4WFA | Motifs

68 Hairpin loops
114 Internal loops
10 Junction loops

Valid loops

#	loop id	location	annotation	motif
1	HL_4WFA_001 ➜	1/X/67:74	NA	NA
2	HL_4WFA_002 ➜	1/X/87:95	NA	NA
3	HL_4WFA_003 ➜	1/X/122:127	NA	NA
4	HL_4WFA_004 ➜	1/X/136:143	NA	NA
5	HL_4WFA_006 ➜	1/X/197:204	NA	NA
6	HL_4WFA_007 ➜	1/X/228:233	NA	NA
7	HL_4WFA_008 ➜	1/X/249:255	NA	NA
8	HL_4WFA_009 ➜	1/X/280:291	NA	NA
9	HL_4WFA_010 ➜	1/X/348:355	NA	NA
10	HL_4WFA_011 ➜	1/X/362:366	NA	NA
11	HL_4WFA_012 ➜	1/X/370:378	NA	NA
12	HL_4WFA_013 ➜	1/X/427:439	NA	NA
13	HL_4WFA_014 ➜	1/X/456:463	NA	NA
14	HL_4WFA_015 ➜	1/X/508:513	NA	NA
15	HL_4WFA_016 ➜	1/X/533:538	NA	NA
16	HL_4WFA_017 ➜	1/X/587:594	NA	NA
17	HL_4WFA_018 ➜	1/X/609:618	NA	NA
18	HL_4WFA_019 ➜	1/X/654:662	NA	NA
19	HL_4WFA_020 ➜	1/X/674:679	NA	NA
20	HL_4WFA_021 ➜	1/X/686:692	NA	NA
21	HL_4WFA_023 ➜	1/X/789:798	NA	NA
22	HL_4WFA_024 ➜	1/X/823:831	NA	NA
23	HL_4WFA_025 ➜	1/X/871:876	NA	NA
24	HL_4WFA_027 ➜	1/X/999:1006	NA	NA
25	HL_4WFA_028 ➜	1/X/1022:1029	NA	NA
26	HL_4WFA_031 ➜	1/X/1260:1265	NA	NA
27	HL_4WFA_032 ➜	1/X/1318:1326	NA	NA
28	HL_4WFA_033 ➜	1/X/1361:1367	NA	NA
29	HL_4WFA_034 ➜	1/X/1400:1405	NA	NA
30	HL_4WFA_035 ➜	1/X/1426:1435	NA	NA
31	HL_4WFA_037 ➜	1/X/1612:1615	NA	NA
32	HL_4WFA_038 ➜	1/X/1656:1663	NA	NA
33	HL_4WFA_039 ➜	1/X/1673:1681	NA	NA
34	HL_4WFA_040 ➜	1/X/1735:1740	NA	NA
35	HL_4WFA_041 ➜	1/X/1761:1768	NA	NA
36	HL_4WFA_042 ➜	1/X/1779:1783	NA	NA
37	HL_4WFA_043 ➜	1/X/1804:1814	NA	NA
38	HL_4WFA_046 ➜	1/X/1976:1984	NA	NA
39	HL_4WFA_047 ➜	1/X/2054:2063	NA	NA
40	HL_4WFA_049 ➜	1/X/2236:2242	NA	NA
41	HL_4WFA_050 ➜	1/X/2275:2283	NA	NA
42	HL_4WFA_051 ➜	1/X/2291:2303	NA	NA
43	HL_4WFA_053 ➜	1/X/2351:2358	NA	NA
44	HL_4WFA_054 ➜	1/X/2382:2389	NA	NA
45	HL_4WFA_055 ➜	1/X/2401:2406	NA	NA
46	HL_4WFA_056 ➜	1/X/2431:2440	NA	NA
47	HL_4WFA_057 ➜	1/X/2498:2506	NA	NA
48	HL_4WFA_058 ➜	1/X/2555:2562	NA	NA
49	HL_4WFA_059 ➜	1/X/2578:2584	NA	NA
50	HL_4WFA_060 ➜	1/X/2621:2626	NA	NA
51	HL_4WFA_061 ➜	1/X/2685:2690	NA	NA
52	HL_4WFA_062 ➜	1/X/2728:2733	NA	NA
53	HL_4WFA_063 ➜	1/X/2772:2786	NA	NA
54	HL_4WFA_065 ➜	1/X/2839:2847	NA	NA
55	HL_4WFA_066 ➜	1/X/2876:2881	NA	NA
56	HL_4WFA_067 ➜	1/Y/36:42	NA	NA
57	HL_4WFA_068 ➜	1/Y/77:94	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	HL_4WFA_005 ➜	missing nts	NA
2	HL_4WFA_022 ➜	missing nts	NA
3	HL_4WFA_026 ➜	missing nts	NA
4	HL_4WFA_029 ➜	missing nts	NA
5	HL_4WFA_030 ➜	missing nts	NA
6	HL_4WFA_036 ➜	missing nts	NA
7	HL_4WFA_044 ➜	missing nts	NA
8	HL_4WFA_045 ➜	missing nts	NA
9	HL_4WFA_048 ➜	missing nts	NA
10	HL_4WFA_052 ➜	missing nts	NA
11	HL_4WFA_064 ➜	missing nts	NA

Valid loops

#	loop id	location	annotation	motif
1	IL_4WFA_001 ➜	1/X/24:30,1/X/555:561	NA	NA
2	IL_4WFA_002 ➜	1/X/36:37,1/X/488:490	NA	NA
3	IL_4WFA_003 ➜	1/X/42:45,1/X/479:483	NA	NA
4	IL_4WFA_004 ➜	1/X/81:85,1/X/97:104	NA	NA
5	IL_4WFA_006 ➜	1/X/152:155,1/X/173:177	NA	NA
6	IL_4WFA_007 ➜	1/X/186:187,1/X/215:217	NA	NA
7	IL_4WFA_008 ➜	1/X/190:197,1/X/204:212	NA	NA
8	IL_4WFA_009 ➜	1/X/241:248,1/X/256:262	NA	NA
9	IL_4WFA_010 ➜	1/X/276:279,1/X/292:295	NA	NA
10	IL_4WFA_011 ➜	1/X/304:306,1/X/409:413	NA	NA
11	IL_4WFA_012 ➜	1/X/328:332,1/X/394:399	NA	NA
12	IL_4WFA_013 ➜	1/X/336:338,1/X/386:390	NA	NA
13	IL_4WFA_014 ➜	1/X/527:530,1/X/541:554	NA	NA
14	IL_4WFA_015 ➜	1/X/581:584,1/X/597:600	NA	NA
15	IL_4WFA_016 ➜	1/X/607:609,1/X/618:620	NA	NA
16	IL_4WFA_017 ➜	1/X/638:640,1/X/705:707	NA	NA
17	IL_4WFA_018 ➜	1/X/649:653,1/X/663:667	NA	NA
18	IL_4WFA_019 ➜	1/X/717:719,1/X/851:853	NA	NA
19	IL_4WFA_020 ➜	1/X/719:723,1/X/844:851	NA	NA
20	IL_4WFA_021 ➜	1/X/742:743,1/X/808:810	NA	NA
21	IL_4WFA_022 ➜	1/X/747:748,1/X/773:775	NA	NA
22	IL_4WFA_023 ➜	1/X/748:752,1/X/769:773	NA	NA
23	IL_4WFA_024 ➜	1/X/783:785,1/X/802:803	NA	NA
24	IL_4WFA_025 ➜	1/X/820:822,1/X/832:836	NA	NA
25	IL_4WFA_026 ➜	1/X/882:883,1/X/984:986	NA	NA
26	IL_4WFA_027 ➜	1/X/889:893,1/X/975:978	NA	NA
27	IL_4WFA_028 ➜	1/X/897:898,1/X/969:971	NA	NA
28	IL_4WFA_029 ➜	1/X/901:907,1/X/960:966	NA	NA
29	IL_4WFA_030 ➜	1/X/907:908,1/X/958:960	NA	NA
30	IL_4WFA_031 ➜	1/X/909:913,1/X/954:957	NA	NA
31	IL_4WFA_032 ➜	1/X/915:917,1/X/950:952	NA	NA
32	IL_4WFA_033 ➜	1/X/920:924,1/X/943:947	NA	NA
33	IL_4WFA_034 ➜	1/X/1038:1040,1/X/1203:1204	NA	NA
34	IL_4WFA_035 ➜	1/X/1042:1046,1/X/1197:1201	NA	NA
35	IL_4WFA_036 ➜	1/X/1048:1055,1/X/1194:1195	NA	NA
36	IL_4WFA_037 ➜	1/X/1055:1057,1/X/1193:1194	NA	NA
37	IL_4WFA_038 ➜	1/X/1062:1068,1/X/1184:1188	NA	NA
38	IL_4WFA_039 ➜	1/X/1068:1074,1/X/1168:1184	NA	NA
39	IL_4WFA_040 ➜	1/X/1075:1078,1/X/1165:1167	NA	NA
40	IL_4WFA_041 ➜	1/X/1081:1083,1/X/1160:1162	NA	NA
41	IL_4WFA_042 ➜	1/X/1087:1096,1/X/1151:1156	NA	NA
42	IL_4WFA_044 ➜	1/X/1235:1237,1/X/1285:1288	NA	NA
43	IL_4WFA_045 ➜	1/X/1243:1245,1/X/1277:1279	NA	NA
44	IL_4WFA_046 ➜	1/X/1246:1253,1/X/1272:1276	NA	NA
45	IL_4WFA_047 ➜	1/X/1257:1259,1/X/1266:1268	NA	NA
46	IL_4WFA_048 ➜	1/X/1300:1307,1/X/2038:2044	NA	NA
47	IL_4WFA_049 ➜	1/X/1347:1350,1/X/1647:1648	NA	NA
48	IL_4WFA_050 ➜	1/X/1356:1360,1/X/1368:1370	NA	NA
49	IL_4WFA_051 ➜	1/X/1388:1392,1/X/1413:1417	NA	NA
50	IL_4WFA_052 ➜	1/X/1394:1398,1/X/1407:1411	NA	NA
51	IL_4WFA_055 ➜	1/X/1461:1465,1/X/1624:1627	NA	NA
52	IL_4WFA_056 ➜	1/X/1476:1480,1/X/1604:1608	NA	NA
53	IL_4WFA_057 ➜	1/X/1481:1485,1/X/1598:1603	NA	NA
54	IL_4WFA_061 ➜	1/X/1695:1700,1/X/2031:2033	NA	NA
55	IL_4WFA_062 ➜	1/X/1707:1709,1/X/2022:2024	NA	NA
56	IL_4WFA_063 ➜	1/X/1710:1713,1/X/2020:2021	NA	NA
57	IL_4WFA_064 ➜	1/X/1713:1718,1/X/2017:2020	NA	NA
58	IL_4WFA_065 ➜	1/X/1729:1735,1/X/1740:1747	NA	NA
59	IL_4WFA_066 ➜	1/X/1756:1761,1/X/1768:1773	NA	NA
60	IL_4WFA_067 ➜	1/X/1797:1798,1/X/2007:2009	NA	NA
61	IL_4WFA_068 ➜	1/X/1825:1831,1/X/1840:1848	NA	NA
62	IL_4WFA_070 ➜	1/X/1868:1869,1/X/1925:1928	NA	NA
63	IL_4WFA_072 ➜	1/X/1878:1882,1/X/1914:1918	NA	NA
64	IL_4WFA_073 ➜	1/X/1883:1888,1/X/1908:1913	NA	NA
65	IL_4WFA_074 ➜	1/X/1891:1894,1/X/1901:1905	NA	NA
66	IL_4WFA_075 ➜	1/X/1960:1961,1/X/1991:1994	NA	NA
67	IL_4WFA_076 ➜	1/X/1961:1972,1/X/1988:1991	NA	NA
68	IL_4WFA_077 ➜	1/X/2077:2079,1/X/2644:2645	NA	NA
69	IL_4WFA_078 ➜	1/X/2081:2083,1/X/2639:2642	NA	NA
70	IL_4WFA_079 ➜	1/X/2094:2096,1/X/2469:2470	NA	NA
71	IL_4WFA_080 ➜	1/X/2097:2098,1/X/2465:2468	NA	NA
72	IL_4WFA_081 ➜	1/X/2108:2110,1/X/2263:2266	NA	NA
73	IL_4WFA_082 ➜	1/X/2111:2113,1/X/2260:2262	NA	NA
74	IL_4WFA_083 ➜	1/X/2229:2232,1/X/2246:2248	NA	NA
75	IL_4WFA_084 ➜	1/X/2234:2236,1/X/2242:2244	NA	NA
76	IL_4WFA_085 ➜	1/X/2324:2326,1/X/2344:2348	NA	NA
77	IL_4WFA_087 ➜	1/X/2377:2380,1/X/2391:2394	NA	NA
78	IL_4WFA_088 ➜	1/X/2428:2430,1/X/2441:2442	NA	NA
79	IL_4WFA_089 ➜	1/X/2480:2481,1/X/2525:2527	NA	NA
80	IL_4WFA_090 ➜	1/X/2481:2482,1/X/2523:2525	NA	NA
81	IL_4WFA_091 ➜	1/X/2484:2486,1/X/2520:2521	NA	NA
82	IL_4WFA_092 ➜	1/X/2486:2488,1/X/2516:2520	NA	NA
83	IL_4WFA_093 ➜	1/X/2493:2497,1/X/2507:2511	NA	NA
84	IL_4WFA_094 ➜	1/X/2534:2535,1/X/2607:2609	NA	NA
85	IL_4WFA_095 ➜	1/X/2537:2539,1/X/2601:2605	NA	NA
86	IL_4WFA_096 ➜	1/X/2539:2540,1/X/2598:2601	NA	NA
87	IL_4WFA_097 ➜	1/X/2549:2550,1/X/2567:2570	NA	NA
88	IL_4WFA_098 ➜	1/X/2618:2619,1/X/2628:2630	NA	NA
89	IL_4WFA_099 ➜	1/X/2663:2667,1/X/2801:2809	NA	NA
90	IL_4WFA_100 ➜	1/X/2679:2685,1/X/2690:2695	NA	NA
91	IL_4WFA_101 ➜	1/X/2707:2711,1/X/2752:2754	NA	NA
92	IL_4WFA_102 ➜	1/X/2714:2718,1/X/2745:2749	NA	NA
93	IL_4WFA_103 ➜	1/X/2722:2723,1/X/2738:2741	NA	NA
94	IL_4WFA_104 ➜	1/X/2764:2769,1/X/2789:2794	NA	NA
95	IL_4WFA_106 ➜	1/X/2858:2859,1/X/2898:2900	NA	NA
96	IL_4WFA_107 ➜	1/X/2863:2865,1/X/2891:2894	NA	NA
97	IL_4WFA_108 ➜	1/X/2867:2872,1/X/2885:2889	NA	NA
98	IL_4WFA_109 ➜	1/Y/3:5,1/Y/110:112	NA	NA
99	IL_4WFA_110 ➜	1/Y/5:8,1/Y/107:110	NA	NA
100	IL_4WFA_111 ➜	1/Y/15:16,1/Y/63:65	NA	NA
101	IL_4WFA_112 ➜	1/Y/20:27,1/Y/53:59	NA	NA
102	IL_4WFA_113 ➜	1/Y/28:30,1/Y/48:52	NA	NA
103	IL_4WFA_114 ➜	1/Y/32:36,1/Y/42:46	NA	NA

