3JAN Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_3JAN_002 | 1/3/30:40 | No text annotation | homologous HL_5IB8_208 HL_14063.2 | |
| HL_3JAN_008 | 1/5/30:52 | No text annotation | ||
| HL_3JAN_009 | 1/5/68:73 | No text annotation | homologous HL_5TBW_002 NA | |
| HL_3JAN_119 | 1/5/81:102 | No text annotation | ||
| HL_3JAN_010 | 1/5/89:95 | No text annotation | ||
| HL_3JAN_012 | 1/5/204:211 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_3JAN_013 | 1/5/222:226 | No text annotation | homologous HL_8C3A_006 NA | |
| HL_3JAN_014 | 1/5/230:238 | T-loop with unstacked turn | homologous HL_8C3A_007 NA | |
| HL_3JAN_120 | 1/5/286:300 | No text annotation | ||
| HL_3JAN_015 | 1/5/289:298 | No text annotation | ||
| HL_3JAN_016 | 1/5/314:323 | Pseudoknot geometry | homologous HL_5TBW_009 NA | |
| HL_3JAN_017 | 1/5/368:373 | GNRA | homologous HL_8C3A_010 NA | |
| HL_3JAN_018 | 1/5/393:398 | GNRA | homologous HL_5TBW_011 NA | |
| HL_3JAN_021 | 1/5/1317:1326 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_014 NA | |
| HL_3JAN_022 | 1/5/1364:1373 | No text annotation | ||
| HL_3JAN_027 | 1/5/1593:1602 | No text annotation | homologous HL_8C3A_020 NA | |
| HL_3JAN_028 | 1/5/1626:1636 | No text annotation | ||
| HL_3JAN_029 | 1/5/1675:1680 | Externally structured | homologous HL_8C3A_022 NA | |
| HL_3JAN_031 | 1/5/1814:1823 | No text annotation | ||
| HL_3JAN_137 | 1/5/1864:1870 | GNRA | homologous HL_8P9A_137 HL_34789.3 | |
| HL_3JAN_033 | 1/5/1886:1893 | No text annotation | homologous HL_5TBW_026 NA | |
| HL_3JAN_037 | 1/5/2317:2322 | GNRA | homologous HL_8C3A_030 NA | |
| HL_3JAN_038 | 1/5/2376:2384 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_031 NA | |
| HL_3JAN_040 | 1/5/2458:2463 | GNRA variation | homologous HL_8C3A_033 NA | |
| HL_3JAN_042 | 1/5/2523:2532 | No text annotation | geometric HL_5TBW_035 NA | |
| HL_3JAN_044 | 1/5/2578:2583 | GNRA | homologous HL_8C3A_036 NA | |
| HL_3JAN_045 | 1/5/2623:2632 | No text annotation | geometric HL_5NFV_001 HL_69752.4 | |
| HL_3JAN_046 | 1/5/2664:2670 | No text annotation | homologous HL_8C3A_038 NA | |
| HL_3JAN_047 | 1/5/2705:2710 | No text annotation | geometric HL_4WF9_003 HL_75660.7 | |
| HL_3JAN_048 | 1/5/2738:2742 | No text annotation | homologous HL_8C3A_040 NA | |
| HL_3JAN_049 | 1/5/2792:2799 | No text annotation | homologous HL_8C3A_041 NA | |
| HL_3JAN_127 | 1/5/2809:2817 | Anticodon loop related | geometric HL_4V9F_032 HL_87306.2 | |
| HL_3JAN_050 | 1/5/2810:2816 | GNRA | homologous HL_8P9A_153 HL_34789.3 | |
| HL_3JAN_051 | 1/5/2872:2877 | UNCG | homologous HL_8C3A_043 NA | |
| HL_3JAN_053 | 1/5/3639:3649 | No text annotation | homologous HL_5TBW_046 NA | |
| HL_3JAN_054 | 1/5/3667:3675 | No text annotation | geometric HL_2Y9H_005 HL_44506.2 | |
| HL_3JAN_129 | 1/5/3708:3742 | No text annotation | ||
| HL_3JAN_055 | 1/5/3723:3729 | No text annotation | geometric HL_5NFV_001 HL_69752.4 | |
| HL_3JAN_056 | 1/5/3757:3767 | No text annotation | homologous HL_5TBW_049 NA | |
| HL_3JAN_130 | 1/5/3781:3811 | No text annotation | ||
| HL_3JAN_057 | 1/5/3795:3805 | No text annotation | ||
| HL_3JAN_058 | 1/5/3873:3882 | No text annotation | homologous HL_5TBW_051 NA | |
| HL_3JAN_062 | 1/5/4193:4201 | No text annotation | homologous HL_8C3A_055 NA | |
| HL_3JAN_063 | 1/5/4210:4222 | No text annotation | homologous HL_8C3A_056 NA | |
| HL_3JAN_064 | 1/5/4250:4258 | No text annotation | homologous HL_8C3A_057 NA | |
| HL_3JAN_065 | 1/5/4301:4309 | No text annotation | homologous HL_8C3A_059 NA | |
| HL_3JAN_066 | 1/5/4321:4326 | GNRA | homologous HL_5TBW_059 NA | |
| HL_3JAN_067 | 1/5/4352:4362 | No text annotation | geometric HL_4V83_139 NA | |
| HL_3JAN_068 | 1/5/4417:4425 | No text annotation | homologous HL_8C3A_062 NA | |
| HL_3JAN_069 | 1/5/4473:4481 | No text annotation | geometric HL_7RQB_057 NA | |
| HL_3JAN_070 | 1/5/4495:4505 | No text annotation | ||
| HL_3JAN_071 | 1/5/4540:4545 | GNRA | homologous HL_8C3A_065 NA | |
| HL_3JAN_072 | 1/5/4603:4608 | GNRA | geometric HL_3LQX_001 HL_34789.3 | |
| HL_3JAN_073 | 1/5/4644:4653 | No text annotation | geometric HL_2Y9H_003 HL_75660.7 | |
| HL_3JAN_138 | 1/5/4689:4701 | No text annotation | ||
| HL_3JAN_075 | 1/5/4907:4914 | No text annotation | ||
| HL_3JAN_076 | 1/5/4972:4986 | No text annotation | ||
| HL_3JAN_078 | 1/7/36:41 | No text annotation | homologous HL_5TBW_185 NA | |
| HL_3JAN_079 | 1/7/86:91 | GNRA | homologous HL_5TBW_186 NA | |
| HL_3JAN_080 | 1/8/47:56 | Pseudoknot with intercalation | geometric HL_4V9F_001 HL_17803.1 | |
| HL_3JAN_081 | 1/8/68:90 | No text annotation | homologous HL_8C3A_075 NA | |
| HL_3JAN_139 | 1/S2/7:17 | No text annotation | homologous HL_8CRE_191 HL_73535.1 | |
| HL_3JAN_086 | 1/S2/152:166 | No text annotation | ||
| HL_3JAN_088 | 1/S2/288:295 | No text annotation | geometric HL_5U3G_001 HL_75660.7 | |
| HL_3JAN_090 | 1/S2/376:388 | No text annotation | ||
| HL_3JAN_091 | 1/S2/415:423 | No text annotation | ||
| HL_3JAN_092 | 1/S2/441:452 | No text annotation | homologous HL_4V88_195 NA | |
| HL_3JAN_093 | 1/S2/462:467 | UNCG | homologous HL_4V88_196 NA | |
| HL_3JAN_132 | 1/S2/495:508 | No text annotation | ||
| HL_3JAN_094 | 1/S2/498:504 | No text annotation | geometric HL_2ZNI_001 HL_75660.7 | |
| HL_3JAN_096 | 1/S2/566:584 | No text annotation | geometric HL_8C3A_054 NA | |
| HL_3JAN_133 | 1/S2/601:621 | No text annotation | ||
| HL_3JAN_097 | 1/S2/617:624 | No text annotation | ||
| HL_3JAN_102 | 1/S2/956:967 | No text annotation | ||
| HL_3JAN_103 | 1/S2/1054:1064 | No text annotation | geometric HL_5J7L_017 NA | |
| HL_3JAN_104 | 1/S2/1108:1124 | No text annotation | ||
| HL_3JAN_105 | 1/S2/1141:1146 | GNRA | homologous HL_4V88_210 NA | |
| HL_3JAN_106 | 1/S2/1178:1183 | GNRA | homologous HL_4V88_211 NA | |
| HL_3JAN_107 | 1/S2/1245:1254 | No text annotation | homologous HL_4V88_212 NA | |
| HL_3JAN_112 | 1/S2/1460:1466 | GNRA | homologous HL_4V88_217 NA | |
| HL_3JAN_140 | 1/S2/1657:1667 | No text annotation | ||
| HL_3JAN_117 | 1/S2/1847:1852 | GNRA variation | homologous HL_4V88_222 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_3JAN_001 | No text annotation | ||
| HL_3JAN_003 | T-loop with 2 stacked bulged bases | ||
| HL_3JAN_004 | GNRA wlth tandem sheared | ||
| HL_3JAN_005 | No text annotation | ||
| HL_3JAN_118 | No text annotation | ||
| HL_3JAN_006 | GNRA variation | ||
| HL_3JAN_007 | GNRA | ||
| HL_3JAN_011 | No text annotation | ||
| HL_3JAN_121 | No text annotation | ||
| HL_3JAN_122 | No text annotation | ||
| HL_3JAN_123 | No text annotation | ||
| HL_3JAN_019 | GNRA | ||
| HL_3JAN_020 | GNRA | ||
| HL_3JAN_023 | No text annotation | ||
| HL_3JAN_024 | No text annotation | ||
| HL_3JAN_025 | No text annotation | ||
| HL_3JAN_026 | GNRA | ||
| HL_3JAN_030 | GNRA | ||
| HL_3JAN_032 | tRNA anticodon loop | ||
| HL_3JAN_034 | No text annotation | ||
| HL_3JAN_124 | No text annotation | ||
| HL_3JAN_035 | GNRA wlth tandem sheared | ||
| HL_3JAN_036 | Mini UNCG | ||
| HL_3JAN_039 | Pseudoknot geometry with 3' bulge | ||
| HL_3JAN_041 | No text annotation | ||
| HL_3JAN_125 | No text annotation | ||
| HL_3JAN_126 | No text annotation | ||
| HL_3JAN_043 | No text annotation | ||
| HL_3JAN_128 | No text annotation | ||
| HL_3JAN_052 | No text annotation | ||
| HL_3JAN_059 | No text annotation | ||
| HL_3JAN_060 | UNCG | ||
| HL_3JAN_061 | No text annotation | ||
| HL_3JAN_074 | No text annotation | ||
| HL_3JAN_131 | No text annotation | ||
| HL_3JAN_077 | No text annotation | ||
| HL_3JAN_082 | No text annotation | ||
| HL_3JAN_083 | No text annotation | ||
| HL_3JAN_084 | No text annotation | ||
| HL_3JAN_085 | No text annotation | ||
| HL_3JAN_087 | GNRA | ||
| HL_3JAN_089 | No text annotation | ||
| HL_3JAN_095 | GNRA | ||
| HL_3JAN_098 | No text annotation | ||
| HL_3JAN_134 | No text annotation | ||
| HL_3JAN_099 | No text annotation | ||
| HL_3JAN_100 | No text annotation | ||
| HL_3JAN_101 | tRNA D-loop | ||
| HL_3JAN_135 | No text annotation | ||
| HL_3JAN_108 | No text annotation | ||
| HL_3JAN_109 | GNRA | ||
| HL_3JAN_110 | No text annotation | ||
| HL_3JAN_136 | tRNA anticodon loop | ||
| HL_3JAN_111 | No text annotation | ||
| HL_3JAN_113 | GNRA | ||
| HL_3JAN_114 | No text annotation | ||
| HL_3JAN_115 | No text annotation | ||
| HL_3JAN_116 | No text annotation | ||
| HL_3JAN_141 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_3JAN_009 | 1/5/6:7, 1/8/149:151 | Single bulged C | homologous IL_8C3A_002 NA | |
| IL_3JAN_308 | 1/5/11:14, 1/8/143:145 | Isolated non-canonical cWW pair | geometric IL_4KNQ_003 IL_01003.3 | |
| IL_3JAN_010 | 1/5/12:14, 1/8/143:144 | Single bulged U | homologous IL_8P9A_232 IL_97561.3 | |
| IL_3JAN_011 | 1/5/16:18, 1/8/139:141 | Isolated non-canonical cWW pair | geometric IL_1Z7F_006 IL_01003.3 | |
| IL_3JAN_012 | 1/5/26:29, 1/5/53:58 | No text annotation | ||
| IL_3JAN_013 | 1/5/81:88, 1/5/96:102 | No text annotation | homologous IL_8C3A_006 NA | |
| IL_3JAN_014 | 1/5/117:122, 1/5/147:154 | No text annotation | ||
| IL_3JAN_016 | 1/5/160:162, 1/5/273:276 | No text annotation | geometric IL_4N0T_004 IL_32983.2 | |
| IL_3JAN_020 | 1/5/199:201, 1/5/214:215 | Single bulged U | homologous IL_8C3A_013 NA | |
| IL_3JAN_021 | 1/5/285:286, 1/5/300:302 | Not an internal loop | geometric IL_4UYK_002 NA | |
| IL_3JAN_022 | 1/5/286:288, 1/5/299:300 | No text annotation | ||
| IL_3JAN_023 | 1/5/339:342, 1/8/32:33 | Minor groove platform | geometric IL_7RQB_073 NA | |
| IL_3JAN_024 | 1/5/348:350, 1/8/25:26 | Single bulged A | homologous IL_5TBW_013 NA | |
| IL_3JAN_025 | 1/5/387:390, 1/5/401:414 | No text annotation | homologous IL_8C3A_015 NA | |
| IL_3JAN_026 | 1/5/415:421, 1/8/13:19 | Triple sheared with non-canonical cWW | geometric IL_4V9F_001 IL_22311.1 | |
| IL_3JAN_027 | 1/5/443:446, 1/5/1300:1304 | No text annotation | ||
| IL_3JAN_310 | 1/5/464:473, 1/5/681:691 | No text annotation | ||
| IL_3JAN_036 | 1/5/708:709, 1/5/1287:1289 | No text annotation | ||
| IL_3JAN_037 | 1/5/722:724, 1/5/942:946 | No text annotation | ||
| IL_3JAN_038 | 1/5/726:731, 1/5/938:940 | No text annotation | ||
| IL_3JAN_039 | 1/5/731:735, 1/5/928:938 | No text annotation | ||
| IL_3JAN_252 | 1/5/745:755, 1/5/908:919 | No text annotation | ||
| IL_3JAN_043 | 1/5/750:755, 1/5/908:912 | No text annotation | ||
| IL_3JAN_045 | 1/5/1074:1079, 1/5/1221:1236 | No text annotation | ||
| IL_3JAN_312 | 1/5/1082:1084, 1/5/1213:1217 | No text annotation | ||
| IL_3JAN_051 | 1/5/1357:1361, 1/5/1376:1382 | No text annotation | ||
| IL_3JAN_052 | 1/5/1425:1429, 1/5/1455:1460 | No text annotation | ||
| IL_3JAN_054 | 1/5/1467:1468, 1/5/1496:1498 | Single bulged A | geometric IL_8C3A_026 NA | |
| IL_3JAN_056 | 1/5/1520:1526, 1/5/1648:1657 | No text annotation | ||
| IL_3JAN_057 | 1/5/1550:1551, 1/5/1576:1578 | Single bulged G | homologous IL_8C3A_032 NA | |
| IL_3JAN_058 | 1/5/1551:1555, 1/5/1572:1576 | Triple sheared | geometric IL_5TBW_030 NA | |
| IL_3JAN_059 | 1/5/1586:1589, 1/5/1605:1607 | Major groove platform with extra cWW | homologous IL_8C3A_034 NA | |
| IL_3JAN_060 | 1/5/1590:1592, 1/5/1603:1604 | Single bulged U | homologous IL_8C3A_035 NA | |
| IL_3JAN_061 | 1/5/1624:1626, 1/5/1636:1640 | No text annotation | ||
| IL_3JAN_062 | 1/5/1672:1674, 1/5/1681:1682 | Single stack bend | geometric IL_4V83_236 IL_15011.2 | |
| IL_3JAN_063 | 1/5/1686:1688, 1/5/1848:1851 | No text annotation | ||
| IL_3JAN_064 | 1/5/1732:1737, 1/5/1792:1797 | 5x5 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_7A0S_027 NA | |
| IL_3JAN_065 | 1/5/1737:1738, 1/5/1790:1792 | Minor groove platform | homologous IL_8C3A_042 NA | |
| IL_3JAN_066 | 1/5/1739:1744, 1/5/1786:1789 | C-loop with bulged stacked A's | homologous IL_8C3A_043 NA | |
| IL_3JAN_067 | 1/5/1746:1749, 1/5/1781:1784 | Tandem non-canonical cWW pairs | geometric IL_5TBW_041 NA | |
| IL_3JAN_258 | 1/5/1746:1751, 1/5/1779:1784 | Tandem non-canonical cWW pairs with near WC pairs | geometric IL_4EYA_005 IL_82292.2 | |
| IL_3JAN_068 | 1/5/1749:1751, 1/5/1779:1781 | Isolated non-canonical cWW pair | geometric IL_5TBW_042 NA | |
| IL_3JAN_069 | 1/5/1751:1759, 1/5/1773:1779 | No text annotation | ||
| IL_3JAN_071 | 1/5/1858:1860, 1/5/1874:1876 | Isolated non-canonical cWW pair | homologous IL_8C3A_049 NA | |
| IL_3JAN_073 | 1/5/1905:1909, 1/5/2067:2071 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_3JAN_074 | 1/5/1911:1918, 1/5/2064:2065 | SSU/LSU pseudoknot | homologous IL_8C3A_052 NA | |
| IL_3JAN_075 | 1/5/1918:1920, 1/5/2063:2064 | No text annotation | ||
| IL_3JAN_076 | 1/5/1920:1922, 1/5/2062:2063 | No text annotation | ||
| IL_3JAN_077 | 1/5/1924:1933, 1/5/2053:2060 | No text annotation | ||
| IL_3JAN_078 | 1/5/1933:1944, 1/5/2038:2053 | No text annotation | geometric IL_5TBW_052 NA | |
| IL_3JAN_079 | 1/5/1945:1950, 1/5/2033:2037 | No text annotation | ||
| IL_3JAN_262 | 1/5/2081:2086, 1/5/2271:2275 | Partly complementary | geometric IL_7VYX_004 IL_71154.3 | |
| IL_3JAN_263 | 1/5/2087:2128, 1/5/2246:2270 | No text annotation | ||
| IL_3JAN_084 | 1/5/2290:2294, 1/5/2340:2345 | Partly complementary | geometric IL_7VYX_008 IL_71154.3 | |
| IL_3JAN_085 | 1/5/2299:2301, 1/5/2334:2335 | Single bulged A | homologous IL_8C3A_062 NA | |
| IL_3JAN_086 | 1/5/2302:2309, 1/5/2329:2333 | Kink-turn | homologous IL_8C3A_063 NA | |
| IL_3JAN_087 | 1/5/2310:2314, 1/5/2325:2328 | No text annotation | ||
| IL_3JAN_265 | 1/5/2310:2315, 1/5/2324:2328 | No text annotation | ||
| IL_3JAN_088 | 1/5/2358:2364, 1/5/3858:3863 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5TBW_061 NA | |
| IL_3JAN_089 | 1/5/2415:2419, 1/5/2427:2429 | C-loop | geometric IL_7A0S_047 IL_06671.1 | |
| IL_3JAN_090 | 1/5/2446:2450, 1/5/2509:2514 | UAA/GAN | homologous IL_8C3A_067 NA | |
| IL_3JAN_092 | 1/5/2542:2547, 1/5/2772:2774 | Isolated non-canonical cWW pair | geometric IL_5TBW_145 NA | |
| IL_3JAN_093 | 1/5/2589:2593, 1/5/2752:2756 | Triple sheared | homologous IL_5TBW_067 NA | |
| IL_3JAN_266 | 1/5/2597:2606, 1/5/2733:2748 | No text annotation | ||
| IL_3JAN_095 | 1/5/2614:2615, 1/5/2722:2724 | Single stack bend | homologous IL_8C3A_076 NA | |
| IL_3JAN_096 | 1/5/2622:2623, 1/5/2632:2634 | Single stack bend | geometric IL_4V83_236 IL_15011.2 | |
| IL_3JAN_097 | 1/5/2642:2648, 1/5/2685:2692 | No text annotation | ||
| IL_3JAN_313 | 1/5/2655:2662, 1/5/2672:2679 | No text annotation | ||
| IL_3JAN_099 | 1/5/2656:2662, 1/5/2672:2678 | No text annotation | ||
| IL_3JAN_269 | 1/5/2702:2705, 1/5/2710:2714 | Tandem non-canonical cWW pairs | geometric IL_4EYA_010 IL_15225.2 | |
| IL_3JAN_100 | 1/5/2704:2705, 1/5/2710:2712 | No text annotation | ||
| IL_3JAN_101 | 1/5/2832:2838, 1/5/3850:3853 | No text annotation | homologous IL_5TBW_074 NA | |
| IL_3JAN_270 | 1/5/2840:2846, 1/5/3842:3848 | No text annotation | ||
| IL_3JAN_102 | 1/5/2844:2846, 1/5/3842:3844 | Isolated tWW turn | geometric IL_5J7L_305 NA | |
| IL_3JAN_103 | 1/5/2847:2850, 1/5/3840:3841 | Major groove platform; stack outside cWW | geometric IL_5TBW_076 NA | |
| IL_3JAN_271 | 1/5/2847:2855, 1/5/3837:3841 | No text annotation | homologous IL_8P9A_305 IL_80252.1 | |
| IL_3JAN_104 | 1/5/2850:2855, 1/5/3837:3840 | No text annotation | homologous IL_8C3A_083 NA | |
| IL_3JAN_105 | 1/5/2867:2872, 1/5/2877:2883 | tSH-tSH-tHH-tHS | geometric IL_4V9F_063 IL_20700.1 | |
| IL_3JAN_272 | 1/5/2893:2897, 1/5/3602:3608 | No text annotation | ||
| IL_3JAN_107 | 1/5/2894:2897, 1/5/3602:3607 | No text annotation | ||
| IL_3JAN_314 | 1/5/3629:3633, 1/5/3827:3832 | Triple non-canonical cWW pairs | geometric IL_8VMB_003 IL_71154.3 | |
| IL_3JAN_109 | 1/5/3632:3633, 1/5/3827:3829 | Single bulged A | geometric IL_4V9F_064 IL_14190.2 | |
| IL_3JAN_110 | 1/5/3660:3665, 1/5/3677:3684 | Kink-turn related | homologous IL_5TBW_083 NA | |
| IL_3JAN_111 | 1/5/3700:3703, 1/5/3749:3750 | No text annotation | homologous IL_8C3A_089 NA | |
| IL_3JAN_112 | 1/5/3704:3705, 1/5/3745:3748 | Multiple bulged bases | homologous IL_8C3A_090 NA | |
| IL_3JAN_113 | 1/5/3780:3781, 1/5/3811:3814 | Bulged stacked bases | homologous IL_5TBW_089 NA | |
| IL_3JAN_114 | 1/5/3781:3795, 1/5/3805:3811 | No text annotation | ||
| IL_3JAN_115 | 1/5/3895:3898, 1/5/4563:4565 | Major groove platform with extra pair | geometric IL_5TBW_091 NA | |
| IL_3JAN_274 | 1/5/3895:3902, 1/5/4558:4565 | No text annotation | ||
| IL_3JAN_116 | 1/5/3898:3902, 1/5/4558:4563 | No text annotation | ||
| IL_3JAN_117 | 1/5/3913:3915, 1/5/4388:4389 | Single bulged U | homologous IL_5TBW_093 NA | |
| IL_3JAN_118 | 1/5/3916:3917, 1/5/4384:4387 | Minor groove platform | homologous IL_5TBW_094 NA | |
| IL_3JAN_119 | 1/5/3927:3929, 1/5/4181:4184 | Isolated tHS basepair with bulges | homologous IL_5TBW_095 NA | |
| IL_3JAN_121 | 1/5/4191:4192, 1/5/4202:4204 | Single bulged A | homologous IL_5TBW_098 NA | |
| IL_3JAN_122 | 1/5/4238:4243, 1/5/4267:4286 | No text annotation | ||
| IL_3JAN_123 | 1/5/4243:4245, 1/5/4263:4267 | Isolated tHS basepair with bulges | geometric IL_5TBW_099 NA | |
| IL_3JAN_124 | 1/5/4291:4293, 1/5/4317:4318 | Single bulged A | geometric IL_4V88_399 NA | |
| IL_3JAN_125 | 1/5/4295:4298, 1/5/4312:4315 | Tandem non-canonical cWW pairs | homologous IL_5TBW_100 NA | |
| IL_3JAN_126 | 1/5/4347:4351, 1/5/4363:4365 | No text annotation | geometric IL_8C3A_419 NA | |
| IL_3JAN_127 | 1/5/4401:4403, 1/5/4440:4442 | Isolated non-canonical cWW pair | homologous IL_8P9A_330 IL_01003.3 | |
| IL_3JAN_128 | 1/5/4403:4405, 1/5/4439:4440 | Major groove platform | geometric IL_5TBW_104 NA | |
| IL_3JAN_129 | 1/5/4405:4407, 1/5/4435:4439 | Major groove minor groove platform with extra cWW | geometric IL_5TBW_105 NA | |
| IL_3JAN_130 | 1/5/4412:4416, 1/5/4426:4430 | Triple sheared | homologous IL_5TBW_106 NA | |
| IL_3JAN_131 | 1/5/4453:4454, 1/5/4526:4528 | Major groove platform | homologous IL_8C3A_115 NA | |
| IL_3JAN_315 | 1/5/4455:4458, 1/5/4520:4525 | Tandem non-canonical cWW pairs | geometric IL_5EW4_001 IL_76776.1 | |
| IL_3JAN_132 | 1/5/4456:4458, 1/5/4520:4524 | Isolated non-canonical cWW with bulges | geometric IL_5TBW_108 NA | |
| IL_3JAN_133 | 1/5/4458:4459, 1/5/4517:4520 | No text annotation | homologous IL_8C3A_117 NA | |
| IL_3JAN_134 | 1/5/4472:4473, 1/5/4481:4483 | No text annotation | ||
| IL_3JAN_135 | 1/5/4534:4538, 1/5/4547:4552 | No text annotation | ||
| IL_3JAN_136 | 1/5/4577:4579, 1/5/4723:4726 | No text annotation | geometric IL_8C3A_419 NA | |
| IL_3JAN_137 | 1/5/4579:4582, 1/5/4721:4723 | No text annotation | ||
| IL_3JAN_138 | 1/5/4582:4585, 1/5/4717:4721 | Double sheared | homologous IL_8C3A_123 NA | |
| IL_3JAN_139 | 1/5/4590:4592, 1/5/4618:4620 | Isolated non-canonical cWW pair | homologous IL_8C3A_124 NA | |
| IL_3JAN_140 | 1/5/4596:4603, 1/5/4608:4614 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8C3A_125 NA | |
| IL_3JAN_141 | 1/5/4624:4629, 1/5/4669:4673 | No text annotation | ||
| IL_3JAN_142 | 1/5/4631:4637, 1/5/4662:4667 | No text annotation | ||
| IL_3JAN_143 | 1/5/4638:4640, 1/5/4659:4661 | Isolated cWH basepair | geometric IL_3R1C_012 IL_10892.2 | |
| IL_3JAN_278 | 1/5/4638:4642, 1/5/4655:4661 | No text annotation | ||
| IL_3JAN_144 | 1/5/4641:4642, 1/5/4655:4658 | Multiple bulged bases | homologous IL_5TBW_119 NA | |
| IL_3JAN_145 | 1/5/4681:4685, 1/5/4705:4709 | UAA/GAN | homologous IL_8C3A_129 NA | |
| IL_3JAN_280 | 1/5/4755:4765, 1/5/4869:4878 | No text annotation | ||
| IL_3JAN_149 | 1/5/4891:4896, 1/5/4924:4928 | No text annotation | ||
| IL_3JAN_316 | 1/5/4992:4994, 1/5/5057:5059 | Isolated non-canonical cWW pair | geometric IL_4RBZ_002 IL_01003.3 | |
| IL_3JAN_152 | 1/5/4996:4999, 1/5/5051:5055 | No text annotation | ||
| IL_3JAN_317 | 1/5/4996:5010, 1/5/5038:5055 | No text annotation | ||
| IL_3JAN_153 | 1/5/5012:5014, 1/5/5035:5036 | Single bulged U | homologous IL_8C3A_140 NA | |
| IL_3JAN_154 | 1/5/5014:5017, 1/5/5032:5035 | Double sheared | geometric IL_4V9F_100 IL_58355.2 | |
| IL_3JAN_155 | 1/7/15:16, 1/7/62:64 | Single bulged A | homologous IL_8P9A_364 IL_14190.2 | |
| IL_3JAN_282 | 1/7/15:18, 1/7/60:64 | Tandem non-canonical cWW pairs | geometric IL_1MFQ_004 IL_15225.2 | |
| IL_3JAN_156 | 1/7/21:27, 1/7/52:57 | Minor groove platform related | homologous IL_5TBW_373 NA | |
| IL_3JAN_318 | 1/7/21:29, 1/7/48:57 | No text annotation | ||
| IL_3JAN_157 | 1/7/28:29, 1/7/48:51 | Major groove minor groove platform; mini C-loop | geometric IL_5J7L_357 NA | |
| IL_3JAN_158 | 1/7/32:36, 1/7/41:45 | Symmetric double minor groove platform | geometric IL_7RQB_114 NA | |
| IL_3JAN_159 | 1/7/71:78, 1/7/98:104 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5TBW_377 NA | |
| IL_3JAN_160 | 1/7/79:81, 1/7/95:97 | Isolated non-canonical cWW pair | geometric IL_4Y1M_005 IL_71625.2 | |
| IL_3JAN_161 | 1/7/82:85, 1/7/92:94 | Isolated non-canonical cWW pair | homologous IL_5TBW_378 NA | |
| IL_3JAN_162 | 1/S2/23:29, 1/S2/645:651 | No text annotation | ||
| IL_3JAN_163 | 1/S2/34:36, 1/S2/519:521 | Isolated non-canonical cWW pair | homologous IL_4V88_385 NA | |
| IL_3JAN_164 | 1/S2/37:40, 1/S2/514:518 | Double sheared | geometric IL_4WF9_016 IL_58355.2 | |
| IL_3JAN_165 | 1/S2/41:47, 1/S2/479:481 | No text annotation | homologous IL_4V88_387 NA | |
| IL_3JAN_284 | 1/S2/62:68, 1/S2/81:86 | No text annotation | ||
| IL_3JAN_166 | 1/S2/63:68, 1/S2/81:85 | No text annotation | ||
| IL_3JAN_167 | 1/S2/108:110, 1/S2/351:353 | Isolated non-canonical cWW pair | geometric IL_2O3V_001 IL_71625.2 | |
| IL_3JAN_168 | 1/S2/110:112, 1/S2/349:351 | Isolated non-canonical cWW pair | geometric IL_8C3A_118 NA | |
| IL_3JAN_285 | 1/S2/110:115, 1/S2/348:351 | Tandem non-canonical cWW pairs | homologous IL_8P9A_380 IL_71194.2 | |
| IL_3JAN_169 | 1/S2/112:115, 1/S2/348:349 | Multiple bulged bases | geometric IL_8C3A_400 NA | |
| IL_3JAN_170 | 1/S2/116:121, 1/S2/343:347 | No text annotation | geometric IL_8C3A_401 NA | |
| IL_3JAN_172 | 1/S2/145:151, 1/S2/167:174 | tWH-tWH-tHW-tHW | homologous IL_4V88_394 NA | |
| IL_3JAN_287 | 1/S2/218:223, 1/S2/298:302 | No text annotation | ||
| IL_3JAN_175 | 1/S2/223:288, 1/S2/295:298 | No text annotation | ||
| IL_3JAN_288 | 1/S2/358:364, 1/S2/396:404 | No text annotation | ||
| IL_3JAN_177 | 1/S2/359:364, 1/S2/396:403 | No text annotation | ||
| IL_3JAN_178 | 1/S2/366:371, 1/S2/393:394 | No text annotation | geometric IL_5Y58_001 IL_37738.1 | |
| IL_3JAN_179 | 1/S2/411:413, 1/S2/424:429 | No text annotation | homologous IL_8C3A_412 NA | |
| IL_3JAN_180 | 1/S2/413:415, 1/S2/423:424 | Single stack bend | geometric IL_5TBW_070 NA | |
| IL_3JAN_181 | 1/S2/437:439, 1/S2/454:456 | Isolated cWH basepair | geometric IL_5F5F_001 IL_10892.2 | |
| IL_3JAN_182 | 1/S2/487:489, 1/S2/511:512 | Single bulged U | geometric IL_4LFB_014 IL_97561.3 | |
| IL_3JAN_183 | 1/S2/491:495, 1/S2/508:509 | C-loop | geometric IL_5J7L_018 NA | |
| IL_3JAN_184 | 1/S2/495:496, 1/S2/506:508 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_3JAN_187 | 1/S2/596:597, 1/S2/639:641 | Single stack bend | geometric IL_5J7L_269 NA | |
| IL_3JAN_188 | 1/S2/599:610, 1/S2/633:637 | No text annotation | ||
| IL_3JAN_292 | 1/S2/599:600, 1/S2/622:637 | No text annotation | ||
| IL_3JAN_189 | 1/S2/610:617, 1/S2/624:633 | No text annotation | ||
| IL_3JAN_190 | 1/S2/663:665, 1/S2/1162:1164 | Isolated non-canonical cWW pair | geometric IL_1Y27_001 IL_01003.3 | |
| IL_3JAN_293 | 1/S2/663:671, 1/S2/1161:1164 | No text annotation | ||
| IL_3JAN_191 | 1/S2/665:671, 1/S2/1161:1162 | Major groove intercalation | geometric IL_1NBS_009 IL_71421.2 | |
| IL_3JAN_192 | 1/S2/673:675, 1/S2/1030:1032 | Isolated non-canonical cWW pair | geometric IL_1KFO_003 NA | |
| IL_3JAN_319 | 1/S2/673:680, 1/S2/1025:1032 | No text annotation | ||
| IL_3JAN_193 | 1/S2/676:680, 1/S2/1025:1029 | tSH-tHW-tHS | geometric IL_8C3A_428 NA | |
| IL_3JAN_295 | 1/S2/801:807, 1/S2/856:864 | No text annotation | ||
| IL_3JAN_194 | 1/S2/802:803, 1/S2/860:863 | No text annotation | ||
| IL_3JAN_195 | 1/S2/803:807, 1/S2/856:860 | Triple non-canonical cWW pairs | geometric IL_8VMB_003 IL_71154.3 | |
| IL_3JAN_196 | 1/S2/807:815, 1/S2/849:856 | No text annotation | homologous IL_4V88_425 NA | |
| IL_3JAN_296 | 1/S2/815:831, 1/S2/843:849 | No text annotation | ||
| IL_3JAN_197 | 1/S2/816:831, 1/S2/843:848 | No text annotation | ||
| IL_3JAN_199 | 1/S2/922:923, 1/S2/1019:1022 | Major groove platform; stack outside cWW | geometric IL_4V88_428 NA | |
| IL_3JAN_200 | 1/S2/923:927, 1/S2/1014:1019 | Partly complementary | geometric IL_6CZR_167 NA | |
| IL_3JAN_297 | 1/S2/924:931, 1/S2/1010:1018 | No text annotation | ||
| IL_3JAN_201 | 1/S2/928:931, 1/S2/1010:1013 | Tandem non-canonical cWW pairs | geometric IL_4V88_430 NA | |
| IL_3JAN_202 | 1/S2/931:935, 1/S2/1007:1010 | Tandem non-canonical cWW pairs | homologous IL_4V88_431 NA | |
| IL_3JAN_203 | 1/S2/938:941, 1/S2/985:1004 | No text annotation | ||
| IL_3JAN_204 | 1/S2/943:945, 1/S2/981:983 | Isolated non-canonical cWW pair | geometric IL_3HHN_004 IL_01003.3 | |
| IL_3JAN_298 | 1/S2/945:956, 1/S2/967:981 | No text annotation | ||
| IL_3JAN_205 | 1/S2/951:956, 1/S2/967:975 | Kink-turn | geometric IL_4LFB_031 IL_95727.1 | |
| IL_3JAN_206 | 1/S2/1042:1047, 1/S2/1071:1073 | Other IL | geometric IL_4V88_435 NA | |
| IL_3JAN_207 | 1/S2/1047:1054, 1/S2/1064:1071 | No text annotation | ||
| IL_3JAN_208 | 1/S2/1098:1103, 1/S2/1129:1134 | No text annotation | geometric IL_5TBW_476 NA | |
| IL_3JAN_209 | 1/S2/1168:1176, 1/S2/1185:1191 | 8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge | geometric IL_4V9F_012 IL_59724.1 | |
| IL_3JAN_321 | 1/S2/1168:1178, 1/S2/1183:1191 | No text annotation | ||
| IL_3JAN_210 | 1/S2/1201:1206, 1/S2/1692:1697 | No text annotation | ||
| IL_3JAN_211 | 1/S2/1206:1208, 1/S2/1691:1692 | Single bulged G | geometric IL_5J7L_040 NA | |
| IL_3JAN_212 | 1/S2/1214:1217, 1/S2/1681:1685 | C-loop | homologous IL_4V88_443 NA | |
| IL_3JAN_213 | 1/S2/1222:1223, 1/S2/1643:1645 | Single stack bend | geometric IL_7A0S_054 IL_15011.2 | |
| IL_3JAN_214 | 1/S2/1230:1233, 1/S2/1525:1528 | No text annotation | ||
| IL_3JAN_302 | 1/S2/1230:1235, 1/S2/1523:1528 | No text annotation | geometric IL_5TBW_476 NA | |
| IL_3JAN_217 | 1/S2/1325:1327, 1/S2/1502:1503 | Single bulged U | homologous IL_4V88_449 NA | |
| IL_3JAN_218 | 1/S2/1329:1333, 1/S2/1498:1500 | Isolated cWS basepair | homologous IL_4V88_450 NA | |
| IL_3JAN_303 | 1/S2/1329:1335, 1/S2/1492:1500 | No text annotation | homologous IL_8P9A_439 IL_99893.1 | |
| IL_3JAN_219 | 1/S2/1333:1335, 1/S2/1492:1498 | Minor groove platform with extra cWW | geometric IL_4V88_451 NA | |
| IL_3JAN_220 | 1/S2/1337:1340, 1/S2/1486:1490 | Tandem non-canonical cWW pairs | geometric IL_1D4R_003 IL_15225.2 | |
| IL_3JAN_222 | 1/S2/1402:1405, 1/S2/1441:1444 | Minor groove platform | homologous IL_4V88_456 NA | |
| IL_3JAN_304 | 1/S2/1541:1550, 1/S2/1582:1592 | No text annotation | ||
| IL_3JAN_226 | 1/S2/1550:1558, 1/S2/1577:1582 | No text annotation | ||
| IL_3JAN_229 | 1/S2/1700:1702, 1/S2/1833:1836 | No text annotation | homologous IL_4V88_463 NA | |
| IL_3JAN_230 | 1/S2/1702:1705, 1/S2/1829:1833 | No text annotation | geometric IL_4V88_464 NA | |
| IL_3JAN_231 | 1/S2/1706:1708, 1/S2/1826:1828 | Isolated non-canonical cWW pair | geometric IL_4V88_465 NA | |
| IL_3JAN_232 | 1/S2/1708:1711, 1/S2/1822:1826 | No text annotation | ||
| IL_3JAN_233 | 1/S2/1714:1716, 1/S2/1817:1819 | Isolated non-canonical cWW pair | homologous IL_4V88_467 NA | |
| IL_3JAN_237 | 1/S2/1733:1736, 1/S2/1798:1801 | Double sheared | homologous IL_4V88_471 NA | |
| IL_3JAN_238 | 1/S2/1739:1741, 1/S2/1793:1795 | Isolated non-canonical cWW pair | geometric IL_4E48_002 IL_01003.3 | |
| IL_3JAN_307 | 1/S2/1739:1746, 1/S2/1788:1795 | No text annotation | ||
| IL_3JAN_239 | 1/S2/1742:1746, 1/S2/1788:1792 | Triple sheared | homologous IL_4V88_474 NA | |
| IL_3JAN_322 | 1/S2/1839:1841, 1/S2/1858:1859 | Single stack bend | geometric IL_4V84_420 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_3JAN_001 | No text annotation | ||
| IL_3JAN_002 | No text annotation | ||
| IL_3JAN_242 | No text annotation | ||
| IL_3JAN_243 | No text annotation | ||
| IL_3JAN_003 | No text annotation | ||
| IL_3JAN_004 | Isolated non-canonical cWW pair | ||
| IL_3JAN_005 | Tandem non-canonical cWW pairs | ||
| IL_3JAN_006 | Single bulged A | ||
| IL_3JAN_007 | No text annotation | ||
| IL_3JAN_008 | tSH-tHW-tHS-cWW | ||
| IL_3JAN_244 | Tandem non-canonical cWW pairs | ||
| IL_3JAN_245 | Partly complementary | ||
| IL_3JAN_015 | No text annotation | ||
| IL_3JAN_309 | Tandem non-canonical cWW pairs | ||
| IL_3JAN_017 | No text annotation | ||
| IL_3JAN_018 | No text annotation | ||
| IL_3JAN_246 | Tandem non-canonical cWW pairs | ||
| IL_3JAN_019 | No text annotation | ||
| IL_3JAN_028 | Single bulged C | ||
| IL_3JAN_029 | Isolated non-canonical cWW pair | ||
| IL_3JAN_247 | No text annotation | ||
| IL_3JAN_248 | No text annotation | ||
| IL_3JAN_030 | No text annotation | ||
| IL_3JAN_249 | No text annotation | ||
| IL_3JAN_031 | No text annotation | ||
| IL_3JAN_032 | No text annotation | ||
| IL_3JAN_033 | Single stack bend | ||
| IL_3JAN_034 | Single bulged A | ||
| IL_3JAN_035 | Isolated non-canonical cWW pair | ||
| IL_3JAN_250 | Multiple bulged bases | ||
| IL_3JAN_251 | No text annotation | ||
| IL_3JAN_040 | Other IL | ||
| IL_3JAN_311 | Single stack bend | ||
| IL_3JAN_041 | Isolated non-canonical cWW pair | ||
| IL_3JAN_042 | No text annotation | ||
| IL_3JAN_044 | No text annotation | ||
| IL_3JAN_253 | No text annotation | ||
| IL_3JAN_046 | No text annotation | ||
| IL_3JAN_047 | No text annotation | ||
| IL_3JAN_048 | Single bulged C | ||
| IL_3JAN_254 | No text annotation | ||
| IL_3JAN_049 | Multiple bulged bases | ||
| IL_3JAN_050 | No text annotation | ||
| IL_3JAN_053 | Double sheared | ||
| IL_3JAN_255 | Isolated non-canonical cWW pair | ||
| IL_3JAN_055 | No text annotation | ||
| IL_3JAN_256 | No text annotation | ||
| IL_3JAN_257 | Triple sheared with non-canonical cWW | ||
| IL_3JAN_259 | Tandem non-canonical cWW pairs | ||
| IL_3JAN_070 | Isolated non-canonical cWW pair | ||
| IL_3JAN_072 | Isolated cWS basepair | ||
| IL_3JAN_260 | No text annotation | ||
| IL_3JAN_080 | No text annotation | ||
| IL_3JAN_261 | No text annotation | ||
| IL_3JAN_081 | No text annotation | ||
| IL_3JAN_082 | Major groove platform with extra cWW | ||
| IL_3JAN_083 | No text annotation | ||
| IL_3JAN_264 | Tandem non-canonical cWW pairs with near WC pairs | ||
| IL_3JAN_091 | Single stack bend | ||
| IL_3JAN_094 | Single bulged C | ||
| IL_3JAN_267 | Partly complementary | ||
| IL_3JAN_098 | Single bulged G | ||
| IL_3JAN_268 | No text annotation | ||
| IL_3JAN_106 | Isolated non-canonical cWW pair | ||
| IL_3JAN_108 | No text annotation | ||
| IL_3JAN_273 | No text annotation | ||
| IL_3JAN_120 | No text annotation | ||
| IL_3JAN_275 | Partly complementary | ||
| IL_3JAN_276 | No text annotation | ||
| IL_3JAN_277 | No text annotation | ||
| IL_3JAN_146 | No text annotation | ||
| IL_3JAN_279 | No text annotation | ||
| IL_3JAN_147 | No text annotation | ||
| IL_3JAN_148 | Tandem non-canonical cWW pairs | ||
| IL_3JAN_150 | No text annotation | ||
| IL_3JAN_151 | Tandem non-canonical cWW pairs | ||
| IL_3JAN_281 | No text annotation | ||
| IL_3JAN_283 | No text annotation | ||
| IL_3JAN_286 | No text annotation | ||
| IL_3JAN_171 | Not an internal loop | ||
| IL_3JAN_173 | Double sheared with non-canonical cWW | ||
| IL_3JAN_174 | No text annotation | ||
| IL_3JAN_176 | No text annotation | ||
| IL_3JAN_289 | No text annotation | ||
| IL_3JAN_290 | No text annotation | ||
| IL_3JAN_185 | Isolated non-canonical cWW contact | ||
| IL_3JAN_186 | No text annotation | ||
| IL_3JAN_291 | No text annotation | ||
| IL_3JAN_294 | No text annotation | ||
| IL_3JAN_198 | No text annotation | ||
| IL_3JAN_320 | Partly complementary | ||
| IL_3JAN_299 | No text annotation | ||
| IL_3JAN_300 | No text annotation | ||
| IL_3JAN_301 | No text annotation | ||
| IL_3JAN_215 | Minor groove platform | ||
| IL_3JAN_216 | No text annotation | ||
| IL_3JAN_221 | Isolated cWH basepair | ||
| IL_3JAN_223 | No text annotation | ||
| IL_3JAN_224 | No text annotation | ||
| IL_3JAN_225 | No text annotation | ||
| IL_3JAN_227 | Tandem non-canonical cWW pairs | ||
| IL_3JAN_228 | No text annotation | ||
| IL_3JAN_305 | No text annotation | ||
| IL_3JAN_234 | Double sheared | ||
| IL_3JAN_235 | Isolated cWS basepair | ||
| IL_3JAN_306 | No text annotation | ||
| IL_3JAN_236 | No text annotation | ||
| IL_3JAN_240 | No text annotation | ||
| IL_3JAN_241 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_3JAN_003 | 1/5/112:116, 1/5/155:160, 1/5/276:278 | No text annotation | ||
| J3_3JAN_026 | 1/5/112:122, 1/5/147:160, 1/5/276:278 | No text annotation | ||
| J3_3JAN_027 | 1/5/194:199, 1/5/215:228, 1/5/240:247 | No text annotation | ||
| J3_3JAN_028 | 1/5/351:367, 1/5/374:379, 1/8/21:24 | No text annotation | homologous J3_8C3A_047 NA | |
| J3_3JAN_004 | 1/5/380:387, 1/5/414:415, 1/8/19:20 | No text annotation | homologous J3_5TBW_002 NA | |
| J3_3JAN_047 | 1/5/443:458, 1/5/698:704, 1/5/1293:1304 | No text annotation | ||
| J3_3JAN_030 | 1/5/708:713, 1/5/955:978, 1/5/1276:1289 | No text annotation | ||
| J3_3JAN_005 | 1/5/1531:1537, 1/5/1622:1624, 1/5/1640:1643 | No text annotation | ||
| J3_3JAN_031 | 1/5/1531:1537, 1/5/1622:1626, 1/5/1636:1643 | No text annotation | ||
| J3_3JAN_006 | 1/5/1545:1548, 1/5/1580:1584, 1/5/1609:1614 | No text annotation | homologous J3_5TBW_005 NA | |
| J3_3JAN_033 | 1/5/1690:1727, 1/5/1802:1806, 1/5/1832:1846 | No text annotation | ||
| J3_3JAN_008 | 1/5/2393:2401, 1/5/2803:2807, 1/5/2819:2822 | No text annotation | ||
| J3_3JAN_009 | 1/5/2402:2405, 1/5/2785:2791, 1/5/2800:2802 | No text annotation | geometric J3_4V9F_006 J3_76012.1 | |
| J3_3JAN_010 | 1/5/2440:2445, 1/5/2515:2519, 1/5/2536:2537 | No text annotation | homologous J3_5TBW_010 NA | |
| J3_3JAN_048 | 1/5/2450:2457, 1/5/2464:2476, 1/5/2501:2509 | No text annotation | ||
| J3_3JAN_049 | 1/5/2549:2556, 1/5/2571:2575, 1/5/2757:2770 | No text annotation | ||
| J3_3JAN_011 | 1/5/2575:2578, 1/5/2583:2589, 1/5/2756:2757 | No text annotation | ||
| J3_3JAN_050 | 1/5/3934:3939, 1/5/4074:4088, 1/5/4161:4176 | No text annotation | ||
| J3_3JAN_012 | 1/5/4091:4095, 1/5/4113:4129, 1/5/4155:4158 | No text annotation | ||
| J3_3JAN_038 | 1/5/4091:4099, 1/5/4110:4129, 1/5/4155:4158 | No text annotation | ||
| J3_3JAN_039 | 1/5/4463:4470, 1/5/4485:4493, 1/5/4507:4513 | No text annotation | ||
| J3_3JAN_040 | 1/5/4748:4754, 1/5/4879:4888, 1/5/4931:4952 | No text annotation | ||
| J3_3JAN_013 | 1/5/4970:4972, 1/5/4986:4991, 1/5/5060:5063 | No text annotation | ||
| J3_3JAN_014 | 1/7/6:14, 1/7/65:66, 1/7/109:113 | No text annotation | ||
| J3_3JAN_015 | 1/8/44:45, 1/8/58:66, 1/8/92:99 | No text annotation | ||
| J3_3JAN_016 | 1/S2/40:41, 1/S2/481:487, 1/S2/512:514 | No text annotation | homologous J3_8P9A_068 J3_58657.1 | |
| J3_3JAN_017 | 1/S2/682:685, 1/S2/917:922, 1/S2/1022:1023 | No text annotation | ||
| J3_3JAN_041 | 1/S2/682:685, 1/S2/917:923, 1/S2/1019:1023 | No text annotation | ||
| J3_3JAN_018 | 1/S2/1091:1096, 1/S2/1136:1140, 1/S2/1147:1158 | No text annotation | ||
| J3_3JAN_019 | 1/S2/1218:1222, 1/S2/1645:1651, 1/S2/1673:1680 | No text annotation | ||
| J3_3JAN_042 | 1/S2/1218:1223, 1/S2/1643:1651, 1/S2/1673:1680 | No text annotation | ||
| J3_3JAN_020 | 1/S2/1225:1228, 1/S2/1530:1532, 1/S2/1638:1641 | No text annotation | homologous J3_4V88_036 NA | |
| J3_3JAN_043 | 1/S2/1237:1244, 1/S2/1255:1266, 1/S2/1516:1520 | No text annotation | homologous J3_8P9A_078 J3_88451.1 | |
| J3_3JAN_044 | 1/S2/1337:1345, 1/S2/1384:1389, 1/S2/1481:1490 | No text annotation | ||
| J3_3JAN_023 | 1/S2/1340:1345, 1/S2/1384:1389, 1/S2/1481:1486 | No text annotation | homologous J3_4V88_039 NA | |
| J3_3JAN_024 | 1/S2/1350:1351, 1/S2/1360:1366, 1/S2/1373:1379 | No text annotation | ||
| J3_3JAN_046 | 1/S2/1532:1540, 1/S2/1593:1610, 1/S2/1629:1638 | No text annotation | ||
| J4_3JAN_002 | 1/5/111:112, 1/5/278:283, 1/5/304:310, 1/5/327:330 | No text annotation | homologous J4_8P9A_012 J4_94698.1 | |
| J4_3JAN_003 | 1/5/194:199, 1/5/215:222, 1/5/226:228, 1/5/240:247 | No text annotation | ||
| J4_3JAN_004 | 1/5/980:984, 1/5/1069:1074, 1/5/1236:1246, 1/5/1264:1274 | No text annotation | ||
| J4_3JAN_010 | 1/5/2406:2410, 1/5/2434:2439, 1/5/2538:2539, 1/5/2777:2784 | No text annotation | homologous J4_8CRE_004 NA | |
| J4_3JAN_006 | 1/5/2618:2619, 1/5/2637:2642, 1/5/2692:2698, 1/5/2718:2719 | No text annotation | ||
| J4_3JAN_007 | 1/5/4587:4590, 1/5/4620:4621, 1/5/4676:4678, 1/5/4712:4715 | No text annotation | ||
| J4_3JAN_008 | 1/S2/98:107, 1/S2/354:357, 1/S2/405:409, 1/S2/431:432 | No text annotation | ||
| J4_3JAN_009 | 1/S2/671:673, 1/S2/1032:1037, 1/S2/1078:1089, 1/S2/1160:1161 | No text annotation | homologous J4_8P9A_022 J4_14595.1 | |
| J5_3JAN_014 | 1/5/1335:1341, 1/5/1515:1519, 1/5/1658:1662, 1/5/2287:2290, 1/5/2345:2351 | No text annotation | ||
| J5_3JAN_015 | 1/5/1352:1355, 1/5/1384:1399, 1/5/1418:1421, 1/5/1464:1466, 1/5/1499:1504 | No text annotation | ||
| J5_3JAN_016 | 1/5/2358:2371, 1/5/2389:2401, 1/5/2803:2807, 1/5/2819:2829, 1/5/3856:3863 | No text annotation | ||
| J5_3JAN_004 | 1/5/2406:2410, 1/5/2434:2445, 1/5/2515:2519, 1/5/2536:2539, 1/5/2777:2784 | No text annotation | ||
| J5_3JAN_005 | 1/5/2847:2863, 1/5/2887:2888, 1/5/3613:3614, 1/5/3618:3626, 1/5/3835:3841 | No text annotation | ||
| J5_3JAN_006 | 1/5/2855:2863, 1/5/2887:2888, 1/5/3613:3614, 1/5/3618:3626, 1/5/3835:3837 | No text annotation | homologous J5_8C3A_004 NA | |
| J5_3JAN_007 | 1/5/3903:3911, 1/5/4391:4403, 1/5/4440:4453, 1/5/4528:4540, 1/5/4545:4557 | No text annotation | ||
| J5_3JAN_008 | 1/5/3920:3923, 1/5/4188:4192, 1/5/4202:4205, 1/5/4227:4228, 1/5/4375:4381 | No text annotation | ||
| J5_3JAN_009 | 1/5/4228:4237, 1/5/4287:4291, 1/5/4318:4319, 1/5/4328:4345, 1/5/4367:4375 | No text annotation | ||
| J5_3JAN_010 | 1/S2/30:34, 1/S2/521:527, 1/S2/558:565, 1/S2/585:596, 1/S2/641:644 | No text annotation | ||
| J5_3JAN_011 | 1/S2/49:62, 1/S2/86:96, 1/S2/434:436, 1/S2/457:462, 1/S2/467:477 | No text annotation | ||
| J5_3JAN_017 | 1/S2/125:144, 1/S2/175:187, 1/S2/212:218, 1/S2/302:315, 1/S2/335:338 | No text annotation | ||
| J5_3JAN_013 | 1/S2/685:696, 1/S2/734:744, 1/S2/797:800, 1/S2/865:873, 1/S2/912:917 | No text annotation | ||
| J6_3JAN_002 | 1/5/3634:3638, 1/5/3650:3657, 1/5/3687:3698, 1/5/3752:3754, 1/5/3770:3781, 1/5/3811:3826 | No text annotation | ||
| J7_3JAN_002 | 1/5/1665:1674, 1/5/1681:1685, 1/5/1852:1860, 1/5/1874:1885, 1/5/1894:1901, 1/5/2075:2081, 1/5/2275:2284 | No text annotation | ||
| J8_3JAN_001 | 1/5/3920:3923, 1/5/4188:4192, 1/5/4202:4205, 1/5/4227:4237, 1/5/4287:4291, 1/5/4318:4319, 1/5/4328:4345, 1/5/4367:4381 | No text annotation | ||
| J10_3JAN_001 | 1/5/16:29, 1/5/53:67, 1/5/74:78, 1/5/105:109, 1/5/332:339, 1/8/33:45, 1/8/58:66, 1/8/92:106, 1/8/113:114, 1/8/136:141 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_3JAN_001 | No text annotation | ||
| J3_3JAN_002 | No text annotation | ||
| J3_3JAN_029 | No text annotation | ||
| J3_3JAN_032 | No text annotation | ||
| J3_3JAN_007 | No text annotation | ||
| J3_3JAN_034 | No text annotation | ||
| J3_3JAN_035 | No text annotation | ||
| J3_3JAN_036 | No text annotation | ||
| J3_3JAN_037 | No text annotation | ||
| J3_3JAN_021 | No text annotation | ||
| J3_3JAN_022 | No text annotation | ||
| J3_3JAN_025 | No text annotation | ||
| J3_3JAN_045 | No text annotation | ||
| J4_3JAN_001 | tRNA junction | ||
| J4_3JAN_005 | No text annotation | ||
| J5_3JAN_001 | No text annotation | ||
| J5_3JAN_002 | No text annotation | ||
| J5_3JAN_003 | No text annotation | ||
| J5_3JAN_012 | No text annotation | ||
| J6_3JAN_001 | No text annotation | ||
| J7_3JAN_001 | No text annotation |
Coloring options: