4V4J | Motifs

111 Hairpin loops
169 Internal loops
26 Junction loops

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	HL_4V4J_001	1/2/11:24	NA	NA
2	HL_4V4J_002	1/2/31:39	NA	NA
3	HL_4V4J_003	1/2/53:61	NA	NA
4	HL_4V4J_004	1/w/59:68	homologous HL_7RQB_001	NA HL_29414.1*
5	HL_4V4J_005	1/w/87:95	homologous HL_7RQB_002	NA HL_17926.5*
6	HL_4V4J_006	1/w/123:128	homologous HL_7RQB_003	NA HL_62869.3*
7	HL_4V4J_007	1/w/137B:141B	NA	NA
8	HL_4V4J_008	1/w/155:171	homologous HL_7RQB_005	NA
9	HL_4V4J_009	1/w/194:201	homologous HL_7RQB_006	NA HL_23481.5*
10	HL_4V4J_010	1/w/225:230	homologous HL_7RQB_007	NA HL_06569.2*
11	HL_4V4J_011	1/w/246:252	homologous HL_7RQB_008	NA HL_67216.5*
12	HL_4V4J_012	1/w/270K:270Q	NA	NA
13	HL_4V4J_013	1/w/305:312	homologous HL_7RQB_010	NA HL_68493.6*
14	HL_4V4J_014	1/w/319:323	homologous HL_7RQB_011	NA HL_98557.5*
15	HL_4V4J_015	1/w/327:335	homologous HL_7RQB_012	NA HL_08002.6*
16	HL_4V4J_016	1/w/382:392	homologous HL_7RQB_013	NA HL_91503.3*
17	HL_4V4J_017	1/w/410:417	NA	NA
18	HL_4V4J_018	1/w/462:467	homologous HL_7RQB_015	NA HL_43074.18*
19	HL_4V4J_019	1/w/487:493	NA	NA
20	HL_4V4J_020	1/w/544:549	GNRA geometric HL_5TBW_036	NA HL_43074.18*
21	HL_4V4J_021	1/w/564:577	NA	NA
22	HL_4V4J_022	1/w/611:617	Other HL geometric HL_1P6V_001	NA HL_79299.11*
23	HL_4V4J_023	1/w/629:634	homologous HL_7RQB_020	NA HL_43074.18*
24	HL_4V4J_024	1/w/641:647	homologous HL_7RQB_021	NA HL_02361.6*
25	HL_4V4J_025	1/w/712:719	homologous HL_7RQB_022	NA HL_93727.5*
26	HL_4V4J_026	1/w/744:753	homologous HL_7RQB_023	NA HL_39334.5*
27	HL_4V4J_027	1/w/779:785	NA	NA
28	HL_4V4J_028	1/w/825:832	Other HL geometric HL_1P6V_001	NA HL_79299.11*
29	HL_4V4J_029	1/w/884:892	NA	NA
30	HL_4V4J_030	1/w/955:962	homologous HL_7RQB_027	NA HL_43074.18*
31	HL_4V4J_031	1/w/978:985	homologous HL_7RQB_028	NA HL_72451.5*
32	HL_4V4J_032	1/w/1065:1073	geometric HL_4YAZ_004	NA HL_57052.3*
33	HL_4V4J_033	1/w/1092:1099	homologous HL_7RQB_030	NA
34	HL_4V4J_034	1/w/1171:1178	geometric HL_7RQB_043	NA HL_49638.1*
35	HL_4V4J_035	1/w/1222:1227	homologous HL_7RQB_032	NA HL_43074.18*
36	HL_4V4J_036	1/w/1281:1289	homologous HL_7RQB_033	NA HL_33239.17*
37	HL_4V4J_037	1/w/1324:1330	homologous HL_7RQB_034	NA HL_86880.5*
38	HL_4V4J_038	1/w/1363:1368	homologous HL_7RQB_035	NA HL_43074.18*
39	HL_4V4J_039	1/w/1389:1398	homologous HL_7RQB_036	NA HL_78457.4*
40	HL_4V4J_040	1/w/1450:1461	Other HL geometric HL_5J7L_200	NA HL_96776.3*
41	HL_4V4J_041	1/w/1492:1498	homologous HL_7RQB_038	NA HL_86880.5*
42	HL_4V4J_042	1/w/1533:1538	geometric HL_4YAZ_004	NA HL_57052.3*
43	HL_4V4J_043	1/w/1565:1568	homologous HL_7RQB_039	NA HL_69353.7*
