7PJU | Motifs

107 Hairpin loops
176 Internal loops
27 Junction loops

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	HL_7PJU_001	1/A/59:68	geometric HL_5J7L_134	NA HL_29414.1*
2	HL_7PJU_002	1/A/87:95	geometric HL_5J7L_135	NA HL_17926.5*
3	HL_7PJU_003	1/A/123:128	homologous HL_7RQB_003	NA HL_62869.3*
4	HL_7PJU_004	1/A/137:142	geometric HL_2Y9H_003	NA HL_98557.5*
5	HL_7PJU_005	1/A/158:168	geometric HL_5J7L_138	NA HL_81820.1*
6	HL_7PJU_006	1/A/194:201	homologous HL_7RQB_006	NA HL_23481.5*
7	HL_7PJU_007	1/A/225:230	homologous HL_7RQB_007	NA HL_06569.2*
8	HL_7PJU_008	1/A/246:252	homologous HL_7RQB_008	NA HL_67216.5*
9	HL_7PJU_009	1/A/305:312	homologous HL_7RQB_010	NA HL_68493.6*
10	HL_7PJU_010	1/A/327:335	homologous HL_7RQB_012	NA HL_08002.6*
11	HL_7PJU_011	1/A/382:392	homologous HL_7RQB_013	NA HL_91503.3*
12	HL_7PJU_012	1/A/410:417	homologous HL_7RQB_014	NA HL_32512.8*
13	HL_7PJU_013	1/A/462:467	homologous HL_7RQB_015	NA HL_43074.18*
14	HL_7PJU_014	1/A/487:493	homologous HL_7RQB_016	NA HL_43074.18*
15	HL_7PJU_015	1/A/544:549	Other HL geometric HL_1P6V_001	NA HL_79299.11*
16	HL_7PJU_016	1/A/566:575	homologous HL_7RQB_018	NA HL_33239.17*
17	HL_7PJU_017	1/A/611:617	geometric HL_5J7L_151	NA HL_25660.1*
18	HL_7PJU_018	1/A/629:634	homologous HL_7RQB_020	NA HL_43074.18*
19	HL_7PJU_019	1/A/640:648	NA	NA
20	HL_7PJU_020	1/A/712:719	homologous HL_7RQB_022	NA HL_93727.5*
21	HL_7PJU_021	1/A/744:753	homologous HL_7RQB_023	NA HL_39334.5*
22	HL_7PJU_022	1/A/779:785	homologous HL_7RQB_024	NA HL_16898.3*
23	HL_7PJU_023	1/A/826:831	homologous HL_7RQB_025	NA HL_15942.5*
24	HL_7PJU_024	1/A/883:893	NA	NA
25	HL_7PJU_025	1/A/954:963	geometric HL_3RG5_006	NA HL_83315.1*
26	HL_7PJU_026	1/A/978:985	homologous HL_7RQB_028	NA HL_72451.5*
27	HL_7PJU_027	1/A/1062:1076	NA	NA
28	HL_7PJU_028	1/A/1092:1099	NA	NA
29	HL_7PJU_029	1/A/1169:1180	NA	NA
30	HL_7PJU_030	1/A/1222:1227	homologous HL_7RQB_032	NA HL_43074.18*
31	HL_7PJU_031	1/A/1281:1289	homologous HL_7RQB_033	NA HL_33239.17*
32	HL_7PJU_032	1/A/1324:1330	homologous HL_7RQB_034	NA HL_86880.5*
33	HL_7PJU_033	1/A/1363:1368	homologous HL_7RQB_035	NA HL_43074.18*
34	HL_7PJU_034	1/A/1389:1398	homologous HL_7RQB_036	NA HL_78457.4*
35	HL_7PJU_035	1/A/1451:1459	geometric HL_5J7L_169	NA HL_71540.1*
36	HL_7PJU_036	1/A/1492:1498	homologous HL_7RQB_038	NA HL_86880.5*
37	HL_7PJU_037	1/A/1533:1538	NA	NA
38	HL_7PJU_038	1/A/1565:1568	homologous HL_7RQB_039	NA HL_69353.7*
39	HL_7PJU_039	1/A/1612:1619	NA	NA
40	HL_7PJU_040	1/A/1630:1636	GNRA with one bulged base geometric HL_5J7L_174	NA HL_02361.6*
41	HL_7PJU_041	1/A/1691:1696	homologous HL_7RQB_042	NA HL_79299.11*
42	HL_7PJU_042	1/A/1728:1731	geometric HL_6U8D_003	NA HL_18722.3*
43	HL_7PJU_043	1/A/1752:1756	homologous HL_7RQB_044	NA HL_79272.3*
44	HL_7PJU_044	1/A/1777:1787	homologous HL_7RQB_045	NA HL_43613.4*
45	HL_7PJU_045	1/A/1806:1811	homologous HL_7RQB_046	NA HL_43074.18*
46	HL_7PJU_046	1/A/1868:1873	GNRA geometric HL_6JDV_001	NA HL_43074.18*
47	HL_7PJU_048	1/A/1949:1957	homologous HL_7RQB_049	NA HL_53760.4*
48	HL_7PJU_049	1/A/2027:2036	NA	NA
49	HL_7PJU_050	1/A/2116:2164	NA	NA
50	HL_7PJU_051	1/A/2209:2215	geometric HL_5J7L_185	NA HL_16845.5*
51	HL_7PJU_052	1/A/2248:2256	homologous HL_7RQB_053	NA
52	HL_7PJU_053	1/A/2264:2276	homologous HL_7RQB_054	NA HL_19870.5*
53	HL_7PJU_054	1/A/2303:2313	homologous HL_7RQB_055	NA HL_11805.3*
54	HL_7PJU_055	1/A/2324:2331	homologous HL_7RQB_056	NA HL_46142.8*
55	HL_7PJU_056	1/A/2356:2361	Other HL geometric HL_5J7L_190	NA HL_43074.18*
56	HL_7PJU_057	1/A/2374:2379	homologous HL_7RQB_058	NA HL_43074.18*
57	HL_7PJU_058	1/A/2404:2413	homologous HL_7RQB_059	NA HL_48376.4*
58	HL_7PJU_059	1/A/2471:2479	homologous HL_7RQB_060	NA HL_36421.5*
59	HL_7PJU_060	1/A/2528:2535	homologous HL_7RQB_061	NA HL_92681.5*
60	HL_7PJU_061	1/A/2551:2557	homologous HL_7RQB_062	NA
61	HL_7PJU_062	1/A/2594:2599	homologous HL_7RQB_063	NA HL_43074.18*
62	HL_7PJU_063	1/A/2658:2663	homologous HL_7RQB_064	NA HL_43074.18*
63	HL_7PJU_064	1/A/2701:2706	Ribsomal LSU H95 geometric HL_5J7L_198	NA HL_67719.1*
64	HL_7PJU_065	1/A/2745:2759	homologous HL_7RQB_066	NA HL_56677.5*
65	HL_7PJU_066	1/A/2796:2799	geometric HL_6JOO_002	NA HL_69353.7*
66	HL_7PJU_067	1/A/2819:2827	homologous HL_7RQB_068	NA HL_05018.6*
67	HL_7PJU_068	1/A/2856:2861	homologous HL_7RQB_069	NA HL_43074.18*
68	HL_7PJU_069	1/B/38:44	homologous HL_5TBW_185	NA HL_02733.5*
69	HL_7PJU_070	1/B/86:90	geometric HL_6MSF_001	NA HL_57052.3*
70	HL_7PJU_071	1/a/12:22	NA	NA
71	HL_7PJU_072	1/a/78:91	NA	NA
72	HL_7PJU_073	1/a/157:164	NA	NA
73	HL_7PJU_074	1/a/186:191	NA	NA
74	HL_7PJU_075	1/a/207:212	NA	NA
75	HL_7PJU_076	1/a/259:267	NA	NA
76	HL_7PJU_077	1/a/296:301	NA	NA
77	HL_7PJU_078	1/a/320:333	NA	NA
78	HL_7PJU_079	1/a/342:347	NA	NA
79	HL_7PJU_080	1/a/379:384	NA	NA
80	HL_7PJU_081	1/a/419:424	NA	NA
81	HL_7PJU_082	1/a/462:470	NA	NA
82	HL_7PJU_083	1/a/521:528	NA	NA
83	HL_7PJU_084	1/a/617:623	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	HL_7PJU_047	missing nts	NA
2	HL_7PJU_085	missing nts	NA
3	HL_7PJU_086	missing nts	NA
4	HL_7PJU_087	missing nts	NA
5	HL_7PJU_088	missing nts	NA
6	HL_7PJU_089	missing nts	NA
7	HL_7PJU_090	missing nts	NA
8	HL_7PJU_091	missing nts	NA
9	HL_7PJU_092	missing nts	NA
10	HL_7PJU_093	missing nts	NA
11	HL_7PJU_094	missing nts	NA
12	HL_7PJU_095	missing nts	NA
13	HL_7PJU_096	missing nts	NA
14	HL_7PJU_097	missing nts	NA
15	HL_7PJU_098	missing nts	NA
16	HL_7PJU_099	missing nts	NA
17	HL_7PJU_100	missing nts	NA
18	HL_7PJU_101	missing nts	NA
19	HL_7PJU_102	missing nts	NA
20	HL_7PJU_103	missing nts	NA
21	HL_7PJU_104	missing nts	NA
22	HL_7PJU_105	missing nts	NA
23	HL_7PJU_106	missing nts	NA
24	HL_7PJU_107	missing nts	NA

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	IL_7PJU_001	1/A/24:30, 1/A/510:516	Triple sheared with non-canonical cWW geometric IL_4WF9_001	NA IL_66414.5*
2	IL_7PJU_002	1/A/36:37, 1/A/442:444	Single bulged A homologous IL_7RQB_002	NA IL_80007.16*
3	IL_7PJU_003	1/A/43:44, 1/A/434:436	Minor groove platform homologous IL_7RQB_003	NA IL_06437.11*
4	IL_7PJU_004	1/A/81:85, 1/A/97:105	Kink-turn homologous IL_7RQB_004	NA IL_29549.9*
5	IL_7PJU_005	1/A/183:184, 1/A/212:214	Single stack bend homologous IL_7RQB_005	NA IL_04038.4*
6	IL_7PJU_006	1/A/188:194, 1/A/201:208	8x7 Sarcin-Ricin; G-bulge geometric IL_7RQB_006	NA IL_04346.5*
7	IL_7PJU_007	1/A/239:245, 1/A/253:258	7x6 Sarcin-Ricin; G-bulge homologous IL_7RQB_007	NA IL_35110.5*
8	IL_7PJU_008	1/A/269:271, 1/A/366:370	geometric IL_5J7L_252	NA IL_47972.1*
9	IL_7PJU_009	1/A/274:281, 1/A/359:363	NA	NA
10	IL_7PJU_010	1/A/293:295, 1/A/343:347	homologous IL_7RQB_013	NA IL_69440.1*
11	IL_7PJU_011	1/A/481:484, 1/A/496:509	geometric IL_5J7L_255	NA IL_60992.5*
12	IL_7PJU_012	1/A/536:539, 1/A/554:557	Double sheared geometric IL_5J7L_256	NA IL_09705.7*
13	IL_7PJU_013	1/A/564:566, 1/A/575:577	geometric IL_5J7L_257	NA IL_01312.13*
14	IL_7PJU_014	1/A/606:610, 1/A/618:622	AAA cross-strand stack homologous IL_7RQB_016	NA IL_56467.6*
15	IL_7PJU_015	1/A/672:674, 1/A/806:808	geometric IL_5J7L_259	NA IL_01312.13*
16	IL_7PJU_016	1/A/674:678, 1/A/799:806	homologous IL_7RQB_018	NA IL_17470.5*
17	IL_7PJU_017	1/A/697:698, 1/A/763:765	Single bulged A geometric IL_4V9F_025	NA IL_80007.16*
18	IL_7PJU_018	1/A/702:703, 1/A/728:730	Single bulged G homologous IL_7RQB_020	NA IL_59137.10*
19	IL_7PJU_019	1/A/703:707, 1/A/724:728	Triple sheared geometric IL_5J7L_263	NA IL_56467.6*
20	IL_7PJU_020	1/A/738:740, 1/A/757:758	Major groove platform geometric IL_5J7L_264	NA IL_80663.10*
21	IL_7PJU_021	1/A/775:777, 1/A/787:791	Multiple bulged bases homologous IL_7RQB_023	NA IL_90991.5*
22	IL_7PJU_022	1/A/844:847, 1/A/933:934	Other IL geometric IL_5J7L_267	NA IL_31836.1*
23	IL_7PJU_023	1/A/847:848, 1/A/930:933	Stack outside cWW geometric IL_5J7L_268	NA IL_37629.1*
