7TOP Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| # | loop id | location | annotation (mapped to, source) | motif group (similar to) |
|---|---|---|---|---|
| 1/A25S/38:45 | geometric HL_4WF9_006 | NA HL_23481.5* | ||
| 1/A25S/69:74 | geometric HL_5TBW_002 | NA HL_96776.3* | ||
| 1/A25S/90:96 | geometric HL_5TBW_003 | NA HL_67216.5* | ||
| 1/A25S/132:136 | geometric HL_5TBW_004 | NA HL_36982.3* | ||
| 1/A25S/194:201 | T-loop with 1 bulged base geometric HL_4V9F_010 | NA HL_68493.6* | ||
| 1/A25S/208:212 | geometric HL_5J7L_143 | NA HL_98557.5* | ||
| 1/A25S/216:224 | geometric HL_5TBW_007 | NA HL_08002.6* | ||
| 1/A25S/278:287 | geometric HL_5TBW_008 | NA HL_54035.7* | ||
| 1/A25S/303:312 | geometric HL_5TBW_009 | NA HL_46142.8* | ||
| 1/A25S/357:362 | Other HL geometric HL_4LFB_028 | NA HL_43074.18* | ||
| 1/A25S/382:387 | GNRA geometric HL_5J7L_010 | NA HL_43074.18* | ||
| 1/A25S/543:548 | geometric HL_5TBW_012 | NA HL_94386.1* | ||
| 1/A25S/599:604 | geometric HL_3OXE_002 | NA HL_32527.3* | ||
| 1/A25S/640:649 | T-loop with 2 stacked bulged bases geometric HL_5TBW_014 | NA HL_33239.17* | ||
| 1/A25S/686:694 | geometric HL_5TBW_015 | NA HL_80105.3* | ||
| 1/A25S/707:712 | GNRA geometric HL_5TBW_016 | NA HL_43074.18* | ||
| 1/A25S/732:737 | GNRA geometric HL_5TBW_017 | NA HL_43074.18* | ||
| 1/A25S/763:768 | geometric HL_5TBW_018 | NA HL_00996.1* | ||
| 1/A25S/844:849 | Other HL geometric HL_2CZJ_007 | NA HL_79299.11* | ||
| 1/A25S/876:885 | geometric HL_5TBW_020 | NA HL_39334.5* | ||
| 1/A25S/910:918 | geometric HL_5TBW_021 | NA HL_05832.1* | ||
| 1/A25S/958:963 | geometric HL_2Y8W_001 | NA HL_69459.1* | ||
| 1/A25S/1076:1083 | geometric HL_5TBW_024 | NA HL_54035.7* | ||
| 1/A25S/1126:1132 | GNRA geometric HL_5TBW_025 | NA HL_43074.18* | ||
| 1/A25S/1148:1155 | geometric HL_5TBW_026 | NA HL_72451.5* | ||
| 1/A25S/1239:1249 | geometric HL_2ZNI_001 | NA HL_40469.1* | ||
| 1/A25S/1266:1275 | geometric HL_5TBW_028 | NA HL_87219.4* | ||
| 1/A25S/1347:1357 | geometric HL_5TBW_029 | NA HL_36095.1* | ||
| 1/A25S/1403:1408 | GNRA geometric HL_5TBW_030 | NA HL_43074.18* | ||
| 1/A25S/1462:1470 | T-loop with 2 stacked bulged bases geometric HL_5TBW_031 | NA HL_33239.17* | ||
| 1/A25S/1506:1512 | geometric HL_5TBW_032 | NA HL_86880.5* | ||
| 1/A25S/1544:1549 | Other HL geometric HL_5TBW_033 | NA HL_43074.18* | ||
| 1/A25S/1561:1578 | NA | NA | ||
| 1/A25S/1599:1608 | geometric HL_5TBW_035 | NA HL_78457.4* | ||
