5T6R Internal, Hairpin and 3-way Junction Loop Motifs

144 Internal loops
77 Hairpin loops
15 Junction loops

Valid loops

#	loop id	location	motif
1	IL_5T6R_001 ➜	1/A/7:8,1/C/150:152	NA
2	IL_5T6R_002 ➜	1/A/13:15,1/C/144:145	NA
3	IL_5T6R_003 ➜	1/A/27:28,1/A/56:58	NA
4	IL_5T6R_004 ➜	1/A/31:38,1/A/45:53	NA
5	IL_5T6R_005 ➜	1/A/82:89,1/A/97:103	NA
6	IL_5T6R_006 ➜	1/A/123:124,1/A/144:149	NA
7	IL_5T6R_007 ➜	1/A/125:127,1/A/141:143	NA
8	IL_5T6R_009 ➜	1/A/168:174,1/A/244:254	NA
9	IL_5T6R_010 ➜	1/A/174:180,1/A/236:244	NA
10	IL_5T6R_011 ➜	1/A/189:191,1/A/204:205	NA
11	IL_5T6R_012 ➜	1/A/337:339,1/C/25:26	NA
12	IL_5T6R_013 ➜	1/A/376:379,1/A/390:403	NA
13	IL_5T6R_014 ➜	1/A/404:410,1/C/13:19	NA
14	IL_5T6R_015 ➜	1/A/429:431,1/A/628:630	NA
15	IL_5T6R_017 ➜	1/A/512:513,1/A/577:579	NA
16	IL_5T6R_018 ➜	1/A/517:525,1/A/567:573	NA
17	IL_5T6R_019 ➜	1/A/531:538,1/A/553:561	NA
18	IL_5T6R_020 ➜	1/A/668:670,1/A/792:794	NA
19	IL_5T6R_021 ➜	1/A/680:684,1/A/696:700	NA
20	IL_5T6R_022 ➜	1/A/725:728,1/A/741:745	NA
21	IL_5T6R_023 ➜	1/A/752:753,1/A/779:781	NA
22	IL_5T6R_024 ➜	1/A/755:756,1/A/775:777	NA
23	IL_5T6R_026 ➜	1/A/803:805,1/A/938:940	NA
24	IL_5T6R_027 ➜	1/A/805:809,1/A/931:938	NA
25	IL_5T6R_033 ➜	1/A/954:956,1/A/965:967	NA
26	IL_5T6R_034 ➜	1/A/969:970,1/A/1111:1113	NA
27	IL_5T6R_035 ➜	1/A/977:981,1/A/1102:1104	NA
28	IL_5T6R_036 ➜	1/A/983:985,1/A/1099:1100	NA
29	IL_5T6R_045 ➜	1/A/1120:1122,1/A/1136:1138	NA
30	IL_5T6R_046 ➜	1/A/1167:1171,1/A/1328:1332	NA
31	IL_5T6R_047 ➜	1/A/1173:1180,1/A/1325:1326	NA
32	IL_5T6R_048 ➜	1/A/1180:1182,1/A/1324:1325	NA
33	IL_5T6R_051 ➜	1/A/1207:1209,1/A/1296:1297	NA
34	IL_5T6R_054 ➜	1/A/1376:1378,1/A/1428:1431	NA
35	IL_5T6R_056 ➜	1/A/1388:1395,1/A/1415:1419	NA
36	IL_5T6R_058 ➜	1/A/1444:1450,1/A/2354:2359	NA
37	IL_5T6R_113 ➜	1/A/3004:3007,1/A/3139:3144	NA
38	IL_5T6R_114 ➜	1/A/3012:3014,1/A/3040:3042	NA
39	IL_5T6R_115 ➜	1/A/3018:3025,1/A/3030:3036	NA
40	IL_5T6R_116 ➜	1/A/3047:3051,1/A/3091:3094	NA
41	IL_5T6R_117 ➜	1/A/3054:3059,1/A/3084:3088	NA
42	IL_5T6R_119 ➜	1/A/3103:3107,1/A/3127:3131	NA
43	IL_5T6R_120 ➜	1/A/3163:3166,1/A/3284:3287	NA
44	IL_5T6R_122 ➜	1/A/3177:3179,1/A/3210:3211	NA
45	IL_5T6R_123 ➜	1/A/3179:3188,1/A/3204:3210	NA
46	IL_5T6R_124 ➜	1/A/3193:3194,1/A/3197:3199	NA
47	IL_5T6R_128 ➜	1/A/3300:3303,1/A/3311:3314	NA
48	IL_5T6R_129 ➜	1/A/3318:3320,1/A/3387:3388	NA
49	IL_5T6R_130 ➜	1/A/3324:3325,1/A/3381:3383	NA
50	IL_5T6R_132 ➜	1/A/3332:3337,1/A/3367:3371	NA
51	IL_5T6R_135 ➜	1/B/15:16,1/B/63:65	NA
52	IL_5T6R_136 ➜	1/B/21:27,1/B/53:58	NA
53	IL_5T6R_137 ➜	1/B/28:29,1/B/49:52	NA
54	IL_5T6R_138 ➜	1/B/29:30,1/B/47:49	NA
55	IL_5T6R_139 ➜	1/B/32:36,1/B/41:45	NA
56	IL_5T6R_140 ➜	1/B/72:80,1/B/100:106	NA
57	IL_5T6R_141 ➜	1/B/84:87,1/B/94:96	NA
58	IL_5T6R_142 ➜	1/C/44:64,1/C/96:100	NA
59	IL_5T6R_143 ➜	1/C/64:66,1/C/93:96	NA
60	IL_5T6R_144 ➜	1/C/68:69,1/C/89:91	NA

