RNA 3D Hub //

2D3O Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_2D3O_0011/0/66:72No text annotation
HL_2D3O_0021/0/85:95No text annotation
homologous
HL_7A0S_002
HL_76590.1
HL_2D3O_0031/0/121:126No text annotation
homologous
HL_7A0S_003
HL_82710.3
HL_2D3O_0041/0/133:138No text annotation
geometric
HL_5U3G_001
HL_75660.9
HL_2D3O_0051/0/146:151No text annotation
geometric
HL_7RQB_011
NA
HL_2D3O_0061/0/172:177No text annotation
HL_2D3O_0071/0/202:207No text annotation
geometric
HL_5J7L_143
NA
HL_2D3O_0081/0/223:229No text annotation
homologous
HL_4WF9_008
HL_76371.3
HL_2D3O_0091/0/316:323T-loop with 1 bulged base
homologous
HL_7A0S_010
HL_13999.4
HL_2D3O_0101/0/330:334No text annotation
homologous
HL_5J7L_143
NA
HL_2D3O_0111/0/338:346T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_2D3O_0721/0/396:404No text annotation
HL_2D3O_0131/0/423:430Pseudoknot geometry
homologous
HL_7A0S_014
HL_30680.5
HL_2D3O_0141/0/473:478GNRA
homologous
HL_7RQB_015
NA
HL_2D3O_0151/0/498:503GNRA
homologous
HL_7A0S_016
HL_34789.5
HL_2D3O_0161/0/552:560Externally structured
geometric
HL_8C3A_022
NA
HL_2D3O_0171/0/575:584T-loop with 2 stacked bulged bases
homologous
HL_7A0S_018
HL_33597.4
HL_2D3O_0181/0/621:627No text annotation
geometric
HL_5TBW_006
NA
HL_2D3O_0191/0/640:645GNRA
homologous
HL_4WF9_020
HL_34789.5
HL_2D3O_0201/0/651:658No text annotation
homologous
HL_7A0S_021
HL_81314.1
HL_2D3O_0211/0/725:732No text annotation
HL_2D3O_0221/0/757:766No text annotation
homologous
HL_8VTW_022
NA
HL_2D3O_0711/0/792:798UNCG variation
homologous
HL_7A0S_023
HL_91813.1
HL_2D3O_0241/0/839:844No text annotation
homologous
HL_7A0S_024
HL_27530.2
HL_2D3O_0261/0/966:973GNRA
homologous
HL_7A0S_026
HL_34789.5
HL_2D3O_0271/0/989:996No text annotation
homologous
HL_7A0S_027
HL_47171.2
HL_2D3O_0281/0/1075:1085No text annotation
homologous
HL_5J7L_161
NA
HL_2D3O_0291/0/1103:1110No text annotation
homologous
HL_7RQB_030
NA
HL_2D3O_0301/0/1184:1190No text annotation
HL_2D3O_0311/0/1235:1240GNRA
homologous
HL_4WF9_031
HL_34789.5
HL_2D3O_0321/0/1294:1302T-loop with 2 stacked bulged bases
homologous
HL_4WF9_032
HL_33597.4
HL_2D3O_0331/0/1337:1343Pseudoknot geometry with 3' bulge
homologous
HL_7A0S_033
HL_49081.1
HL_2D3O_0341/0/1376:1381GNRA variation
homologous
HL_7A0S_034
HL_34789.5
HL_2D3O_0731/0/1402:1411No text annotation
homologous
HL_9DFE_034
HL_77449.2
HL_2D3O_0361/0/1466:1476Pseudoknot
homologous
HL_7A0S_036
HL_00824.1
HL_2D3O_0371/0/1508:1514Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
NA
HL_2D3O_0381/0/1549:1554No text annotation
geometric
HL_4WF9_011
HL_75660.9
HL_2D3O_0391/0/1581:1584Mini UNCG
homologous
HL_4WF9_037
HL_90436.4
HL_2D3O_0401/0/1628:1635No text annotation
homologous
HL_7RQB_040
NA
HL_2D3O_0411/0/1647:1652No text annotation
homologous
HL_7RQB_041
NA
HL_2D3O_0421/0/1708:1713No text annotation
geometric
HL_7RQB_011
NA
HL_2D3O_0431/0/1731:1735No text annotation
homologous
HL_7A0S_043
NA
HL_2D3O_0441/0/1743:1747No text annotation
HL_2D3O_0451/0/1767:1779No text annotation
homologous
HL_7A0S_045
HL_50951.2
HL_2D3O_0461/0/1797:1803GNRA related
homologous
HL_5J7L_179
NA
HL_2D3O_0741/0/1856:1861GNRA
homologous
HL_7A0S_047
HL_34789.5
HL_2D3O_0481/0/1894:1902No text annotation
HL_2D3O_0491/0/1932:1940No text annotation
homologous
HL_7RQB_049
NA
HL_2D3O_0501/0/2010:2019No text annotation
homologous
HL_7RQB_050
NA
HL_2D3O_0751/0/2125:2132No text annotation
HL_2D3O_0521/0/2189:2196No text annotation
HL_2D3O_0531/0/2227:2235LSU P loop
homologous
HL_7A0S_052
HL_11974.3
HL_2D3O_0541/0/2243:2255No text annotation
homologous
HL_7RQB_054
NA
HL_2D3O_0551/0/2282:2292No text annotation
HL_2D3O_0561/0/2303:2310Pseudoknot geometry
homologous
HL_7A0S_055
HL_52651.3
HL_2D3O_0571/0/2334:2341GNRA with extra cWW
homologous
HL_7A0S_056
HL_87268.3
HL_2D3O_0581/0/2353:2358GNRA
homologous
HL_4WF9_054
HL_34789.5
HL_2D3O_0591/0/2383:2392No text annotation
homologous
HL_7A0S_058
HL_51853.2
HL_2D3O_0601/0/2450:2458No text annotation
homologous
HL_4WF9_056
HL_52011.2
HL_2D3O_0611/0/2507:2514GNRA variation
homologous
HL_7A0S_060
HL_46665.3
HL_2D3O_0621/0/2530:2536LSU A loop
homologous
HL_4WF9_058
HL_48677.2
HL_2D3O_0631/0/2573:2578GNRA
homologous
HL_7A0S_062
HL_34789.5
HL_2D3O_0641/0/2637:2642GNRA
geometric
HL_5J7L_197
NA
HL_2D3O_0651/0/2680:2685Ribsomal LSU H95
homologous
HL_5J7L_198
NA
HL_2D3O_0661/0/2725:2739No text annotation
homologous
HL_7A0S_065
HL_53269.3
HL_2D3O_0761/0/2773:2779No text annotation
HL_2D3O_0681/0/2794:2802No text annotation
homologous
HL_7RQB_068
NA
HL_2D3O_0691/0/2831:2836GNRA
geometric
HL_6UFH_002
HL_34789.5

Problematic loops

#loop idProblemSequence
HL_2D3O_070No text annotation
HL_2D3O_012No text annotation
HL_2D3O_023No text annotation
HL_2D3O_025No text annotation
HL_2D3O_035No text annotation
HL_2D3O_047GNRA with extra cWW
HL_2D3O_051No text annotation
HL_2D3O_067No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_2D3O_0021/0/24:30,
1/0/520:526		Triple sheared with non-canonical cWW
homologous
IL_5J7L_245
NA
IL_2D3O_0031/0/36:37,
1/0/454:456		Single bulged A
homologous
IL_7A0S_002
IL_14190.3
IL_2D3O_0041/0/42:43,
1/0/447:449		Minor groove platform
homologous
IL_7RQB_003
NA
IL_2D3O_1231/0/55:75,
1/0/108:112		No text annotation
IL_2D3O_0051/0/80:84,
1/0/96:103		Kink-turn
homologous
IL_7A0S_004
IL_94910.1
IL_2D3O_0061/0/160:161,
1/0/189:191		Single stack bend
homologous
IL_4WF9_007
IL_15011.4
IL_2D3O_0071/0/165:171,
1/0/178:185		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7A0S_006
IL_62167.4
IL_2D3O_0081/0/215:222,
1/0/230:236		8x7 Sarcin-Ricin; G-bulge
homologous
IL_4WF9_009
IL_62167.4
IL_2D3O_1241/0/299:302,
1/0/360:363		No text annotation
IL_2D3O_0101/0/303:306,
1/0/354:359		No text annotation
homologous
IL_7A0S_008
IL_05192.8
IL_2D3O_0121/0/573:575,
1/0/584:586		Isolated non-canonical cWW pair
geometric
IL_7A0S_011
IL_71625.4
IL_2D3O_0131/0/600:602,
1/0/678:679		Single bulged A
homologous
IL_7A0S_012
IL_14190.3
IL_2D3O_0141/0/685:687,
1/0/819:821		Isolated non-canonical cWW pair
homologous
IL_5J7L_259
NA
IL_2D3O_0151/0/687:691,
1/0/812:819		tHW-tHW cross-strand stack
geometric
IL_7A0S_015
IL_73855.2
IL_2D3O_0161/0/715:716,
1/0/741:743		Single bulged G
homologous
IL_7RQB_020
NA
IL_2D3O_0171/0/716:721,
1/0/736:741		Triple sheared with non-canonical cWW
geometric
IL_7A0S_018
IL_29495.2
IL_2D3O_1371/0/751:754,
1/0/769:771		No text annotation
homologous
IL_9DFE_020
IL_36931.3
IL_2D3O_0191/0/754:756,
1/0/767:769		Isolated non-canonical cWW pair
geometric
IL_7A0S_020
IL_01003.5
IL_2D3O_0201/0/788:790,
1/0/800:804		Multiple bulged bases
homologous
IL_7RQB_023
NA
IL_2D3O_0211/0/850:851,
1/0/951:953		Single stack bend
homologous
IL_7A0S_022
IL_15011.4
IL_2D3O_0221/0/857:860,
1/0/944:945		Major groove intercalation
geometric
IL_4YAZ_007
IL_71421.4
IL_2D3O_0231/0/860:861,
1/0/942:944		90 degree turn
homologous
IL_7A0S_024
IL_79144.1
IL_2D3O_0241/0/863:864,
1/0/938:940		Single stack bend
geometric
IL_4C7O_002
IL_15011.4
IL_2D3O_1381/0/863:866,
1/0/936:940		No text annotation
IL_2D3O_0251/0/864:866,
1/0/936:938		Isolated non-canonical cWW pair
homologous
IL_7A0S_026
IL_01003.5
IL_2D3O_1391/0/871:875,
1/0/927:931		5x5 Sarcin-Ricin with intercalated A; G-bulge
homologous
IL_7A0S_111
IL_38862.5
IL_2D3O_0271/0/875:876,
1/0/925:927		Single bulged G
homologous
IL_5J7L_271
NA
IL_2D3O_0281/0/877:881,
1/0/921:924		C-loop with bulged stacked A's
homologous
IL_5J7L_272
NA
IL_2D3O_0291/0/883:885,
1/0/917:919		Isolated non-canonical cWW pair
homologous
IL_7A0S_030
IL_42997.6
IL_2D3O_0301/0/963:965,
1/0/974:976		Isolated non-canonical cWW pair
homologous
IL_7A0S_031
IL_01003.5
IL_2D3O_0311/0/1004:1007,
1/0/1170:1172		Isolated cWS basepair
geometric
IL_5J7L_286
NA
IL_2D3O_0321/0/1009:1013,
1/0/1164:1168		UAA/GAN
homologous
IL_7A0S_033
IL_08938.2
IL_2D3O_0331/0/1015:1022,
1/0/1161:1162		Multiple bulged bases
geometric
IL_1R3E_001
IL_05670.1
IL_2D3O_0341/0/1022:1024,
1/0/1160:1161		Single bulged U
homologous
IL_5J7L_279
NA
IL_2D3O_0351/0/1029:1035,
1/0/1150:1155		Kink-turn related
homologous
IL_4WF9_039
IL_57188.6
IL_2D3O_1221/0/1035:1041,
1/0/1135:1150		No text annotation
homologous
IL_7A0S_037
IL_50715.4
IL_2D3O_0361/0/1042:1045,
1/0/1132:1134		Isolated non-canonical cWW pair
homologous
IL_7RQB_041
NA
IL_2D3O_0391/0/1054:1062,
1/0/1120:1123		No text annotation
IL_2D3O_1271/0/1054:1063,
1/0/1118:1123		No text annotation
IL_2D3O_0401/0/1062:1063,
1/0/1118:1120		Single stack bend
geometric
IL_7KGA_003
IL_15011.4
IL_2D3O_0411/0/1070:1073,
1/0/1087:1090		No text annotation
IL_2D3O_0431/0/1098:1102,
1/0/1111:1113		No text annotation
homologous
IL_1MMS_004
IL_36931.3
IL_2D3O_0441/0/1179:1183,
1/0/1191:1194		No text annotation
IL_2D3O_0451/0/1210:1212,
1/0/1260:1263		Isolated cWS basepair
homologous
IL_4WF9_044
IL_42997.6
IL_2D3O_0471/0/1218:1220,
1/0/1252:1254		Isolated non-canonical cWW pair
homologous
IL_7A0S_042
IL_01003.5
IL_2D3O_0481/0/1221:1228,
1/0/1247:1251		Kink-turn
geometric
IL_7A0S_043
IL_90775.2
IL_2D3O_0511/0/1232:1234,
1/0/1241:1243		Intercalated cWW
geometric
IL_7A0S_044
IL_53541.1
IL_2D3O_0521/0/1275:1282,
1/0/1994:2000		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7A0S_045
IL_62167.4
IL_2D3O_0541/0/1332:1336,
1/0/1344:1346		C-loop
homologous
IL_7A0S_047
IL_06671.2
IL_2D3O_0551/0/1364:1368,
1/0/1389:1393		UAA/GAN
homologous
IL_4WF9_051
IL_89021.4
IL_2D3O_0561/0/1370:1374,
1/0/1383:1387		tSH-tWH-tHS
homologous
IL_7A0S_049
IL_05821.2
IL_2D3O_0571/0/1426:1430,
1/0/1598:1605		Kink-turn
homologous
IL_7A0S_050
IL_28245.1
IL_2D3O_0581/0/1431:1437,
1/0/1591:1597		No text annotation
IL_2D3O_0591/0/1447:1449,
1/0/1573:1576		Isolated non-canonical cWW pair
homologous
IL_7A0S_052
IL_38565.3
IL_2D3O_0601/0/1451:1454,
1/0/1567:1571		tSH-tHW
homologous
IL_7A0S_053
IL_74317.1
IL_2D3O_0611/0/1463:1465,
1/0/1477:1478		Single stack bend
homologous
IL_7A0S_054
IL_15011.4
IL_2D3O_0621/0/1483:1487,
1/0/1536:1539		No text annotation
IL_2D3O_0631/0/1488:1495,
1/0/1528:1535		No text annotation
IL_2D3O_1401/0/1495:1498,
1/0/1522:1528		No text annotation
IL_2D3O_1411/0/1503:1507,
1/0/1515:1517		No text annotation
IL_2D3O_0671/0/1668:1673,
1/0/1987:1989		No text annotation
homologous
IL_7A0S_059
IL_12566.5
IL_2D3O_0681/0/1680:1682,
1/0/1978:1980		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.2
IL_2D3O_0691/0/1683:1686,
1/0/1976:1977		Major groove platform; stack outside cWW
homologous
IL_5J7L_306
NA
IL_2D3O_1311/0/1683:1691,
1/0/1973:1977		No text annotation
homologous
IL_7A0S_109
IL_80252.2
IL_2D3O_0701/0/1686:1691,
1/0/1973:1976		Intercalated tWH
geometric
IL_7RQB_067
NA
IL_2D3O_0711/0/1703:1708,
1/0/1713:1719		tSH-tSH-tHH-tHS
geometric
IL_7RQB_068
NA
IL_2D3O_0721/0/1761:1762,
1/0/1963:1965		Single bulged A
homologous
IL_7A0S_064
IL_14190.3
IL_2D3O_0731/0/1789:1795,
1/0/1805:1813		Kink-turn related
homologous
IL_4WF9_069
IL_17069.6
IL_2D3O_0741/0/1829:1832,
1/0/1885:1886		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_2D3O_0751/0/1833:1835,
1/0/1880:1884		Isolated non-canonical cWW with bulges
geometric
IL_5ML7_010
IL_68118.5
IL_2D3O_0761/0/1838:1841,
1/0/1876:1877		Major groove minor groove platform; mini C-loop
homologous
IL_7A0S_068
IL_73108.3
IL_2D3O_1421/0/1843:1847,
1/0/1870:1874		UAA/GAN with extra stack
homologous
IL_4WF9_073
IL_89021.4
IL_2D3O_0781/0/1848:1852,
1/0/1865:1869		Triple sheared
homologous
IL_7A0S_070
IL_15190.3
IL_2D3O_0811/0/1916:1917,
1/0/1947:1950		Multiple bulged bases
geometric
IL_7V9E_001
NA
IL_2D3O_1431/0/1917:1928,
1/0/1944:1947		No text annotation
homologous
IL_7A0S_072
IL_04332.3
IL_2D3O_0831/0/2033:2035,
1/0/2596:2597		Major groove platform
homologous
IL_5J7L_320
NA
IL_2D3O_0841/0/2050:2052,
1/0/2421:2422		Single bulged U
homologous
IL_7RQB_080
NA
IL_2D3O_0851/0/2053:2054,
1/0/2417:2420		Minor groove platform
homologous
IL_7RQB_081
NA
IL_2D3O_0861/0/2064:2066,
1/0/2215:2218		Isolated tHS basepair with bulges
homologous
IL_7RQB_082
NA
IL_2D3O_0871/0/2068:2070,
1/0/2211:2213		Isolated non-canonical cWW pair
homologous
IL_7A0S_078
IL_71625.4
IL_2D3O_0901/0/2091:2093,
1/0/2162:2164		No text annotation
homologous
IL_7RQB_084
NA
IL_2D3O_0911/0/2093:2103,
1/0/2161:2162		No text annotation
IL_2D3O_0921/0/2106:2110,
1/0/2144:2158		No text annotation
IL_2D3O_0941/0/2112:2119,
1/0/2138:2142		No text annotation
IL_2D3O_0971/0/2276:2278,
1/0/2296:2300		Isolated tHS basepair with bulges
geometric
IL_7RQB_082
NA
IL_2D3O_0981/0/2329:2332,
1/0/2343:2346		Double sheared
homologous
IL_7RQB_089
NA
IL_2D3O_1351/0/2380:2382,
1/0/2393:2394		No text annotation
IL_2D3O_1001/0/2432:2433,
1/0/2477:2479		Single stack bend
homologous
IL_7RQB_091
NA
IL_2D3O_1011/0/2433:2434,
1/0/2475:2477		Major groove platform
geometric
IL_7RQB_092
NA
IL_2D3O_1021/0/2436:2438,
1/0/2472:2473		Major groove platform
geometric
IL_7A0S_085
IL_48076.9
IL_2D3O_1441/0/2436:2440,
1/0/2468:2473		No text annotation
IL_2D3O_1031/0/2438:2440,
1/0/2468:2472		No text annotation
IL_2D3O_1041/0/2445:2449,
1/0/2459:2463		Double sheared with non-canonical cWW
homologous
IL_7A0S_087
IL_87767.3
IL_2D3O_1051/0/2486:2487,
1/0/2559:2561		Major groove platform
homologous
IL_4WF9_094
IL_46637.3
IL_2D3O_1061/0/2489:2491,
1/0/2553:2557		Isolated non-canonical cWW with bulges
homologous
IL_7RQB_097
NA
IL_2D3O_1071/0/2491:2492,
1/0/2550:2553		No text annotation
geometric
IL_5J7L_341
NA
IL_2D3O_1081/0/2501:2502,
1/0/2519:2522		Major groove platform with intercalation
homologous
IL_4WF9_097
IL_94991.2
IL_2D3O_1091/0/2570:2571,
1/0/2580:2582		No text annotation
IL_2D3O_1101/0/2615:2619,
1/0/2754:2762		tSH-tHS-tHW
homologous
IL_7A0S_093
IL_04638.4
IL_2D3O_1131/0/2631:2637,
1/0/2642:2647		Sarcin-Ricin target in LSU H95; G-bulge
homologous
IL_4WF9_100
IL_16458.6
IL_2D3O_1141/0/2659:2663,
1/0/2705:2707		C-loop
homologous
IL_4WF9_101
IL_63596.13
IL_2D3O_1151/0/2666:2670,
1/0/2698:2702		UAA/GAN related, with intercalation
homologous
IL_7A0S_096
IL_82016.1
IL_2D3O_1161/0/2674:2675,
1/0/2690:2694		Multiple bulged bases
homologous
IL_7A0S_097
IL_44609.3
IL_2D3O_1171/0/2717:2722,
1/0/2742:2747		UAA/GAN with extra cWW
homologous
IL_7RQB_107
NA
IL_2D3O_1181/0/2813:2814,
1/0/2853:2855		Single bulged G
geometric
IL_4V9F_010
IL_28408.3
IL_2D3O_1191/0/2818:2820,
1/0/2846:2849		Decoding loop related
homologous
IL_7A0S_100
IL_05502.1
IL_2D3O_1201/0/2822:2827,
1/0/2840:2844		No text annotation
homologous
IL_7A0S_101
IL_48489.2

Problematic loops

#loop idProblemSequence
IL_2D3O_001Isolated cWH basepair
IL_2D3O_009No text annotation
IL_2D3O_011Isolated non-canonical cWW pair
IL_2D3O_018No text annotation
IL_2D3O_125No text annotation
IL_2D3O_0265x5 Sarcin-Ricin with intercalated A; G-bulge
IL_2D3O_126Tandem non-canonical cWW pairs
IL_2D3O_037Isolated non-canonical cWW pair
IL_2D3O_038Isolated non-canonical cWW pair
IL_2D3O_042Isolated non-canonical cWW pair
IL_2D3O_046Isolated non-canonical cWW pair
IL_2D3O_128Tandem non-canonical cWW pairs
IL_2D3O_049Isolated non-canonical cWW pair
IL_2D3O_050Isolated non-canonical cWW pair
IL_2D3O_053Isolated non-canonical cWW pair
IL_2D3O_129No text annotation
IL_2D3O_130No text annotation
IL_2D3O_064No text annotation
IL_2D3O_065Isolated cWH basepair
IL_2D3O_066No text annotation
IL_2D3O_132No text annotation
IL_2D3O_077No text annotation
IL_2D3O_079Isolated cWS basepair
IL_2D3O_080No text annotation
IL_2D3O_082No text annotation
IL_2D3O_133Major groove platform with extra cWW
IL_2D3O_134Tandem non-canonical cWW pairs
IL_2D3O_088Isolated non-canonical cWW pair
IL_2D3O_089Tandem non-canonical cWW pairs
IL_2D3O_093Isolated non-canonical cWW pair
IL_2D3O_095No text annotation
IL_2D3O_096Isolated non-canonical cWW pair
IL_2D3O_099Isolated non-canonical cWW pair
IL_2D3O_136No text annotation
IL_2D3O_111Isolated non-canonical cWW pair
IL_2D3O_112Tandem non-canonical cWW pairs
IL_2D3O_121Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_2D3O_0111/0/30:31,
1/0/485:495,
1/0/506:520		No text annotation
homologous
J3_4WF9_011
J3_17917.2
J3_2D3O_0191/0/32:35,
1/0/457:472,
1/0/479:484		No text annotation
homologous
J3_7A0S_016
J3_07616.2
J3_2D3O_0011/0/55:66,
1/0/72:75,
1/0/108:112		No text annotation
homologous
J3_4WF9_001
J3_47707.1
J3_2D3O_0131/0/611:621,
1/0/627:639,
1/0/646:669		No text annotation
J3_2D3O_0021/0/696:702,
1/0/786:788,
1/0/804:807		No text annotation
homologous
J3_7RQB_004
NA
J3_2D3O_0031/0/710:713,
1/0/745:749,
1/0/773:778		No text annotation
geometric
J3_5TBW_005
NA
J3_2D3O_0041/0/1066:1068,
1/0/1092:1098,
1/0/1113:1115		No text annotation
homologous
J3_9DFE_009
NA
J3_2D3O_0051/0/1311:1316,
1/0/1641:1643,
1/0/1656:1659		No text annotation
homologous
J3_7A0S_006
J3_32852.7
J3_2D3O_0061/0/1319:1322,
1/0/1621:1627,
1/0/1636:1638		No text annotation
homologous
J3_7A0S_007
J3_47341.1
J3_2D3O_0141/0/1357:1363,
1/0/1394:1398,
1/0/1415:1416		No text annotation
homologous
J3_7A0S_018
J3_94309.2
J3_2D3O_0151/0/1438:1443,
1/0/1580:1581,
1/0/1584:1590		No text annotation
homologous
J3_7A0S_019
J3_34864.3
J3_2D3O_0161/0/1825:1827,
1/0/1888:1916,
1/0/1950:1955		No text annotation
J3_2D3O_0171/0/2074:2076,
1/0/2179:2183,
1/0/2202:2207		Kink-turn 3-way junction
homologous
J3_5J7L_044
NA
J3_2D3O_0181/0/2261:2263,
1/0/2363:2374,
1/0/2400:2406		No text annotation
homologous
J3_7A0S_020
J3_04772.2
J3_2D3O_0081/0/2274:2276,
1/0/2300:2303,
1/0/2310:2316		No text annotation
J3_2D3O_0091/0/2496:2499,
1/0/2524:2526,
1/0/2540:2546		No text annotation
homologous
J3_7A0S_011
J3_32601.6
J3_2D3O_0101/0/2789:2790,
1/0/2806:2811,
1/0/2857:2861		No text annotation
homologous
J3_7A0S_013
J3_76911.2
J4_2D3O_0011/0/308:312,
1/0/327:330,
1/0/334:336,
1/0/348:352		No text annotation
homologous
J4_7A0S_002
J4_16174.1
J4_2D3O_0021/0/1283:1289,
1/0/1307:1308,
1/0/1662:1665,
1/0/1992:1993		No text annotation
homologous
J4_9DFE_003
J4_64571.6
J4_2D3O_0091/0/1323:1327,
1/0/1351:1356,
1/0/1417:1418,
1/0/1613:1620		No text annotation
homologous
J4_4WF9_005
J4_77353.2
J4_2D3O_0101/0/1458:1460,
1/0/1481:1487,
1/0/1536:1545,
1/0/1558:1563		No text annotation
J4_2D3O_0111/0/1691:1699,
1/0/1723:1724,
1/0/1742:1755,
1/0/1971:1973		No text annotation
J4_2D3O_0061/0/1763:1767,
1/0/1779:1783,
1/0/1819:1822,
1/0/1958:1962		No text annotation
homologous
J4_7A0S_008
J4_61477.6
J4_2D3O_0121/0/2264:2268,
1/0/2322:2326,
1/0/2349:2351,
1/0/2360:2362		No text annotation
homologous
J4_7A0S_009
J4_98139.1
J4_2D3O_0131/0/2622:2625,
1/0/2653:2655,
1/0/2711:2716,
1/0/2748:2751		No text annotation
homologous
J4_7A0S_010
J4_54165.1
J5_2D3O_0061/0/46:53,
1/0/114:119,
1/0/128:129,
1/0/142:144,
1/0/153:155		No text annotation
homologous
J5_5J7L_013
NA
J5_2D3O_0021/0/593:598,
1/0/681:684,
1/0/822:825,
1/0/1209:1210,
1/0/1263:1269		No text annotation
homologous
J5_7A0S_004
J5_74302.6
J5_2D3O_0031/0/2037:2047,
1/0/2425:2432,
1/0/2479:2487,
1/0/2559:2567,
1/0/2585:2594		No text annotation
J5_2D3O_0041/0/2037:2047,
1/0/2425:2433,
1/0/2477:2487,
1/0/2559:2567,
1/0/2585:2594		No text annotation
J5_2D3O_0051/0/2057:2060,
1/0/2222:2225,
1/0/2237:2238,
1/0/2260:2261,
1/0/2406:2414		No text annotation
homologous
J5_7A0S_007
J5_39529.2
J6_2D3O_0011/0/44:45,
1/0/156:160,
1/0/191:201,
1/0/208:212,
1/0/239:243,
1/0/439:446		No text annotation
J7_2D3O_0021/0/830:835,
1/0/848:849,
1/0/954:957,
1/0/982:987,
1/0/998:1002,
1/0/1174:1183,
1/0/1191:1204		No text annotation
J11_2D3O_0011/0/8:15,
1/0/535:543,
1/0/569:573,
1/0/586:588,
1/0/1274:1275,
1/0/2000:2006,
1/0/2023:2026,
1/0/2604:2609,
1/0/2768:2771,
1/0/2781:2786,
1/0/2864:2869		No text annotation

Problematic loops

#loop idProblemSequence
J3_2D3O_012No text annotation
J3_2D3O_007No text annotation
J4_2D3O_003No text annotation
J4_2D3O_004No text annotation
J4_2D3O_005No text annotation
J4_2D3O_007No text annotation
J4_2D3O_008No text annotation
J5_2D3O_001No text annotation
J7_2D3O_001No text annotation

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