44	HL_4V4J_044	1/w/1612:1619	homologous HL_7RQB_040	NA HL_66171.3*
45	HL_4V4J_045	1/w/1630B:1635	homologous HL_7RQB_041	NA HL_86880.5*
46	HL_4V4J_046	1/w/1691:1696	UNCG geometric HL_4PMI_004	NA HL_79299.11*
47	HL_4V4J_047	1/w/1727:1733	NA	NA
48	HL_4V4J_048	1/w/1752:1756	homologous HL_7RQB_044	NA HL_79272.3*
49	HL_4V4J_049	1/w/1777:1787	homologous HL_7RQB_045	NA HL_43613.4*
50	HL_4V4J_050	1/w/1806:1811	homologous HL_7RQB_046	NA HL_43074.18*
51	HL_4V4J_051	1/w/1863:1879	geometric HL_7A0S_056	NA HL_93727.5*
52	HL_4V4J_052	1/w/1910:1920	geometric HL_5TBW_049	NA HL_98248.1*
53	HL_4V4J_053	1/w/1949:1957	homologous HL_7RQB_049	NA HL_53760.4*
54	HL_4V4J_054	1/w/2027:2036	homologous HL_7RQB_050	NA HL_90642.5*
55	HL_4V4J_055	1/w/2143:2148	geometric HL_4V88_198	NA HL_30541.1*
56	HL_4V4J_056	1/w/2209:2215	geometric HL_5NFV_001	NA HL_58912.1*
57	HL_4V4J_057	1/w/2248:2256	homologous HL_7RQB_053	NA
58	HL_4V4J_058	1/w/2264:2276	homologous HL_7RQB_054	NA HL_19870.5*
59	HL_4V4J_059	1/w/2304:2312	NA	NA
60	HL_4V4J_060	1/w/2324:2331	homologous HL_7RQB_056	NA HL_46142.8*
61	HL_4V4J_061	1/w/2355:2362	homologous HL_7RQB_057	NA HL_93727.5*
62	HL_4V4J_062	1/w/2374:2379	homologous HL_7RQB_058	NA HL_43074.18*
63	HL_4V4J_063	1/w/2404:2413	homologous HL_7RQB_059	NA HL_48376.4*
64	HL_4V4J_064	1/w/2471:2479	homologous HL_7RQB_060	NA HL_36421.5*
65	HL_4V4J_065	1/w/2528:2535	homologous HL_7RQB_061	NA HL_92681.5*
66	HL_4V4J_066	1/w/2551:2557	homologous HL_7RQB_062	NA
67	HL_4V4J_067	1/w/2594:2599	homologous HL_7RQB_063	NA HL_43074.18*
68	HL_4V4J_068	1/w/2658:2663	geometric HL_3OXE_002	NA HL_32527.3*
69	HL_4V4J_069	1/w/2701:2706	homologous HL_7RQB_065	NA HL_31583.1*
70	HL_4V4J_070	1/w/2745:2759	homologous HL_7RQB_066	NA HL_56677.5*
71	HL_4V4J_071	1/w/2794:2802	Other HL geometric HL_1P6V_001	NA HL_79299.11*
72	HL_4V4J_072	1/w/2819:2827	homologous HL_7RQB_068	NA HL_05018.6*
73	HL_4V4J_073	1/w/2856:2861	homologous HL_7RQB_069	NA HL_43074.18*
74	HL_4V4J_074	1/x/38:44	geometric HL_4V9F_011	NA HL_98557.5*
75	HL_4V4J_075	1/x/86:90	GNRA homologous HL_5TBW_186	NA HL_43074.18*
76	HL_4V4J_076	1/y/12:22	NA	NA
77	HL_4V4J_077	1/y/81:88	NA	NA
78	HL_4V4J_078	1/y/102C:103B	NA	NA
79	HL_4V4J_079	1/y/158:163	NA	NA
80	HL_4V4J_080	1/y/186G:191A	NA	NA
81	HL_4V4J_081	1/y/201:216	NA	NA
82	HL_4V4J_082	1/y/259:267	NA	NA
83	HL_4V4J_083	1/y/296:301	NA	NA
84	HL_4V4J_084	1/y/320:333	NA	NA
85	HL_4V4J_085	1/y/342:347	NA	NA
86	HL_4V4J_086	1/y/379:384	NA	NA
87	HL_4V4J_087	1/y/419:424	NA	NA
88	HL_4V4J_088	1/y/458:474	NA	NA
89	HL_4V4J_089	1/y/521:528	NA	NA
90	HL_4V4J_090	1/y/617:623	NA	NA
