6WRU | Motifs

71 Hairpin loops
102 Internal loops
11 Junction loops

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	HL_6WRU_001	1/1/67:74	geometric HL_4WF9_001	NA HL_86769.2*
2	HL_6WRU_002	1/1/87:95	homologous HL_7RQB_002	NA HL_17926.5*
3	HL_6WRU_003	1/1/122:127	homologous HL_7RQB_003	NA HL_62869.3*
4	HL_6WRU_004	1/1/136:143	geometric HL_5AOX_001	NA HL_93727.5*
5	HL_6WRU_005	1/1/158:170	NA	NA
6	HL_6WRU_006	1/1/197:204	geometric HL_4V9F_006	NA HL_23481.5*
7	HL_6WRU_007	1/1/228:233	homologous HL_7RQB_007	NA HL_06569.2*
8	HL_6WRU_008	1/1/249:255	homologous HL_7RQB_008	NA HL_67216.5*
9	HL_6WRU_010	1/1/348:355	homologous HL_7RQB_010	NA HL_68493.6*
10	HL_6WRU_011	1/1/362:366	homologous HL_7RQB_011	NA HL_98557.5*
11	HL_6WRU_012	1/1/370:378	homologous HL_7RQB_012	NA HL_08002.6*
12	HL_6WRU_013	1/1/427:439	NA	NA
13	HL_6WRU_014	1/1/456:463	homologous HL_7RQB_014	NA HL_32512.8*
14	HL_6WRU_015	1/1/508:513	homologous HL_7RQB_015	NA HL_43074.18*
15	HL_6WRU_016	1/1/533:538	homologous HL_7RQB_016	NA HL_43074.18*
16	HL_6WRU_017	1/1/587:594	geometric HL_4WF9_017	NA HL_23219.1*
17	HL_6WRU_018	1/1/609:618	homologous HL_7RQB_018	NA HL_33239.17*
18	HL_6WRU_019	1/1/655:661	NA	NA
19	HL_6WRU_020	1/1/674:679	homologous HL_7RQB_020	NA HL_43074.18*
20	HL_6WRU_021	1/1/686:692	homologous HL_7RQB_021	NA HL_02361.6*
21	HL_6WRU_022	1/1/757:764	NA	NA
22	HL_6WRU_023	1/1/789:798	homologous HL_7RQB_023	NA HL_39334.5*
23	HL_6WRU_024	1/1/823:831	geometric HL_5TBW_021	NA HL_05832.1*
24	HL_6WRU_025	1/1/871:876	homologous HL_7RQB_025	NA HL_15942.5*
25	HL_6WRU_027	1/1/999:1006	homologous HL_7RQB_027	NA HL_43074.18*
26	HL_6WRU_028	1/1/1022:1029	homologous HL_7RQB_028	NA HL_72451.5*
27	HL_6WRU_030	1/1/1213:1219	NA	NA
28	HL_6WRU_031	1/1/1260:1265	homologous HL_7RQB_032	NA HL_43074.18*
29	HL_6WRU_032	1/1/1318:1326	homologous HL_7RQB_033	NA HL_33239.17*
30	HL_6WRU_033	1/1/1361:1367	homologous HL_7RQB_034	NA HL_86880.5*
31	HL_6WRU_034	1/1/1400:1405	homologous HL_7RQB_035	NA HL_43074.18*
32	HL_6WRU_035	1/1/1426:1435	homologous HL_7RQB_036	NA HL_78457.4*
33	HL_6WRU_036	1/1/1492:1506	NA	NA
34	HL_6WRU_039	1/1/1612:1615	homologous HL_7RQB_039	NA HL_69353.7*
35	HL_6WRU_040	1/1/1656:1663	homologous HL_7RQB_040	NA HL_66171.3*
36	HL_6WRU_041	1/1/1673:1681	geometric HL_4WF9_039	NA HL_42733.4*
37	HL_6WRU_042	1/1/1735:1740	UNCG geometric HL_4V9F_044	NA HL_79299.11*
38	HL_6WRU_044	1/1/1779:1783	homologous HL_7RQB_044	NA HL_79272.3*
39	HL_6WRU_045	1/1/1804:1814	homologous HL_7RQB_045	NA HL_43613.4*
40	HL_6WRU_046	1/1/1833:1838	geometric HL_5J7L_179	NA HL_32527.3*
41	HL_6WRU_048	1/1/1937:1947	NA	NA
42	HL_6WRU_049	1/1/1976:1984	homologous HL_7RQB_049	NA HL_53760.4*
43	HL_6WRU_050	1/1/2054:2063	homologous HL_7RQB_050	NA HL_90642.5*
44	HL_6WRU_052	1/1/2236:2242	NA	NA
45	HL_6WRU_053	1/1/2275:2283	homologous HL_7RQB_053	NA
46	HL_6WRU_054	1/1/2291:2303	homologous HL_7RQB_054	NA HL_19870.5*
47	HL_6WRU_056	1/1/2351:2358	homologous HL_7RQB_056	NA HL_46142.8*
48	HL_6WRU_057	1/1/2382:2389	homologous HL_7RQB_057	NA HL_93727.5*
49	HL_6WRU_058	1/1/2401:2406	homologous HL_7RQB_058	NA HL_43074.18*
50	HL_6WRU_059	1/1/2431:2440	homologous HL_7RQB_059	NA HL_48376.4*
51	HL_6WRU_060	1/1/2498:2506	homologous HL_7RQB_060	NA HL_36421.5*
52	HL_6WRU_061	1/1/2555:2562	homologous HL_7RQB_061	NA HL_92681.5*
53	HL_6WRU_062	1/1/2578:2584	geometric HL_4WF9_058	NA HL_26055.6*
54	HL_6WRU_063	1/1/2621:2626	homologous HL_7RQB_063	NA HL_43074.18*
55	HL_6WRU_064	1/1/2685:2690	homologous HL_7RQB_064	NA HL_43074.18*
56	HL_6WRU_065	1/1/2728:2733	Ribsomal LSU H95 geometric HL_5J7L_198	NA HL_67719.1*
57	HL_6WRU_066	1/1/2772:2786	homologous HL_7RQB_066	NA HL_56677.5*
58	HL_6WRU_067	1/1/2819:2824	geometric HL_1WZ2_007	NA HL_05692.1*
59	HL_6WRU_068	1/1/2839:2847	homologous HL_7RQB_068	NA HL_05018.6*
60	HL_6WRU_069	1/1/2876:2881	homologous HL_7RQB_069	NA HL_43074.18*
61	HL_6WRU_070	1/2/36:42	NA	NA
62	HL_6WRU_071	1/2/77:92	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	HL_6WRU_009	missing nts	NA
2	HL_6WRU_026	missing nts	NA
3	HL_6WRU_029	missing nts	NA
4	HL_6WRU_037	missing nts	NA
5	HL_6WRU_038	missing nts	NA
6	HL_6WRU_043	missing nts	NA
7	HL_6WRU_047	missing nts	NA
8	HL_6WRU_051	missing nts	NA
9	HL_6WRU_055	missing nts	NA