24	IL_7PJU_024	1/A/850:851, 1/A/926:928	Single stack bend geometric IL_5J7L_269	NA IL_04038.4*
25	IL_7PJU_025	1/A/856:862, 1/A/915:921	7x7 Sarcin-Ricin with intercalated A; G-bulge geometric IL_5J7L_270	NA IL_93830.2*
26	IL_7PJU_026	1/A/862:863, 1/A/913:915	Minor groove platform homologous IL_7RQB_028	NA IL_06437.11*
27	IL_7PJU_027	1/A/864:868, 1/A/909:912	C-loop homologous IL_7RQB_029	NA IL_63596.4*
28	IL_7PJU_028	1/A/870:872, 1/A/905:907	Isolated cWS basepair homologous IL_7RQB_030	NA IL_67621.5*
29	IL_7PJU_029	1/A/875:879, 1/A/898:902	Triple sheared geometric IL_4WFL_001	NA IL_56467.6*
30	IL_7PJU_030	1/A/880:881, 1/A/895:897	Single bulged A geometric IL_5J7L_344	NA IL_80007.16*
31	IL_7PJU_031	1/A/994:996, 1/A/1159:1160	Single bulged C homologous IL_7RQB_035	NA IL_61258.10*
32	IL_7PJU_032	1/A/998:1002, 1/A/1153:1157	UAA/GAN homologous IL_7RQB_036	NA IL_53523.5*
33	IL_7PJU_033	1/A/1004:1011, 1/A/1150:1151	SSU/LSU pseudoknot geometric IL_5J7L_278	NA IL_15861.6*
34	IL_7PJU_034	1/A/1011:1013, 1/A/1149:1150	Single bulged U homologous IL_7RQB_038	NA IL_83039.11*
35	IL_7PJU_035	1/A/1018:1024, 1/A/1140:1144	homologous IL_7RQB_039	NA IL_57188.3*
36	IL_7PJU_036	1/A/1024:1030, 1/A/1124:1140	geometric IL_5J7L_281	NA IL_22615.1*
37	IL_7PJU_037	1/A/1031:1034, 1/A/1121:1123	Isolated non-canonical cWW with bulges homologous IL_7RQB_041	NA IL_55456.1*
38	IL_7PJU_038	1/A/1038:1041, 1/A/1114:1117	Tandem non-canonical cWW pairs geometric IL_5J7L_283	NA IL_85877.10*
39	IL_7PJU_039	1/A/1043:1053, 1/A/1106:1112	NA	NA
40	IL_7PJU_040	1/A/1196:1198, 1/A/1247:1250	Isolated cWS basepair homologous IL_7RQB_045	NA IL_67621.5*
41	IL_7PJU_041	1/A/1202:1206, 1/A/1240:1243	geometric IL_5J7L_287	NA IL_91920.1*
42	IL_7PJU_042	1/A/1208:1215, 1/A/1234:1238	Kink-turn homologous IL_7RQB_047	NA IL_29549.9*
43	IL_7PJU_043	1/A/1262:1269, 1/A/2011:2017	8x7 Sarcin-Ricin; G-bulge homologous IL_7RQB_049	NA IL_04346.5*
44	IL_7PJU_044	1/A/1310:1313, 1/A/1603:1604	Major groove platform; stack outside cWW homologous IL_7RQB_050	NA IL_70995.6*
45	IL_7PJU_045	1/A/1319:1323, 1/A/1331:1333	C-loop homologous IL_7RQB_051	NA IL_63596.4*
46	IL_7PJU_046	1/A/1351:1355, 1/A/1376:1380	UAA/GAN geometric IL_5J7L_292	NA IL_34907.2*
47	IL_7PJU_047	1/A/1357:1361, 1/A/1370:1374	tSH-tHW-tHS homologous IL_7RQB_053	NA IL_39521.5*
48	IL_7PJU_048	1/A/1415:1416, 1/A/1582:1587	geometric IL_5J7L_294	NA IL_90348.1*
49	IL_7PJU_049	1/A/1417:1421, 1/A/1577:1581	UAA/GAN homologous IL_7RQB_055	NA IL_53523.5*
50	IL_7PJU_050	1/A/1432:1435, 1/A/1557:1561	Tandem non-canonical cWW pairs geometric IL_5J7L_296	NA IL_85877.10*
51	IL_7PJU_051	1/A/1437:1440, 1/A/1551:1555	tSH-tHW homologous IL_7RQB_057	NA IL_08757.3*
52	IL_7PJU_052	1/A/1450:1451, 1/A/1459:1461	Single bulged U geometric IL_5J7L_298	NA IL_83039.11*
53	IL_7PJU_053	1/A/1468:1471, 1/A/1520:1524	geometric IL_5J7L_299	NA IL_68574.2*
54	IL_7PJU_054	1/A/1474:1478, 1/A/1513:1517	tSH-tHW-tHS geometric IL_5J7L_300	NA IL_39521.5*
55	IL_7PJU_055	1/A/1481:1482, 1/A/1507:1510	geometric IL_5J7L_301	NA IL_67474.3*
56	IL_7PJU_056	1/A/1489:1491, 1/A/1499:1500	Single bulged A homologous IL_7RQB_062	NA IL_40508.4*
57	IL_7PJU_057	1/A/1526:1529, 1/A/1542:1546	UAA/GAN variation geometric IL_5J7L_303	NA IL_81389.2*
58	IL_7PJU_058	1/A/1651:1656, 1/A/2004:2006	homologous IL_7RQB_064	NA IL_12566.2*
59	IL_7PJU_059	1/A/1663:1665, 1/A/1995:1997	Isolated tWW turn homologous IL_7RQB_065	NA IL_54997.5*
60	IL_7PJU_060	1/A/1666:1669, 1/A/1993:1994	Major groove platform; stack outside cWW geometric IL_5J7L_306	NA IL_80663.10*
61	IL_7PJU_061	1/A/1669:1674, 1/A/1990:1993	Intercalated tWH homologous IL_7RQB_067	NA IL_01312.13*
62	IL_7PJU_062	1/A/1686:1691, 1/A/1696:1702	tSH-tSH-tHH-tHS geometric IL_5J7L_308	NA IL_66584.5*
63	IL_7PJU_063	1/A/1712:1718, 1/A/1742:1746	6x5 Sarcin-Ricin; G-bulge geometric IL_5J7L_309	NA IL_88269.2*
64	IL_7PJU_064	1/A/1720:1724, 1/A/1736:1740	Triple sheared geometric IL_5J7L_310	NA IL_56467.6*
65	IL_7PJU_065	1/A/1727:1728, 1/A/1731:1733	Single bulged C geometric IL_5J7L_311	NA IL_61258.10*
66	IL_7PJU_066	1/A/1770:1771, 1/A/1980:1982	Single bulged A homologous IL_7RQB_069	NA IL_80007.16*
67	IL_7PJU_067	1/A/1798:1804, 1/A/1813:1821	Kink-turn related homologous IL_7RQB_070	NA IL_17069.3*
68	IL_7PJU_068	1/A/1837:1840, 1/A/1902:1903	Major groove outside cWW, minor groove, intercalation pocket homologous IL_7RQB_071	NA IL_31836.1*
69	IL_7PJU_069	1/A/1841:1842, 1/A/1898:1901	Major groove outside cWW, minor groove, intercalation pocket geometric IL_5J7L_315	NA IL_13730.12*
70	IL_7PJU_070	1/A/1846:1849, 1/A/1893:1894	Major groove minor groove platform; mini C-loop geometric IL_5J7L_316	NA IL_09061.4*
71	IL_7PJU_071	1/A/1864:1867, 1/A/1874:1878	UAA/GAN related geometric IL_5J7L_317	NA IL_81389.2*
72	IL_7PJU_072	1/A/1907:1909, 1/A/1922:1925	NA	NA
73	IL_7PJU_073	1/A/1933:1934, 1/A/1964:1967	Multiple bulged bases homologous IL_7RQB_076	NA IL_69632.1*
74	IL_7PJU_074	1/A/1934:1945, 1/A/1961:1964	geometric IL_7A0S_072	NA IL_07097.1*
75	IL_7PJU_075	1/A/2050:2052, 1/A/2617:2618	Major groove platform homologous IL_7RQB_078	NA IL_80663.10*
76	IL_7PJU_076	1/A/2054:2056, 1/A/2612:2615	geometric IL_5J7L_321	NA IL_54678.3*
77	IL_7PJU_077	1/A/2064:2066, 1/A/2444:2446	geometric IL_6OL3_002	NA IL_01312.13*
78	IL_7PJU_078	1/A/2067:2070, 1/A/2441:2443	geometric IL_5C5W_002	NA IL_87880.2*
79	IL_7PJU_079	1/A/2070:2071, 1/A/2438:2441	Minor groove platform geometric IL_7A0S_076	NA IL_06437.11*
80	IL_7PJU_080	1/A/2081:2083, 1/A/2236:2239	Isolated tHS basepair with bulges homologous IL_7RQB_082	NA IL_38958.6*
81	IL_7PJU_081	1/A/2085:2087, 1/A/2232:2234	homologous IL_7RQB_083	NA IL_01312.13*
82	IL_7PJU_082	1/A/2099:2102, 1/A/2188:2190	NA	NA
83	IL_7PJU_083	1/A/2202:2204, 1/A/2220:2221	Single bulged U geometric IL_5J7L_331	NA IL_21340.1*
84	IL_7PJU_084	1/A/2350:2353, 1/A/2364:2367	Double sheared homologous IL_7RQB_089	NA IL_09705.7*
85	IL_7PJU_085	1/A/2401:2403, 1/A/2414:2415	Single bulged U geometric IL_5TBW_086	NA IL_21340.1*
86	IL_7PJU_086	1/A/2453:2455, 1/A/2496:2500	NA	NA
87	IL_7PJU_087	1/A/2456:2459, 1/A/2493:2495	Major groove platform with extra pair geometric IL_7RQB_093	NA IL_87630.5*
88	IL_7PJU_088	1/A/2459:2461, 1/A/2489:2493	Major groove minor groove platform with extra cWW homologous IL_7RQB_094	NA IL_96042.4*
89	IL_7PJU_089	1/A/2466:2470, 1/A/2480:2484	Triple sheared homologous IL_7RQB_095	NA IL_56467.6*
90	IL_7PJU_090	1/A/2507:2509, 1/A/2579:2582	Major groove platform with extra pair geometric IL_7RQB_093	NA IL_87630.5*
91	IL_7PJU_091	1/A/2510:2512, 1/A/2574:2578	Isolated non-canonical cWW with bulges geometric IL_7A0S_089	NA IL_01312.13*
92	IL_7PJU_092	1/A/2512:2513, 1/A/2571:2574	Multiple bulged bases homologous IL_7RQB_098	NA IL_13730.12*
93	IL_7PJU_093	1/A/2522:2523, 1/A/2540:2543	Minor groove platform with intercalation homologous IL_7RQB_099	NA IL_95601.1*
94	IL_7PJU_094	1/A/2588:2591, 1/A/2603:2606	geometric IL_6AZ4_001	NA IL_01759.1*
95	IL_7PJU_095	1/A/2591:2592, 1/A/2601:2603	Single bulged A geometric IL_1I9X_001	NA IL_80007.16*
96	IL_7PJU_096	1/A/2636:2640, 1/A/2774:2782	tSH-tHS-tHW homologous IL_7RQB_102	NA IL_34907.2*
97	IL_7PJU_097	1/A/2652:2658, 1/A/2663:2668	Sarcin-Ricin target in LSU H95; G-bulge geometric IL_7A0S_094	NA IL_35110.5*
98	IL_7PJU_098	1/A/2680:2684, 1/A/2725:2727	C-loop homologous IL_7RQB_104	NA IL_63596.4*
99	IL_7PJU_099	1/A/2687:2691, 1/A/2718:2722	homologous IL_7RQB_105	NA IL_08296.3*
100	IL_7PJU_100	1/A/2695:2696, 1/A/2711:2714	Multiple bulged bases homologous IL_7RQB_106	NA IL_77034.1*
101	IL_7PJU_101	1/A/2737:2742, 1/A/2762:2767	UAA/GAN with extra cWW homologous IL_7RQB_107	NA IL_49767.4*
102	IL_7PJU_102	1/A/2795:2796, 1/A/2799:2801	Single bulged A geometric IL_4WF9_022	NA IL_80007.16*
103	IL_7PJU_103	1/A/2806:2811, 1/A/2889:2892	geometric IL_5J7L_351	NA IL_82988.1*
104	IL_7PJU_104	1/A/2838:2839, 1/A/2878:2880	Single bulged C homologous IL_7RQB_108	NA IL_61258.10*
105	IL_7PJU_105	1/A/2843:2846, 1/A/2870:2874	homologous IL_7RQB_109	NA IL_58764.1*
106	IL_7PJU_106	1/A/2847:2852, 1/A/2865:2869	homologous IL_7RQB_110	NA IL_83162.3*
107	IL_7PJU_107	1/B/17:19, 1/B/64:67	Isolated non-canonical cWW with bulges geometric IL_1U6B_001	NA IL_01312.13*
108	IL_7PJU_108	1/B/23:28, 1/B/56:60	geometric IL_5J7L_356	NA IL_18472.1*
109	IL_7PJU_109	1/B/30:31, 1/B/51:54	Major groove minor groove platform; mini C-loop geometric IL_7RQB_113	NA IL_09061.4*
110	IL_7PJU_110	1/B/34:38, 1/B/44:48	Symmetric double minor groove platform geometric IL_5J7L_358	NA IL_58103.5*
111	IL_7PJU_111	1/B/71:79, 1/B/97:105	Bacterial 5S Loop E geometric IL_5J7L_359	NA IL_56455.3*
112	IL_7PJU_112	1/a/30:32, 1/a/552:553	NA	NA
113	IL_7PJU_113	1/a/44:45, 1/a/396:398	NA	NA
114	IL_7PJU_114	1/a/47:52, 1/a/359:361	NA	NA
115	IL_7PJU_115	1/a/54:56, 1/a/356:357	NA	NA
116	IL_7PJU_116	1/a/63:66, 1/a/103:104	NA	NA
117	IL_7PJU_117	1/a/67:69, 1/a/99:102	NA	NA
118	IL_7PJU_118	1/a/70:73, 1/a/97:98	NA	NA
119	IL_7PJU_119	1/a/75:77, 1/a/92:95	NA	NA
120	IL_7PJU_120	1/a/128:131, 1/a/231:233	NA	NA
121	IL_7PJU_121	1/a/132:136, 1/a/227:230	NA	NA
122	IL_7PJU_122	1/a/147:153, 1/a/168:175	NA	NA
123	IL_7PJU_123	1/a/203:206, 1/a/213:214	NA	NA
124	IL_7PJU_124	1/a/242:247, 1/a/277:284	NA	NA
125	IL_7PJU_125	1/a/249:252, 1/a/274:275	NA	NA
126	IL_7PJU_126	1/a/292:293, 1/a/304:308	NA	NA
127	IL_7PJU_127	1/a/367:369, 1/a/392:393	NA	NA
128	IL_7PJU_128	1/a/371:375, 1/a/389:390	NA	NA
129	IL_7PJU_129	1/a/375:376, 1/a/387:389	NA	NA
130	IL_7PJU_130	1/a/409:416, 1/a/427:433	NA	NA
131	IL_7PJU_131	1/a/440:442, 1/a/492:497	NA	NA
132	IL_7PJU_132	1/a/446:450, 1/a/483:488	NA	NA
133	IL_7PJU_133	1/a/450:455, 1/a/477:483	NA	NA
134	IL_7PJU_134	1/a/455:457, 1/a/475:477	NA	NA
135	IL_7PJU_135	1/a/504:511, 1/a/540:541	NA	NA
136	IL_7PJU_136	1/a/515:521, 1/a/528:536	NA	NA
137	IL_7PJU_137	1/a/569:575, 1/a/880:881	NA	NA
138	IL_7PJU_138	1/a/580:584, 1/a/757:761	NA	NA
139	IL_7PJU_139	1/a/594:596, 1/a/644:645	NA	NA
140	IL_7PJU_140	1/a/597:598, 1/a/640:643	NA	NA
141	IL_7PJU_141	1/a/605:612, 1/a/628:633	NA	NA
142	IL_7PJU_142	1/a/654:655, 1/a/751:754	NA	NA
143	IL_7PJU_143	1/a/659:660, 1/a/745:747	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	IL_7PJU_144	missing nts	NA
2	IL_7PJU_145	missing nts	NA
3	IL_7PJU_146	missing nts	NA
4	IL_7PJU_147	missing nts	NA
5	IL_7PJU_148	missing nts	NA
6	IL_7PJU_149	missing nts	NA
7	IL_7PJU_150	missing nts	NA
8	IL_7PJU_151	missing nts	NA
9	IL_7PJU_152	missing nts	NA
10	IL_7PJU_153	missing nts	NA
11	IL_7PJU_154	missing nts	NA
12	IL_7PJU_155	missing nts	NA
13	IL_7PJU_156	missing nts	NA
14	IL_7PJU_157	missing nts	NA
15	IL_7PJU_158	missing nts	NA
16	IL_7PJU_159	missing nts	NA
17	IL_7PJU_160	missing nts	NA
18	IL_7PJU_161	missing nts	NA
19	IL_7PJU_162	missing nts	NA
20	IL_7PJU_163	missing nts	NA
21	IL_7PJU_164	missing nts	NA
22	IL_7PJU_165	missing nts	NA
23	IL_7PJU_166	missing nts	NA
24	IL_7PJU_167	missing nts	NA
25	IL_7PJU_168	missing nts	NA
26	IL_7PJU_169	missing nts	NA
27	IL_7PJU_170	missing nts	NA
28	IL_7PJU_171	missing nts	NA
29	IL_7PJU_172	missing nts	NA
30	IL_7PJU_173	missing nts	NA
31	IL_7PJU_174	missing nts	NA
32	IL_7PJU_175	missing nts	NA
33	IL_7PJU_176	missing nts	NA

Valid loops

#	loop id	location	annotation (mapped to, source)	motif group (similar to)
1	J3_7PJU_001	1/A/30:31, 1/A/474:481, 1/A/509:510	homologous J3_7RQB_001	NA
2	J3_7PJU_002	1/A/56:57, 1/A/70:76, 1/A/110:114	homologous J3_7RQB_002	NA
3	J3_7PJU_003	1/A/297:301, 1/A/316:325, 1/A/337:341	NA	NA
4	J3_7PJU_004	1/A/683:689, 1/A/773:775, 1/A/791:794	NA	NA
5	J3_7PJU_005	1/A/698:700, 1/A/732:736, 1/A/760:763	homologous J3_7RQB_005	NA
6	J3_7PJU_006	1/A/1055:1062, 1/A/1076:1091, 1/A/1100:1104	NA	NA
7	J3_7PJU_007	1/A/1298:1303, 1/A/1625:1627, 1/A/1639:1642	homologous J3_7RQB_007	NA
8	J3_7PJU_008	1/A/1306:1309, 1/A/1605:1611, 1/A/1620:1622	homologous J3_7RQB_008	NA
9	J3_7PJU_009	1/A/1344:1349, 1/A/1382:1385, 1/A/1402:1403	NA	NA
10	J3_7PJU_010	1/A/2091:2093, 1/A/2196:2200, 1/A/2223:2228	homologous J3_7RQB_010	NA
11	J3_7PJU_011	1/A/2295:2299, 1/A/2317:2323, 1/A/2332:2337	NA	NA
12	J3_7PJU_012	1/A/2517:2520, 1/A/2545:2547, 1/A/2561:2567	homologous J3_7RQB_012	NA
13	J3_7PJU_013	1/A/2789:2791, 1/A/2805:2806, 1/A/2892:2894	NA	NA
14	J3_7PJU_014	1/A/2812:2815, 1/A/2831:2836, 1/A/2882:2888	NA	NA
15	J3_7PJU_015	1/B/10:16, 1/B/68:70, 1/B/106:110	NA	NA
16	J3_7PJU_016	1/a/46:47, 1/a/361:367, 1/a/393:395	NA	NA
17	J3_7PJU_017	1/a/586:588, 1/a/651:654, 1/a/754:755	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	J3_7PJU_018	missing nts	NA
2	J3_7PJU_019	missing nts	NA
3	J3_7PJU_020	missing nts	NA
4	J3_7PJU_021	missing nts	NA
5	J3_7PJU_022	missing nts	NA
6	J3_7PJU_023	missing nts	NA
7	J3_7PJU_024	missing nts	NA
8	J3_7PJU_025	missing nts	NA
9	J3_7PJU_026	missing nts	NA
10	J3_7PJU_027	missing nts	NA

Coloring options: Nucleotide numbers

7PJU Internal, Hairpin and 3-way Junction Loop Motifs

Valid loops

Problematic loops

Valid loops

Problematic loops

Valid loops

Problematic loops