91	HL_4V4J_091	1/y/689:698	NA	NA
92	HL_4V4J_092	1/y/726:731	NA	NA
93	HL_4V4J_093	1/y/786:796	NA	NA
94	HL_4V4J_094	1/y/838:848	NA	NA
95	HL_4V4J_096	1/y/897:902	NA	NA
96	HL_4V4J_097	1/y/963:972	NA	NA
97	HL_4V4J_098	1/y/1012:1017	NA	NA
98	HL_4V4J_099	1/y/1027:1034	NA	NA
99	HL_4V4J_100	1/y/1076:1081	NA	NA
100	HL_4V4J_101	1/y/1089:1096	NA	NA
101	HL_4V4J_102	1/y/1134:1140	NA	NA
102	HL_4V4J_103	1/y/1165:1171	NA	NA
103	HL_4V4J_104	1/y/1265:1270	NA	NA
104	HL_4V4J_105	1/y/1314:1323	NA	NA
105	HL_4V4J_106	1/y/1356:1366	NA	NA
106	HL_4V4J_107	1/y/1449:1454	NA	NA
107	HL_4V4J_108	1/y/1515:1520	NA	NA
108	HL_4V4J_109	1/z/13:22	NA	NA
109	HL_4V4J_110	1/z/31:39	NA	NA
110	HL_4V4J_111	1/z/53:61	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	HL_4V4J_095	all high RSRZ	NA

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	IL_4V4J_001	1/w/24:30, 1/w/510:516	Triple sheared with non-canonical cWW geometric IL_5TBW_015	NA IL_66414.5*
2	IL_4V4J_002	1/w/36:37, 1/w/442:444	Single bulged A homologous IL_7RQB_002	NA IL_80007.16*
3	IL_4V4J_003	1/w/43:44, 1/w/434:436	Minor groove platform homologous IL_7RQB_003	NA IL_06437.11*
4	IL_4V4J_004	1/w/81:85, 1/w/97:105	NA	NA
5	IL_4V4J_005	1/w/183:184, 1/w/212:214	Single stack bend homologous IL_7RQB_005	NA IL_04038.4*
6	IL_4V4J_006	1/w/188:194, 1/w/201:208	8x7 Sarcin-Ricin; G-bulge geometric IL_7RQB_006	NA IL_04346.5*
7	IL_4V4J_007	1/w/239:245, 1/w/253:258	7x6 Sarcin-Ricin; G-bulge homologous IL_7RQB_007	NA IL_35110.5*
8	IL_4V4J_009	1/w/273A:273C, 1/w/363E:364	NA	NA
9	IL_4V4J_010	1/w/273G:278, 1/w/362:363A	NA	NA
10	IL_4V4J_011	1/w/280:284, 1/w/356:360	tSH-tHW-tHS geometric IL_6CZR_145	NA IL_39521.5*
11	IL_4V4J_012	1/w/288:290, 1/w/350:352	geometric IL_1RPU_001	NA IL_01312.13*
12	IL_4V4J_013	1/w/292:295, 1/w/343:348	NA	NA
13	IL_4V4J_014	1/w/481:484, 1/w/496:509	geometric IL_7A0S_009	NA IL_60992.5*
14	IL_4V4J_015	1/w/605:609B, 1/w/618B:623	NA	NA
15	IL_4V4J_016	1/w/672:674, 1/w/806:808	homologous IL_7RQB_017	NA IL_01312.13*
16	IL_4V4J_017	1/w/674:678, 1/w/799:806	tHW-tHW cross-strand stack geometric IL_4WF9_021	NA IL_17470.5*
17	IL_4V4J_018	1/w/697:698, 1/w/763:765	Single bulged A homologous IL_7RQB_019	NA IL_80007.16*
18	IL_4V4J_019	1/w/702:703, 1/w/728:730	Single bulged G geometric IL_4WF9_023	NA IL_59137.10*
19	IL_4V4J_020	1/w/703:707, 1/w/724:728	Triple sheared homologous IL_7RQB_021	NA IL_56467.6*
20	IL_4V4J_021	1/w/738:741, 1/w/756:758	Major groove platform with extra cWW homologous IL_7RQB_022	NA IL_95485.6*
21	IL_4V4J_022	1/w/775:778, 1/w/786:791	NA	NA
22	IL_4V4J_023	1/w/837:838, 1/w/940:942	Single stack bend homologous IL_7RQB_024	NA IL_04038.4*
23	IL_4V4J_024	1/w/844:846, 1/w/931:934	Intercalated cWW geometric IL_7RQB_025	NA IL_01312.13*
24	IL_4V4J_025	1/w/846:850, 1/w/928:931	homologous IL_7RQB_026	NA IL_94165.1*
25	IL_4V4J_026	1/w/858:862, 1/w/915:919	5x5 Sarcin-Ricin with intercalated A; G-bulge geometric IL_7RQB_027	NA IL_83354.1*
26	IL_4V4J_027	1/w/862:863, 1/w/913:915	Minor groove platform homologous IL_7RQB_028	NA IL_06437.11*
27	IL_4V4J_028	1/w/864:868, 1/w/909:912	NA	NA
28	IL_4V4J_029	1/w/875:877, 1/w/900:902	Isolated tHS basepair with bulges geometric IL_1L9A_004	NA IL_38958.6*
29	IL_4V4J_030	1/w/877:879, 1/w/898:900	NA	NA
30	IL_4V4J_031	1/w/880:881, 1/w/895:897	NA	NA
31	IL_4V4J_032	1/w/952:954, 1/w/963:965	homologous IL_7RQB_034	NA IL_01312.13*
32	IL_4V4J_033	1/w/994:996, 1/w/1159:1160	Single bulged C homologous IL_7RQB_035	NA IL_61258.10*
33	IL_4V4J_034	1/w/998:1002, 1/w/1153:1157	UAA/GAN homologous IL_7RQB_036	NA IL_53523.5*
34	IL_4V4J_035	1/w/1004:1011, 1/w/1150:1151	Multiple bulged bases geometric IL_1R3E_001	NA IL_13730.12*
35	IL_4V4J_036	1/w/1011:1013, 1/w/1149:1150	Single bulged U homologous IL_7RQB_038	NA IL_83039.11*
36	IL_4V4J_037	1/w/1018:1024, 1/w/1140:1144	geometric IL_4WF9_039	NA IL_57188.3*
37	IL_4V4J_038	1/w/1024:1030, 1/w/1124:1140	homologous IL_7RQB_040	NA IL_55786.1*
38	IL_4V4J_039	1/w/1031:1034, 1/w/1121:1123	Isolated non-canonical cWW with bulges homologous IL_7RQB_041	NA IL_55456.1*
39	IL_4V4J_040	1/w/1043:1051, 1/w/1108:1112	Kink-turn homologous IL_7RQB_042	NA IL_90538.3*
40	IL_4V4J_041	1/w/1058:1062, 1/w/1076:1080	NA	NA
41	IL_4V4J_042	1/w/1087:1091, 1/w/1100:1102	Major groove platform with extra cWW geometric IL_5TBW_056	NA IL_95485.6*
42	IL_4V4J_043	1/w/1197:1198, 1/w/1247:1249	Single bulged G geometric IL_5J7L_001	NA IL_59137.10*
43	IL_4V4J_044	1/w/1202:1206, 1/w/1240:1243	homologous IL_7RQB_046	NA IL_68574.2*
44	IL_4V4J_045	1/w/1208:1215, 1/w/1234:1238	Kink-turn homologous IL_7RQB_047	NA IL_29549.9*
45	IL_4V4J_046	1/w/1219:1221, 1/w/1229:1230	Single bulged A homologous IL_7RQB_048	NA IL_80007.16*
46	IL_4V4J_047	1/w/1262:1269, 1/w/2011:2017	8x7 Sarcin-Ricin; G-bulge homologous IL_7RQB_049	NA IL_04346.5*
47	IL_4V4J_048	1/w/1310:1313, 1/w/1603:1604	Major groove platform; stack outside cWW homologous IL_7RQB_050	NA IL_70995.6*
48	IL_4V4J_049	1/w/1319:1323, 1/w/1331:1333	C-loop homologous IL_7RQB_051	NA IL_63596.4*
49	IL_4V4J_050	1/w/1351:1355, 1/w/1376:1380	UAA/GAN homologous IL_7RQB_052	NA IL_53523.5*
50	IL_4V4J_051	1/w/1357:1361, 1/w/1370:1374	tSH-tHW-tHS homologous IL_7RQB_053	NA IL_39521.5*