| 1/A25S/1634:1639 | GNRA geometric HL_5TBW_036 | NA HL_43074.18* | ||
| 1/A25S/1680:1688 | geometric HL_5TBW_037 | NA HL_73793.2* | ||
| 1/A25S/1719:1725 | geometric HL_5TBW_038 | NA HL_00923.1* | ||
| 1/A25S/1760:1765 | geometric HL_4WF9_003 | NA HL_62869.3* | ||
| 1/A25S/1792:1796 | geometric HL_4V88_192 | NA HL_69353.7* | ||
| 1/A25S/1844:1851 | geometric HL_5TBW_006 | NA HL_98557.5* | ||
| 1/A25S/1862:1868 | GNRA with one bulged base geometric HL_5TBW_042 | NA HL_02361.6* | ||
| 1/A25S/1923:1928 | geometric HL_7RQB_042 | NA HL_79299.11* | ||
| 1/A25S/2110:2114 | geometric HL_5TBW_045 | NA HL_99223.1* | ||
| 1/A25S/2135:2145 | geometric HL_5TBW_046 | NA HL_43613.4* | ||
| 1/A25S/2164:2170 | GNRA geometric HL_5TBW_047 | NA HL_43074.18* | ||
| 1/A25S/2220:2225 | Other HL geometric HL_5TBW_048 | NA HL_43074.18* | ||
| 1/A25S/2253:2263 | geometric HL_5TBW_049 | NA HL_98248.1* | ||
| 1/A25S/2292:2300 | geometric HL_5TBW_050 | NA HL_53760.4* | ||
| 1/A25S/2369:2378 | geometric HL_5TBW_051 | NA HL_90642.5* | ||
| 1/A25S/2465:2490 | NA | NA | ||
| 1/A25S/2534:2545 | NA | NA | ||
| 1/A25S/2568:2573 | NA | NA | ||
| 1/A25S/2616:2624 | geometric HL_4WF9_049 | NA HL_46891.3* | ||
| 1/A25S/2633:2645 | geometric HL_5TBW_055 | NA HL_19870.5* | ||
| 1/A25S/2673:2681 | geometric HL_5TBW_056 | NA HL_76406.3* | ||
| 1/A25S/2693:2700 | geometric HL_5TBW_057 | NA HL_46142.8* | ||
| 1/A25S/2724:2732 | geometric HL_5TBW_058 | NA HL_14725.1* | ||
| 1/A25S/2744:2749 | GNRA geometric HL_5TBW_059 | NA HL_43074.18* | ||
| 1/A25S/2776:2784 | geometric HL_5TBW_060 | NA HL_46142.8* | ||
| 1/A25S/2840:2848 | geometric HL_5TBW_061 | NA HL_36421.5* | ||
| 1/A25S/2896:2905 | NA | NA | ||
| 1/A25S/2920:2926 | geometric HL_4WF9_058 | NA HL_26055.6* | ||
| 1/A25S/2963:2968 | GNRA geometric HL_4WF9_015 | NA HL_43074.18* | ||
| 1/A25S/3025:3030 | geometric HL_7RQB_064 | NA HL_43074.18* | ||
| 1/A25S/3068:3073 | Ribsomal LSU H95 geometric HL_4V9F_067 | NA HL_67719.1* | ||
| 1/A25S/3110:3124 | geometric HL_5TBW_067 | NA HL_56677.5* | ||
| 1/A25S/3194:3197 | geometric HL_5TBW_068 | NA HL_46546.1* | ||
| 1/A25S/3240:3247 | geometric HL_2Y9H_003 | NA HL_98557.5* | ||
| 1/A25S/3303:3311 | geometric HL_5TBW_070 | NA HL_05018.6* | ||
| 1/A25S/3350:3353 | geometric HL_6U8D_003 | NA HL_18722.3* | ||
| 1/A58S/69:89 | NA | NA | ||
| 1/A58S/108:114 | geometric HL_5TBW_075 | NA HL_06569.2* | ||
| 1/A58S/124:129 | geometric HL_5TBW_076 | NA HL_60357.1* | ||
| 1/A5S/36:41 | NA | NA | ||
| 1/A5S/88:93 | NA | NA | ||
| 1/APTN/13:22 | NA | NA | ||
| 1/APTN/31:39 | NA | NA | ||
| 1/APTN/53:61 | NA | NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7TOP_023 | NA | ||
| HL_7TOP_044 | NA |
Valid loops
| # | loop id | location | annotation (mapped to, source) | motif group (similar to) |
|---|---|---|---|---|
| 1/A25S/3:4, 1/A58S/155:156 | NA | NA | ||
| 1/A25S/7:8, 1/A58S/150:152 | Single bulged C geometric IL_5TBW_002 | NA IL_61258.10* | ||
| 1/A25S/13:15, 1/A58S/144:145 | Single bulged U geometric IL_5TBW_003 | NA IL_83039.11* | ||
| 1/A25S/27:28, 1/A25S/56:58 | Single stack bend geometric IL_5TBW_004 | NA IL_04038.4* | ||
| 1/A25S/31:38, 1/A25S/45:53 | tSH-tHW-tHH-tHS geometric IL_5TBW_005 | NA IL_22863.1* | ||
| 1/A25S/82:89, 1/A25S/97:103 | geometric IL_5TBW_006 | NA IL_29509.1* | ||
| 1/A25S/123:124, 1/A25S/144:149 | geometric IL_5TBW_007 | NA IL_19724.1* | ||
| 1/A25S/125:127, 1/A25S/141:143 | geometric IL_5TBW_008 | NA IL_01312.13* | ||
| 1/A25S/163:165, 1/A25S/257:258 | Single stack bend geometric IL_5TBW_009 | NA IL_04038.4* | ||
| 1/A25S/169:170, 1/A25S/248:253 | geometric IL_5TBW_010 | NA IL_76195.1* | ||
| 1/A25S/177:178, 1/A25S/238:241 | Major groove platform geometric IL_7A0S_073 | NA IL_80663.10* | ||
| 1/A25S/189:191, 1/A25S/204:205 | Single bulged U geometric IL_4V9F_013 | NA IL_83039.11* | ||
| 1/A25S/337:339, 1/A58S/25:26 | Single bulged A geometric IL_5TBW_013 | NA IL_80007.16* | ||
| 1/A25S/376:379, 1/A25S/390:403 | geometric IL_5TBW_014 | NA IL_60992.5* | ||
| 1/A25S/404:410, 1/A58S/13:19 | Triple sheared with non-canonical cWW geometric IL_5TBW_015 | NA IL_66414.5* | ||
| 1/A25S/429:431, 1/A25S/628:630 | geometric IL_5TBW_016 | NA IL_01312.13* | ||
| 1/A25S/512:513, 1/A25S/577:579 | Single bulged A geometric IL_5TBW_018 | NA IL_40508.4* | ||
| 1/A25S/517:525, 1/A25S/567:573 | geometric IL_5TBW_019 | NA IL_41593.1* | ||
| 1/A25S/531:538, 1/A25S/553:561 | geometric IL_5TBW_020 | NA IL_94501.1* | ||
| 1/A25S/668:670, 1/A25S/792:794 | geometric IL_5TBW_021 | NA IL_01312.13* | ||
| 1/A25S/680:684, 1/A25S/696:700 | geometric IL_5TBW_022 | NA IL_92343.1* | ||
| 1/A25S/725:728, 1/A25S/741:745 | UAA/GAN geometric IL_5TBW_023 | NA IL_53523.5* | ||
| 1/A25S/752:753, 1/A25S/779:781 | Single bulged A geometric IL_5TBW_024 | NA IL_80007.16* | ||
| 1/A25S/755:756, 1/A25S/775:777 | Single bulged U geometric IL_5TBW_025 | NA IL_83039.11* | ||
| 1/A25S/758:763, 1/A25S/768:773 | geometric IL_5TBW_026 | NA IL_19954.1* | ||