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	IL_6WRU_001	1/1/24:30, 1/1/555:561	Triple sheared with non-canonical cWW geometric IL_4WF9_001	NA IL_66414.5*
2	IL_6WRU_002	1/1/36:37, 1/1/488:490	Single bulged A homologous IL_7RQB_002	NA IL_80007.16*
3	IL_6WRU_003	1/1/42:44, 1/1/480:483	Minor groove platform with extra cWW geometric IL_4WF9_003	NA IL_87332.1*
4	IL_6WRU_004	1/1/81:85, 1/1/97:104	Kink-turn homologous IL_7RQB_004	NA IL_29549.9*
5	IL_6WRU_005	1/1/152:153, 1/1/175:177	Single bulged A geometric IL_4WF9_006	NA IL_80007.16*
6	IL_6WRU_006	1/1/186:187, 1/1/215:217	Single stack bend homologous IL_7RQB_005	NA IL_04038.4*
7	IL_6WRU_007	1/1/190:197, 1/1/204:212	9x8 Sarcin-Ricin; G-bulge geometric IL_4WF9_008	NA IL_61812.1*
8	IL_6WRU_008	1/1/241:248, 1/1/256:262	8x7 Sarcin-Ricin; G-bulge geometric IL_4WF9_009	NA IL_04346.5*
9	IL_6WRU_009	1/1/305:307, 1/1/408:412	NA	NA
10	IL_6WRU_010	1/1/328:333, 1/1/393:399	NA	NA
11	IL_6WRU_011	1/1/336:338, 1/1/386:390	homologous IL_7RQB_013	NA IL_69440.1*
12	IL_6WRU_012	1/1/527:530, 1/1/541:554	geometric IL_4WF9_015	NA IL_60992.5*
13	IL_6WRU_013	1/1/581:584, 1/1/597:600	Double sheared geometric IL_4WF9_016	NA IL_09705.7*
14	IL_6WRU_014	1/1/607:609, 1/1/618:620	geometric IL_4WF9_017	NA IL_01312.13*
15	IL_6WRU_015	1/1/638:640, 1/1/705:707	geometric IL_4WF9_018	NA IL_01312.13*
16	IL_6WRU_016	1/1/649:653, 1/1/663:667	AAA cross-strand stack homologous IL_7RQB_016	NA IL_56467.6*
17	IL_6WRU_017	1/1/717:719, 1/1/851:853	geometric IL_7RQB_017	NA IL_01312.13*
18	IL_6WRU_018	1/1/719:723, 1/1/844:851	homologous IL_7RQB_018	NA IL_17470.5*
19	IL_6WRU_019	1/1/742:743, 1/1/808:810	Single bulged A geometric IL_5J7L_261	NA IL_80007.16*
20	IL_6WRU_020	1/1/747:748, 1/1/773:775	Single bulged G geometric IL_4V9F_026	NA IL_59137.10*
21	IL_6WRU_021	1/1/748:752, 1/1/769:773	Triple sheared homologous IL_7RQB_021	NA IL_56467.6*
22	IL_6WRU_022	1/1/783:785, 1/1/802:803	Major groove platform geometric IL_4WF9_026	NA IL_80663.10*
23	IL_6WRU_023	1/1/820:822, 1/1/832:836	Multiple bulged bases geometric IL_7RQB_023	NA IL_90991.5*
24	IL_6WRU_024	1/1/882:883, 1/1/984:986	Single stack bend homologous IL_7RQB_024	NA IL_04038.4*
25	IL_6WRU_025	1/1/889:893, 1/1/975:978	geometric IL_4WF9_029	NA IL_06300.1*
26	IL_6WRU_026	1/1/894:896, 1/1/972:974	geometric IL_4WF9_020	NA IL_01312.13*