51	IL_4V4J_052	1/w/1415:1416, 1/w/1582:1587	homologous IL_7RQB_054	NA IL_67474.3*
52	IL_4V4J_053	1/w/1417:1421, 1/w/1577:1581	UAA/GAN homologous IL_7RQB_055	NA IL_53523.5*
53	IL_4V4J_054	1/w/1432:1435, 1/w/1557:1561	NA	NA
54	IL_4V4J_055	1/w/1437:1440, 1/w/1551:1555	tSH-tHW homologous IL_7RQB_057	NA IL_08757.3*
55	IL_4V4J_056	1/w/1448:1449, 1/w/1462:1463	NA	NA
56	IL_4V4J_057	1/w/1469:1473, 1/w/1520:1523	UAA/GAN homologous IL_7RQB_060	NA IL_53523.5*
57	IL_4V4J_058	1/w/1481:1483, 1/w/1506:1512	NA	NA
58	IL_4V4J_059	1/w/1489:1491, 1/w/1499:1500	Single bulged A homologous IL_7RQB_062	NA IL_40508.4*
59	IL_4V4J_060	1/w/1526:1527, 1/w/1544:1546B	NA	NA
60	IL_4V4J_061	1/w/1527:1531, 1/w/1540:1544	NA	NA
61	IL_4V4J_062	1/w/1651:1656, 1/w/2004:2006	homologous IL_7RQB_064	NA IL_12566.2*
62	IL_4V4J_063	1/w/1663:1665, 1/w/1995:1997	Isolated tWW turn homologous IL_7RQB_065	NA IL_54997.5*
63	IL_4V4J_064	1/w/1666:1669, 1/w/1993:1994	Major groove platform; stack outside cWW geometric IL_5J7L_306	NA IL_80663.10*
64	IL_4V4J_065	1/w/1669:1674, 1/w/1990:1993	Intercalated tWH homologous IL_7RQB_067	NA IL_01312.13*
65	IL_4V4J_066	1/w/1686:1691, 1/w/1696:1702	tSH-tSH-tHH-tHS homologous IL_7RQB_068	NA IL_66584.5*
66	IL_4V4J_067	1/w/1770:1771, 1/w/1980:1982	Single bulged A homologous IL_7RQB_069	NA IL_80007.16*
67	IL_4V4J_068	1/w/1798:1804, 1/w/1813:1821	Kink-turn related homologous IL_7RQB_070	NA IL_17069.3*
68	IL_4V4J_069	1/w/1837:1840, 1/w/1902:1903	Major groove outside cWW, minor groove, intercalation pocket homologous IL_7RQB_071	NA IL_31836.1*
69	IL_4V4J_070	1/w/1841:1842, 1/w/1898:1901	Multiple bulged bases geometric IL_3IWN_004	NA IL_13730.12*
70	IL_4V4J_071	1/w/1846:1849, 1/w/1893:1894	Minor groove platform homologous IL_7RQB_073	NA IL_06437.11*
71	IL_4V4J_072	1/w/1851:1855, 1/w/1887:1891	UAA/GAN with extra pair homologous IL_7RQB_074	NA IL_34907.2*
72	IL_4V4J_073	1/w/1856:1860, 1/w/1882:1886	Triple sheared homologous IL_7RQB_075	NA IL_56467.6*
73	IL_4V4J_074	1/w/1933:1934, 1/w/1964:1967	Multiple bulged bases homologous IL_7RQB_076	NA IL_69632.1*
74	IL_4V4J_075	1/w/1934:1945, 1/w/1961:1964	geometric IL_4WF9_077	NA IL_70285.1*
75	IL_4V4J_076	1/w/2050:2052, 1/w/2617:2618	Major groove platform homologous IL_7RQB_078	NA IL_80663.10*
76	IL_4V4J_077	1/w/2054:2056, 1/w/2612:2615	NA	NA
77	IL_4V4J_078	1/w/2067:2069, 1/w/2442:2443	Single bulged U homologous IL_7RQB_080	NA IL_83039.11*
78	IL_4V4J_079	1/w/2070:2071, 1/w/2438:2441	Minor groove platform homologous IL_7RQB_081	NA IL_06437.11*
79	IL_4V4J_080	1/w/2081:2083, 1/w/2236:2239	Isolated tHS basepair with bulges homologous IL_7RQB_082	NA IL_38958.6*