| 1/A25S/803:805, 1/A25S/938:940 | geometric IL_5TBW_027 | NA IL_01312.13* | ||
| 1/A25S/805:809, 1/A25S/931:938 | geometric IL_5TBW_028 | NA IL_17470.5* | ||
| 1/A25S/833:834, 1/A25S/859:861 | Single bulged G geometric IL_7RQB_020 | NA IL_59137.10* | ||
| 1/A25S/834:838, 1/A25S/855:859 | Triple sheared geometric IL_4WF9_024 | NA IL_56467.6* | ||
| 1/A25S/869:872, 1/A25S/888:890 | Major groove platform with extra cWW geometric IL_5TBW_031 | NA IL_95485.6* | ||
| 1/A25S/873:875, 1/A25S/886:887 | Single bulged U geometric IL_5TBW_032 | NA IL_83039.11* | ||
| 1/A25S/907:909, 1/A25S/919:923 | Multiple bulged bases geometric IL_5TBW_033 | NA IL_90991.5* | ||
| 1/A25S/954:956, 1/A25S/965:967 | geometric IL_5TBW_034 | NA IL_01312.13* | ||
| 1/A25S/969:970, 1/A25S/1111:1113 | Single stack bend geometric IL_5TBW_035 | NA IL_04038.4* | ||
| 1/A25S/977:981, 1/A25S/1102:1104 | geometric IL_5TBW_036 | NA IL_67474.3* | ||
| 1/A25S/983:985, 1/A25S/1099:1100 | Single bulged G geometric IL_5TBW_037 | NA IL_59137.10* | ||
| 1/A25S/991:997, 1/A25S/1052:1058 | 7x7 Sarcin-Ricin with intercalated A; G-bulge geometric IL_5TBW_038 | NA IL_93830.2* | ||
| 1/A25S/997:998, 1/A25S/1050:1052 | Minor groove platform geometric IL_5TBW_039 | NA IL_06437.11* | ||
| 1/A25S/999:1004, 1/A25S/1046:1049 | C-loop geometric IL_5TBW_040 | NA IL_63596.4* | ||
| 1/A25S/1005:1009, 1/A25S/1041:1045 | geometric IL_4V88_422 | NA IL_79670.1* | ||
| 1/A25S/1009:1011, 1/A25S/1039:1041 | geometric IL_5TBW_042 | NA IL_01312.13* | ||
| 1/A25S/1013:1018, 1/A25S/1034:1037 | Other IL geometric IL_5TBW_043 | NA IL_08757.3* | ||
| 1/A25S/1018:1020, 1/A25S/1033:1034 | Single stack bend geometric IL_5J7L_032 | NA IL_04038.4* | ||
| 1/A25S/1069:1071, 1/A25S/1087:1089 | CC cWW geometric IL_4KNQ_002 | NA IL_01312.13* | ||
| 1/A25S/1074:1076, 1/A25S/1083:1084 | Single bulged A geometric IL_5TBW_045 | NA IL_80007.16* | ||
| 1/A25S/1120:1122, 1/A25S/1136:1138 | geometric IL_4LFB_010 | NA IL_01312.13* | ||
| 1/A25S/1167:1171, 1/A25S/1328:1332 | UAA/GAN geometric IL_5TBW_048 | NA IL_53523.5* | ||
| 1/A25S/1173:1180, 1/A25S/1325:1326 | SSU/LSU pseudoknot geometric IL_5TBW_049 | NA IL_15861.6* | ||
| 1/A25S/1180:1182, 1/A25S/1324:1325 | Single bulged U geometric IL_5TBW_050 | NA IL_83039.11* | ||
| 1/A25S/1187:1194, 1/A25S/1314:1319 | geometric IL_5TBW_051 | NA IL_17971.1* | ||
| 1/A25S/1194:1205, 1/A25S/1299:1314 | geometric IL_5TBW_052 | NA IL_94878.1* | ||
| 1/A25S/1207:1209, 1/A25S/1296:1297 | Single bulged U geometric IL_5TBW_053 | NA IL_83039.11* | ||
