5MDY | Motifs

105 Hairpin loops
185 Internal loops
26 Junction loops

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	HL_5MDY_001	1/1/59:68	geometric HL_4GXY_003	NA HL_67719.1*
2	HL_5MDY_002	1/1/87:95	geometric HL_5J7L_135	NA HL_17926.5*
3	HL_5MDY_003	1/1/123:128	homologous HL_7RQB_003	NA HL_62869.3*
4	HL_5MDY_004	1/1/137:142	geometric HL_5NFV_001	NA HL_58912.1*
5	HL_5MDY_005	1/1/158:168	geometric HL_5J7L_138	NA HL_81820.1*
6	HL_5MDY_006	1/1/194:201	geometric HL_5J7L_139	NA HL_23481.5*
7	HL_5MDY_007	1/1/225:230	homologous HL_7RQB_007	NA HL_06569.2*
8	HL_5MDY_008	1/1/246:252	homologous HL_7RQB_008	NA HL_67216.5*
9	HL_5MDY_009	1/1/305:312	homologous HL_7RQB_010	NA HL_68493.6*
10	HL_5MDY_010	1/1/319:323	homologous HL_7RQB_011	NA HL_98557.5*
11	HL_5MDY_011	1/1/327:335	homologous HL_7RQB_012	NA HL_08002.6*
12	HL_5MDY_012	1/1/382:392	homologous HL_7RQB_013	NA HL_91503.3*
13	HL_5MDY_013	1/1/410:417	homologous HL_7RQB_014	NA HL_32512.8*
14	HL_5MDY_014	1/1/462:467	homologous HL_7RQB_015	NA HL_43074.18*
15	HL_5MDY_015	1/1/487:493	homologous HL_7RQB_016	NA HL_43074.18*
16	HL_5MDY_016	1/1/544:549	homologous HL_7RQB_017	NA
17	HL_5MDY_017	1/1/566:575	T-loop with 2 stacked bulged bases geometric HL_5J7L_150	NA HL_33239.17*
18	HL_5MDY_018	1/1/611:617	geometric HL_5J7L_151	NA HL_25660.1*
19	HL_5MDY_019	1/1/629:634	homologous HL_7RQB_020	NA HL_43074.18*
20	HL_5MDY_020	1/1/641:647	geometric HL_5J7L_153	NA HL_16419.1*
21	HL_5MDY_021	1/1/712:719	homologous HL_7RQB_022	NA HL_93727.5*
22	HL_5MDY_022	1/1/744:753	geometric HL_7A0S_022	NA HL_39334.5*
23	HL_5MDY_023	1/1/779:785	homologous HL_7RQB_024	NA HL_16898.3*
24	HL_5MDY_024	1/1/826:831	homologous HL_7RQB_025	NA HL_15942.5*
25	HL_5MDY_025	1/1/885:891	geometric HL_6DTD_001	NA HL_69677.1*
26	HL_5MDY_026	1/1/954:963	geometric HL_3RG5_006	NA HL_83315.1*
27	HL_5MDY_027	1/1/978:985	homologous HL_7RQB_028	NA HL_72451.5*
28	HL_5MDY_028	1/1/1065:1073	NA	NA
29	HL_5MDY_029	1/1/1092:1099	homologous HL_7RQB_030	NA
30	HL_5MDY_030	1/1/1172:1177	NA	NA
31	HL_5MDY_031	1/1/1222:1227	homologous HL_7RQB_032	NA HL_43074.18*
32	HL_5MDY_032	1/1/1281:1289	homologous HL_7RQB_033	NA HL_33239.17*
33	HL_5MDY_033	1/1/1324:1330	homologous HL_7RQB_034	NA HL_86880.5*
34	HL_5MDY_034	1/1/1363:1368	homologous HL_7RQB_035	NA HL_43074.18*
35	HL_5MDY_035	1/1/1389:1398	homologous HL_7RQB_036	NA HL_78457.4*
36	HL_5MDY_036	1/1/1451:1459	homologous HL_7RQB_037	NA HL_71540.1*
37	HL_5MDY_037	1/1/1492:1498	homologous HL_7RQB_038	NA HL_86880.5*
38	HL_5MDY_038	1/1/1533:1538	UNCG geometric HL_5J7L_030	NA HL_79299.11*
39	HL_5MDY_039	1/1/1565:1568	homologous HL_7RQB_039	NA HL_69353.7*
40	HL_5MDY_040	1/1/1612:1619	NA	NA
41	HL_5MDY_041	1/1/1630:1636	GNRA with one bulged base geometric HL_5J7L_174	NA HL_02361.6*
42	HL_5MDY_042	1/1/1691:1696	homologous HL_7RQB_042	NA HL_79299.11*
43	HL_5MDY_043	1/1/1728:1731	geometric HL_5J7L_176	NA HL_46546.1*