80	IL_4V4J_081	1/w/2085:2087, 1/w/2232:2234	homologous IL_7RQB_083	NA IL_01312.13*
81	IL_4V4J_082	1/w/2108:2110, 1/w/2179:2181	geometric IL_4KZD_003	NA IL_01312.13*
82	IL_4V4J_083	1/w/2110:2120, 1/w/2178:2179	NA	NA
83	IL_4V4J_084	1/w/2124:2127, 1/w/2161:2174	homologous IL_7RQB_086	NA
84	IL_4V4J_085	1/w/2129:2136, 1/w/2155:2159	NA	NA
85	IL_4V4J_086	1/w/2297:2299, 1/w/2317:2321	Isolated tHS basepair with bulges homologous IL_7RQB_088	NA IL_38958.6*
86	IL_4V4J_087	1/w/2350:2353, 1/w/2364:2367	Double sheared homologous IL_7RQB_089	NA IL_09705.7*
87	IL_4V4J_088	1/w/2401:2403, 1/w/2414:2415	NA	NA
88	IL_4V4J_089	1/w/2454:2455, 1/w/2496:2498	Major groove platform geometric IL_7A0S_073	NA IL_80663.10*
89	IL_4V4J_090	1/w/2457:2459, 1/w/2493:2494	Major groove platform geometric IL_1S03_004	NA IL_80663.10*
90	IL_4V4J_091	1/w/2459:2461, 1/w/2489:2493	Major groove minor groove platform with extra cWW geometric IL_5J7L_337	NA IL_96042.4*
91	IL_4V4J_092	1/w/2466:2470, 1/w/2480:2484	Triple sheared homologous IL_7RQB_095	NA IL_56467.6*
92	IL_4V4J_093	1/w/2507:2508, 1/w/2580:2582	Major groove platform homologous IL_7RQB_096	NA IL_02060.4*
93	IL_4V4J_094	1/w/2510:2512, 1/w/2574:2578	Isolated non-canonical cWW with bulges homologous IL_7RQB_097	NA IL_01312.13*
94	IL_4V4J_095	1/w/2512:2513, 1/w/2571:2574	Multiple bulged bases geometric IL_7RQB_098	NA IL_13730.12*
95	IL_4V4J_096	1/w/2522:2523, 1/w/2540:2543	Minor groove platform with intercalation homologous IL_7RQB_099	NA IL_95601.1*
96	IL_4V4J_097	1/w/2591:2592, 1/w/2601:2603	Single bulged A geometric IL_2QUX_002	NA IL_80007.16*
97	IL_4V4J_098	1/w/2636:2640, 1/w/2774:2782	tSH-tHS-tHW homologous IL_7RQB_102	NA IL_34907.2*
98	IL_4V4J_099	1/w/2652:2658, 1/w/2663:2668	Sarcin-Ricin target in LSU H95; G-bulge homologous IL_7RQB_103	NA IL_35110.5*
99	IL_4V4J_100	1/w/2680:2684, 1/w/2725:2727	C-loop homologous IL_7RQB_104	NA IL_63596.4*
100	IL_4V4J_101	1/w/2687:2691, 1/w/2718:2722	homologous IL_7RQB_105	NA IL_08296.3*
101	IL_4V4J_102	1/w/2695:2697, 1/w/2710:2714	geometric IL_5VSU_002	NA IL_01312.13*
102	IL_4V4J_103	1/w/2737:2742, 1/w/2762:2767	UAA/GAN with extra cWW geometric IL_5J7L_350	NA IL_49767.4*
103	IL_4V4J_104	1/w/2838:2839, 1/w/2878:2880	Single bulged C homologous IL_7RQB_108	NA IL_61258.10*
104	IL_4V4J_105	1/w/2843:2845, 1/w/2871:2874	NA	NA
105	IL_4V4J_106	1/w/2847:2852, 1/w/2865:2869	homologous IL_7RQB_110	NA IL_83162.3*
106	IL_4V4J_107	1/x/17:18, 1/x/65:67	Major groove intercalation geometric IL_4V9F_101	NA IL_40508.4*
107	IL_4V4J_108	1/x/23:28, 1/x/56:60	NA	NA
108	IL_4V4J_109	1/x/30:31, 1/x/51:54	NA	NA