| 1/A25S/1218:1226, 1/A25S/1283:1287 | NA | NA | ||
| 1/A25S/1234:1239, 1/A25S/1249:1254 | NA | NA | ||
| 1/A25S/1262:1266, 1/A25S/1275:1277 | Major groove platform with extra cWW geometric IL_1MMS_002 | NA IL_95485.6* | ||
| 1/A25S/1376:1378, 1/A25S/1428:1431 | Isolated cWS basepair geometric IL_5TBW_057 | NA IL_01312.13* | ||
| 1/A25S/1385:1387, 1/A25S/1420:1421 | Single bulged A geometric IL_5TBW_058 | NA IL_80007.16* | ||
| 1/A25S/1388:1395, 1/A25S/1415:1419 | Kink-turn geometric IL_5TBW_059 | NA IL_29549.9* | ||
| 1/A25S/1398:1400, 1/A25S/1411:1412 | Single bulged A geometric IL_5TBW_060 | NA IL_80007.16* | ||
| 1/A25S/1444:1450, 1/A25S/2354:2359 | 7x6 Sarcin-Ricin; G-bulge geometric IL_5TBW_061 | NA IL_35110.5* | ||
| 1/A25S/1501:1505, 1/A25S/1513:1515 | C-loop geometric IL_7RQB_051 | NA IL_63596.4* | ||
| 1/A25S/1532:1536, 1/A25S/1585:1590 | UAA/GAN geometric IL_5TBW_063 | NA IL_53523.5* | ||
| 1/A25S/1618:1621, 1/A25S/1824:1826 | Other IL geometric IL_5TBW_064 | NA IL_87630.5* | ||
| 1/A25S/1623:1627, 1/A25S/1816:1822 | NA | NA | ||
| 1/A25S/1627:1631, 1/A25S/1811:1816 | geometric IL_5TBW_066 | NA IL_74736.1* | ||
| 1/A25S/1645:1649, 1/A25S/1806:1810 | Triple sheared geometric IL_5TBW_067 | NA IL_56467.6* | ||
| 1/A25S/1661:1663, 1/A25S/1786:1788 | geometric IL_5TBW_068 | NA IL_01312.13* | ||
| 1/A25S/1669:1670, 1/A25S/1778:1780 | Single bulged C geometric IL_5TBW_069 | NA IL_61258.10* | ||
| 1/A25S/1670:1671, 1/A25S/1776:1778 | Single stack bend geometric IL_5TBW_070 | NA IL_72766.2* | ||
| 1/A25S/1694:1698, 1/A25S/1747:1752 | geometric IL_5TBW_071 | NA IL_14397.1* | ||
| 1/A25S/1702:1707, 1/A25S/1737:1743 | geometric IL_5TBW_072 | NA IL_98876.1* | ||
| 1/A25S/1711:1717, 1/A25S/1727:1733 | Kink-turn geometric IL_5TBW_073 | NA IL_76900.1* | ||
| 1/A25S/1883:1889, 1/A25S/2346:2349 | geometric IL_5TBW_074 | NA IL_79393.8* | ||
| 1/A25S/1895:1897, 1/A25S/2338:2340 | Isolated tWW turn geometric IL_4WF9_063 | NA IL_54997.5* | ||
| 1/A25S/1898:1901, 1/A25S/2336:2337 | Major groove platform; stack outside cWW geometric IL_5TBW_076 | NA IL_80663.10* | ||
| 1/A25S/1901:1906, 1/A25S/2333:2336 | Intercalated tWH geometric IL_4V9F_062 | NA IL_01312.13* | ||
| 1/A25S/1918:1923, 1/A25S/1928:1934 | tSH-tSH-tHH-tHS geometric IL_4V9F_063 | NA IL_66584.5* | ||
| 1/A25S/1940:1942, 1/A25S/2106:2108 | geometric IL_5TBW_079 | NA IL_01312.13* | ||
| 1/A25S/1947:1948, 1/A25S/2098:2101 | geometric IL_5TBW_080 | NA IL_76195.1* | ||
