2YKR Internal, hairpin and 3-way junction loop motifs

84 Internal loops
32 Hairpin loops
13 Junction loops

Valid loops

#	loop id	location	motif
1	IL_2YKR_001 ➜	1/A/29:32,1/A/552:554	NA
2	IL_2YKR_002 ➜	1/A/44:45,1/A/396:398	NA
3	IL_2YKR_003 ➜	1/A/54:57,1/A/355:357	NA
4	IL_2YKR_004 ➜	1/A/61:63,1/A/104:106	NA
5	IL_2YKR_005 ➜	1/A/63:67,1/A/102:104	NA
6	IL_2YKR_006 ➜	1/A/67:69,1/A/99:102	NA
7	IL_2YKR_007 ➜	1/A/69:74,1/A/96:99	NA
8	IL_2YKR_008 ➜	1/A/75:76,1/A/93:95	NA
9	IL_2YKR_009 ➜	1/A/122:124,1/A/237:239	NA
10	IL_2YKR_010 ➜	1/A/128:136,1/A/227:233	NA
11	IL_2YKR_011 ➜	1/A/144:147,1/A/175:178	NA
12	IL_2YKR_012 ➜	1/A/147:155,1/A/166:175	NA
13	IL_2YKR_013 ➜	1/A/200:202,1/A/215:217	NA
14	IL_2YKR_014 ➜	1/A/202:207,1/A/212:215	NA
15	IL_2YKR_015 ➜	1/A/242:247,1/A/277:284	NA
16	IL_2YKR_016 ➜	1/A/249:253,1/A/273:275	NA
17	IL_2YKR_017 ➜	1/A/256:258,1/A/268:270	NA
18	IL_2YKR_019 ➜	1/A/292:293,1/A/304:308	NA
19	IL_2YKR_020 ➜	1/A/293:295,1/A/302:304	NA
20	IL_2YKR_022 ➜	1/A/367:369,1/A/392:393	NA
21	IL_2YKR_023 ➜	1/A/370:376,1/A/387:391	NA
22	IL_2YKR_024 ➜	1/A/406:409,1/A/433:436	NA
23	IL_2YKR_025 ➜	1/A/409:416,1/A/427:433	NA
24	IL_2YKR_026 ➜	1/A/446:450,1/A/483:488	NA
25	IL_2YKR_027 ➜	1/A/450:455,1/A/477:483	NA
26	IL_2YKR_028 ➜	1/A/455:459,1/A/473:477	NA
27	IL_2YKR_029 ➜	1/A/504:511,1/A/540:541	NA
28	IL_2YKR_031 ➜	1/A/515:521,1/A/528:536	NA
29	IL_2YKR_032 ➜	1/A/569:575,1/A/880:881	NA
30	IL_2YKR_034 ➜	1/A/580:584,1/A/757:761	NA
31	IL_2YKR_036 ➜	1/A/594:596,1/A/644:645	NA
32	IL_2YKR_037 ➜	1/A/597:598,1/A/640:643	NA
33	IL_2YKR_039 ➜	1/A/604:612,1/A/628:634	NA
34	IL_2YKR_040 ➜	1/A/654:659,1/A/746:754	NA
35	IL_2YKR_042 ➜	1/A/662:666,1/A/740:743	NA
36	IL_2YKR_043 ➜	1/A/673:678,1/A/712:717	NA
37	IL_2YKR_044 ➜	1/A/683:688,1/A/699:707	NA
38	IL_2YKR_046 ➜	1/A/772:779,1/A/803:807	NA
39	IL_2YKR_047 ➜	1/A/779:783,1/A/799:803	NA
40	IL_2YKR_048 ➜	1/A/831:833,1/A/853:855	NA
41	IL_2YKR_049 ➜	1/A/887:895,1/A/904:910	NA
42	IL_2YKR_050 ➜	1/A/921:923,1/A/1393:1396	NA
43	IL_2YKR_051 ➜	1/A/924:927,1/A/1390:1392	NA
44	IL_2YKR_052 ➜	1/A/933:935,1/A/1380:1384	NA
45	IL_2YKR_053 ➜	1/A/941:943,1/A/1340:1342	NA
46	IL_2YKR_054 ➜	1/A/949:951,1/A/1230:1232	NA
47	IL_2YKR_056 ➜	1/A/993:998,1/A/1043:1045	NA
48	IL_2YKR_057 ➜	1/A/998:1001,1/A/1039:1043	NA
49	IL_2YKR_058 ➜	1/A/1048:1050,1/A/1208:1209	NA
50	IL_2YKR_059 ➜	1/A/1052:1058,1/A/1199:1206	NA
51	IL_2YKR_060 ➜	1/A/1060:1061,1/A/1195:1197	NA
52	IL_2YKR_062 ➜	1/A/1121:1128,1/A/1144:1152	NA
53	IL_2YKR_063 ➜	1/A/1129:1132,1/A/1142:1143	NA
54	IL_2YKR_064 ➜	1/A/1158:1163,1/A/1173:1181	NA
55	IL_2YKR_065 ➜	1/A/1246:1253,1/A/1284:1291	NA
56	IL_2YKR_067 ➜	1/A/1255:1258,1/A/1277:1282	NA
57	IL_2YKR_068 ➜	1/A/1259:1263,1/A/1272:1276	NA
58	IL_2YKR_069 ➜	1/A/1303:1308,1/A/1329:1334	NA
59	IL_2YKR_073 ➜	1/A/1399:1401,1/A/1501:1504	NA
60	IL_2YKR_074 ➜	1/A/1401:1404,1/A/1497:1501	NA
61	IL_2YKR_075 ➜	1/A/1405:1407,1/A/1494:1496	NA
62	IL_2YKR_076 ➜	1/A/1407:1409,1/A/1491:1494	NA
63	IL_2YKR_077 ➜	1/A/1412:1416,1/A/1484:1488	NA
64	IL_2YKR_078 ➜	1/A/1416:1419,1/A/1481:1484	NA
65	IL_2YKR_079 ➜	1/A/1419:1421,1/A/1479:1481	NA
66	IL_2YKR_080 ➜	1/A/1426:1428,1/A/1472:1474	NA
67	IL_2YKR_082 ➜	1/A/1437:1439,1/A/1462:1464	NA
68	IL_2YKR_083 ➜	1/A/1440:1443,1/A/1459:1461	NA
69	IL_2YKR_084 ➜	1/A/1445:1448,1/A/1455:1457	NA
70	IL_2YKR_085 ➜	1/A/1428:1437,1/A/1464:1472	NA

Problematic loops

#	loop id	Problem	Sequence
1	IL_2YKR_018 ➜	complementary	CUG,CAG
2	IL_2YKR_021 ➜	complementary	CUG,CAG
3	IL_2YKR_030 ➜	complementary	CUC,GAG
4	IL_2YKR_033 ➜	complementary	CAC,GUG
5	IL_2YKR_035 ➜	complementary	UUG,CAA
6	IL_2YKR_038 ➜	complementary	UCAGAU,AUCUGA
7	IL_2YKR_041 ➜	complementary	CGU,ACG
8	IL_2YKR_045 ➜	complementary	GCG,CGC
9	IL_2YKR_055 ➜	complementary	GUG,CAC
10	IL_2YKR_061 ➜	complementary	CUC,GAG
11	IL_2YKR_066 ➜	complementary	GAG,CUC
12	IL_2YKR_070 ➜	complementary	GAG,CUC
13	IL_2YKR_071 ➜	complementary	GUC,GAC
14	IL_2YKR_072 ➜	complementary	GUG,CAC

Valid loops

#	loop id	location	motif
1	HL_2YKR_001 ➜	1/A/12:22	NA
2	HL_2YKR_002 ➜	1/A/76:93	NA
3	HL_2YKR_003 ➜	1/A/158:163	NA
4	HL_2YKR_004 ➜	1/A/186:191	NA
5	HL_2YKR_005 ➜	1/A/207:212	NA
6	HL_2YKR_006 ➜	1/A/258:268	NA
7	HL_2YKR_007 ➜	1/A/296:301	NA
8	HL_2YKR_008 ➜	1/A/320:333	NA
9	HL_2YKR_009 ➜	1/A/341:348	NA
10	HL_2YKR_010 ➜	1/A/378:385	NA
11	HL_2YKR_011 ➜	1/A/419:424	NA
12	HL_2YKR_012 ➜	1/A/459:473	NA
13	HL_2YKR_013 ➜	1/A/522:527	NA
14	HL_2YKR_014 ➜	1/A/617:623	NA
15	HL_2YKR_015 ➜	1/A/689:698	NA
16	HL_2YKR_016 ➜	1/A/726:731	NA
17	HL_2YKR_017 ➜	1/A/786:796	NA
18	HL_2YKR_018 ➜	1/A/840:846	NA
19	HL_2YKR_019 ➜	1/A/862:867	NA
20	HL_2YKR_020 ➜	1/A/897:902	NA
21	HL_2YKR_021 ➜	1/A/963:972	NA
22	HL_2YKR_022 ➜	1/A/1012:1017	NA
23	HL_2YKR_023 ➜	1/A/1028:1033	NA
24	HL_2YKR_024 ➜	1/A/1076:1081	NA
25	HL_2YKR_025 ➜	1/A/1089:1096	NA
26	HL_2YKR_026 ➜	1/A/1133:1141	NA
27	HL_2YKR_027 ➜	1/A/1165:1171	NA
28	HL_2YKR_028 ➜	1/A/1265:1270	NA
29	HL_2YKR_029 ➜	1/A/1314:1323	NA
30	HL_2YKR_030 ➜	1/A/1356:1366	NA
31	HL_2YKR_031 ➜	1/A/1448:1455	NA
32	HL_2YKR_032 ➜	1/A/1515:1520	NA

Problematic loops

No problematic loops

Valid loops

#	loop id	location	motif
1	J3_2YKR_001 ➜	1/A/46:52,1/A/359:367,1/A/393:395	NA
2	J3_2YKR_002 ➜	1/A/826:830,1/A/856:861,1/A/868:874	NA
3	J3_2YKR_003 ➜	1/A/936:939,1/A/1344:1350,1/A/1372:1379	NA
4	J3_2YKR_004 ➜	1/A/943:947,1/A/1234:1237,1/A/1337:1340	NA
5	J3_2YKR_005 ➜	1/A/953:962,1/A/973:984,1/A/1221:1228	NA
6	J3_2YKR_006 ➜	1/A/990:993,1/A/1045:1047,1/A/1210:1215	NA
7	J3_2YKR_007 ➜	1/A/1002:1006,1/A/1023:1027,1/A/1034:1038	NA
8	J3_2YKR_008 ➜	1/A/1061:1068,1/A/1107:1113,1/A/1187:1195	NA
9	J3_2YKR_009 ➜	1/A/1116:1119,1/A/1154:1158,1/A/1181:1184	NA
10	J3_2YKR_010 ➜	1/A/1237:1241,1/A/1296:1303,1/A/1334:1337	NA
11	J3_2YKR_011 ➜	1/A/586:588,1/A/651:654,1/A/754:755	NA
12	J3_2YKR_012 ➜	1/A/672:673,1/A/717:725,1/A/732:734	NA
13	J3_2YKR_013 ➜	1/A/1073:1074,1/A/1083:1087,1/A/1098:1102	NA

Problematic loops

No problematic loops

Coloring options: Nucleotide numbers