109	IL_4V4J_110	1/x/34:38, 1/x/44:48	Symmetric double minor groove platform homologous IL_5TBW_376	NA IL_58103.5*
110	IL_4V4J_111	1/x/71:79, 1/x/97:105	Bacterial 5S Loop E geometric IL_5J7L_359	NA IL_56455.3*
111	IL_4V4J_112	1/y/30:32, 1/y/552:553	NA	NA
112	IL_4V4J_113	1/y/44:45, 1/y/396:398	NA	NA
113	IL_4V4J_114	1/y/47:52, 1/y/359:361	NA	NA
114	IL_4V4J_115	1/y/54:56, 1/y/356:357	NA	NA
115	IL_4V4J_116	1/y/67:69, 1/y/99:102	NA	NA
116	IL_4V4J_117	1/y/129A:131, 1/y/231:232	NA	NA
117	IL_4V4J_118	1/y/132:136, 1/y/227:230	NA	NA
118	IL_4V4J_120	1/y/148:153, 1/y/168:174	NA	NA
119	IL_4V4J_121	1/y/186A:186C, 1/y/191E:191G	NA	NA
120	IL_4V4J_122	1/y/242:247, 1/y/277:284	NA	NA
121	IL_4V4J_123	1/y/249:252, 1/y/274:275	NA	NA
122	IL_4V4J_124	1/y/292:293, 1/y/304:308	NA	NA
123	IL_4V4J_125	1/y/367:370, 1/y/391:393	NA	NA
124	IL_4V4J_126	1/y/371:375, 1/y/389:390	NA	NA
125	IL_4V4J_127	1/y/375:376, 1/y/387:389	NA	NA
126	IL_4V4J_128	1/y/409:417, 1/y/426:433	NA	NA
127	IL_4V4J_129	1/y/446:450, 1/y/483:488	NA	NA
128	IL_4V4J_130	1/y/450:455, 1/y/477:483	NA	NA
129	IL_4V4J_131	1/y/504:511, 1/y/540:541	NA	NA
130	IL_4V4J_132	1/y/515:521, 1/y/528:536	NA	NA
131	IL_4V4J_133	1/y/569:575, 1/y/880:881	NA	NA
132	IL_4V4J_134	1/y/580:584, 1/y/757:761	NA	NA
133	IL_4V4J_135	1/y/594:596, 1/y/644:645	NA	NA
134	IL_4V4J_136	1/y/597:598, 1/y/640:643	NA	NA
135	IL_4V4J_137	1/y/605:612, 1/y/628:633	NA	NA
136	IL_4V4J_138	1/y/654:656, 1/y/750:754	NA	NA
137	IL_4V4J_139	1/y/657:658, 1/y/747:749	NA	NA
138	IL_4V4J_140	1/y/662:666, 1/y/740:743	NA	NA
139	IL_4V4J_141	1/y/673:677, 1/y/713:717	NA	NA
140	IL_4V4J_142	1/y/683:688, 1/y/699:707	NA	NA
141	IL_4V4J_143	1/y/774:778, 1/y/804:805	NA	NA
142	IL_4V4J_144	1/y/779:783, 1/y/799:803	NA	NA
143	IL_4V4J_145	1/y/887:895, 1/y/904:910	NA	NA
144	IL_4V4J_146	1/y/922:923, 1/y/1393:1395	NA	NA
145	IL_4V4J_147	1/y/925:927, 1/y/1390:1391	NA	NA
146	IL_4V4J_148	1/y/933:935, 1/y/1380:1384	NA	NA
147	IL_4V4J_149	1/y/953:954, 1/y/1226:1228	NA	NA
148	IL_4V4J_150	1/y/993:997, 1/y/1044:1045	NA	NA
149	IL_4V4J_151	1/y/1048:1050, 1/y/1208:1209	NA	NA
150	IL_4V4J_152	1/y/1050:1056, 1/y/1204:1208	NA	NA
151	IL_4V4J_153	1/y/1057:1059, 1/y/1198:1203	NA	NA
152	IL_4V4J_154	1/y/1060:1061, 1/y/1195:1197	NA	NA
153	IL_4V4J_155	1/y/1061:1063, 1/y/1193:1195	NA	NA
154	IL_4V4J_156	1/y/1124:1127, 1/y/1145:1149	NA	NA
155	IL_4V4J_157	1/y/1129:1132, 1/y/1142:1143	NA	NA
156	IL_4V4J_158	1/y/1158:1161, 1/y/1175:1181	NA	NA
157	IL_4V4J_159	1/y/1247:1253, 1/y/1284:1290	NA	NA
158	IL_4V4J_160	1/y/1255:1258, 1/y/1277:1282	NA	NA
159	IL_4V4J_161	1/y/1259:1262, 1/y/1273:1276	NA	NA
160	IL_4V4J_162	1/y/1303:1308, 1/y/1329:1334	NA	NA