27	IL_6WRU_027	1/1/897:898, 1/1/969:971	NA	NA
28	IL_6WRU_028	1/1/901:907, 1/1/960:966	7x7 Sarcin-Ricin with intercalated A; G-bulge geometric IL_4WF9_031	NA IL_93830.2*
29	IL_6WRU_029	1/1/907:908, 1/1/958:960	Minor groove platform homologous IL_7RQB_028	NA IL_06437.11*
30	IL_6WRU_030	1/1/909:913, 1/1/954:957	C-loop homologous IL_7RQB_029	NA IL_63596.4*
31	IL_6WRU_031	1/1/915:917, 1/1/950:952	Isolated cWS basepair homologous IL_7RQB_030	NA IL_67621.5*
32	IL_6WRU_032	1/1/1038:1040, 1/1/1203:1204	Single bulged C homologous IL_7RQB_035	NA IL_61258.10*
33	IL_6WRU_033	1/1/1042:1046, 1/1/1197:1201	UAA/GAN homologous IL_7RQB_036	NA IL_53523.5*
34	IL_6WRU_034	1/1/1048:1055, 1/1/1194:1195	SSU/LSU pseudoknot homologous IL_7RQB_037	NA IL_15861.6*
35	IL_6WRU_035	1/1/1055:1057, 1/1/1193:1194	Single bulged U geometric IL_5J7L_279	NA IL_83039.11*
36	IL_6WRU_036	1/1/1062:1068, 1/1/1184:1188	geometric IL_4WF9_039	NA IL_57188.3*
37	IL_6WRU_037	1/1/1068:1074, 1/1/1168:1184	geometric IL_4WF9_040	NA IL_22615.1*
38	IL_6WRU_038	1/1/1075:1078, 1/1/1165:1167	Isolated non-canonical cWW with bulges homologous IL_7RQB_041	NA IL_55456.1*
39	IL_6WRU_039	1/1/1081:1083, 1/1/1160:1162	geometric IL_5Y7M_007	NA IL_01312.13*
40	IL_6WRU_040	1/1/1235:1237, 1/1/1285:1288	Isolated cWS basepair homologous IL_7RQB_045	NA IL_67621.5*
41	IL_6WRU_041	1/1/1243:1245, 1/1/1277:1279	Isolated cWH basepair geometric IL_4WF9_045	NA IL_42589.6*
42	IL_6WRU_042	1/1/1246:1253, 1/1/1272:1276	Kink-turn homologous IL_7RQB_047	NA IL_29549.9*
43	IL_6WRU_043	1/1/1257:1259, 1/1/1266:1268	Intercalated cWW geometric IL_4WF9_047	NA IL_04038.4*
44	IL_6WRU_044	1/1/1300:1307, 1/1/2038:2044	8x7 Sarcin-Ricin; G-bulge homologous IL_7RQB_049	NA IL_04346.5*
45	IL_6WRU_045	1/1/1356:1360, 1/1/1368:1370	C-loop homologous IL_7RQB_051	NA IL_63596.4*
46	IL_6WRU_046	1/1/1388:1392, 1/1/1413:1417	UAA/GAN geometric IL_5J7L_292	NA IL_34907.2*
47	IL_6WRU_047	1/1/1394:1398, 1/1/1407:1411	tSH-tHW-tHS homologous IL_7RQB_053	NA IL_39521.5*
48	IL_6WRU_048	1/1/1461:1465, 1/1/1624:1627	Other IL geometric IL_4WF9_054	NA IL_09705.7*
49	IL_6WRU_049	1/1/1476:1480, 1/1/1604:1608	NA	NA
50	IL_6WRU_050	1/1/1481:1485, 1/1/1598:1603	NA	NA
51	IL_6WRU_051	1/1/1490:1492, 1/1/1506:1508	geometric IL_3LA5_001	NA IL_01312.13*
52	IL_6WRU_052	1/1/1511:1516, 1/1/1564:1570	geometric IL_4WF9_058	NA IL_94518.4*
