Valid loops

#loop idlocationannotation
(mapped to, source)
motif group
(similar to)
1/1/38:45
homologous
HL_5TBW_001
NA

HL_23481.5*
1/1/69:74
homologous
HL_5TBW_002
NA

HL_96776.3*
1/1/90:96
homologous
HL_5TBW_003
NA

HL_67216.5*
1/1/132:136
homologous
HL_5TBW_004
NA

HL_36982.3*
1/1/194:201T-loop with 1 bulged base
homologous
HL_5TBW_005
NA

HL_68493.6*
1/1/208:212
homologous
HL_5TBW_006
NA

HL_98557.5*
1/1/216:224
homologous
HL_5TBW_007
NA

HL_08002.6*
1/1/278:287
homologous
HL_5TBW_008
NA

HL_54035.7*
1/1/357:362Other HL
homologous
HL_5TBW_010
NA

HL_43074.18*
1/1/382:387GNRA
homologous
HL_5TBW_011
NA

HL_43074.18*
1/1/541:550
homologous
HL_5TBW_124
NA
1/1/599:604GNRA
homologous
HL_5TBW_013
NA

HL_43074.18*
1/1/640:649T-loop with 2 stacked bulged bases
homologous
HL_5TBW_014
NA

HL_33239.17*
1/1/686:694
homologous
HL_5TBW_015
NA

HL_80105.3*
1/1/707:712GNRA
homologous
HL_5TBW_016
NA

HL_43074.18*
1/1/732:737GNRA
homologous
HL_5TBW_017
NA

HL_43074.18*
1/1/958:963
homologous
HL_5TBW_022
NA

HL_15942.5*
1/1/1126:1132GNRA
homologous
HL_5TBW_025
NA

HL_43074.18*
1/1/1148:1155
homologous
HL_5TBW_026
NA

HL_72451.5*
1/1/1403:1408GNRA
homologous
HL_5TBW_030
NA

HL_43074.18*
1/1/2840:2848
homologous
HL_5TBW_061
NA

HL_36421.5*
1/1/2897:2904
homologous
HL_5TBW_062
NA

HL_92681.5*
1/1/2920:2926
geometric
HL_5TBW_063
NA

HL_26055.6*
1/1/3025:3030GNRA
homologous
HL_5TBW_065
NA

HL_43074.18*
1/1/3068:3073Ribsomal LSU H95
homologous
HL_5TBW_066
NA

HL_67719.1*
1/1/3110:3124
homologous
HL_5TBW_067
NA

HL_56677.5*
1/1/3194:3197
homologous
HL_5TBW_068
NA

HL_46546.1*
1/1/3240:3247
homologous
HL_5TBW_069
NA

HL_27757.1*
1/1/3303:3311
geometric
HL_5TBW_070
NA

HL_05018.6*
1/1/3350:3353
homologous
HL_5TBW_071
NA

HL_69353.7*
1/2/70:81
homologous
HL_4V88_187
NA

HL_07268.1*
1/2/154:160Other HL
homologous
HL_4V88_188
NA

HL_43074.18*
1/2/243:250T-loop with 1 bulged base
homologous
HL_4V88_191
NA

HL_68493.6*
1/2/275:281Single bulged U
homologous
IL_4V88_401
NA

IL_83039.11*
1/2/330:338
homologous
HL_4V88_193
NA

HL_93727.5*
1/2/368:373
homologous
HL_4V88_194
NA

HL_18785.1*
1/2/393:404
homologous
HL_4V88_195
NA

HL_22443.1*
1/2/414:419UNCG
homologous
HL_4V88_196
NA

HL_79299.11*
1/2/450:456
homologous
HL_4V88_197
NA

HL_50374.1*
1/2/520:532
geometric
HL_4V88_199
NA

HL_17086.2*
1/2/937:942Other HL
homologous
HL_4V88_207
NA

HL_43074.18*
1/2/1055:1064
geometric
HL_2ZZM_002
NA

HL_18218.2*
1/2/1084:1089Other HL
homologous
HL_4V88_210
NA

HL_43074.18*
1/2/1594:1602
homologous
HL_4V88_220
NA

HL_01181.4*
1/3/36:41NANA
1/3/88:93NANA
1/4/108:114
homologous
HL_5TBW_075
NA

HL_06569.2*
1/4/124:129
homologous
HL_5TBW_076
NA

HL_60357.1*
1/5/38:45
geometric
HL_5TBW_001
NA

HL_23481.5*
1/5/69:74
homologous
HL_5TBW_002
NA

HL_96776.3*
1/5/90:96
homologous
HL_5TBW_003
NA

HL_67216.5*
1/5/132:136
homologous
HL_5TBW_004
NA

HL_36982.3*
1/5/194:201T-loop with 1 bulged base
homologous
HL_5TBW_005
NA

HL_68493.6*
1/5/208:212
homologous
HL_5TBW_006
NA

HL_98557.5*
1/5/216:224
homologous
HL_5TBW_007
NA

HL_08002.6*
1/5/278:287
homologous
HL_5TBW_008
NA

HL_54035.7*
1/5/303:312
homologous
HL_5TBW_009
NA

HL_46142.8*
1/5/357:362Other HL
homologous
HL_5TBW_010
NA

HL_43074.18*
1/5/382:387GNRA
homologous
HL_5TBW_011
NA

HL_43074.18*
1/5/543:548
geometric
HL_6JQ6_004
NA

HL_79299.11*
1/5/599:604GNRA
homologous
HL_5TBW_013
NA

HL_43074.18*
1/5/640:649T-loop with 2 stacked bulged bases
homologous
HL_5TBW_014
NA

HL_33239.17*
1/5/686:694
homologous
HL_5TBW_015
NA

HL_80105.3*
1/5/707:712GNRA
homologous
HL_5TBW_016
NA

HL_43074.18*
1/5/732:737GNRA
homologous
HL_5TBW_017
NA

HL_43074.18*
1/5/763:768
homologous
HL_5TBW_018
NA

HL_00996.1*
1/5/844:849GNRA
homologous
HL_5TBW_019
NA

HL_43074.18*
1/5/876:885
homologous
HL_5TBW_020
NA

HL_39334.5*
1/5/910:918
homologous
HL_5TBW_021
NA

HL_05832.1*
1/5/958:963
homologous
HL_5TBW_022
NA

HL_15942.5*
1/5/1076:1083
homologous
HL_5TBW_024
NA

HL_54035.7*
1/5/1126:1132GNRA
homologous
HL_5TBW_025
NA

HL_43074.18*
1/5/1148:1155
homologous
HL_5TBW_026
NA

HL_72451.5*
1/5/1403:1408GNRA
homologous
HL_5TBW_030
NA

HL_43074.18*
1/5/1462:1470T-loop with 2 stacked bulged bases
homologous
HL_5TBW_031
NA