161	IL_4V4J_163	1/y/1399:1401, 1/y/1501:1504	NA	NA
162	IL_4V4J_164	1/y/1401:1409, 1/y/1491:1501	NA	NA
163	IL_4V4J_165	1/y/1412:1414, 1/y/1486:1488	NA	NA
164	IL_4V4J_166	1/y/1416:1419, 1/y/1481:1484	NA	NA
165	IL_4V4J_167	1/y/1431:1435, 1/y/1466:1469	NA	NA
166	IL_4V4J_168	1/y/1435:1437, 1/y/1464:1466	NA	NA
167	IL_4V4J_169	1/y/1440:1447, 1/y/1459:1461	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	IL_4V4J_008	complementary	Multiple bulged bases geometric IL_6JXM_001
2	IL_4V4J_119	complementary	NA

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	J3_4V4J_001	1/w/30:31, 1/w/474:481, 1/w/509:510	homologous J3_7RQB_001	NA
2	J3_4V4J_002	1/w/56:57, 1/w/70:76, 1/w/110:114	homologous J3_7RQB_002	NA
3	J3_4V4J_003	1/w/269:270D, 1/w/270X:271, 1/w/366B:370	NA	NA
4	J3_4V4J_004	1/w/683:689, 1/w/773:775, 1/w/791:794	homologous J3_7RQB_004	NA
5	J3_4V4J_005	1/w/698:700, 1/w/732:736, 1/w/760:763	NA	NA
6	J3_4V4J_006	1/w/1055:1057, 1/w/1081:1087, 1/w/1102:1104	homologous J3_7RQB_006	NA
7	J3_4V4J_007	1/w/1298:1303, 1/w/1625:1627, 1/w/1639:1642	homologous J3_7RQB_007	NA
8	J3_4V4J_008	1/w/1306:1309, 1/w/1605:1611, 1/w/1620:1622	homologous J3_7RQB_008	NA
9	J3_4V4J_009	1/w/1344:1350, 1/w/1381:1385, 1/w/1402:1403	homologous J3_7RQB_009	NA
10	J3_4V4J_010	1/w/2091:2093, 1/w/2196:2205, 1/w/2219:2228	homologous J3_7RQB_010	NA
11	J3_4V4J_011	1/w/2295:2297, 1/w/2321:2323, 1/w/2332:2337	NA	NA
12	J3_4V4J_012	1/w/2517:2520, 1/w/2545:2547, 1/w/2561:2567	NA	NA
13	J3_4V4J_013	1/w/2814:2815, 1/w/2831:2836, 1/w/2882:2886	homologous J3_7RQB_014	NA
14	J3_4V4J_014	1/x/11:16, 1/x/68:70, 1/x/106:109	NA	NA
15	J3_4V4J_015	1/y/46:47, 1/y/361:366, 1/y/394:395	NA	NA
16	J3_4V4J_016	1/y/586:588, 1/y/651:654, 1/y/754:755	NA	NA
17	J3_4V4J_017	1/y/672:673, 1/y/717:725, 1/y/732:734	NA	NA
18	J3_4V4J_018	1/y/826:829, 1/y/857:861, 1/y/868:874	NA	NA
19	J3_4V4J_019	1/y/943:946, 1/y/1235:1237, 1/y/1337:1340	NA	NA
20	J3_4V4J_020	1/y/955:962, 1/y/973:984, 1/y/1221:1225	NA	NA
21	J3_4V4J_021	1/y/990:993, 1/y/1045:1047, 1/y/1210:1215	NA	NA
22	J3_4V4J_022	1/y/1003:1006, 1/y/1023:1027, 1/y/1034:1037	NA	NA
23	J3_4V4J_023	1/y/1063:1068, 1/y/1107:1113, 1/y/1187:1193	NA	NA
24	J3_4V4J_024	1/y/1073:1074, 1/y/1083:1086, 1/y/1099:1102	NA	NA
25	J3_4V4J_025	1/y/1116:1118, 1/y/1155:1158, 1/y/1181:1184	NA	NA
26	J3_4V4J_026	1/y/1237:1241, 1/y/1296:1303, 1/y/1334:1337	NA	NA

Problematic loops

No problematic loops

Coloring options: Nucleotide numbers

4V4J Internal, Hairpin and 3-way Junction Loop Motifs

Valid loops

Problematic loops

Valid loops

Problematic loops

Valid loops

Problematic loops