53	IL_6WRU_053	1/1/1517:1523, 1/1/1557:1563	NA	NA
54	IL_6WRU_054	1/1/1695:1700, 1/1/2031:2033	homologous IL_7RQB_064	NA IL_12566.2*
55	IL_6WRU_055	1/1/1707:1709, 1/1/2022:2024	Isolated tWW turn homologous IL_7RQB_065	NA IL_54997.5*
56	IL_6WRU_056	1/1/1710:1713, 1/1/2020:2021	Major groove platform; stack outside cWW homologous IL_7RQB_066	NA IL_80663.10*
57	IL_6WRU_057	1/1/1713:1718, 1/1/2017:2020	Intercalated tWH geometric IL_4WF9_065	NA IL_01312.13*
58	IL_6WRU_058	1/1/1730:1735, 1/1/1740:1746	tSH-tSH-tHH-tHS homologous IL_7RQB_068	NA IL_66584.5*
59	IL_6WRU_059	1/1/1755:1761, 1/1/1768:1774	NA	NA
60	IL_6WRU_060	1/1/1797:1798, 1/1/2007:2009	Single bulged A homologous IL_7RQB_069	NA IL_80007.16*
61	IL_6WRU_061	1/1/1825:1831, 1/1/1840:1848	Kink-turn related homologous IL_7RQB_070	NA IL_17069.3*
62	IL_6WRU_062	1/1/1864:1867, 1/1/1929:1930	Major groove outside cWW, minor groove, intercalation pocket geometric IL_4V9F_066	NA IL_31836.1*
63	IL_6WRU_063	1/1/1867:1869, 1/1/1925:1929	NA	NA
64	IL_6WRU_064	1/1/1873:1876, 1/1/1920:1921	Major groove minor groove platform; mini C-loop geometric IL_7RQB_113	NA IL_09061.4*
65	IL_6WRU_065	1/1/1878:1882, 1/1/1914:1918	UAA/GAN with extra pair homologous IL_7RQB_074	NA IL_34907.2*
66	IL_6WRU_066	1/1/1883:1887, 1/1/1909:1913	Triple sheared homologous IL_7RQB_075	NA IL_56467.6*
67	IL_6WRU_067	1/1/1891:1894, 1/1/1901:1905	UAA/GAN related geometric IL_5J7L_317	NA IL_81389.2*
68	IL_6WRU_068	1/1/1960:1961, 1/1/1991:1994	Multiple bulged bases geometric IL_5J7L_318	NA IL_69632.1*
69	IL_6WRU_069	1/1/1961:1972, 1/1/1988:1991	geometric IL_7A0S_072	NA IL_07097.1*
70	IL_6WRU_070	1/1/2077:2079, 1/1/2644:2645	Major groove platform homologous IL_7RQB_078	NA IL_80663.10*
71	IL_6WRU_071	1/1/2081:2084, 1/1/2638:2642	homologous IL_7RQB_079	NA IL_01206.1*
72	IL_6WRU_072	1/1/2094:2096, 1/1/2469:2470	Single bulged U homologous IL_7RQB_080	NA IL_83039.11*
73	IL_6WRU_073	1/1/2097:2098, 1/1/2465:2468	Minor groove platform homologous IL_7RQB_081	NA IL_06437.11*
74	IL_6WRU_074	1/1/2108:2110, 1/1/2263:2266	Isolated tHS basepair with bulges homologous IL_7RQB_082	NA IL_38958.6*
75	IL_6WRU_075	1/1/2229:2231, 1/1/2247:2248	Single bulged G geometric IL_3NDB_004	NA IL_59137.10*
76	IL_6WRU_076	1/1/2324:2326, 1/1/2344:2348	Isolated tHS basepair with bulges geometric IL_4WF9_086	NA IL_38958.6*