44	HL_5MDY_044	1/1/1752:1756	homologous HL_7RQB_044	NA HL_79272.3*
45	HL_5MDY_045	1/1/1777:1787	homologous HL_7RQB_045	NA HL_43613.4*
46	HL_5MDY_046	1/1/1806:1811	homologous HL_7RQB_046	NA HL_43074.18*
47	HL_5MDY_047	1/1/1868:1873	geometric HL_5U3G_001	NA HL_40469.1*
48	HL_5MDY_048	1/1/1910:1920	geometric HL_4V9F_005	NA HL_79299.11*
49	HL_5MDY_049	1/1/1949:1957	homologous HL_7RQB_049	NA HL_53760.4*
50	HL_5MDY_050	1/1/2027:2036	NA	NA
51	HL_5MDY_051	1/1/2143:2148	homologous HL_7RQB_051	NA
52	HL_5MDY_052	1/1/2209:2215	geometric HL_5J7L_185	NA HL_16845.5*
53	HL_5MDY_053	1/1/2248:2256	homologous HL_7RQB_053	NA
54	HL_5MDY_054	1/1/2264:2276	homologous HL_7RQB_054	NA HL_19870.5*
55	HL_5MDY_055	1/1/2303:2313	homologous HL_7RQB_055	NA HL_11805.3*
56	HL_5MDY_056	1/1/2324:2331	homologous HL_7RQB_056	NA HL_46142.8*
57	HL_5MDY_057	1/1/2356:2361	Other HL geometric HL_5J7L_190	NA HL_43074.18*
58	HL_5MDY_058	1/1/2374:2379	homologous HL_7RQB_058	NA HL_43074.18*
59	HL_5MDY_059	1/1/2404:2413	homologous HL_7RQB_059	NA HL_48376.4*
60	HL_5MDY_060	1/1/2471:2479	homologous HL_7RQB_060	NA HL_36421.5*
61	HL_5MDY_061	1/1/2528:2535	homologous HL_7RQB_061	NA HL_92681.5*
62	HL_5MDY_062	1/1/2551:2557	homologous HL_7RQB_062	NA
63	HL_5MDY_063	1/1/2594:2599	homologous HL_7RQB_063	NA HL_43074.18*
64	HL_5MDY_064	1/1/2658:2663	GNRA geometric HL_1MZP_001	NA HL_43074.18*
65	HL_5MDY_065	1/1/2701:2706	Ribsomal LSU H95 geometric HL_5J7L_198	NA HL_67719.1*
66	HL_5MDY_066	1/1/2745:2759	NA	NA
67	HL_5MDY_067	1/1/2794:2802	geometric HL_5TBW_015	NA HL_80105.3*
68	HL_5MDY_068	1/1/2819:2827	homologous HL_7RQB_068	NA HL_05018.6*
69	HL_5MDY_069	1/1/2856:2861	homologous HL_7RQB_069	NA HL_43074.18*
70	HL_5MDY_070	1/2/12:22	NA	NA
71	HL_5MDY_071	1/2/80:89	NA	NA
72	HL_5MDY_072	1/2/158:163	NA	NA
73	HL_5MDY_073	1/2/186:191	NA	NA
74	HL_5MDY_074	1/2/207:212	NA	NA
75	HL_5MDY_075	1/2/259:267	NA	NA
76	HL_5MDY_076	1/2/296:301	NA	NA
77	HL_5MDY_077	1/2/320:333	NA	NA
78	HL_5MDY_078	1/2/342:347	NA	NA
79	HL_5MDY_079	1/2/379:384	NA	NA
80	HL_5MDY_080	1/2/419:424	NA	NA
81	HL_5MDY_081	1/2/462:470	NA	NA
82	HL_5MDY_082	1/2/521:528	NA	NA
83	HL_5MDY_083	1/2/617:623	NA	NA
84	HL_5MDY_084	1/2/689:698	NA	NA
85	HL_5MDY_085	1/2/726:731	NA	NA
86	HL_5MDY_086	1/2/786:796	NA	NA
87	HL_5MDY_087	1/2/840:846	NA	NA
88	HL_5MDY_088	1/2/862:867	NA	NA
89	HL_5MDY_089	1/2/897:902	NA	NA
90	HL_5MDY_090	1/2/963:972	NA	NA
91	HL_5MDY_091	1/2/1012:1017	NA	NA
92	HL_5MDY_092	1/2/1076:1081	NA	NA
93	HL_5MDY_093	1/2/1089:1096	NA	NA
94	HL_5MDY_094	1/2/1134:1140	NA	NA
95	HL_5MDY_095	1/2/1165:1171	NA	NA
96	HL_5MDY_096	1/2/1265:1270	NA	NA
97	HL_5MDY_097	1/2/1314:1323	NA	NA
98	HL_5MDY_098	1/2/1356:1366	NA	NA
99	HL_5MDY_099	1/2/1449:1454	NA	NA
100	HL_5MDY_100	1/2/1515:1520	NA	NA
101	HL_5MDY_101	1/3/38:44	geometric HL_5J7L_203	NA HL_02733.5*
102	HL_5MDY_102	1/3/86:90	geometric HL_6MSF_001	NA HL_57052.3*
103	HL_5MDY_103	1/5/12:22	NA	NA
104	HL_5MDY_104	1/5/31:39	NA	NA
105	HL_5MDY_105	1/5/53:61	NA	NA