| 1/A25S/2128:2129, 1/A25S/2323:2325 | Single bulged A geometric IL_5TBW_082 | NA IL_80007.16* | ||
| 1/A25S/2156:2161, 1/A25S/2173:2180 | Kink-turn related geometric IL_5TBW_083 | NA IL_95993.1* | ||
| 1/A25S/2196:2199, 1/A25S/2245:2246 | Major groove outside cWW, minor groove, intercalation pocket geometric IL_5TBW_084 | NA IL_72766.2* | ||
| 1/A25S/2200:2201, 1/A25S/2241:2244 | Major groove outside cWW, minor groove, intercalation pocket geometric IL_4V9F_067 | NA IL_13730.12* | ||
| 1/A25S/2204:2206, 1/A25S/2237:2238 | Single bulged U geometric IL_5TBW_086 | NA IL_21340.1* | ||
| 1/A25S/2206:2210, 1/A25S/2235:2237 | Major groove platform with extra pair geometric IL_5TBW_087 | NA IL_87630.5* | ||
| 1/A25S/2211:2217, 1/A25S/2228:2234 | geometric IL_5TBW_088 | NA IL_36973.5* | ||
| 1/A25S/2276:2277, 1/A25S/2307:2310 | Multiple bulged bases geometric IL_5TBW_089 | NA IL_69632.1* | ||
| 1/A25S/2277:2288, 1/A25S/2304:2307 | geometric IL_5TBW_090 | NA IL_45481.1* | ||
| 1/A25S/2391:2394, 1/A25S/2986:2988 | Major groove platform with extra pair geometric IL_5TBW_091 | NA IL_87630.5* | ||
| 1/A25S/2396:2398, 1/A25S/2981:2984 | Minor groove platform with intercalation geometric IL_5TBW_092 | NA IL_86964.1* | ||
| 1/A25S/2409:2411, 1/A25S/2811:2812 | Single bulged U geometric IL_5TBW_093 | NA IL_83039.11* | ||
| 1/A25S/2412:2413, 1/A25S/2807:2810 | Minor groove platform geometric IL_7RQB_081 | NA IL_06437.11* | ||
| 1/A25S/2423:2425, 1/A25S/2604:2607 | Isolated tHS basepair with bulges geometric IL_5TBW_095 | NA IL_38958.6* | ||
| 1/A25S/2520:2526, 1/A25S/2584:2587 | geometric IL_5TBW_096 | NA IL_98353.1* | ||
| 1/A25S/2614:2615, 1/A25S/2625:2627 | Single bulged A geometric IL_5TBW_098 | NA IL_80007.16* | ||
| 1/A25S/2666:2668, 1/A25S/2686:2690 | Isolated tHS basepair with bulges geometric IL_5TBW_099 | NA IL_38958.6* | ||
| 1/A25S/2718:2721, 1/A25S/2735:2738 | Tandem non-canonical cWW pairs geometric IL_5TBW_100 | NA IL_85877.10* | ||
| 1/A25S/2770:2773, 1/A25S/2787:2788 | Single stack bend geometric IL_5TBW_070 | NA IL_72766.2* | ||
| 1/A25S/2823:2824, 1/A25S/2865:2867 | Major groove platform geometric IL_5TBW_102 | NA IL_80663.10* | ||
| 1/A25S/2824:2826, 1/A25S/2863:2865 | geometric IL_5TBW_103 | NA IL_05265.1* | ||
| 1/A25S/2826:2828, 1/A25S/2862:2863 | Major groove platform geometric IL_5TBW_104 | NA IL_80663.10* | ||
| 1/A25S/2828:2830, 1/A25S/2858:2862 | geometric IL_5TBW_105 | NA IL_07931.5* | ||
| 1/A25S/2835:2839, 1/A25S/2849:2853 | Triple sheared geometric IL_5TBW_106 | NA IL_56467.6* | ||
| 1/A25S/2876:2877, 1/A25S/2949:2951 | Major groove platform geometric IL_5TBW_107 | NA IL_80663.10* | ||
| 1/A25S/2879:2881, 1/A25S/2943:2947 | Isolated non-canonical cWW with bulges geometric IL_5TBW_108 | NA IL_01312.13* | ||
| 1/A25S/2881:2882, 1/A25S/2940:2943 | Multiple bulged bases geometric IL_5TBW_109 | NA IL_13730.12* | ||
| 1/A25S/2889:2891, 1/A25S/2912:2914 | geometric IL_5TBW_110 | NA IL_01312.13* | ||
| 1/A25S/2891:2892, 1/A25S/2909:2912 | Minor groove platform with intercalation geometric IL_5TBW_111 | NA IL_95601.1* | ||
| 1/A25S/2918:2920, 1/A25S/2926:2928 | geometric IL_5TBW_112 | NA IL_01312.13* | ||
| 1/A25S/2960:2961, 1/A25S/2970:2972 | Single bulged A geometric IL_1CSL_002 | NA IL_80007.16* | ||
| 1/A25S/3004:3007, 1/A25S/3139:3144 | Double sheared geometric IL_5TBW_114 | NA IL_09705.7* | ||
| 1/A25S/3012:3014, 1/A25S/3040:3042 | geometric IL_2OE8_001 | NA IL_01312.13* | ||
| 1/A25S/3018:3025, 1/A25S/3030:3036 | 8x7 Sarcin-Ricin; G-bulge geometric IL_5TBW_116 | NA IL_04346.5* | ||
| 1/A25S/3047:3051, 1/A25S/3091:3094 | Major groove minor groove platform with tHH geometric IL_5TBW_117 | NA IL_28060.3* | ||
| 1/A25S/3054:3059, 1/A25S/3084:3088 | UAA/GAN related geometric IL_5TBW_118 | NA IL_53523.5* | ||
| 1/A25S/3063:3064, 1/A25S/3077:3080 | Multiple bulged bases geometric IL_5TBW_119 | NA IL_13730.12* | ||
| 1/A25S/3103:3107, 1/A25S/3127:3131 | UAA/GAN geometric IL_5TBW_120 | NA IL_53523.5* | ||
| 1/A25S/3164:3166, 1/A25S/3284:3286 | geometric IL_3LA5_001 | NA IL_01312.13* | ||
| 1/A25S/3168:3170, 1/A25S/3280:3282 | geometric IL_5B2P_001 | NA IL_01312.13* | ||
| 1/A25S/3177:3179, 1/A25S/3210:3211 | Single bulged A geometric IL_5TBW_123 | NA IL_80007.16* | ||
| 1/A25S/3179:3188, 1/A25S/3204:3210 | geometric IL_5TBW_124 | NA IL_56867.1* | ||
| 1/A25S/3193:3194, 1/A25S/3197:3199 | Single bulged U geometric IL_5TBW_125 | NA IL_83039.11* | ||
| 1/A25S/3225:3229, 1/A25S/3258:3260 | geometric IL_5TBW_126 | NA IL_50789.1* | ||
| 1/A25S/3233:3235, 1/A25S/3252:3254 | geometric IL_4M4O_002 | NA IL_01312.13* | ||
| 1/A25S/3235:3238, 1/A25S/3249:3252 | Tandem non-canonical cWW pairs geometric IL_4UYK_003 | NA IL_85877.10* | ||
| 1/A25S/3300:3303, 1/A25S/3311:3314 | Tandem non-canonical cWW pairs geometric IL_5TBW_129 | NA IL_85877.10* | ||
| 1/A25S/3318:3320, 1/A25S/3387:3388 | Single bulged U geometric IL_5TBW_130 | NA IL_83039.11* | ||
| 1/A25S/3324:3325, 1/A25S/3381:3383 | Single bulged U geometric IL_2A64_002 | NA IL_83039.11* | ||
| 1/A25S/3328:3330, 1/A25S/3373:3378 | Isolated non-canonical cWW with bulges geometric IL_5TBW_132 | NA IL_55456.1* | ||
| 1/A25S/3332:3337, 1/A25S/3367:3371 | geometric IL_5TBW_133 | NA IL_47002.1* | ||
| 1/A25S/3340:3342, 1/A25S/3363:3364 | Single bulged U geometric IL_5TBW_134 | NA IL_83039.11* | ||
| 1/A25S/3342:3345, 1/A25S/3360:3363 | tWS-tSW geometric IL_5TBW_135 | NA IL_09705.7* | ||
| 1/A25S/3349:3350, 1/A25S/3353:3356 | Multiple bulged bases geometric IL_5TBW_136 | NA IL_13730.12* | ||
| 1/A58S/44:64, 1/A58S/96:100 | geometric IL_5TBW_144 | NA IL_23735.1* | ||
| 1/A58S/64:66, 1/A58S/93:96 | Isolated non-canonical cWW with bulges geometric IL_5TBW_145 | NA IL_55456.1* | ||
| 1/A58S/68:69, 1/A58S/89:91 | Single bulged U geometric IL_5TBW_146 | NA IL_83039.11* | ||
| 1/A5S/15:16, 1/A5S/63:65 | NA | NA | ||
| 1/A5S/21:27, 1/A5S/53:58 | NA | NA | ||
| 1/A5S/28:29, 1/A5S/49:52 | NA | NA | ||
| 1/A5S/29:30, 1/A5S/47:49 | NA | NA | ||
| 1/A5S/32:36, 1/A5S/41:45 | NA | NA | ||
| 1/A5S/72:80, 1/A5S/100:106 | NA | NA | ||
| 1/A5S/84:87, 1/A5S/94:96 | NA | NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7TOP_017 | NA |
Valid loops
| # | loop id | location | annotation (mapped to, source) | motif group (similar to) |
|---|---|---|---|---|
| 1/A25S/113:123, 1/A25S/149:158, 1/A25S/263:267 | NA | NA | ||
| 1/A25S/369:376, 1/A25S/403:404, 1/A58S/19:20 | NA | NA | ||
| 1/A25S/502:503, 1/A25S/588:597, 1/A25S/606:611 | NA | NA | ||
| 1/A25S/814:820, 1/A25S/905:907, 1/A25S/923:926 | NA | NA | ||
| 1/A25S/828:831, 1/A25S/863:867, 1/A25S/892:897 | NA | NA | ||
| 1/A25S/986:987, 1/A25S/1062:1066, 1/A25S/1092:1098 | NA | NA | ||
| 1/A25S/1230:1233, 1/A25S/1255:1262, 1/A25S/1277:1279 | NA | NA | ||
| 1/A25S/1479:1485, 1/A25S/1857:1859, 1/A25S/1871:1874 | NA | NA | ||
| 1/A25S/1488:1491, 1/A25S/1837:1843, 1/A25S/1852:1854 | NA | NA | ||
| 1/A25S/1526:1531, 1/A25S/1591:1595, 1/A25S/1612:1613 | NA | NA | ||
| 1/A25S/1631:1632, 1/A25S/1641:1645, 1/A25S/1810:1811 | NA | NA | ||
| 1/A25S/2432:2435, 1/A25S/2512:2517, 1/A25S/2590:2597 | NA | NA | ||
| 1/A25S/2664:2666, 1/A25S/2690:2692, 1/A25S/2701:2706 | NA | NA | ||
| 1/A25S/2886:2889, 1/A25S/2914:2916, 1/A25S/2930:2936 | NA | NA | ||
| 1/A25S/3298:3300, 1/A25S/3314:3318, 1/A25S/3388:3390 | NA | NA | ||
| 1/A5S/9:14, 1/A5S/66:67, 1/A5S/111:112 | NA | NA |
Problematic loops
No problematic loops
Coloring options: