5TBW_353	NA
205	IL_4V8Y_214	1/B5/3063:3064, 1/B5/3077:3080	homologous IL_5TBW_354	NA
206	IL_4V8Y_215	1/B5/3103:3107, 1/B5/3127:3131	homologous IL_5TBW_355	NA
207	IL_4V8Y_216	1/B5/3161:3166, 1/B5/3284:3289	homologous IL_5TBW_356	NA
208	IL_4V8Y_217	1/B5/3168:3170, 1/B5/3280:3282	homologous IL_5TBW_357	NA
209	IL_4V8Y_218	1/B5/3177:3179, 1/B5/3210:3211	Single bulged A geometric IL_5TBW_123	NA IL_80007.16*
210	IL_4V8Y_219	1/B5/3179:3188, 1/B5/3204:3210	homologous IL_5TBW_359	NA
211	IL_4V8Y_220	1/B5/3193:3194, 1/B5/3197:3199	Single bulged U geometric IL_5TBW_125	NA IL_83039.11*
212	IL_4V8Y_221	1/B5/3225:3229, 1/B5/3258:3260	homologous IL_5TBW_361	NA
213	IL_4V8Y_222	1/B5/3233:3235, 1/B5/3252:3254	homologous IL_5TBW_362	NA
214	IL_4V8Y_223	1/B5/3235:3238, 1/B5/3249:3252	Tandem non-canonical cWW pairs geometric IL_6MWN_005	NA IL_85877.10*
215	IL_4V8Y_224	1/B5/3300:3303, 1/B5/3311:3314	homologous IL_5TBW_364	NA
216	IL_4V8Y_225	1/B5/3318:3320, 1/B5/3387:3388	homologous IL_5TBW_365	NA
217	IL_4V8Y_226	1/B5/3324:3325, 1/B5/3381:3383	homologous IL_5TBW_366	NA
218	IL_4V8Y_227	1/B5/3328:3330, 1/B5/3373:3378	homologous IL_5TBW_367	NA
219	IL_4V8Y_228	1/B5/3332:3337, 1/B5/3367:3371	homologous IL_5TBW_368	NA
220	IL_4V8Y_229	1/B5/3340:3342, 1/B5/3363:3364	homologous IL_5TBW_369	NA
221	IL_4V8Y_230	1/B5/3342:3345, 1/B5/3360:3363	Double sheared geometric IL_4V9F_100	NA IL_09705.7*
222	IL_4V8Y_231	1/B5/3349:3350, 1/B5/3353:3356	homologous IL_5TBW_371	NA
223	IL_4V8Y_232	1/B7/15:16, 1/B7/63:65	Single bulged A homologous IL_5TBW_372	NA IL_80007.16*
224	IL_4V8Y_233	1/B7/21:27, 1/B7/53:58	homologous IL_5TBW_373	NA IL_05523.1*
225	IL_4V8Y_234	1/B7/28:29, 1/B7/49:52	Minor groove platform geometric IL_5TBW_374	NA IL_94431.4*
226	IL_4V8Y_235	1/B7/29:30, 1/B7/47:49	Single stack bend homologous IL_5TBW_375	NA IL_04038.4*
227	IL_4V8Y_236	1/B7/32:36, 1/B7/41:45	Symmetric double minor groove platform homologous IL_5TBW_376	NA IL_58103.5*
228	IL_4V8Y_237	1/B7/72:80, 1/B7/100:106	8x7 Sarcin-Ricin; G-bulge homologous IL_5TBW_377	NA IL_04346.5*
229	IL_4V8Y_238	1/B7/84:87, 1/B7/94:96	homologous IL_5TBW_378	NA IL_01312.13*
230	IL_4V8Y_239	1/B8/44:64, 1/B8/96:100	homologous

4V8Y Internal, Hairpin and 3-way Junction Loop Motifs

Valid loops

Problematic loops

Valid loops