Problematic loops

No problematic loops

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	IL_5MDY_001	1/1/24:30, 1/1/510:516	Triple sheared with non-canonical cWW homologous IL_7RQB_001	NA IL_66414.5*
2	IL_5MDY_002	1/1/36:37, 1/1/442:444	Single bulged A homologous IL_7RQB_002	NA IL_80007.16*
3	IL_5MDY_003	1/1/43:44, 1/1/434:436	Minor groove platform homologous IL_7RQB_003	NA IL_06437.11*
4	IL_5MDY_004	1/1/81:85, 1/1/97:105	geometric IL_5J7L_248	NA IL_85931.1*
5	IL_5MDY_005	1/1/183:184, 1/1/212:214	Single stack bend homologous IL_7RQB_005	NA IL_04038.4*
6	IL_5MDY_006	1/1/188:194, 1/1/201:208	8x7 Sarcin-Ricin; G-bulge homologous IL_7RQB_006	NA IL_04346.5*
7	IL_5MDY_007	1/1/239:245, 1/1/253:258	7x6 Sarcin-Ricin; G-bulge homologous IL_7RQB_007	NA IL_35110.5*
8	IL_5MDY_008	1/1/269:271, 1/1/366:370	geometric IL_5J7L_252	NA IL_47972.1*
9	IL_5MDY_009	1/1/274:281, 1/1/359:363	geometric IL_5J7L_253	NA IL_77870.1*
10	IL_5MDY_010	1/1/293:295, 1/1/343:347	homologous IL_7RQB_013	NA IL_69440.1*
11	IL_5MDY_011	1/1/481:484, 1/1/496:509	homologous IL_7RQB_014	NA IL_60992.5*
12	IL_5MDY_012	1/1/536:539, 1/1/554:557	Double sheared geometric IL_5J7L_256	NA IL_09705.7*
13	IL_5MDY_013	1/1/564:566, 1/1/575:577	homologous IL_7RQB_015	NA IL_01312.13*
14	IL_5MDY_014	1/1/606:610, 1/1/618:622	AAA cross-strand stack homologous IL_7RQB_016	NA IL_56467.6*
15	IL_5MDY_015	1/1/672:674, 1/1/806:808	geometric IL_7RQB_017	NA IL_01312.13*
16	IL_5MDY_016	1/1/674:678, 1/1/799:806	homologous IL_7RQB_018	NA IL_17470.5*
17	IL_5MDY_017	1/1/697:698, 1/1/763:765	Single bulged A homologous IL_7RQB_019	NA IL_80007.16*
18	IL_5MDY_018	1/1/702:703, 1/1/728:730	Single bulged G geometric IL_4V9F_026	NA IL_59137.10*
19	IL_5MDY_019	1/1/703:707, 1/1/724:728	Triple sheared homologous IL_7RQB_021	NA IL_56467.6*
20	IL_5MDY_020	1/1/738:740, 1/1/757:758	Major groove platform geometric IL_5J7L_264	NA IL_80663.10*
21	IL_5MDY_021	1/1/741:742, 1/1/754:756	Single stack bend geometric IL_4LFB_041	NA IL_04038.4*
22	IL_5MDY_022	1/1/742:744, 1/1/753:754	Single stack bend geometric IL_4V83_236	NA IL_04038.4*
23	IL_5MDY_023	1/1/775:777, 1/1/787:791	Multiple bulged bases homologous IL_7RQB_023	NA IL_90991.5*
24	IL_5MDY_024	1/1/844:847, 1/1/933:934	Other IL geometric IL_5J7L_267	NA IL_31836.1*
25	IL_5MDY_025	1/1/847:848, 1/1/930:933	Stack outside cWW geometric IL_5J7L_268	NA IL_37629.1*
26	IL_5MDY_026	1/1/850:851, 1/1/926:928	NA	NA
27	IL_5MDY_027	1/1/856:862, 1/1/915:921	7x7 Sarcin-Ricin with intercalated A; G-bulge geometric IL_5J7L_270	NA IL_93830.2*
28	IL_5MDY_028	1/1/862:863, 1/1/913:915	Minor groove platform homologous IL_7RQB_028	NA IL_06437.11*
29	IL_5MDY_029	1/1/864:868, 1/1/909:912	C-loop homologous IL_7RQB_029	NA IL_63596.4*
30	IL_5MDY_030	1/1/870:872, 1/1/905:907	geometric IL_5J7L_273	NA IL_01312.13*
31	IL_5MDY_031	1/1/875:879, 1/1/898:902	Triple sheared geometric IL_5J7L_274	NA IL_56467.6*