Problematic loops

#	loop id	Problem	Sequence
1	IL_4WFA_005 ➜	complementary	NA
2	IL_4WFA_043 ➜	missing nts	NA
3	IL_4WFA_053 ➜	complementary	NA
4	IL_4WFA_054 ➜	missing nts	NA
5	IL_4WFA_058 ➜	missing nts	NA
6	IL_4WFA_059 ➜	missing nts	NA
7	IL_4WFA_060 ➜	missing nts	NA
8	IL_4WFA_069 ➜	missing nts	NA
9	IL_4WFA_071 ➜	missing nts	NA
10	IL_4WFA_086 ➜	complementary	NA
11	IL_4WFA_105 ➜	complementary	NA

Valid loops

#	loop id	location	annotation	motif
1	J3_4WFA_001 ➜	1/X/56:67,1/X/74:76,1/X/109:113	NA	NA
2	J3_4WFA_002 ➜	1/X/272:276,1/X/295:303,1/X/414:416	NA	NA
3	J3_4WFA_003 ➜	1/X/728:734,1/X/818:820,1/X/836:839	NA	NA
4	J3_4WFA_004 ➜	1/X/743:745,1/X/777:781,1/X/805:808	NA	NA
5	J3_4WFA_005 ➜	1/X/1335:1340,1/X/1669:1671,1/X/1683:1686	NA	NA
6	J3_4WFA_006 ➜	1/X/1342:1346,1/X/1649:1655,1/X/1664:1667	NA	NA
7	J3_4WFA_007 ➜	1/X/1860:1863,1/X/1931:1960,1/X/1994:1999	NA	NA
8	J3_4WFA_008 ➜	1/X/2118:2120,1/X/2223:2228,1/X/2249:2255	NA	NA
9	J3_4WFA_009 ➜	1/X/2322:2324,1/X/2348:2350,1/X/2359:2364	NA	NA
10	J3_4WFA_010 ➜	1/X/2544:2547,1/X/2572:2574,1/X/2588:2594	NA	NA

Problematic loops

No problematic loops

Coloring options: Nucleotide numbers

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

Valid loops

Problematic loops

Valid loops

Problematic loops

Valid loops

Problematic loops