HL_33239.17*
1/5/1506:1512
homologous
HL_5TBW_032
NA

HL_86880.5*
1/5/1544:1549Other HL
homologous
HL_5TBW_033
NA

HL_43074.18*
1/5/1599:1608
homologous
HL_5TBW_035
NA

HL_78457.4*
1/5/1634:1639GNRA
homologous
HL_5TBW_036
NA

HL_43074.18*
1/5/1680:1688
homologous
HL_5TBW_037
NA

HL_73793.2*
1/5/1719:1725
homologous
HL_5TBW_038
NA

HL_00923.1*
1/5/1792:1796
homologous
HL_5TBW_040
NA

HL_69353.7*
1/5/1844:1851
homologous
HL_5TBW_041
NA

HL_66171.3*
1/5/1862:1868GNRA with one bulged base
homologous
HL_5TBW_042
NA

HL_02361.6*
1/5/1923:1928UNCG
geometric
HL_4V9F_044
NA

HL_79299.11*
1/5/2110:2114
homologous
HL_5TBW_045
NA

HL_99223.1*
1/5/2135:2145
homologous
HL_5TBW_046
NA

HL_43613.4*
1/5/2164:2170GNRA
homologous
HL_5TBW_047
NA

HL_43074.18*
1/5/2220:2225Other HL
homologous
HL_5TBW_048
NA

HL_43074.18*
1/5/2253:2263
homologous
HL_5TBW_049
NA

HL_98248.1*
1/5/2292:2300
homologous
HL_5TBW_050
NA

HL_53760.4*
1/5/2369:2378
homologous
HL_5TBW_051
NA

HL_90642.5*
1/5/2534:2545NANA
1/5/2568:2573NANA
1/5/2616:2624
homologous
HL_5TBW_054
NA