32	IL_5MDY_032	1/1/880:883, 1/1/893:897	NA	NA
33	IL_5MDY_033	1/1/994:996, 1/1/1159:1160	Single bulged C homologous IL_7RQB_035	NA IL_61258.10*
34	IL_5MDY_034	1/1/998:1002, 1/1/1153:1157	UAA/GAN homologous IL_7RQB_036	NA IL_53523.5*
35	IL_5MDY_035	1/1/1004:1011, 1/1/1150:1151	SSU/LSU pseudoknot homologous IL_7RQB_037	NA IL_15861.6*
36	IL_5MDY_036	1/1/1011:1013, 1/1/1149:1150	Single bulged U geometric IL_5J7L_279	NA IL_83039.11*
37	IL_5MDY_037	1/1/1018:1024, 1/1/1140:1144	homologous IL_7RQB_039	NA IL_57188.3*
38	IL_5MDY_038	1/1/1024:1030, 1/1/1124:1140	geometric IL_5J7L_281	NA IL_22615.1*
39	IL_5MDY_039	1/1/1031:1034, 1/1/1121:1123	Isolated non-canonical cWW with bulges homologous IL_7RQB_041	NA IL_55456.1*
40	IL_5MDY_040	1/1/1038:1041, 1/1/1114:1117	Tandem non-canonical cWW pairs geometric IL_5J7L_283	NA IL_85877.10*
41	IL_5MDY_041	1/1/1043:1051, 1/1/1108:1112	Kink-turn homologous IL_7RQB_042	NA IL_90538.3*
42	IL_5MDY_042	1/1/1059:1062, 1/1/1076:1079	NA	NA
43	IL_5MDY_043	1/1/1087:1090, 1/1/1101:1102	Major groove platform geometric IL_3OXE_003	NA IL_80663.10*
44	IL_5MDY_044	1/1/1196:1198, 1/1/1247:1250	Isolated cWS basepair homologous IL_7RQB_045	NA IL_67621.5*
45	IL_5MDY_045	1/1/1202:1206, 1/1/1240:1243	geometric IL_5J7L_287	NA IL_91920.1*
46	IL_5MDY_046	1/1/1208:1215, 1/1/1234:1238	Kink-turn homologous IL_7RQB_047	NA IL_29549.9*
47	IL_5MDY_047	1/1/1262:1269, 1/1/2011:2017	8x7 Sarcin-Ricin; G-bulge homologous IL_7RQB_049	NA IL_04346.5*
48	IL_5MDY_048	1/1/1310:1313, 1/1/1603:1604	Major groove platform; stack outside cWW homologous IL_7RQB_050	NA IL_70995.6*
49	IL_5MDY_049	1/1/1319:1323, 1/1/1331:1333	C-loop homologous IL_7RQB_051	NA IL_63596.4*
50	IL_5MDY_050	1/1/1351:1355, 1/1/1376:1380	UAA/GAN homologous IL_7RQB_052	NA IL_53523.5*
51	IL_5MDY_051	1/1/1357:1361, 1/1/1370:1374	tSH-tHW-tHS homologous IL_7RQB_053	NA IL_39521.5*
52	IL_5MDY_052	1/1/1410:1411, 1/1/1590:1592	Single stack bend geometric IL_4LFB_041	NA IL_04038.4*
53	IL_5MDY_053	1/1/1411:1413, 1/1/1589:1590	Single stack bend geometric IL_4V83_236	NA IL_04038.4*
54	IL_5MDY_054	1/1/1415:1416, 1/1/1582:1587	geometric IL_5J7L_294	NA IL_90348.1*
55	IL_5MDY_055	1/1/1417:1421, 1/1/1577:1581	UAA/GAN homologous IL_7RQB_055	NA IL_53523.5*
56	IL_5MDY_056	1/1/1432:1435, 1/1/1557:1561	Tandem non-canonical cWW pairs geometric IL_5J7L_296	NA IL_85877.10*
57	IL_5MDY_057	1/1/1437:1440, 1/1/1551:1555	tSH-tHW homologous IL_7RQB_057	NA IL_08757.3*
58	IL_5MDY_058	1/1/1450:1451, 1/1/1459:1461	Single bulged U geometric IL_5J7L_298	NA IL_83039.11*
59	IL_5MDY_059	1/1/1468:1471, 1/1/1520:1524	geometric IL_5J7L_299	NA IL_68574.2*
60	IL_5MDY_060	1/1/1474:1478, 1/1/1513:1517	tSH-tHW-tHS geometric IL_5J7L_300	NA IL_39521.5*
61	IL_5MDY_061	1/1/1480:1482, 1/1/1507:1511	NA	NA
62	IL_5MDY_062	1/1/1489:1491, 1/1/1499:1500	Single bulged A geometric IL_5J7L_302	NA IL_80007.16*
63	IL_5MDY_063	1/1/1526:1529, 1/1/1542:1546	UAA/GAN variation geometric IL_5J7L_303	NA IL_81389.2*
64	IL_5MDY_064	1/1/1651:1656, 1/1/2004:2006	homologous IL_7RQB_064	NA IL_12566.2*
65	IL_5MDY_065	1/1/1663:1665, 1/1/1995:1997	Isolated tWW turn homologous IL_7RQB_065	NA IL_54997.5*
66	IL_5MDY_066	1/1/1666:1669, 1/1/1993:1994	Major groove platform; stack outside cWW homologous IL_7RQB_066	NA IL_80663.10*
67	IL_5MDY_067	1/1/1669:1674, 1/1/1990:1993	Intercalated tWH geometric IL_5J7L_307	NA IL_01312.13*
68	IL_5MDY_068	1/1/1686:1691, 1/1/1696:1702	tSH-tSH-tHH-tHS geometric IL_5J7L_308	NA IL_66584.5*
69	IL_5MDY_069	1/1/1712:1718, 1/1/1742:1746	6x5 Sarcin-Ricin; G-bulge geometric IL_5J7L_309	NA IL_88269.2*
70	IL_5MDY_070	1/1/1720:1724, 1/1/1736:1740	Triple sheared geometric IL_5J7L_310	NA IL_56467.6*
71	IL_5MDY_071	1/1/1727:1728, 1/1/1731:1733	Single bulged C geometric IL_5J7L_311	NA IL_61258.10*
72	IL_5MDY_072	1/1/1770:1771, 1/1/1980:1982	Single bulged A homologous IL_7RQB_069	NA IL_80007.16*
73	IL_5MDY_073	1/1/1798:1804, 1/1/1813:1821	Kink-turn related homologous IL_7RQB_070	NA IL_17069.3*
74	IL_5MDY_074	1/1/1837:1840, 1/1/1902:1903	Major groove outside cWW, minor groove, intercalation pocket homologous IL_7RQB_071	NA IL_31836.1*
75	IL_5MDY_075	1/1/1841:1842, 1/1/1898:1901	Major groove outside cWW, minor groove, intercalation pocket homologous IL_7RQB_072	NA IL_13730.12*
76	IL_5MDY_076	1/1/1846:1849, 1/1/1893:1894	Major groove minor groove platform; mini C-loop geometric IL_7RQB_113	NA IL_09061.4*
77	IL_5MDY_077	1/1/1864:1867, 1/1/1874:1878	UAA/GAN related geometric IL_5J7L_317	NA IL_81389.2*
78	IL_5MDY_078	1/1/1933:1934, 1/1/1964:1967	Multiple bulged bases geometric IL_7RQB_076	NA IL_69632.1*
79	IL_5MDY_079	1/1/1934:1945, 1/1/1961:1964	geometric IL_7A0S_072	NA IL_07097.1*
80	IL_5MDY_080	1/1/2050:2052, 1/1/2617:2618	Major groove platform homologous IL_7RQB_078	NA IL_80663.10*
81	IL_5MDY_081	1/1/2054:2056, 1/1/2612:2615	NA	NA
82	IL_5MDY_082	1/1/2064:2066, 1/1/2444:2446	geometric IL_6OL3_002	NA IL_01312.13*
83	IL_5MDY_083	1/1/2067:2070, 1/1/2441:2443	geometric IL_5C5W_002	NA IL_87880.2*
84	IL_5MDY_084	1/1/2070:2071, 1/1/2438:2441	Minor groove platform geometric IL_5TBW_094	NA IL_06437.11*
85	IL_5MDY_085	1/1/2081:2083, 1/1/2236:2239	Isolated tHS basepair with bulges homologous IL_7RQB_082	NA IL_38958.6*
86	IL_5MDY_086	1/1/2085:2087, 1/1/2232:2234	homologous IL_7RQB_083	NA IL_01312.13*
87	IL_5MDY_087	1/1/2103:2105, 1/1/2184:2186	geometric IL_7A0S_107	NA IL_01312.13*
88	IL_5MDY_088	1/1/2108:2110, 1/1/2179:2181	homologous IL_7RQB_084	NA
89	IL_5MDY_089	1/1/2110:2121, 1/1/2177:2179	NA	NA
90	IL_5MDY_090	1/1/2123:2127, 1/1/2161:2175	NA	NA
91	IL_5MDY_091	1/1/2129:2136, 1/1/2155:2159	homologous IL_7RQB_087	NA
92	IL_5MDY_092	1/1/2202:2204, 1/1/2220:2221	Single bulged U geometric IL_5J7L_331	NA IL_21340.1*
93	IL_5MDY_093	1/1/2350:2353, 1/1/2364:2367	Double sheared homologous IL_7RQB_089	NA IL_09705.7*
94	IL_5MDY_094	1/1/2401:2403, 1/1/2414:2415	NA	NA
95	IL_5MDY_095	1/1/2453:2455, 1/1/2496:2500	NA	NA
96	IL_5MDY_096	1/1/2456:2459, 1/1/2493:2495	Major groove platform with extra pair geometric IL_7RQB_093	NA IL_87630.5*
97	IL_5MDY_097	1/1/2459:2461, 1/1/2489:2493	Major groove minor groove platform with extra cWW homologous IL_7RQB_094	NA IL_96042.4*
98	IL_5MDY_098	1/1/2466:2470, 1/1/2480:2484	Triple sheared homologous IL_7RQB_095	NA IL_56467.6*
99	IL_5MDY_099	1/1/2507:2509, 1/1/2579:2582	Major groove platform with extra pair geometric IL_4AOB_003	NA IL_87630.5*
100	IL_5MDY_100	1/1/2510:2512, 1/1/2574:2578	Isolated non-canonical cWW with bulges geometric IL_5J7L_340	NA IL_01312.13*
101	IL_5MDY_101	1/1/2512:2513, 1/1/2571:2574	Multiple bulged bases homologous IL_7RQB_098	NA IL_13730.12*
102	IL_5MDY_102	1/1/2522:2523, 1/1/2540:2543	Minor groove platform with intercalation homologous IL_7RQB_099	NA IL_95601.1*
103	IL_5MDY_103	1/1/2588:2590, 1/1/2604:2606	homologous IL_7RQB_100	NA
104	IL_5MDY_104	1/1/2591:2592, 1/1/2601:2603	Single bulged A homologous IL_7RQB_101	NA IL_80007.16*
105	IL_5MDY_105	1/1/2636:2640, 1/1/2774:2782	tSH-tHS-tHW homologous IL_7RQB_102	NA IL_34907.2*
106	IL_5MDY_106	1/1/2652:2658, 1/1/2663:2668	Sarcin-Ricin target in LSU H95; G-bulge homologous IL_7RQB_103	NA IL_35110.5*
107	IL_5MDY_107	1/1/2680:2684, 1/1/2725:2727	C-loop homologous IL_7RQB_104	NA IL_63596.4*
108	IL_5MDY_108	1/1/2687:2691, 1/1/2718:2722	homologous IL_7RQB_105	NA IL_08296.3*
109	IL_5MDY_109	1/1/2695:2696, 1/1/2711:2714	Multiple bulged bases homologous IL_7RQB_106	NA IL_77034.1*
110	IL_5MDY_110	1/1/2737:2742, 1/1/2762:2767	UAA/GAN with extra cWW homologous IL_7RQB_107	NA IL_49767.4*
111	IL_5MDY_111	1/1/2806:2811, 1/1/2889:2892	geometric IL_5J7L_351	NA IL_82988.1*
112	IL_5MDY_112	1/1/2838:2839, 1/1/2878:2880	Single bulged C homologous IL_7RQB_108	NA IL_61258.10*
113	IL_5MDY_113	1/1/2843:2846, 1/1/2870:2874	homologous IL_7RQB_109	NA IL_58764.1*
114	IL_5MDY_114	1/1/2847:2852, 1/1/2865:2869	homologous IL_7RQB_110	NA IL_83162.3*
115	IL_5MDY_115	1/2/30:32, 1/2/552:553	NA	NA
116	IL_5MDY_116	1/2/44:45, 1/2/396:398	NA	NA
117	IL_5MDY_117	1/2/47:52, 1/2/359:361	NA	NA
118	IL_5MDY_118	1/2/54:56, 1/2/356:357	NA	NA
119	IL_5MDY_119	1/2/63:66, 1/2/103:104	NA	NA
120	IL_5MDY_120	1/2/67:69, 1/2/99:102	NA	NA
121	IL_5MDY_121	1/2/70:73, 1/2/97:98	NA	NA
122	IL_5MDY_122	1/2/75:77, 1/2/92:95	NA	NA
123	IL_5MDY_123	1/2/128:131, 1/2/231:233	NA	NA
124	IL_5MDY_124	1/2/132:136, 1/2/227:230	NA	NA
125	IL_5MDY_125	1/2/144:146, 1/2/176:178	NA	NA
126	IL_5MDY_126	1/2/147:153, 1/2/168:175	NA	NA
127	IL_5MDY_127	1/2/203:207, 1/2/212:214	NA	NA
128	IL_5MDY_128	1/2/242:247, 1/2/277:284	NA	NA
129	IL_5MDY_129	1/2/249:252, 1/2/274:275	NA	NA
130	IL_5MDY_130	1/2/292:293, 1/2/304:308	NA	NA
131	IL_5MDY_131	1/2/367:369, 1/2/392:393	NA	NA
132	IL_5MDY_132	1/2/371:375, 1/2/389:390	NA	NA
133	IL_5MDY_133	1/2/375:376, 1/2/387:389	NA	NA
134	IL_5MDY_134	1/2/409:416, 1/2/427:433	NA	NA
135	IL_5MDY_135	1/2/440:442, 1/2/492:497	NA	NA
136	IL_5MDY_136	1/2/446:450, 1/2/483:488	NA	NA
137	IL_5MDY_137	1/2/450:455, 1/2/477:483	NA	NA
138	IL_5MDY_138	1/2/504:511, 1/2/540:541	NA	NA
139	IL_5MDY_139	1/2/515:521, 1/2/528:536	NA	NA
140	IL_5MDY_140	1/2/569:575, 1/2/880:881	NA	NA
141	IL_5MDY_141	1/2/580:584, 1/2/757:761	NA	NA
142	IL_5MDY_142	1/2/594:596, 1/2/644:645	NA	NA
143	IL_5MDY_143	1/2/597:598, 1/2/640:643	NA	NA
144	IL_5MDY_144	1/2/605:612, 1/2/628:633	NA	NA
145	IL_5MDY_145	1/2/654:655, 1/2/751:754	NA	NA
146	IL_5MDY_146	1/2/658:659, 1/2/746:748	NA	NA
147	IL_5MDY_147	1/2/662:666, 1/2/740:743	NA	NA
148	IL_5MDY_148	1/2/673:678, 1/2/712:717	NA	NA
149	IL_5MDY_149	1/2/684:688, 1/2/699:706	NA	NA
150	IL_5MDY_150	1/2/774:778, 1/2/804:805	NA	NA
151	IL_5MDY_151	1/2/779:783, 1/2/799:803	NA	NA
152	IL_5MDY_152	1/2/887:894, 1/2/905:910	NA	NA
153	IL_5MDY_153	1/2/922:923, 1/2/1393:1395	NA	NA
154	IL_5MDY_154	1/2/925:927, 1/2/1390:1391	NA	NA
155	IL_5MDY_155	1/2/933:935, 1/2/1380:1384	NA	NA
156	IL_5MDY_156	1/2/953:954, 1/2/1226:1228	NA	NA
157	IL_5MDY_157	1/2/993:997, 1/2/1044:1045	NA	NA
158	IL_5MDY_158	1/2/998:1000, 1/2/1040:1043	NA	NA
159	IL_5MDY_159	1/2/1003:1010, 1/2/1019:1037	NA	NA
160	IL_5MDY_160	1/2/1048:1050, 1/2/1208:1209	NA	NA
161	IL_5MDY_161	1/2/1050:1052, 1/2/1206:1208	NA	NA
162	IL_5MDY_162	1/2/1052:1056, 1/2/1204:1206	NA	NA
163	IL_5MDY_163	1/2/1057:1058, 1/2/1199:1203	NA	NA
164	IL_5MDY_164	1/2/1060:1061, 1/2/1195:1197	NA	NA
165	IL_5MDY_165	1/2/1061:1063, 1/2/1193:1195	NA	NA
166	IL_5MDY_166	1/2/1124:1128, 1/2/1144:1149	NA	NA
167	IL_5MDY_167	1/2/1129:1132, 1/2/1142:1143	NA	NA
168	IL_5MDY_168	1/2/1158:1161, 1/2/1175:1181	NA	NA
169	IL_5MDY_169	1/2/1247:1253, 1/2/1284:1290	NA	NA
170	IL_5MDY_170	1/2/1255:1258, 1/2/1277:1282	NA	NA
171	IL_5MDY_171	1/2/1259:1263, 1/2/1272:1276	NA	NA
172	IL_5MDY_172	1/2/1303:1308, 1/2/1329:1334	NA	NA
173	IL_5MDY_173	1/2/1399:1401, 1/2/1501:1504	NA	NA
174	IL_5MDY_174	1/2/1401:1404, 1/2/1497:1501	NA	NA
175	IL_5MDY_175	1/2/1405:1409, 1/2/1491:1496	NA	NA
176	IL_5MDY_176	1/2/1412:1414, 1/2/1486:1488	NA	NA
177	IL_5MDY_177	1/2/1416:1419, 1/2/1481:1484	NA	NA
178	IL_5MDY_178	1/2/1430:1435, 1/2/1466:1470	NA	NA
179	IL_5MDY_179	1/2/1440:1442, 1/2/1460:1461	NA	NA
180	IL_5MDY_180	1/2/1445:1448, 1/2/1455:1457	NA	NA
181	IL_5MDY_181	1/3/17:18, 1/3/65:67	Major groove intercalation geometric IL_5J7L_355	NA IL_40508.4*
182	IL_5MDY_182	1/3/23:28, 1/3/56:60	geometric IL_5J7L_356	NA IL_18472.1*
183	IL_5MDY_183	1/3/30:31, 1/3/51:54	Major groove minor groove platform; mini C-loop geometric IL_5J7L_357	NA IL_09061.4*
184	IL_5MDY_184	1/3/34:38, 1/3/44:48	Symmetric double minor groove platform homologous IL_5TBW_376	NA IL_58103.5*
185	IL_5MDY_185	1/3/71:79, 1/3/97:105	Bacterial 5S Loop E geometric IL_5J7L_359	NA IL_56455.3*