77	IL_6WRU_077	1/1/2377:2380, 1/1/2391:2394	Double sheared homologous IL_7RQB_089	NA IL_09705.7*
78	IL_6WRU_078	1/1/2428:2430, 1/1/2441:2442	Single bulged U geometric IL_4KZD_001	NA IL_83039.11*
79	IL_6WRU_079	1/1/2480:2481, 1/1/2525:2527	Single stack bend homologous IL_7RQB_091	NA IL_04038.4*
80	IL_6WRU_080	1/1/2481:2482, 1/1/2523:2525	Major groove platform geometric IL_4V9F_082	NA IL_80663.10*
81	IL_6WRU_081	1/1/2484:2486, 1/1/2520:2521	Major groove platform geometric IL_7A0S_085	NA IL_80663.10*
82	IL_6WRU_082	1/1/2486:2488, 1/1/2516:2520	Major groove minor groove platform with extra cWW geometric IL_7RQB_094	NA IL_96042.4*
83	IL_6WRU_083	1/1/2493:2497, 1/1/2507:2511	Triple sheared homologous IL_7RQB_095	NA IL_56467.6*
84	IL_6WRU_084	1/1/2534:2536, 1/1/2606:2609	Isolated non-canonical cWW with bulges geometric IL_5ML7_010	NA IL_01312.13*
85	IL_6WRU_085	1/1/2537:2539, 1/1/2601:2605	Isolated non-canonical cWW with bulges homologous IL_7RQB_097	NA IL_01312.13*
86	IL_6WRU_086	1/1/2539:2540, 1/1/2598:2601	geometric IL_4WF9_096	NA IL_69632.1*
87	IL_6WRU_087	1/1/2549:2550, 1/1/2567:2570	Minor groove platform with intercalation homologous IL_7RQB_099	NA IL_95601.1*
88	IL_6WRU_088	1/1/2618:2619, 1/1/2628:2630	NA	NA
89	IL_6WRU_089	1/1/2663:2667, 1/1/2801:2809	tSH-tHS-tHW homologous IL_7RQB_102	NA IL_34907.2*
90	IL_6WRU_090	1/1/2679:2685, 1/1/2690:2695	Sarcin-Ricin target in LSU H95; G-bulge geometric IL_7A0S_094	NA IL_35110.5*
91	IL_6WRU_091	1/1/2707:2711, 1/1/2752:2754	C-loop homologous IL_7RQB_104	NA IL_63596.4*
92	IL_6WRU_092	1/1/2714:2718, 1/1/2745:2749	homologous IL_7RQB_105	NA IL_08296.3*
93	IL_6WRU_093	1/1/2722:2723, 1/1/2738:2741	Multiple bulged bases homologous IL_7RQB_106	NA IL_77034.1*
94	IL_6WRU_094	1/1/2764:2769, 1/1/2789:2794	UAA/GAN with extra cWW homologous IL_7RQB_107	NA IL_49767.4*
95	IL_6WRU_095	1/1/2857:2859, 1/1/2898:2901	geometric IL_7A0S_092	NA IL_01312.13*
96	IL_6WRU_096	1/1/2863:2865, 1/1/2891:2894	geometric IL_4WF9_107	NA IL_02284.3*
97	IL_6WRU_097	1/1/2867:2872, 1/1/2885:2889	homologous IL_7RQB_110	NA IL_83162.3*
98	IL_6WRU_099	1/2/15:16, 1/2/63:65	NA	NA
99	IL_6WRU_100	1/2/21:27, 1/2/53:58	NA	NA
100	IL_6WRU_101	1/2/27:29, 1/2/49:53	NA	NA
101	IL_6WRU_102	1/2/32:36, 1/2/42:46	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	IL_6WRU_098	incomplete nts	NA

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	J3_6WRU_001	1/1/30:31, 1/1/520:527, 1/1/554:555	homologous J3_7RQB_001	NA
2	J3_6WRU_002	1/1/56:67, 1/1/74:76, 1/1/109:113	NA	NA
3	J3_6WRU_003	1/1/272:276, 1/1/295:302, 1/1/415:416	homologous J3_7RQB_003	NA
4	J3_6WRU_004	1/1/728:734, 1/1/818:820, 1/1/836:839	homologous J3_7RQB_004	NA
5	J3_6WRU_005	1/1/743:745, 1/1/777:781, 1/1/805:808	homologous J3_7RQB_005	NA
6	J3_6WRU_006	1/1/1335:1340, 1/1/1669:1671, 1/1/1683:1686	homologous J3_7RQB_007	NA
7	J3_6WRU_007	1/1/1342:1346, 1/1/1649:1655, 1/1/1664:1667	NA	NA
8	J3_6WRU_008	1/1/2118:2120, 1/1/2223:2228, 1/1/2249:2255	NA	NA
9	J3_6WRU_009	1/1/2322:2324, 1/1/2348:2350, 1/1/2359:2364	homologous J3_7RQB_011	NA
10	J3_6WRU_010	1/1/2544:2547, 1/1/2572:2574, 1/1/2588:2594	homologous J3_7RQB_012	NA
11	J3_6WRU_011	1/1/2834:2835, 1/1/2851:2856, 1/1/2902:2906	homologous J3_7RQB_014	NA

Problematic loops

No problematic loops

Coloring options: Nucleotide numbers

6WRU Internal, Hairpin and 3-way Junction Loop Motifs

Valid loops

Problematic loops

Valid loops

Problematic loops

Valid loops

Problematic loops