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

225 Internal loops
120 Hairpin loops
28 Junction loops

Valid loops

#	loop id	location	motif
1	IL_5JUT_001 ➜	1/A/24:26,1/A/600:601	NA
2	IL_5JUT_002 ➜	1/A/35:37,1/A/471:473	NA
3	IL_5JUT_003 ➜	1/A/37:41,1/A/466:471	NA
4	IL_5JUT_004 ➜	1/A/42:48,1/A/431:433	NA
5	IL_5JUT_005 ➜	1/A/50:52,1/A/428:429	NA
6	IL_5JUT_006 ➜	1/A/57:63,1/A/87:90	NA
7	IL_5JUT_007 ➜	1/A/64:69,1/A/82:86	NA
8	IL_5JUT_008 ➜	1/A/109:112,1/A/302:305	NA
9	IL_5JUT_009 ➜	1/A/113:116,1/A/300:301	NA
10	IL_5JUT_010 ➜	1/A/117:122,1/A/295:299	NA
11	IL_5JUT_011 ➜	1/A/143:149,1/A/165:172	NA
12	IL_5JUT_012 ➜	1/A/150:152,1/A/162:164	NA
13	IL_5JUT_013 ➜	1/A/186:189,1/A/196:199	NA
14	IL_5JUT_014 ➜	1/A/204:206,1/A/259:263	NA
15	IL_5JUT_015 ➜	1/A/206:208,1/A/257:259	NA
16	IL_5JUT_016 ➜	1/A/265:267,1/A/288:289	NA
17	IL_5JUT_017 ➜	1/A/270:273,1/A/283:285	NA
18	IL_5JUT_018 ➜	1/A/274:276,1/A/279:282	NA
19	IL_5JUT_019 ➜	1/A/311:316,1/A/348:355	NA
20	IL_5JUT_020 ➜	1/A/318:323,1/A/345:346	NA
21	IL_5JUT_021 ➜	1/A/363:365,1/A/376:381	NA
22	IL_5JUT_022 ➜	1/A/389:391,1/A/406:408	NA
23	IL_5JUT_023 ➜	1/A/411:413,1/A/420:422	NA
24	IL_5JUT_024 ➜	1/A/439:441,1/A/463:464	NA
25	IL_5JUT_025 ➜	1/A/443:447,1/A/460:461	NA
26	IL_5JUT_026 ➜	1/A/447:448,1/A/458:460	NA
27	IL_5JUT_027 ➜	1/A/480:483,1/A/504:508	NA
28	IL_5JUT_028 ➜	1/A/517:518,1/A/533:535	NA
29	IL_5JUT_029 ➜	1/A/518:520,1/A/532:533	NA
30	IL_5JUT_030 ➜	1/A/550:557,1/A/587:588	NA
31	IL_5JUT_031 ➜	1/A/557:559,1/A/586:587	NA
32	IL_5JUT_032 ➜	1/A/562:568,1/A/575:583	NA
33	IL_5JUT_033 ➜	1/A/616:622,1/A/1104:1105	NA
34	IL_5JUT_034 ➜	1/A/624:626,1/A/973:975	NA
35	IL_5JUT_035 ➜	1/A/627:631,1/A/968:972	NA
36	IL_5JUT_036 ➜	1/A/646:648,1/A/686:688	NA
37	IL_5JUT_037 ➜	1/A/651:657,1/A/677:683	NA
38	IL_5JUT_038 ➜	1/A/746:747,1/A/802:805	NA
39	IL_5JUT_039 ➜	1/A/748:750,1/A/799:801	NA
40	IL_5JUT_040 ➜	1/A/751:759,1/A/791:798	NA
41	IL_5JUT_041 ➜	1/A/865:866,1/A/962:965	NA
42	IL_5JUT_042 ➜	1/A/867:869,1/A/958:961	NA
43	IL_5JUT_043 ➜	1/A/871:873,1/A/954:956	NA
44	IL_5JUT_044 ➜	1/A/874:878,1/A/950:953	NA
45	IL_5JUT_045 ➜	1/A/886:890,1/A/922:926	NA
46	IL_5JUT_046 ➜	1/A/893:899,1/A/910:919	NA
47	IL_5JUT_047 ➜	1/A/985:990,1/A/1014:1016	NA
48	IL_5JUT_048 ➜	1/A/990:994,1/A/1010:1014	NA
49	IL_5JUT_049 ➜	1/A/1034:1036,1/A/1095:1101	NA
50	IL_5JUT_050 ➜	1/A/1041:1044,1/A/1074:1077	NA
51	IL_5JUT_051 ➜	1/A/1051:1053,1/A/1066:1067	NA
52	IL_5JUT_052 ➜	1/A/1111:1119,1/A/1128:1134	NA
53	IL_5JUT_053 ➜	1/A/1146:1147,1/A/1630:1632	NA
54	IL_5JUT_054 ➜	1/A/1149:1151,1/A/1627:1628	NA
55	IL_5JUT_055 ➜	1/A/1157:1160,1/A/1617:1621	NA
56	IL_5JUT_056 ➜	1/A/1173:1175,1/A/1464:1466	NA
57	IL_5JUT_057 ➜	1/A/1178:1179,1/A/1459:1461	NA
58	IL_5JUT_058 ➜	1/A/1213:1215,1/A/1448:1450	NA
59	IL_5JUT_059 ➜	1/A/1224:1230,1/A/1257:1259	NA
60	IL_5JUT_060 ➜	1/A/1230:1233,1/A/1252:1257	NA
61	IL_5JUT_061 ➜	1/A/1234:1237,1/A/1248:1251	NA
62	IL_5JUT_062 ➜	1/A/1268:1270,1/A/1440:1441	NA
63	IL_5JUT_063 ➜	1/A/1272:1276,1/A/1436:1438	NA
64	IL_5JUT_064 ➜	1/A/1276:1278,1/A/1430:1436	NA
65	IL_5JUT_065 ➜	1/A/1280:1281,1/A/1426:1428	NA
66	IL_5JUT_066 ➜	1/A/1290:1292,1/A/1323:1325	NA
67	IL_5JUT_067 ➜	1/A/1306:1308,1/A/1317:1318	NA
68	IL_5JUT_068 ➜	1/A/1339:1342,1/A/1383:1385	NA
69	IL_5JUT_069 ➜	1/A/1345:1349,1/A/1376:1380	NA
70	IL_5JUT_070 ➜	1/A/1352:1354,1/A/1369:1373	NA
71	IL_5JUT_071 ➜	1/A/1389:1391,1/A/1407:1412	NA
72	IL_5JUT_072 ➜	1/A/1480:1487,1/A/1519:1527	NA
73	IL_5JUT_073 ➜	1/A/1488:1494,1/A/1513:1518	NA
74	IL_5JUT_074 ➜	1/A/1495:1498,1/A/1509:1512	NA
75	IL_5JUT_075 ➜	1/A/1540:1545,1/A/1566:1571	NA
76	IL_5JUT_076 ➜	1/A/1636:1638,1/A/1764:1767	NA
77	IL_5JUT_077 ➜	1/A/1638:1641,1/A/1760:1764	NA
78	IL_5JUT_078 ➜	1/A/1642:1644,1/A/1757:1759	NA
79	IL_5JUT_079 ➜	1/A/1644:1647,1/A/1753:1757	NA
80	IL_5JUT_080 ➜	1/A/1650:1652,1/A/1748:1750	NA
81	IL_5JUT_081 ➜	1/A/1653:1656,1/A/1744:1747	NA
82	IL_5JUT_082 ➜	1/A/1656:1658,1/A/1743:1744	NA
83	IL_5JUT_083 ➜	1/A/1665:1667,1/A/1734:1736	NA
84	IL_5JUT_084 ➜	1/A/1669:1672,1/A/1729:1732	NA
85	IL_5JUT_085 ➜	1/A/1672:1674,1/A/1727:1729	NA
86	IL_5JUT_086 ➜	1/A/1675:1678,1/A/1723:1726	NA
87	IL_5JUT_087 ➜	1/A/1678:1682,1/A/1719:1723	NA
88	IL_5JUT_088 ➜	1/B/5:8,1/C/150:154	NA
89	IL_5JUT_089 ➜	1/B/10:19,1/C/140:148	NA
90	IL_5JUT_090 ➜	1/B/27:28,1/B/56:58	NA
91	IL_5JUT_091 ➜	1/B/31:38,1/B/45:53	NA
92	IL_5JUT_092 ➜	1/B/82:89,1/B/97:103	NA
93	IL_5JUT_093 ➜	1/B/123:124,1/B/144:149	NA
94	IL_5JUT_094 ➜	1/B/125:127,1/B/141:143	NA
95	IL_5JUT_095 ➜	1/B/163:165,1/B/257:258	NA
96	IL_5JUT_096 ➜	1/B/168:170,1/B/248:254	NA
97	IL_5JUT_097 ➜	1/B/177:179,1/B/237:241	NA
98	IL_5JUT_098 ➜	1/B/189:191,1/B/204:205	NA
99	IL_5JUT_099 ➜	1/B/337:339,1/C/25:26	NA
100	IL_5JUT_100 ➜	1/B/376:379,1/B/390:403	NA
101	IL_5JUT_101 ➜	1/B/404:411,1/C/12:19	NA
102	IL_5JUT_102 ➜	1/B/429:431,1/B/628:630	NA
103	IL_5JUT_103 ➜	1/B/443:450,1/B/486:491	NA
104	IL_5JUT_104 ➜	1/B/512:513,1/B/577:579	NA
105	IL_5JUT_105 ➜	1/B/517:525,1/B/567:573	NA
106	IL_5JUT_106 ➜	1/B/531:538,1/B/553:561	NA
107	IL_5JUT_107 ➜	1/B/668:670,1/B/792:794	NA
108	IL_5JUT_108 ➜	1/B/680:684,1/B/696:700	NA
109	IL_5JUT_109 ➜	1/B/725:729,1/B/740:745	NA
110	IL_5JUT_110 ➜	1/B/752:753,1/B/779:781	NA
111	IL_5JUT_111 ➜	1/B/755:756,1/B/775:777	NA
112	IL_5JUT_112 ➜	1/B/758:763,1/B/768:773	NA
113	IL_5JUT_113 ➜	1/B/803:805,1/B/938:940	NA
114	IL_5JUT_114 ➜	1/B/805:809,1/B/931:938	NA
115	IL_5JUT_115 ➜	1/B/833:834,1/B/859:861	NA
116	IL_5JUT_116 ➜	1/B/834:838,1/B/855:859	NA
117	IL_5JUT_117 ➜	1/B/869:872,1/B/888:890	NA
118	IL_5JUT_118 ➜	1/B/873:875,1/B/886:887	NA
119	IL_5JUT_119 ➜	1/B/907:909,1/B/919:923	NA
120	IL_5JUT_120 ➜	1/B/954:956,1/B/965:967	NA
121	IL_5JUT_121 ➜	1/B/969:970,1/B/1111:1113	NA
122	IL_5JUT_122 ➜	1/B/977:982,1/B/1101:1104	NA
123	IL_5JUT_123 ➜	1/B/990:997,1/B/1052:1059	NA
124	IL_5JUT_124 ➜	1/B/997:998,1/B/1050:1052	NA
125	IL_5JUT_125 ➜	1/B/999:1004,1/B/1046:1049	NA
126	IL_5JUT_126 ➜	1/B/1006:1009,1/B/1041:1044	NA
127	IL_5JUT_127 ➜	1/B/1009:1011,1/B/1039:1041	NA
128	IL_5JUT_128 ➜	1/B/1014:1018,1/B/1034:1036	NA
129	IL_5JUT_129 ➜	1/B/1069:1071,1/B/1087:1089	NA
130	IL_5JUT_130 ➜	1/B/1074:1076,1/B/1083:1084	NA
131	IL_5JUT_131 ➜	1/B/1120:1122,1/B/1136:1138	NA
132	IL_5JUT_132 ➜	1/B/1167:1171,1/B/1328:1332	NA
133	IL_5JUT_133 ➜	1/B/1173:1180,1/B/1325:1326	NA
134	IL_5JUT_134 ➜	1/B/1180:1182,1/B/1324:1325	NA
135	IL_5JUT_135 ➜	1/B/1187:1194,1/B/1314:1319	NA
136	IL_5JUT_136 ➜	1/B/1194:1205,1/B/1299:1314	NA
137	IL_5JUT_137 ➜	1/B/1207:1209,1/B/1296:1297	NA
138	IL_5JUT_138 ➜	1/B/1218:1226,1/B/1283:1287	NA
139	IL_5JUT_139 ➜	1/B/1234:1238,1/B/1250:1254	NA
140	IL_5JUT_140 ➜	1/B/1262:1266,1/B/1275:1277	NA
141	IL_5JUT_141 ➜	1/B/1376:1378,1/B/1428:1431	NA
142	IL_5JUT_142 ➜	1/B/1385:1387,1/B/1420:1421	NA
143	IL_5JUT_143 ➜	1/B/1388:1395,1/B/1415:1419	NA
144	IL_5JUT_144 ➜	1/B/1398:1400,1/B/1411:1412	NA
145	IL_5JUT_145 ➜	1/B/1500:1505,1/B/1513:1516	NA
146	IL_5JUT_146 ➜	1/B/1532:1536,1/B/1585:1590	NA
147	IL_5JUT_147 ➜	1/B/1595:1597,1/B/1611:1612	NA
148	IL_5JUT_148 ➜	1/B/1597:1598,1/B/1609:1611	NA
149	IL_5JUT_149 ➜	1/B/1618:1620,1/B/1825:1826	NA
150	IL_5JUT_150 ➜	1/B/1623:1625,1/B/1818:1822	NA
151	IL_5JUT_151 ➜	1/B/1627:1631,1/B/1811:1816	NA
152	IL_5JUT_152 ➜	1/B/1645:1649,1/B/1806:1810	NA
153	IL_5JUT_153 ➜	1/B/1661:1663,1/B/1786:1788	NA
154	IL_5JUT_154 ➜	1/B/1669:1670,1/B/1778:1780	NA
155	IL_5JUT_155 ➜	1/B/1670:1671,1/B/1776:1778	NA
156	IL_5JUT_156 ➜	1/B/1694:1698,1/B/1747:1752	NA
157	IL_5JUT_157 ➜	1/B/1702:1707,1/B/1737:1743	NA
158	IL_5JUT_158 ➜	1/B/1711:1718,1/B/1726:1733	NA
159	IL_5JUT_159 ➜	1/B/1883:1889,1/B/2346:2349	NA
160	IL_5JUT_160 ➜	1/B/1918:1923,1/B/1928:1934	NA
161	IL_5JUT_161 ➜	1/B/1940:1942,1/B/2106:2108	NA
162	IL_5JUT_162 ➜	1/B/1947:1948,1/B/2098:2101	NA
163	IL_5JUT_163 ➜	1/B/2128:2129,1/B/2323:2325	NA
164	IL_5JUT_164 ➜	1/B/2156:2161,1/B/2173:2180	NA
165	IL_5JUT_165 ➜	1/B/2196:2199,1/B/2245:2246	NA
166	IL_5JUT_166 ➜	1/B/2200:2201,1/B/2241:2244	NA
167	IL_5JUT_167 ➜	1/B/2204:2210,1/B/2235:2238	NA
168	IL_5JUT_168 ➜	1/B/2211:2217,1/B/2228:2234	NA
169	IL_5JUT_169 ➜	1/B/2276:2277,1/B/2307:2310	NA
170	IL_5JUT_170 ➜	1/B/2277:2288,1/B/2304:2307	NA
171	IL_5JUT_171 ➜	1/B/2391:2394,1/B/2986:2988	NA
172	IL_5JUT_172 ➜	1/B/2396:2398,1/B/2981:2984	NA
173	IL_5JUT_173 ➜	1/B/2409:2411,1/B/2811:2812	NA
174	IL_5JUT_174 ➜	1/B/2412:2413,1/B/2807:2810	NA
175	IL_5JUT_175 ➜	1/B/2423:2425,1/B/2604:2607	NA
176	IL_5JUT_176 ➜	1/B/2520:2526,1/B/2584:2587	NA
177	IL_5JUT_177 ➜	1/B/2614:2615,1/B/2625:2627	NA
178	IL_5JUT_178 ➜	1/B/2666:2668,1/B/2686:2690	NA
179	IL_5JUT_179 ➜	1/B/2718:2721,1/B/2735:2738	NA
180	IL_5JUT_180 ➜	1/B/2770:2773,1/B/2787:2788	NA