Problematic loops

No problematic loops

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	J3_5MDY_001	1/1/30:31, 1/1/474:481, 1/1/509:510	NA	NA
2	J3_5MDY_002	1/1/56:57, 1/1/70:76, 1/1/110:114	homologous J3_7RQB_002	NA
3	J3_5MDY_003	1/1/683:689, 1/1/773:775, 1/1/791:794	NA	NA
4	J3_5MDY_004	1/1/698:700, 1/1/732:736, 1/1/760:763	NA	NA
5	J3_5MDY_005	1/1/1054:1057, 1/1/1081:1087, 1/1/1102:1105	NA	NA
6	J3_5MDY_006	1/1/1298:1303, 1/1/1625:1627, 1/1/1639:1642	homologous J3_7RQB_007	NA
7	J3_5MDY_007	1/1/1306:1309, 1/1/1605:1611, 1/1/1620:1622	homologous J3_7RQB_008	NA
8	J3_5MDY_008	1/1/1344:1349, 1/1/1382:1385, 1/1/1402:1403	NA	NA
9	J3_5MDY_009	1/1/2091:2093, 1/1/2196:2200, 1/1/2223:2228	homologous J3_7RQB_010	NA
10	J3_5MDY_010	1/1/2295:2299, 1/1/2317:2323, 1/1/2332:2337	NA	NA
11	J3_5MDY_011	1/1/2517:2520, 1/1/2545:2547, 1/1/2561:2567	homologous J3_7RQB_012	NA
12	J3_5MDY_012	1/1/2789:2791, 1/1/2805:2806, 1/1/2892:2894	NA	NA
13	J3_5MDY_013	1/1/2812:2815, 1/1/2831:2836, 1/1/2882:2888	NA	NA
14	J3_5MDY_014	1/2/46:47, 1/2/361:367, 1/2/393:395	NA	NA
15	J3_5MDY_015	1/2/586:588, 1/2/651:654, 1/2/754:755	NA	NA
16	J3_5MDY_016	1/2/672:673, 1/2/717:725, 1/2/732:734	NA	NA
17	J3_5MDY_017	1/2/826:829, 1/2/857:861, 1/2/868:874	NA	NA
18	J3_5MDY_018	1/2/936:939, 1/2/1344:1350, 1/2/1372:1379	NA	NA
19	J3_5MDY_019	1/2/943:946, 1/2/1235:1237, 1/2/1337:1340	NA	NA
20	J3_5MDY_020	1/2/955:962, 1/2/973:984, 1/2/1221:1225	NA	NA
21	J3_5MDY_021	1/2/990:993, 1/2/1045:1047, 1/2/1210:1215	NA	NA
22	J3_5MDY_023	1/2/1073:1074, 1/2/1083:1087, 1/2/1098:1102	NA	NA
23	J3_5MDY_024	1/2/1116:1118, 1/2/1155:1158, 1/2/1181:1184	NA	NA
24	J3_5MDY_025	1/2/1237:1241, 1/2/1296:1303, 1/2/1334:1337	NA	NA
25	J3_5MDY_026	1/3/10:16, 1/3/68:70, 1/3/106:110	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	J3_5MDY_022	incomplete nts	NA

Coloring options: Nucleotide numbers

5MDY Internal, Hairpin and 3-way Junction Loop Motifs

Valid loops

Problematic loops

Valid loops

Problematic loops

Valid loops

Problematic loops