HL_46891.3*
1/5/2633:2645
homologous
HL_5TBW_055
NA

HL_19870.5*
1/5/2673:2681
homologous
HL_5TBW_056
NA

HL_76406.3*
1/5/2693:2700
homologous
HL_5TBW_057
NA

HL_46142.8*
1/5/2724:2732
homologous
HL_5TBW_058
NA

HL_14725.1*
1/5/2744:2749GNRA
homologous
HL_5TBW_059
NA

HL_43074.18*
1/5/2776:2784
homologous
HL_5TBW_060
NA

HL_46142.8*
1/5/2840:2848
homologous
HL_5TBW_061
NA

HL_36421.5*
1/5/2897:2904
homologous
HL_5TBW_062
NA

HL_92681.5*
1/5/2920:2926
geometric
HL_5TBW_063
NA

HL_26055.6*
1/5/2963:2968GNRA
homologous
HL_5TBW_064
NA

HL_43074.18*
1/5/3025:3030GNRA
geometric
HL_4V9F_023
NA

HL_43074.18*
1/5/3068:3073Ribsomal LSU H95
homologous
HL_5TBW_066
NA

HL_67719.1*
1/5/3110:3124
homologous
HL_5TBW_067
NA

HL_56677.5*
1/5/3193:3199Other HL
geometric
HL_5J7L_200
NA

HL_96776.3*
1/5/3240:3247
homologous
HL_5TBW_069
NA

HL_27757.1*
1/5/3303:3311
geometric
HL_5TBW_070
NA

HL_05018.6*
1/5/3350:3353
geometric
HL_4V88_192
NA

HL_69353.7*
1/6/7:17
homologous
HL_4V88_186
NA

HL_67265.4*
1/6/154:160Other HL
homologous
HL_4V88_188
NA

HL_43074.18*
1/6/190:195
homologous
HL_4V88_189
NA

HL_39228.1*
1/6/230:235
homologous
HL_4V88_190
NA

HL_37407.2*
1/6/243:250T-loop with 1 bulged base
homologous
HL_4V88_191
NA

HL_68493.6*
1/6/276:279
homologous
HL_4V88_192
NA

HL_69353.7*
1/6/330:338
homologous
HL_4V88_193
NA

HL_93727.5*
1/6/368:373
homologous
HL_4V88_194
NA

HL_18785.1*
1/6/393:404
homologous
HL_4V88_195
NA

HL_22443.1*
1/6/414:419UNCG
homologous
HL_4V88_196
NA

HL_79299.11*
1/6/450:456
homologous
HL_4V88_197
NA

HL_50374.1*
1/6/520:532
homologous
HL_4V88_199
NA

HL_17086.2*
1/6/569:574Other HL
homologous
HL_4V88_200
NA

HL_43074.18*
1/6/764:772
homologous
HL_4V88_203
NA

HL_72066.1*
1/6/777:783
homologous
HL_4V88_204
NA

HL_83225.1*
1/6/829:843
homologous
HL_4V88_205
NA

HL_03603.1*
1/6/900:909
homologous
HL_4V88_206
NA

HL_87219.4*
1/6/937:942Other HL
homologous
HL_4V88_207
NA

HL_43074.18*
1/6/997:1007
homologous
HL_4V88_208
NA

HL_87219.4*
1/6/1055:1064
homologous
HL_4V88_209
NA

HL_32255.1*
1/6/1084:1089Other HL
homologous
HL_4V88_210
NA

HL_43074.18*
1/6/1121:1126GNRA
homologous
HL_4V88_211
NA

HL_43074.18*
1/6/1188:1197
homologous
HL_4V88_212
NA

HL_96854.1*
1/6/1238:1247
homologous
HL_4V88_213
NA

HL_30819.1*
1/6/1296:1301GNRA
homologous
HL_4V88_214
NA

HL_43074.18*
1/6/1309:1316
homologous
HL_4V88_215
NA

HL_54035.7*
1/6/1359:1364
homologous
HL_4V88_216
NA

HL_82678.2*
1/6/1396:1402
homologous
HL_4V88_217
NA

HL_67216.5*
1/6/1501:1506GNRA
homologous
HL_4V88_218
NA

HL_43074.18*
1/6/1550:1561
homologous
HL_4V88_219
NA

HL_32458.3*
1/6/1594:1602
homologous
HL_4V88_220
NA

HL_01181.4*
1/6/1778:1783Other HL
homologous
HL_4V88_222
NA

HL_43074.18*
1/7/36:41NANA
1/7/88:93NANA
1/8/69:89NANA
1/8/108:114
homologous
HL_5TBW_075
NA

HL_06569.2*
1/8/124:129
homologous
HL_5TBW_076
NA

HL_60357.1*

Problematic loops

#loop idProblemSequence
HL_5I4L_009
homologous
HL_5TBW_009
HL_5I4L_018
homologous
HL_5TBW_018
HL_5I4L_019GNRA
homologous
HL_5TBW_019
HL_5I4L_020
homologous
HL_5TBW_020
HL_5I4L_021
homologous
HL_5TBW_021
HL_5I4L_023GNRA
homologous
HL_5TBW_023
HL_5I4L_024
geometric
HL_5TBW_024
HL_5I4L_027
homologous
HL_5TBW_027
HL_5I4L_028
homologous
HL_5TBW_028
HL_5I4L_029
homologous
HL_5TBW_029
HL_5I4L_031T-loop with 2 stacked bulged bases
homologous
HL_5TBW_031
HL_5I4L_032
homologous
HL_5TBW_032
HL_5I4L_033Other HL
homologous
HL_5TBW_033
HL_5I4L_034
homologous
HL_5TBW_034
HL_5I4L_035
homologous
HL_5TBW_035
HL_5I4L_036GNRA
homologous
HL_5TBW_036
HL_5I4L_037
homologous
HL_5TBW_037
HL_5I4L_038
homologous
HL_5TBW_038
HL_5I4L_039
homologous
HL_5TBW_151
HL_5I4L_040
homologous
HL_5TBW_040
HL_5I4L_041
homologous
HL_5TBW_041
HL_5I4L_042GNRA with one bulged base
homologous
HL_5TBW_042
HL_5I4L_043UNCG
geometric
HL_5TBW_043
HL_5I4L_044
geometric
HL_5TBW_044
HL_5I4L_045
homologous
HL_5TBW_045
HL_5I4L_046
homologous
HL_5TBW_046
HL_5I4L_047GNRA
homologous
HL_5TBW_047
HL_5I4L_048Other HL
homologous
HL_5TBW_048
HL_5I4L_049
homologous
HL_5TBW_049
HL_5I4L_050
homologous
HL_5TBW_050
HL_5I4L_051
homologous
HL_5TBW_051
HL_5I4L_052
homologous
HL_5TBW_052
HL_5I4L_053NA
HL_5I4L_054
homologous
HL_5TBW_053
HL_5I4L_055
homologous
HL_5TBW_054
HL_5I4L_056
homologous
HL_5TBW_055
HL_5I4L_057
homologous
HL_5TBW_056
HL_5I4L_058
homologous
HL_5TBW_057
HL_5I4L_059
homologous
HL_5TBW_058
HL_5I4L_060GNRA
homologous
HL_5TBW_059
HL_5I4L_061
homologous
HL_5TBW_060
HL_5I4L_065GNRA
homologous
HL_5TBW_064
HL_5I4L_073
homologous
HL_4V88_186
HL_5I4L_076
homologous
HL_4V88_189
HL_5I4L_077NA
HL_5I4L_085NA
HL_5I4L_087Other HL
homologous
HL_4V88_200
HL_5I4L_088NA
HL_5I4L_089
homologous
HL_4V88_203
HL_5I4L_090
homologous
HL_4V88_204
HL_5I4L_091
homologous
HL_4V88_205
HL_5I4L_092
homologous
HL_4V88_206
HL_5I4L_094
homologous
HL_4V88_208
HL_5I4L_097GNRA
homologous
HL_4V88_211
HL_5I4L_098
homologous
HL_4V88_212
HL_5I4L_099
homologous
HL_4V88_213
HL_5I4L_100GNRA
homologous
HL_4V88_214
HL_5I4L_101
homologous
HL_4V88_215
HL_5I4L_102
homologous
HL_4V88_216
HL_5I4L_103
homologous
HL_4V88_217
HL_5I4L_104GNRA
homologous
HL_4V88_218
HL_5I4L_105
homologous
HL_4V88_219
HL_5I4L_107NA
HL_5I4L_108Other HL
homologous
HL_4V88_222
HL_5I4L_111NA
HL_5I4L_136NA
HL_5I4L_140NA
HL_5I4L_141
geometric
HL_1MMS_002
HL_5I4L_142NA
HL_5I4L_147NA
HL_5I4L_152Other HL
homologous
HL_5TBW_039
HL_5I4L_157NA
HL_5I4L_165NA
HL_5I4L_187
homologous
HL_4V88_187
HL_5I4L_198NA
HL_5I4L_201NA
HL_5I4L_202NA
HL_5I4L_221NA

Valid loops

#loop idlocationannotation
(mapped to, source)
motif group
(similar to)
1/1/3:4,
1/4/155:156
NANA
1/1/7:8,
1/4/150:152
Single bulged C
homologous
IL_5TBW_002
NA

IL_61258.10*
1/1/13:15,
1/4/144:145
Single bulged U
homologous
IL_5TBW_003
NA

IL_83039.11*
1/1/27:28,
1/1/56:58
Single stack bend
homologous
IL_5TBW_004
NA

IL_04038.4*
1/1/31:38,
1/1/45:53
tSH-tHW-tHH-tHS
geometric
IL_5TBW_005
NA

IL_22863.1*
1/1/82:89,
1/1/97:103

homologous
IL_5TBW_006
NA

IL_29509.1*
1/1/123:124,
1/1/144:149

homologous
IL_5TBW_007
NA

IL_19724.1*
1/1/125:127,
1/1/141:143

homologous
IL_5TBW_008
NA

IL_01312.13*
1/1/163:165,
1/1/257:258
Single stack bend
homologous
IL_5TBW_009
NA

IL_04038.4*
1/1/169:170,
1/1/248:253

homologous
IL_5TBW_010
NA

IL_76195.1*
1/1/177:179,
1/1/237:241
Major groove platform with extra pair
homologous
IL_5TBW_011
NA

IL_87630.5*
1/1/189:191,
1/1/204:205
Single bulged U
homologous
IL_5TBW_012
NA

IL_83039.11*
1/1/337:339,
1/4/25:26
Single bulged A
homologous
IL_5TBW_013
NA

IL_80007.16*
1/1/376:379,
1/1/390:403

geometric
IL_5TBW_014
NA

IL_60992.5*
1/1/404:410,
1/4/13:19
Triple sheared with non-canonical cWW
geometric
IL_5TBW_015
NA

IL_66414.5*
1/1/429:431,
1/1/628:630

homologous
IL_5TBW_016
NA

IL_01312.13*
1/1/512:513,
1/1/577:579
Single bulged A
homologous
IL_5TBW_018
NA

IL_40508.4*
1/1/517:525,
1/1/567:573

homologous
IL_5TBW_019
NA

IL_41593.1*
1/1/531:538,
1/1/553:561

homologous
IL_5TBW_020
NA

IL_94501.1*
1/1/668:670,
1/1/792:794

homologous
IL_5TBW_021
NA

IL_01312.13*
1/1/680:684,
1/1/696:700

homologous
IL_5TBW_022
NA

IL_92343.1*
1/1/725:728,
1/1/741:745
UAA/GAN
homologous
IL_5TBW_023
NA

IL_53523.5*
1/1/752:753,
1/1/779:781
Single bulged A
homologous
IL_5TBW_024
NA

IL_80007.16*
1/1/755:756,
1/1/775:777
Single bulged U
homologous
IL_5TBW_025
NA

IL_83039.11*
1/1/803:805,
1/1/938:940

homologous
IL_5TBW_027
NA

IL_01312.13*
1/1/805:809,
1/1/931:938

geometric
IL_5TBW_028
NA

IL_17470.5*
1/1/954:956,
1/1/965:967

homologous
IL_5TBW_034
NA

IL_01312.13*
1/1/969:970,
1/1/1111:1113
Single stack bend
homologous
IL_5TBW_035
NA

IL_04038.4*
1/1/977:981,
1/1/1102:1104

homologous
IL_5TBW_036
NA

IL_67474.3*
1/1/983:985,
1/1/1099:1100
Single bulged G
homologous
IL_5TBW_037
NA

IL_59137.10*
1/1/1120:1122,
1/1/1136:1138

homologous
IL_5TBW_046
NA

IL_01312.13*
1/1/1123:1125,
1/1/1133:1135
Isolated cWS basepair
homologous
IL_5TBW_047
NA

IL_67621.5*
1/1/1167:1171,
1/1/1328:1332
UAA/GAN
homologous
IL_5TBW_048
NA

IL_53523.5*
1/1/1173:1180,
1/1/1325:1326
SSU/LSU pseudoknot
homologous
IL_5TBW_049
NA

IL_15861.6*
1/1/1180:1182,
1/1/1324:1325
Single bulged U
geometric
IL_5TBW_050
NA

IL_83039.11*
1/1/1187:1194,
1/1/1314:1319

geometric
IL_5TBW_051
NA

IL_17971.1*
1/1/1194:1205,
1/1/1299:1314

homologous
IL_5TBW_052
NA

IL_94878.1*
1/1/1207:1209,
1/1/1296:1297
Single bulged U
homologous
IL_5TBW_053
NA

IL_83039.11*
1/1/1218:1226,
1/1/1283:1287
Kink-turn
homologous
IL_5TBW_054
NA

IL_90538.3*
1/1/1376:1378,
1/1/1428:1431
Isolated cWS basepair
homologous
IL_5TBW_057
NA

IL_01312.13*
1/1/1385:1387,
1/1/1420:1421
Single bulged A
homologous
IL_5TBW_058
NA

IL_80007.16*
1/1/1388:1395,
1/1/1415:1419
Kink-turn
homologous
IL_5TBW_059
NA

IL_29549.9*
1/1/1398:1400,
1/1/1411:1412
Single bulged A
homologous
IL_5TBW_060
NA

IL_80007.16*
1/1/1444:1450,
1/1/2354:2359
7x6 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_061
NA

IL_35110.5*
1/1/2391:2394,
1/1/2986:2988
Major groove platform with extra pair
homologous
IL_5TBW_091
NA

IL_87630.5*
1/1/2824:2826,
1/1/2863:2865

geometric
IL_5TBW_103
NA

IL_05265.1*
1/1/2826:2828,
1/1/2862:2863
Major groove platform
geometric
IL_5TBW_104
NA