181	IL_5JUT_181 ➜	1/B/2823:2824,1/B/2865:2867	NA
182	IL_5JUT_182 ➜	1/B/2824:2826,1/B/2863:2865	NA
183	IL_5JUT_183 ➜	1/B/2826:2828,1/B/2862:2863	NA
184	IL_5JUT_184 ➜	1/B/2828:2830,1/B/2858:2862	NA
185	IL_5JUT_185 ➜	1/B/2835:2839,1/B/2849:2853	NA
186	IL_5JUT_186 ➜	1/B/2876:2877,1/B/2949:2951	NA
187	IL_5JUT_187 ➜	1/B/2879:2881,1/B/2943:2947	NA
188	IL_5JUT_188 ➜	1/B/2881:2882,1/B/2940:2943	NA
189	IL_5JUT_189 ➜	1/B/2889:2891,1/B/2912:2914	NA
190	IL_5JUT_190 ➜	1/B/2891:2892,1/B/2909:2912	NA
191	IL_5JUT_191 ➜	1/B/2918:2920,1/B/2926:2928	NA
192	IL_5JUT_192 ➜	1/B/2960:2961,1/B/2970:2972	NA
193	IL_5JUT_193 ➜	1/B/3004:3007,1/B/3139:3144	NA
194	IL_5JUT_194 ➜	1/B/3012:3014,1/B/3040:3042	NA
195	IL_5JUT_195 ➜	1/B/3018:3025,1/B/3030:3036	NA
196	IL_5JUT_196 ➜	1/B/3047:3051,1/B/3091:3094	NA
197	IL_5JUT_197 ➜	1/B/3054:3059,1/B/3084:3088	NA
198	IL_5JUT_198 ➜	1/B/3063:3064,1/B/3077:3080	NA
199	IL_5JUT_199 ➜	1/B/3102:3107,1/B/3127:3132	NA
200	IL_5JUT_200 ➜	1/B/3161:3166,1/B/3284:3289	NA
201	IL_5JUT_201 ➜	1/B/3168:3170,1/B/3280:3282	NA
202	IL_5JUT_202 ➜	1/B/3177:3179,1/B/3210:3211	NA
203	IL_5JUT_203 ➜	1/B/3179:3188,1/B/3204:3210	NA
204	IL_5JUT_204 ➜	1/B/3193:3194,1/B/3197:3199	NA
205	IL_5JUT_205 ➜	1/B/3225:3229,1/B/3258:3260	NA
206	IL_5JUT_206 ➜	1/B/3233:3235,1/B/3252:3254	NA
207	IL_5JUT_207 ➜	1/B/3235:3238,1/B/3249:3252	NA
208	IL_5JUT_208 ➜	1/B/3300:3303,1/B/3311:3314	NA
209	IL_5JUT_209 ➜	1/B/3318:3320,1/B/3387:3388	NA
210	IL_5JUT_210 ➜	1/B/3324:3325,1/B/3381:3383	NA
211	IL_5JUT_211 ➜	1/B/3328:3330,1/B/3373:3378	NA
212	IL_5JUT_212 ➜	1/B/3332:3337,1/B/3367:3371	NA
213	IL_5JUT_213 ➜	1/B/3340:3342,1/B/3363:3364	NA
214	IL_5JUT_214 ➜	1/B/3342:3345,1/B/3360:3363	NA
215	IL_5JUT_215 ➜	1/B/3349:3350,1/B/3353:3356	NA
216	IL_5JUT_216 ➜	1/C/43:64,1/C/96:101	NA
217	IL_5JUT_217 ➜	1/C/64:66,1/C/93:96	NA
218	IL_5JUT_218 ➜	1/D/15:16,1/D/63:65	NA
219	IL_5JUT_219 ➜	1/D/21:27,1/D/53:58	NA
220	IL_5JUT_220 ➜	1/D/28:29,1/D/49:52	NA
221	IL_5JUT_221 ➜	1/D/29:30,1/D/47:49	NA
222	IL_5JUT_222 ➜	1/D/32:36,1/D/41:45	NA
223	IL_5JUT_223 ➜	1/D/72:80,1/D/100:106	NA
224	IL_5JUT_224 ➜	1/D/84:87,1/D/94:96	NA
225	IL_5JUT_225 ➜	1/EC/6899:6900,1/EC/6913:6915	NA

Problematic loops

No problematic loops

Valid loops

#	loop id	location	motif
1	HL_5JUT_001 ➜	1/A/7:17	NA
2	HL_5JUT_002 ➜	1/A/70:81	NA
3	HL_5JUT_003 ➜	1/A/154:160	NA
4	HL_5JUT_004 ➜	1/A/190:195	NA
5	HL_5JUT_005 ➜	1/A/230:235	NA
6	HL_5JUT_006 ➜	1/A/243:250	NA
7	HL_5JUT_007 ➜	1/A/276:279	NA
8	HL_5JUT_008 ➜	1/A/330:338	NA
9	HL_5JUT_009 ➜	1/A/368:373	NA
10	HL_5JUT_010 ➜	1/A/393:404	NA
11	HL_5JUT_011 ➜	1/A/414:419	NA
12	HL_5JUT_012 ➜	1/A/450:456	NA
13	HL_5JUT_013 ➜	1/A/485:502	NA
14	HL_5JUT_014 ➜	1/A/520:532	NA
15	HL_5JUT_015 ➜	1/A/569:574	NA
16	HL_5JUT_017 ➜	1/A/764:772	NA
17	HL_5JUT_018 ➜	1/A/776:784	NA
18	HL_5JUT_019 ➜	1/A/829:843	NA
19	HL_5JUT_020 ➜	1/A/900:909	NA
20	HL_5JUT_021 ➜	1/A/937:942	NA
21	HL_5JUT_022 ➜	1/A/997:1007	NA
22	HL_5JUT_023 ➜	1/A/1055:1064	NA
23	HL_5JUT_024 ➜	1/A/1084:1089	NA
24	HL_5JUT_025 ➜	1/A/1121:1126	NA
25	HL_5JUT_026 ➜	1/A/1188:1197	NA
26	HL_5JUT_027 ➜	1/A/1238:1247	NA
27	HL_5JUT_028 ➜	1/A/1296:1301	NA
28	HL_5JUT_029 ➜	1/A/1309:1316	NA
29	HL_5JUT_030 ➜	1/A/1359:1364	NA
30	HL_5JUT_031 ➜	1/A/1396:1402	NA
31	HL_5JUT_032 ➜	1/A/1501:1506	NA
32	HL_5JUT_033 ➜	1/A/1549:1562	NA
33	HL_5JUT_034 ➜	1/A/1594:1602	NA
34	HL_5JUT_036 ➜	1/A/1778:1783	NA
35	HL_5JUT_037 ➜	1/B/38:45	NA
36	HL_5JUT_038 ➜	1/B/69:74	NA
37	HL_5JUT_039 ➜	1/B/90:96	NA
38	HL_5JUT_040 ➜	1/B/132:136	NA
39	HL_5JUT_041 ➜	1/B/194:201	NA
40	HL_5JUT_042 ➜	1/B/208:212	NA
41	HL_5JUT_043 ➜	1/B/216:224	NA
42	HL_5JUT_044 ➜	1/B/278:287	NA
43	HL_5JUT_045 ➜	1/B/303:312	NA
44	HL_5JUT_046 ➜	1/B/357:362	NA
45	HL_5JUT_047 ➜	1/B/382:387	NA
46	HL_5JUT_049 ➜	1/B/543:548	NA
47	HL_5JUT_050 ➜	1/B/599:604	NA
48	HL_5JUT_051 ➜	1/B/640:649	NA
49	HL_5JUT_052 ➜	1/B/686:694	NA
50	HL_5JUT_053 ➜	1/B/707:712	NA
51	HL_5JUT_054 ➜	1/B/732:737	NA
52	HL_5JUT_055 ➜	1/B/763:768	NA
53	HL_5JUT_056 ➜	1/B/844:849	NA
54	HL_5JUT_057 ➜	1/B/876:885	NA
55	HL_5JUT_058 ➜	1/B/910:918	NA
56	HL_5JUT_059 ➜	1/B/958:963	NA
57	HL_5JUT_060 ➜	1/B/1023:1029	NA
58	HL_5JUT_061 ➜	1/B/1076:1083	NA
59	HL_5JUT_062 ➜	1/B/1126:1132	NA
60	HL_5JUT_063 ➜	1/B/1148:1155	NA
61	HL_5JUT_064 ➜	1/B/1239:1249	NA
62	HL_5JUT_065 ➜	1/B/1267:1274	NA
63	HL_5JUT_066 ➜	1/B/1347:1357	NA
64	HL_5JUT_067 ➜	1/B/1403:1408	NA
65	HL_5JUT_068 ➜	1/B/1462:1470	NA
66	HL_5JUT_069 ➜	1/B/1506:1512	NA
67	HL_5JUT_070 ➜	1/B/1544:1549	NA
68	HL_5JUT_071 ➜	1/B/1566:1572	NA
69	HL_5JUT_072 ➜	1/B/1599:1608	NA
70	HL_5JUT_073 ➜	1/B/1634:1639	NA
71	HL_5JUT_074 ➜	1/B/1680:1688	NA
72	HL_5JUT_075 ➜	1/B/1719:1725	NA
73	HL_5JUT_076 ➜	1/B/1759:1766	NA
74	HL_5JUT_077 ➜	1/B/1792:1796	NA
75	HL_5JUT_078 ➜	1/B/1844:1851	NA
76	HL_5JUT_079 ➜	1/B/1862:1868	NA
77	HL_5JUT_080 ➜	1/B/1923:1928	NA
78	HL_5JUT_082 ➜	1/B/2110:2114	NA
79	HL_5JUT_083 ➜	1/B/2135:2145	NA
80	HL_5JUT_084 ➜	1/B/2164:2170	NA
81	HL_5JUT_085 ➜	1/B/2220:2225	NA
82	HL_5JUT_086 ➜	1/B/2253:2263	NA
83	HL_5JUT_087 ➜	1/B/2292:2300	NA
84	HL_5JUT_088 ➜	1/B/2335:2339	NA
85	HL_5JUT_089 ➜	1/B/2369:2378	NA
86	HL_5JUT_090 ➜	1/B/2469:2476	NA
87	HL_5JUT_091 ➜	1/B/2535:2544	NA
88	HL_5JUT_092 ➜	1/B/2568:2573	NA
89	HL_5JUT_093 ➜	1/B/2616:2624	NA
90	HL_5JUT_094 ➜	1/B/2633:2645	NA
91	HL_5JUT_095 ➜	1/B/2673:2681	NA
92	HL_5JUT_096 ➜	1/B/2693:2700	NA
93	HL_5JUT_097 ➜	1/B/2723:2733	NA
94	HL_5JUT_098 ➜	1/B/2744:2749	NA
95	HL_5JUT_099 ➜	1/B/2776:2784	NA
96	HL_5JUT_100 ➜	1/B/2840:2848	NA
97	HL_5JUT_101 ➜	1/B/2897:2904	NA
98	HL_5JUT_102 ➜	1/B/2920:2926	NA
99	HL_5JUT_103 ➜	1/B/2963:2968	NA
100	HL_5JUT_104 ➜	1/B/3025:3030	NA
101	HL_5JUT_105 ➜	1/B/3067:3074	NA
102	HL_5JUT_106 ➜	1/B/3110:3124	NA
103	HL_5JUT_107 ➜	1/B/3194:3197	NA
104	HL_5JUT_108 ➜	1/B/3240:3247	NA
105	HL_5JUT_109 ➜	1/B/3303:3311	NA
106	HL_5JUT_110 ➜	1/B/3350:3353	NA
107	HL_5JUT_111 ➜	1/C/68:91	NA
108	HL_5JUT_112 ➜	1/C/108:114	NA
109	HL_5JUT_113 ➜	1/C/124:129	NA
110	HL_5JUT_114 ➜	1/D/36:41	NA
111	HL_5JUT_115 ➜	1/D/88:93	NA
112	HL_5JUT_118 ➜	1/EC/6862:6868	NA
113	HL_5JUT_119 ➜	1/EC/6903:6910	NA
114	HL_5JUT_120 ➜	1/EC/6924:6929	NA

Problematic loops

#	loop id	Problem	Sequence
1	HL_5JUT_016 ➜	incomplete nts	703, 704, 705, 706, 707, 708, 709, 710, 711, 728, 729, 730, 731, 732, 733, 734, 735
2	HL_5JUT_035 ➜	incomplete nts	1686, 1687, 1688, 1689, 1690, 1691, 1692, 1693, 1694, 1695, 1696, 1697, 1706, 1707, 1708, 1709, 1710, 1711, 1712, 1713, 1714, 1715
3	HL_5JUT_048 ➜	missing nts	452, 453, 481, 482, 483, 484
4	HL_5JUT_081 ➜	incomplete nts	2061, 2062, 2075
5	HL_5JUT_116 ➜	incomplete nts	6785, 6786, 6787, 6788, 6789, 6790, 6791, 6792, 6793, 6794, 6795, 6796, 6797, 6798, 6799, 6800, 6801, 6802, 6803, 6804, 6805, 6808, 6809, 6810, 6811
6	HL_5JUT_117 ➜	incomplete nts	6834, 6835, 6836, 6837, 6838, 6839, 6847, 6848, 6849, 6850, 6851, 6852, 6853, 6854, 6855

Valid loops

#	loop id	location	motif
1	J3_5JUT_001 ➜	1/A/41:42,1/A/433:439,1/A/464:466	NA
2	J3_5JUT_002 ➜	1/A/633:635,1/A/861:865,1/A/965:966	NA
3	J3_5JUT_003 ➜	1/A/881:884,1/A/928:936,1/A/943:947	NA
4	J3_5JUT_004 ➜	1/A/1037:1039,1/A/1079:1083,1/A/1090:1094	NA
5	J3_5JUT_005 ➜	1/A/1161:1164,1/A/1581:1587,1/A/1609:1616	NA
6	J3_5JUT_006 ➜	1/A/1168:1171,1/A/1468:1470,1/A/1574:1577	NA
7	J3_5JUT_007 ➜	1/A/1180:1188,1/A/1197:1209,1/A/1454:1458	NA
8	J3_5JUT_008 ➜	1/A/1215:1220,1/A/1263:1267,1/A/1442:1448	NA
9	J3_5JUT_009 ➜	1/A/1283:1288,1/A/1327:1332,1/A/1419:1424	NA
10	J3_5JUT_010 ➜	1/A/1293:1294,1/A/1303:1306,1/A/1318:1322	NA
11	J3_5JUT_011 ➜	1/A/1336:1338,1/A/1386:1389,1/A/1412:1415	NA
12	J3_5JUT_012 ➜	1/A/1470:1474,1/A/1533:1540,1/A/1571:1574	NA
13	J3_5JUT_013 ➜	1/B/113:123,1/B/149:158,1/B/263:267	NA
14	J3_5JUT_014 ➜	1/B/502:503,1/B/588:597,1/B/606:611	NA
15	J3_5JUT_015 ➜	1/B/813:820,1/B/905:907,1/B/923:927	NA
16	J3_5JUT_016 ➜	1/B/828:831,1/B/863:867,1/B/892:897	NA
17	J3_5JUT_017 ➜	1/B/983:987,1/B/1062:1066,1/B/1092:1100	NA
18	J3_5JUT_018 ➜	1/B/1230:1232,1/B/1256:1262,1/B/1277:1279	NA
19	J3_5JUT_019 ➜	1/B/1479:1485,1/B/1857:1859,1/B/1871:1874	NA
20	J3_5JUT_020 ➜	1/B/1526:1531,1/B/1591:1595,1/B/1612:1613	NA
21	J3_5JUT_021 ➜	1/B/1631:1632,1/B/1641:1645,1/B/1810:1811	NA
22	J3_5JUT_022 ➜	1/B/1895:1906,1/B/2333:2335,1/B/2339:2340	NA
23	J3_5JUT_023 ➜	1/B/2432:2435,1/B/2512:2517,1/B/2590:2597	NA
24	J3_5JUT_024 ➜	1/B/2664:2666,1/B/2690:2692,1/B/2701:2706	NA
25	J3_5JUT_025 ➜	1/B/2886:2889,1/B/2914:2916,1/B/2930:2936	NA
26	J3_5JUT_026 ➜	1/B/3298:3300,1/B/3314:3318,1/B/3388:3390	NA
27	J3_5JUT_027 ➜	1/D/9:14,1/D/66:67,1/D/111:112	NA
28	J3_5JUT_028 ➜	1/EC/6895:6897,1/EC/6917:6920,1/EC/6933:6935	NA

Problematic loops

No problematic loops

Coloring options: Nucleotide numbers