Problematic loops

#	loop id	Problem	Sequence
1	IL_5T6R_008 ➜	missing nts	162, 163, 164, 165, 166, 256, 257, 258, 259
2	IL_5T6R_016 ➜	missing nts	435, 436, 437, 438, 439, 440, 494, 495, 618, 619, 620, 621, 622, 623, 624
3	IL_5T6R_025 ➜	missing nts	758, 759, 760, 761, 762, 763, 768, 769, 770, 771, 772, 773
4	IL_5T6R_028 ➜	missing nts	833, 834, 859, 860, 861
5	IL_5T6R_029 ➜	missing nts	834, 835, 836, 837, 838, 855, 856, 857, 858, 859
6	IL_5T6R_030 ➜	missing nts	869, 870, 871, 872, 888, 889, 890
7	IL_5T6R_031 ➜	missing nts	873, 874, 875, 886, 887
8	IL_5T6R_032 ➜	missing nts	907, 908, 909, 919, 920, 921, 922, 923
9	IL_5T6R_037 ➜	missing nts	991, 992, 993, 994, 995, 996, 997, 1052, 1053, 1054, 1055, 1056, 1057, 1058
10	IL_5T6R_038 ➜	missing nts	997, 998, 1050, 1051, 1052
11	IL_5T6R_039 ➜	missing nts	999, 1000, 1001, 1002, 1003, 1004, 1046, 1047, 1048, 1049
12	IL_5T6R_040 ➜	missing nts	1006, 1007, 1008, 1009, 1041, 1042, 1043, 1044
13	IL_5T6R_041 ➜	missing nts	1009, 1010, 1011, 1039, 1040, 1041
14	IL_5T6R_042 ➜	missing nts	1012, 1013, 1014, 1015, 1016, 1017, 1018, 1034, 1035, 1036, 1037, 1038
15	IL_5T6R_043 ➜	missing nts	1069, 1070, 1071, 1087, 1088, 1089
16	IL_5T6R_044 ➜	missing nts	1074, 1075, 1076, 1083, 1084
17	IL_5T6R_049 ➜	missing nts	1187, 1188, 1189, 1190, 1191, 1192, 1193, 1194, 1314, 1315, 1316, 1317, 1318, 1319
18	IL_5T6R_050 ➜	missing nts	1194, 1195, 1196, 1197, 1198, 1199, 1200, 1201, 1202, 1203, 1204, 1205, 1299, 1300, 1301, 1302, 1303, 1304, 1305, 1306, 1307, 1308, 1309, 1310, 1311, 1312, 1313, 1314
19	IL_5T6R_052 ➜	missing nts	1218, 1219, 1220, 1221, 1222, 1223, 1224, 1225, 1226, 1283, 1284, 1285, 1286, 1287
20	IL_5T6R_053 ➜	missing nts	1234, 1235, 1236, 1237, 1238, 1250, 1251, 1252, 1253, 1254
21	IL_5T6R_055 ➜	missing nts	1385, 1386, 1387, 1420, 1421
22	IL_5T6R_057 ➜	missing nts	1398, 1399, 1400, 1411, 1412
23	IL_5T6R_059 ➜	missing nts	1500, 1501, 1502, 1503, 1504, 1505, 1513, 1514, 1515, 1516
24	IL_5T6R_060 ➜	missing nts	1532, 1533, 1534, 1535, 1536, 1585, 1586, 1587, 1588, 1589, 1590
25	IL_5T6R_061 ➜	missing nts	1618, 1619, 1620, 1621, 1824, 1825, 1826
26	IL_5T6R_062 ➜	missing nts	1623, 1624, 1819, 1820, 1821, 1822