IL_80663.10*
1/1/2828:2830,
1/1/2858:2862

geometric
IL_5TBW_105
NA

IL_07931.5*
1/1/2835:2839,
1/1/2849:2853
Triple sheared
homologous
IL_5TBW_106
NA

IL_56467.6*
1/1/2876:2877,
1/1/2949:2951
Major groove platform
homologous
IL_5TBW_107
NA

IL_80663.10*
1/1/2879:2881,
1/1/2943:2947
Isolated non-canonical cWW with bulges
homologous
IL_5TBW_108
NA

IL_01312.13*
1/1/2881:2882,
1/1/2940:2943
Multiple bulged bases
geometric
IL_5TBW_109
NA

IL_13730.12*
1/1/2889:2891,
1/1/2912:2914

geometric
IL_5TBW_110
NA

IL_01312.13*
1/1/2891:2892,
1/1/2909:2912
Minor groove platform with intercalation
homologous
IL_5TBW_111
NA

IL_95601.1*
1/1/2918:2920,
1/1/2926:2928

homologous
IL_5TBW_112
NA

IL_01312.13*
1/1/3004:3007,
1/1/3139:3144
Double sheared
homologous
IL_5TBW_114
NA

IL_09705.7*
1/1/3012:3014,
1/1/3040:3042

homologous
IL_5TBW_115
NA

IL_01312.13*
1/1/3018:3025,
1/1/3030:3036
8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_116
NA

IL_04346.5*
1/1/3047:3051,
1/1/3091:3094
Major groove minor groove platform with tHH
homologous
IL_5TBW_117
NA

IL_28060.3*
1/1/3054:3059,
1/1/3084:3088
UAA/GAN related
homologous
IL_5TBW_118
NA

IL_53523.5*
1/1/3063:3064,
1/1/3077:3080
Multiple bulged bases
homologous
IL_5TBW_119
NA

IL_13730.12*
1/1/3103:3107,
1/1/3127:3131
UAA/GAN
homologous
IL_5TBW_120
NA

IL_53523.5*
1/1/3162:3166,
1/1/3284:3288

homologous
IL_5TBW_121
NA

IL_05867.1*
1/1/3177:3179,
1/1/3210:3211
Single bulged A
homologous
IL_5TBW_123
NA

IL_80007.16*
1/1/3179:3188,
1/1/3204:3210

geometric
IL_5TBW_124
NA

IL_56867.1*
1/1/3193:3194,
1/1/3197:3199
Single bulged U
geometric
IL_5TBW_125
NA

IL_83039.11*
1/1/3225:3229,
1/1/3258:3260

homologous
IL_5TBW_126
NA

IL_50789.1*
1/1/3233:3235,
1/1/3252:3254

homologous
IL_5TBW_127
NA

IL_01312.13*
1/1/3235:3238,
1/1/3249:3252
Tandem non-canonical cWW pairs
geometric
IL_5TBW_128
NA

IL_85877.10*
1/1/3300:3303,
1/1/3311:3314
Tandem non-canonical cWW pairs
homologous
IL_5TBW_129
NA

IL_85877.10*
1/1/3318:3320,
1/1/3387:3388
Single bulged U
homologous
IL_5TBW_130
NA

IL_83039.11*
1/1/3324:3325,
1/1/3381:3383
Single bulged U
homologous
IL_5TBW_131
NA

IL_21340.1*
1/1/3328:3330,
1/1/3373:3378
Isolated non-canonical cWW with bulges
homologous
IL_5TBW_132
NA

IL_55456.1*
1/1/3332:3337,
1/1/3367:3371

homologous
IL_5TBW_133
NA

IL_47002.1*
1/1/3340:3342,
1/1/3363:3364
Single bulged U
homologous
IL_5TBW_134
NA

IL_83039.11*
1/1/3342:3345,
1/1/3360:3363
tWS-tSW
geometric
IL_5TBW_135
NA

IL_09705.7*
1/1/3349:3350,
1/1/3353:3356
Multiple bulged bases
geometric
IL_5TBW_136
NA

IL_13730.12*
1/2/24:26,
1/2/600:601
Single bulged C
homologous
IL_4V88_384
NA

IL_61258.10*
1/2/35:37,
1/2/471:473
UC cWW
geometric
IL_4V88_385
NA

IL_01312.13*
1/2/37:41,
1/2/466:471

geometric
IL_4V88_386
NA

IL_53318.1*
1/2/42:48,
1/2/431:433

geometric
IL_4V88_387
NA

IL_34626.4*
1/2/50:52,
1/2/428:429
Minor groove platform
homologous
IL_4V88_388
NA

IL_06437.11*
1/2/58:63,
1/2/87:89

homologous
IL_4V88_389
NA

IL_96451.1*
1/2/64:69,
1/2/82:86

homologous
IL_4V88_390
NA

IL_59423.1*
1/2/109:112,
1/2/302:305
Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA

IL_85877.10*
1/2/113:116,
1/2/300:301
Multiple bulged bases
homologous
IL_4V88_392
NA

IL_13730.12*
1/2/117:122,
1/2/295:299

homologous
IL_4V88_393
NA

IL_76386.1*
1/2/143:149,
1/2/165:172
tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA

IL_92440.5*
1/2/150:152,
1/2/162:164
Isolated cWH basepair
geometric
IL_6RA4_002
NA

IL_42589.6*
1/2/186:189,
1/2/196:199
Double sheared
homologous
IL_4V88_396
NA

IL_09705.7*
1/2/204:206,
1/2/259:263
Major groove platform with extra cWW
geometric
IL_4V88_397
NA

IL_95485.6*
1/2/206:208,
1/2/257:259

homologous
IL_4V88_398
NA

IL_01312.13*
1/2/265:267,
1/2/288:289
Single bulged A
homologous
IL_4V88_399
NA

IL_80007.16*
1/2/270:273,
1/2/283:285

homologous
IL_4V88_400
NA

IL_05922.1*
1/2/311:316,
1/2/348:355
Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA

IL_29549.9*
1/2/318:323,
1/2/345:346

homologous
IL_4V88_403
NA

IL_55658.1*
1/2/389:391,
1/2/406:408
Isolated cWH basepair
homologous
IL_4V88_405
NA

IL_42589.6*
1/2/411:413,
1/2/420:422
Isolated near basepair
homologous
IL_4V88_406
NA

IL_01312.13*
1/2/439:441,
1/2/463:464
Single bulged U
geometric
IL_4V88_407
NA

IL_83039.11*
1/2/443:448,
1/2/458:461
C-loop with extra cWW pair
homologous
IL_4V88_408
NA

IL_51590.1*
1/2/517:520,
1/2/532:535
Double sheared
geometric
IL_4LFB_060
NA

IL_09705.7*
1/2/616:622,
1/2/1104:1105

homologous
IL_4V88_416
NA

IL_12418.1*
1/2/624:626,
1/2/973:975

homologous
IL_4V88_417
NA

IL_01312.13*
1/2/627:631,
1/2/968:972
tSH-tHW-tHS
homologous
IL_4V88_418
NA

IL_39521.5*
1/2/865:866,
1/2/962:965
Major groove platform; stack outside cWW
geometric
IL_4V88_428
NA

IL_70995.6*
1/2/868:870,
1/2/957:960
Single bulged G, near cWW
geometric
IL_6CZR_128
NA

IL_01312.13*
1/2/871:874,
1/2/953:956
Tandem non-canonical cWW pairs
homologous
IL_4V88_430
NA

IL_85877.10*
1/2/874:878,
1/2/950:953
Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA

IL_85877.10*
1/2/885:888,
1/2/924:927
Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA

IL_85877.10*
1/2/1034:1036,
1/2/1095:1101

homologous
IL_4V88_437
NA

IL_19557.1*
1/2/1041:1044,
1/2/1074:1077
Tandem non-canonical cWW pairs
homologous