27	IL_5T6R_063 ➜	missing nts	1626, 1627, 1628, 1629, 1630, 1631, 1811, 1812, 1813, 1814, 1815, 1816, 1817
28	IL_5T6R_064 ➜	missing nts	1645, 1646, 1647, 1648, 1649, 1806, 1807, 1808, 1809, 1810
29	IL_5T6R_065 ➜	missing nts	1661, 1662, 1663, 1786, 1787, 1788
30	IL_5T6R_066 ➜	missing nts	1669, 1670, 1778, 1779, 1780
31	IL_5T6R_067 ➜	missing nts	1670, 1671, 1776, 1777, 1778
32	IL_5T6R_068 ➜	missing nts	1694, 1695, 1696, 1697, 1698, 1747, 1748, 1749, 1750, 1751, 1752
33	IL_5T6R_069 ➜	missing nts	1702, 1703, 1704, 1705, 1706, 1707, 1737, 1738, 1739, 1740, 1741, 1742, 1743
34	IL_5T6R_070 ➜	missing nts	1711, 1712, 1713, 1714, 1715, 1716, 1717, 1727, 1728, 1729, 1730, 1731, 1732, 1733
35	IL_5T6R_071 ➜	missing nts	1883, 1884, 1885, 1886, 1887, 1888, 1889, 2346, 2347, 2348, 2349
36	IL_5T6R_072 ➜	missing nts	1895, 1896, 1897, 2338, 2339, 2340
37	IL_5T6R_073 ➜	missing nts	1898, 1899, 1900, 1901, 2336, 2337
38	IL_5T6R_074 ➜	missing nts	1901, 1902, 1903, 1904, 1905, 1906, 2333, 2334, 2335, 2336
39	IL_5T6R_075 ➜	missing nts	1918, 1919, 1920, 1921, 1922, 1923, 1928, 1929, 1930, 1931, 1932, 1933, 1934
40	IL_5T6R_076 ➜	missing nts	1940, 1941, 1942, 2106, 2107, 2108
41	IL_5T6R_077 ➜	missing nts	1947, 1948, 2098, 2099, 2100, 2101
42	IL_5T6R_078 ➜	missing nts	1951, 1952, 1953, 2094, 2095
43	IL_5T6R_079 ➜	missing nts	2128, 2129, 2323, 2324, 2325
44	IL_5T6R_080 ➜	missing nts	2156, 2157, 2158, 2159, 2160, 2161, 2173, 2174, 2175, 2176, 2177, 2178, 2179, 2180
45	IL_5T6R_081 ➜	missing nts	2196, 2197, 2198, 2199, 2245, 2246
46	IL_5T6R_082 ➜	missing nts	2200, 2201, 2241, 2242, 2243, 2244
47	IL_5T6R_083 ➜	missing nts	2204, 2205, 2206, 2237, 2238
48	IL_5T6R_084 ➜	missing nts	2206, 2207, 2208, 2209, 2210, 2235, 2236, 2237
49	IL_5T6R_085 ➜	missing nts	2211, 2212, 2213, 2214, 2215, 2216, 2217, 2228, 2229, 2230, 2231, 2232, 2233, 2234
50	IL_5T6R_086 ➜	missing nts	2276, 2277, 2307, 2308, 2309, 2310
51	IL_5T6R_087 ➜	missing nts	2277, 2278, 2279, 2280, 2281, 2282, 2283, 2284, 2285, 2286, 2287, 2288, 2304, 2305, 2306, 2307
52	IL_5T6R_088 ➜	missing nts	2391, 2392, 2393, 2394, 2986, 2987, 2988
53	IL_5T6R_089 ➜	missing nts	2396, 2397, 2398, 2981, 2982, 2983, 2984
54	IL_5T6R_090 ➜	missing nts	2409, 2410, 2411, 2811, 2812
55	IL_5T6R_091 ➜	missing nts	2412, 2413, 2807, 2808, 2809, 2810
56	IL_5T6R_092 ➜	missing nts	2423, 2424, 2425, 2604, 2605, 2606, 2607
57	IL_5T6R_093 ➜	missing nts	2444, 2445, 2501, 2502, 2503
58	IL_5T6R_094 ➜	missing nts	2447, 2448, 2449, 2450, 2451, 2452, 2453, 2454, 2455, 2456, 2457, 2458, 2459, 2460, 2461, 2462, 2463, 2492, 2493, 2494, 2495, 2496, 2497, 2498, 2499
59	IL_5T6R_095 ➜	missing nts	2465, 2466, 2467, 2468, 2469, 2476, 2477, 2478, 2479, 2480, 2481, 2482, 2483, 2484, 2485, 2486, 2487, 2488, 2489, 2490
60	IL_5T6R_096 ➜	missing nts	2520, 2521, 2522, 2523, 2524, 2525, 2526, 2584, 2585, 2586, 2587
61	IL_5T6R_097 ➜	missing nts	2614, 2615, 2625, 2626, 2627
62	IL_5T6R_098 ➜	missing nts	2666, 2667, 2668, 2686, 2687, 2688, 2689, 2690
63	IL_5T6R_099 ➜	missing nts	2718, 2719, 2720, 2721, 2735, 2736, 2737, 2738
64	IL_5T6R_100 ➜	missing nts	2770, 2771, 2772, 2773, 2787, 2788
65	IL_5T6R_101 ➜	missing nts	2823, 2824, 2865, 2866, 2867
66	IL_5T6R_102 ➜	missing nts	2824, 2825, 2826, 2863, 2864, 2865
67	IL_5T6R_103 ➜	missing nts	2826, 2827, 2828, 2862, 2863
68	IL_5T6R_104 ➜	missing nts	2828, 2829, 2830, 2858, 2859, 2860, 2861, 2862
69	IL_5T6R_105 ➜	missing nts	2835, 2836, 2837, 2838, 2839, 2849, 2850, 2851, 2852, 2853
70	IL_5T6R_106 ➜	missing nts	2876, 2877, 2949, 2950, 2951
71	IL_5T6R_107 ➜	missing nts	2879, 2880, 2881, 2943, 2944, 2945, 2946, 2947
72	IL_5T6R_108 ➜	missing nts	2881, 2882, 2940, 2941, 2942, 2943
73	IL_5T6R_109 ➜	missing nts	2889, 2890, 2891, 2912, 2913, 2914
74	IL_5T6R_110 ➜	missing nts	2891, 2892, 2909, 2910, 2911, 2912
75	IL_5T6R_111 ➜	missing nts	2918, 2919, 2920, 2926, 2927, 2928
76	IL_5T6R_112 ➜	missing nts	2960, 2961, 2970, 2971, 2972
77	IL_5T6R_118 ➜	missing nts	3063, 3064, 3077, 3078, 3079, 3080
78	IL_5T6R_121 ➜	missing nts	3168, 3169, 3170, 3280, 3281, 3282
79	IL_5T6R_125 ➜	missing nts	3225, 3226, 3227, 3228, 3229, 3258, 3259, 3260
80	IL_5T6R_126 ➜	missing nts	3233, 3234, 3235, 3252, 3253, 3254
81	IL_5T6R_127 ➜	missing nts	3235, 3236, 3237, 3238, 3249, 3250, 3251, 3252
82	IL_5T6R_131 ➜	missing nts	3328, 3329, 3330, 3373, 3374, 3375, 3376, 3377, 3378
83	IL_5T6R_133 ➜	missing nts	3340, 3341, 3342, 3343, 3344, 3345, 3360, 3361, 3362, 3363, 3364
84	IL_5T6R_134 ➜	missing nts	3349, 3350, 3353, 3354, 3355, 3356

Valid loops

#	loop id	location	motif
1	HL_5T6R_001 ➜	1/A/38:45	NA
2	HL_5T6R_002 ➜	1/A/69:74	NA
3	HL_5T6R_003 ➜	1/A/90:96	NA
4	HL_5T6R_004 ➜	1/A/132:136	NA
5	HL_5T6R_005 ➜	1/A/194:201	NA
6	HL_5T6R_006 ➜	1/A/208:212	NA
7	HL_5T6R_007 ➜	1/A/216:224	NA
8	HL_5T6R_008 ➜	1/A/278:287	NA
9	HL_5T6R_010 ➜	1/A/357:362	NA
10	HL_5T6R_011 ➜	1/A/382:387	NA
11	HL_5T6R_012 ➜	1/A/540:551	NA
12	HL_5T6R_013 ➜	1/A/599:604	NA
13	HL_5T6R_014 ➜	1/A/640:649	NA
14	HL_5T6R_015 ➜	1/A/686:694	NA
15	HL_5T6R_017 ➜	1/A/732:737	NA
16	HL_5T6R_022 ➜	1/A/958:963	NA
17	HL_5T6R_026 ➜	1/A/1148:1155	NA
18	HL_5T6R_029 ➜	1/A/1347:1357	NA
19	HL_5T6R_030 ➜	1/A/1403:1408	NA
20	HL_5T6R_066 ➜	1/A/3025:3030	NA
21	HL_5T6R_067 ➜	1/A/3068:3073	NA
22	HL_5T6R_068 ➜	1/A/3110:3124	NA
23	HL_5T6R_069 ➜	1/A/3194:3197	NA
24	HL_5T6R_071 ➜	1/A/3303:3311	NA
25	HL_5T6R_073 ➜	1/B/36:41	NA
26	HL_5T6R_074 ➜	1/B/88:93	NA
27	HL_5T6R_075 ➜	1/C/69:89	NA
28	HL_5T6R_076 ➜	1/C/108:114	NA
29	HL_5T6R_077 ➜	1/C/124:129	NA

Problematic loops

#	loop id	Problem	Sequence
1	HL_5T6R_009 ➜	missing nts	303, 304, 305, 306, 307, 308, 309, 310, 311, 312
2	HL_5T6R_016 ➜	missing nts	707, 708, 709, 710, 711, 712
3	HL_5T6R_018 ➜	missing nts	763, 764, 765, 766, 767, 768
4	HL_5T6R_019 ➜	missing nts	844, 845, 846, 847, 848, 849
5	HL_5T6R_020 ➜	missing nts	876, 877, 878, 879, 880, 881, 882, 883, 884, 885
6	HL_5T6R_021 ➜	missing nts	910, 911, 912, 913, 914, 915, 916, 917, 918
7	HL_5T6R_023 ➜	missing nts	1023, 1024, 1025, 1026, 1027, 1028, 1029
8	HL_5T6R_024 ➜	missing nts	1076, 1077, 1078, 1079, 1080, 1081, 1082, 1083
9	HL_5T6R_025 ➜	missing nts	1126, 1127, 1128, 1129, 1130, 1131, 1132
10	HL_5T6R_027 ➜	missing nts	1239, 1240, 1241, 1242, 1243, 1244, 1245, 1246, 1247, 1248, 1249
11	HL_5T6R_028 ➜	missing nts	1266, 1267, 1268, 1269, 1270, 1271, 1272, 1273, 1274, 1275
12	HL_5T6R_031 ➜	missing nts	1462, 1463, 1464, 1465, 1466, 1467, 1468, 1469, 1470
13	HL_5T6R_032 ➜	missing nts	1506, 1507, 1508, 1509, 1510, 1511, 1512
14	HL_5T6R_033 ➜	missing nts	1544, 1545, 1546, 1547, 1548, 1549
15	HL_5T6R_034 ➜	missing nts	1564, 1565, 1566, 1567, 1568, 1569, 1570, 1571, 1572, 1573, 1574, 1575
16	HL_5T6R_035 ➜	missing nts	1599, 1600, 1601, 1602, 1603, 1604, 1605, 1606, 1607, 1608
17	HL_5T6R_036 ➜	missing nts	1634, 1635, 1636, 1637, 1638, 1639
18	HL_5T6R_037 ➜	missing nts	1680, 1681, 1682, 1683, 1684, 1685, 1686, 1687, 1688
19	HL_5T6R_038 ➜	missing nts	1719, 1720, 1721, 1722, 1723, 1724, 1725
20	HL_5T6R_039 ➜	missing nts	1759, 1760, 1761, 1762, 1763, 1764, 1765, 1766
21	HL_5T6R_040 ➜	missing nts	1792, 1793, 1794, 1795, 1796
22	HL_5T6R_041 ➜	missing nts	1844, 1845, 1846, 1847, 1848, 1849, 1850, 1851
23	HL_5T6R_042 ➜	missing nts	1862, 1863, 1864, 1865, 1866, 1867, 1868
24	HL_5T6R_043 ➜	missing nts	1923, 1924, 1925, 1926, 1927, 1928
25	HL_5T6R_044 ➜	missing nts	1953, 1954, 1955, 2093, 2094
26	HL_5T6R_045 ➜	missing nts	2110, 2111, 2112, 2113, 2114
27	HL_5T6R_046 ➜	missing nts	2135, 2136, 2137, 2138, 2139, 2140, 2141, 2142, 2143, 2144, 2145
28	HL_5T6R_047 ➜	missing nts	2164, 2165, 2166, 2167, 2168, 2169, 2170
29	HL_5T6R_048 ➜	missing nts	2220, 2221, 2222, 2223, 2224, 2225
30	HL_5T6R_049 ➜	missing nts	PSU, PSU, PSU
31	HL_5T6R_050 ➜	missing nts	2292, 2293, 2294, 2295, 2296, 2297, 2298, 2299, 2300
32	HL_5T6R_051 ➜	missing nts	2369, 2370, 2371, 2372, 2373, 2374, 2375, 2376, 2377, 2378
33	HL_5T6R_052 ➜	missing nts	2469, 2470, 2471, 2472, 2473, 2474, 2475, 2476
34	HL_5T6R_053 ➜	missing nts	2534, 2535, 2536, 2537, 2538, 2539, 2540, 2541, 2542, 2543, 2544, 2545
35	HL_5T6R_054 ➜	missing nts	2567, 2568, 2569, 2570, 2571, 2572, 2573, 2574
36	HL_5T6R_055 ➜	missing nts	2616, 2617, 2618, 2619, 2620, 2621, 2622, 2623, 2624
37	HL_5T6R_056 ➜	missing nts	2633, 2634, 2635, 2636, 2637, 2638, 2639, 2640, 2641, 2642, 2643, 2644, 2645
38	HL_5T6R_057 ➜	missing nts	2673, 2674, 2675, 2676, 2677, 2678, 2679, 2680, 2681
39	HL_5T6R_058 ➜	missing nts	2693, 2694, 2695, 2696, 2697, 2698, 2699, 2700
40	HL_5T6R_059 ➜	missing nts	2724, 2725, 2726, 2727, 2728, 2729, 2730, 2731, 2732
41	HL_5T6R_060 ➜	missing nts	2744, 2745, 2746, 2747, 2748, 2749
42	HL_5T6R_061 ➜	missing nts	2776, 2777, 2778, 2779, 2780, 2781, 2782, 2783, 2784
43	HL_5T6R_062 ➜	missing nts	2840, 2841, 2842, 2843, 2844, 2845, 2846, 2847, 2848
44	HL_5T6R_063 ➜	missing nts	2897, 2898, 2899, 2900, 2901, 2902, 2903, 2904
45	HL_5T6R_064 ➜	missing nts	2920, 2921, 2922, 2923, 2924, 2925, 2926
46	HL_5T6R_065 ➜	missing nts	2963, 2964, 2965, 2966, 2967, 2968
47	HL_5T6R_070 ➜	missing nts	3240, 3241, 3242, 3243, 3244, 3245, 3246, 3247
48	HL_5T6R_072 ➜	missing nts	3350, 3351, 3352, 3353

Valid loops

#	loop id	location	motif
1	J3_5T6R_001 ➜	1/A/369:376,1/A/403:404,1/C/19:20	NA
2	J3_5T6R_002 ➜	1/A/502:503,1/A/588:597,1/A/606:611	NA
3	J3_5T6R_014 ➜	1/A/3298:3300,1/A/3314:3318,1/A/3388:3390	NA
4	J3_5T6R_015 ➜	1/B/9:14,1/B/66:68,1/B/110:112	NA

Problematic loops

#	loop id	Problem	Sequence
1	J3_5T6R_003 ➜	missing nts	814, 815, 816, 817, 818, 819, 820, 905, 906, 907, 923, 924, 925, 926
2	J3_5T6R_004 ➜	missing nts	828, 829, 830, 831, 863, 864, 865, 866, 867, 892, 893, 894, 895, 896, 897
3	J3_5T6R_005 ➜	missing nts	1230, 1231, 1232, 1233, 1234, 1254, 1255, 1256, 1257, 1258, 1259, 1260, 1261, 1262, 1263, 1264, 1265, 1266, 1275, 1276, 1277, 1278, 1279
4	J3_5T6R_006 ➜	missing nts	1479, 1480, 1481, 1482, 1483, 1484, 1485, 1857, 1858, 1859, 1871, 1872, 1873, 1874
5	J3_5T6R_007 ➜	missing nts	1488, 1489, 1490, 1491, 1837, 1838, 1839, 1840, 1841, 1842, 1843, 1852, 1853, 1854
6	J3_5T6R_008 ➜	missing nts	1526, 1527, 1528, 1529, 1530, 1531, 1591, 1592, 1593, 1594, 1595, 1612, 1613
7	J3_5T6R_009 ➜	missing nts	1631, 1632, 1641, 1642, 1643, 1644, 1645, 1810, 1811
8	J3_5T6R_010 ➜	missing nts	2432, 2433, 2434, 2435, 2512, 2513, 2514, 2515, 2516, 2517, 2590, 2591, 2592, 2593, 2594, 2595, 2596, 2597
9	J3_5T6R_011 ➜	missing nts	2529, 2530, 2531, 2532, 2547, 2548, 2549, 2550, 2551, 2552, 2553, 2554, 2555, 2556, 2557, 2558, 2559, 2560, 2561, 2562, 2563, 2578, 2579, 2580, 2581
10	J3_5T6R_012 ➜	missing nts	2664, 2665, 2666, 2690, 2691, 2692, 2701, 2702, 2703, 2704, 2705, 2706
11	J3_5T6R_013 ➜	missing nts	2886, 2887, 2888, 2889, 2914, 2915, 2916, 2930, 2931, 2932, 2933, 2934, 2935, 2936

Coloring options: Nucleotide numbers