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{"num_instances":1,"num_nucleotides":8,"alignment":{"IL_2QBZ_003":["2QBZ|1|X|U|28","2QBZ|1|X|G|29","2QBZ|1|X|A|30","2QBZ|1|X|G|31","2QBZ|1|X|U|153","2QBZ|1|X|A|154","2QBZ|1|X|A|156","2QBZ|1|X|G|157"]},"motif_id":"IL_06808.1","chainbreak":"4","common_name":"Double sheared (tSH-tSH) one bulged base.","annotation":"","bp_signature":"cWW-tSH-tHS-cWW"}, {"num_instances":1,"num_nucleotides":11,"alignment":{"IL_4FAW_003":["4FAW|1|A|C|76","4FAW|1|A|A|77","4FAW|1|A|A|78","4FAW|1|A|G|79","4FAW|1|A|U|103","4FAW|1|A|G|104","4FAW|1|A|A|105","4FAW|1|A|G|108","4FAW|1|A|A|109","4FAW|1|A|A|110","4FAW|1|A|G|111"]},"motif_id":"IL_06847.1","chainbreak":"4","common_name":"Group II Intron IL","annotation":"Two bulged out stacked Purines.","bp_signature":"cWW-R-cSW-R-R-tHS-cWW"}, {"num_instances":3,"num_nucleotides":9,"alignment":{"IL_4BPP_048":["4BPP|1|A|G|963","4BPP|1|A|G|964","4BPP|1|A|G|965","4BPP|1|A|A|966","4BPP|1|A|U|967","4BPP|1|A|C|968","4BPP|1|A|G|992","4BPP|1|A|U|993","4BPP|1|A|C|994"],"IL_3U5F_052":["3U5F|1|6|G|985","3U5F|1|6|G|986","3U5F|1|6|G|987","3U5F|1|6|A|988","3U5F|1|6|U|989","3U5F|1|6|C|990","3U5F|1|6|G|1014","3U5F|1|6|U|1015","3U5F|1|6|C|1016"],"IL_3U5F_025":["3U5F|1|6|C|443","3U5F|1|6|C|444","3U5F|1|6|A|445","3U5F|1|6|A|446","3U5F|1|6|U|447","3U5F|1|6|C|448","3U5F|1|6|G|458","3U5F|1|6|A|460","3U5F|1|6|G|461"]},"motif_id":"IL_07300.2","chainbreak":"4","common_name":"","annotation":"","bp_signature":"cWW-cSH-L-cWW-cWW"}, {"num_instances":4,"num_nucleotides":4,"alignment":{"IL_2AW7_029":["2AW7|1|A|C|569","2AW7|1|A|G|575","2AW7|1|A|C|880","2AW7|1|A|G|881"],"IL_1FJG_022":["1FJG|1|A|C|569","1FJG|1|A|G|575","1FJG|1|A|C|880","1FJG|1|A|G|881"],"IL_3U5H_046":["3U5H|1|5|U|1015","3U5H|1|5|G|1018","3U5H|1|5|U|1034","3U5H|1|5|G|1035"],"IL_2OZB_001":["2OZB|1|C|U|24","2OZB|1|C|G|26","2OZB|1|C|C|47","2OZB|1|C|G|48"]},"motif_id":"IL_08763.1","chainbreak":"2","common_name":"LSU H77 | cWW-bulge-cWW | 16S h19 IL and 23S H41 IL | cWW-bulge-cWW | cWW-bulge-cWW | 16S h19 IL and 23S H41 IL | cWW-bulge-cWW | 16S h19 IL and 23S H41 IL","annotation":"Large bulge loop that makes 3\u00b0 Interactions","bp_signature":"cWW-cWW"}, 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{"num_instances":5,"num_nucleotides":8,"alignment":{"IL_2GDI_008":["2GDI|1|Y|U|59","2GDI|1|Y|G|60","2GDI|1|Y|A|61","2GDI|1|Y|C|63","2GDI|1|Y|G|76","2GDI|1|Y|C|77","2GDI|1|Y|G|78","2GDI|1|Y|A|80"],"IL_2GDI_004":["2GDI|1|X|U|59","2GDI|1|X|G|60","2GDI|1|X|A|61","2GDI|1|X|C|63","2GDI|1|X|G|76","2GDI|1|X|C|77","2GDI|1|X|G|78","2GDI|1|X|A|80"],"IL_3D2V_003":["3D2V|1|A|U|47","3D2V|1|A|G|48","3D2V|1|A|A|49","3D2V|1|A|C|51","3D2V|1|A|G|64","3D2V|1|A|C|65","3D2V|1|A|G|66","3D2V|1|A|A|68"],"IL_3BNP_003":["3BNP|1|B|C|5","3BNP|1|B|A|6","3BNP|1|B|C|7","3BNP|1|B|C|8","3BNP|1|A|G|14","3BNP|1|A|C|15","3BNP|1|A|A|16","3BNP|1|A|G|18"],"IL_4LCK_005":["4LCK|1|C|A|36","4LCK|1|C|U|37","4LCK|1|C|G|38","4LCK|1|C|C|47","4LCK|1|C|G|69","4LCK|1|C|G|70","4LCK|1|C|A|71","4LCK|1|C|U|72"]},"motif_id":"IL_09530.2","chainbreak":"4","common_name":"Double S-turn motif","annotation":"Two different groups. 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This IL is a submotif of a 3WJ. The group is very homogeneous and conserved in Euk, Archael, and Bact LSU.","bp_signature":"cWW-cWW"}, 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Sheared (tSH-tHS)","annotation":"Almost all have zero bulged bases","bp_signature":"cWW-tSH-tHS-cWW"}, 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of Helix 71 (H71) junction in 23S rRNA E.c. H.m. and Tetrahymena | Part of H71 junction in 23S rRNA from T.th.","annotation":"","bp_signature":"cWW-L-R-cHW-L-L-L-L-L-cWW"}, {"num_instances":1,"num_nucleotides":12,"alignment":{"IL_4A1B_016":["4A1B|1|1|G|449","4A1B|1|1|C|450","4A1B|1|1|A|451","4A1B|1|1|U|452","4A1B|1|1|A|453","4A1B|1|1|A|454","4A1B|1|1|G|455","4A1B|1|1|U|523","4A1B|1|1|G|524","4A1B|1|1|U|526","4A1B|1|1|A|527","4A1B|1|1|C|528"]},"motif_id":"IL_15205.1","chainbreak":"4","common_name":"","annotation":"","bp_signature":"cWW-cWW-L-cSW-L-tHS-cWW"}, {"num_instances":5,"num_nucleotides":6,"alignment":{"IL_2GDI_005":["2GDI|1|Y|G|18","2GDI|1|Y|G|19","2GDI|1|Y|U|20","2GDI|1|Y|A|45","2GDI|1|Y|A|47","2GDI|1|Y|C|48"],"IL_2GDI_001":["2GDI|1|X|G|18","2GDI|1|X|G|19","2GDI|1|X|U|20","2GDI|1|X|A|45","2GDI|1|X|A|47","2GDI|1|X|C|48"],"IL_4A1B_107":["4A1B|1|1|G|2851","4A1B|1|1|A|2852","4A1B|1|1|U|2853","4A1B|1|1|G|2812","4A1B|1|1|C|2813","4A1B|1|1|U|2814"],"IL_3U5H_109":["3U5H|1|5|G|2863","3U5H|1|5|A|2864","3U5H|1|5|U|2865","3U5H|1|5|G|2824","3U5H|1|5|C|2825","3U5H|1|5|U|2826"],"IL_3BNL_002":["3BNL|1|A|C|6","3BNL|1|A|A|7","3BNL|1|A|C|8","3BNL|1|B|G|15","3BNL|1|B|A|17","3BNL|1|B|G|18"]},"motif_id":"IL_16029.1","chainbreak":"3","common_name":"cWW AG or water inserted cWW Y-Y. | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75)","annotation":"There are also a small number of poorly modeled motifs and motifs with different central \nbasepairs. | More than one motif | Single sheared with 1 to 3 bulged bases. More than one Motif. | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | Single sheared with 1 to 3 bulged bases. More than one Motif.","bp_signature":"cWW-cWW-cWW"}, {"num_instances":4,"num_nucleotides":5,"alignment":{"IL_1U6B_010":["1U6B|1|B|A|150","1U6B|1|B|G|151","1U6B|1|B|U|160","1U6B|1|B|A|161","1U6B|1|B|U|162"],"IL_4FNJ_004":["4FNJ|1|A|A|11","4FNJ|1|A|G|12","4FNJ|1|A|U|25","4FNJ|1|A|A|26","4FNJ|1|A|U|27"],"IL_1NTB_001":["1NTB|1|B|G|114","1NTB|1|B|G|115","1NTB|1|A|C|5","1NTB|1|A|G|6","1NTB|1|A|C|7"],"IL_1VW3_024":["1VW3|1|A|U|738","1VW3|1|A|A|740","1VW3|1|A|U|855","1VW3|1|A|A|856","1VW3|1|A|A|858"]},"motif_id":"IL_16166.5","chainbreak":"2","common_name":"23S H91 IL","annotation":"More than one motif","bp_signature":"cWW-L-cWW"}, {"num_instances":2,"num_nucleotides":25,"alignment":{"IL_3U5H_057":["3U5H|1|5|G|1194","3U5H|1|5|A|1195","3U5H|1|5|A|1197","3U5H|1|5|C|1198","3U5H|1|5|C|1199","3U5H|1|5|A|1200","3U5H|1|5|C|1201","3U5H|1|5|A|1202","3U5H|1|5|A|1203","3U5H|1|5|A|1204","3U5H|1|5|A|1205","3U5H|1|5|U|1299","3U5H|1|5|G|1300","3U5H|1|5|A|1301","3U5H|1|5|A|1303","3U5H|1|5|A|1304","3U5H|1|5|G|1306","3U5H|1|5|G|1307","3U5H|1|5|A|1308","3U5H|1|5|U|1309","3U5H|1|5|G|1310","3U5H|1|5|G|1311","3U5H|1|5|C|1312","3U5H|1|5|G|1313","3U5H|1|5|C|1314"],"IL_4A1B_058":["4A1B|1|1|G|1221","4A1B|1|1|A|1222","4A1B|1|1|A|1224","4A1B|1|1|C|1225","4A1B|1|1|C|1226","4A1B|1|1|A|1227","4A1B|1|1|C|1228","4A1B|1|1|A|1229","4A1B|1|1|A|1230","4A1B|1|1|A|1231","4A1B|1|1|A|1232","4A1B|1|1|U|1326","4A1B|1|1|G|1327","4A1B|1|1|A|1328","4A1B|1|1|A|1330","4A1B|1|1|A|1331","4A1B|1|1|G|1333","4A1B|1|1|G|1334","4A1B|1|1|A|1335","4A1B|1|1|U|1336","4A1B|1|1|G|1337","4A1B|1|1|G|1338","4A1B|1|1|C|1339","4A1B|1|1|G|1340","4A1B|1|1|C|1341"]},"motif_id":"IL_16330.1","chainbreak":"2","common_name":"","annotation":"","bp_signature":"cWW-cWW-L-R-R-R-R-R-R-R-R-R-L-L-L-L-L-tHH-tHS-cWW"}, {"num_instances":2,"num_nucleotides":14,"alignment":{"IL_1FJG_031":["1FJG|1|A|G|683","1FJG|1|A|A|684","1FJG|1|A|G|685","1FJG|1|A|U|686","1FJG|1|A|A|687","1FJG|1|A|G|688","1FJG|1|A|C|699","1FJG|1|A|G|700","1FJG|1|A|C|701","1FJG|1|A|G|703","1FJG|1|A|A|704","1FJG|1|A|U|705","1FJG|1|A|A|706","1FJG|1|A|C|707"],"IL_4BPP_047":["4BPP|1|A|A|872","4BPP|1|A|G|873","4BPP|1|A|U|874","4BPP|1|A|C|875","4BPP|1|A|A|876","4BPP|1|A|G|877","4BPP|1|A|C|888","4BPP|1|A|U|889","4BPP|1|A|U|890","4BPP|1|A|G|892","4BPP|1|A|A|893","4BPP|1|A|U|894","4BPP|1|A|U|895","4BPP|1|A|U|896"]},"motif_id":"IL_16415.3","chainbreak":"6","common_name":"SSU Helix 23 (h23) Kink-turn T. thermophilus","annotation":"has additional cWW AA pair","bp_signature":"cWW-L-R-R-L-tWH-tHS-tSS-tSS-R-cWW"}, {"num_instances":0,"num_nucleotides":0,"alignment":null,"motif_id":"IL_16921.1","chainbreak":"6","common_name":"","annotation":"","bp_signature":"cWW-cSH-L-L-L-cWW-cWW"}, {"num_instances":2,"num_nucleotides":8,"alignment":{"IL_3U5F_077":["3U5F|1|6|G|1488","3U5F|1|6|U|1489","3U5F|1|6|C|1490","3U5F|1|6|C|1494","3U5F|1|6|G|1513","3U5F|1|6|U|1514","3U5F|1|6|A|1515","3U5F|1|6|C|1518"],"IL_4BPP_076":["4BPP|1|A|G|1459","4BPP|1|A|U|1460","4BPP|1|A|U|1462","4BPP|1|A|C|1465","4BPP|1|A|G|1485","4BPP|1|A|U|1486","4BPP|1|A|A|1487","4BPP|1|A|C|1490"]},"motif_id":"IL_16977.1","chainbreak":"6","common_name":"","annotation":"","bp_signature":"cWW-tSS-L-cSS-R-L-cWW"}, {"num_instances":1,"num_nucleotides":17,"alignment":{"IL_4A1B_002":["4A1B|1|1|C|29","4A1B|1|1|U|30","4A1B|1|1|G|31","4A1B|1|1|A|32","4A1B|1|1|A|33","4A1B|1|1|C|34","4A1B|1|1|U|35","4A1B|1|1|U|36","4A1B|1|1|A|43","4A1B|1|1|U|44","4A1B|1|1|C|45","4A1B|1|1|A|46","4A1B|1|1|G|47","4A1B|1|1|U|48","4A1B|1|1|A|49","4A1B|1|1|A|50","4A1B|1|1|G|51"]},"motif_id":"IL_17682.1","chainbreak":"6","common_name":"Sarcin-ricin motif from Eukaryal LSU Helix 11","annotation":"LSU H11 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sheared with inserted, unpaired purine. | Leadzyme Motif. 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In 3UXR G2458 is part of motif. This group is heterogeneous. 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unpaired intercalated base, consensus A","annotation":"","bp_signature":"cWW-R-cWW"}, {"num_instances":4,"num_nucleotides":6,"alignment":{"IL_3U5H_138":["3U5H|1|5|G|3328","3U5H|1|5|U|3329","3U5H|1|5|A|3330","3U5H|1|5|U|3373","3U5H|1|5|U|3374","3U5H|1|5|C|3378"],"IL_4A1B_129":["4A1B|1|1|G|3286","4A1B|1|1|U|3287","4A1B|1|1|A|3288","4A1B|1|1|U|3329","4A1B|1|1|U|3330","4A1B|1|1|C|3334"],"IL_2Y9B_001":["2Y9B|1|V|U|825","2Y9B|1|V|U|826","2Y9B|1|V|G|827","2Y9B|1|V|C|802","2Y9B|1|V|C|803","2Y9B|1|V|G|804"],"IL_1S72_085":["1S72|1|0|U|2545","1S72|1|0|U|2546","1S72|1|0|C|2547","1S72|1|0|G|2609","1S72|1|0|U|2610","1S72|1|0|G|2613"]},"motif_id":"IL_56594.1","chainbreak":"3","common_name":"cWW AG or UU","annotation":"More than one motif","bp_signature":"cWW-cWW-cWW"}, {"num_instances":0,"num_nucleotides":0,"alignment":null,"motif_id":"IL_57285.1","chainbreak":"3","common_name":"","annotation":"","bp_signature":"cWW-L-L-tWW-L-L-L-cWS-cWW"}, 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triple and Wobble. SSU Helix 44 (h44) IL1. | Tandem sheared with inserted, unpaired purine. | Leadzyme Motif. SSU Decoding site motif, extended. | cWW-L-cWW-cWW | Leadzyme Motif. LSU H101 IL2. SSU Decoding site. | Tandem sheared with inserted, unpaired purine. | cHS-cWS triple and Wobble. SSU Helix 44 (h44) IL1.","annotation":"This Motif has at least two different motifs. | More than one motif | More than one motif group. | More than one motif group. | This Motif has at least two different motifs.","bp_signature":"cWW-cWW-cSW-cWW-cSH-cWW"}, {"num_instances":4,"num_nucleotides":6,"alignment":{"IL_4M4O_004":["4M4O|1|B|G|26","4M4O|1|B|A|27","4M4O|1|B|G|28","4M4O|1|B|C|39","4M4O|1|B|A|40","4M4O|1|B|C|41"],"IL_4M6D_013":["4M6D|1|H|G|26","4M6D|1|H|A|27","4M6D|1|H|G|28","4M6D|1|H|C|39","4M6D|1|H|A|40","4M6D|1|H|C|41"],"IL_3U5F_012":["3U5F|1|6|U|150","3U5F|1|6|G|151","3U5F|1|6|U|152","3U5F|1|6|A|162","3U5F|1|6|G|163","3U5F|1|6|A|164"],"IL_4JK0_003":["4JK0|1|B|C|511||||4_555","4JK0|1|B|U|512||||4_555","4JK0|1|B|G|513||||4_555","4JK0|1|B|C|511","4JK0|1|B|U|512","4JK0|1|B|G|513"]},"motif_id":"IL_66654.1","chainbreak":"3","common_name":"Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75)","annotation":"More than one motif | Single sheared with 1 to 3 bulged bases. More than one Motif. | More than one motif | Single sheared with 1 to 3 bulged bases. More than one Motif. | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | Single sheared with 1 to 3 bulged bases. More than one Motif. | More than one motif | Single sheared with 1 to 3 bulged bases. More than one Motif. | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | Single sheared with 1 to 3 bulged bases. More than one Motif.","bp_signature":"cWW-L-R-cWW"}, {"num_instances":1,"num_nucleotides":13,"alignment":{"IL_2AW7_033":["2AW7|1|A|U|605","2AW7|1|A|G|606","2AW7|1|A|A|607","2AW7|1|A|A|608","2AW7|1|A|A|609","2AW7|1|A|U|610","2AW7|1|A|C|611","2AW7|1|A|C|612","2AW7|1|A|G|628","2AW7|1|A|A|629","2AW7|1|A|A|630","2AW7|1|A|C|631","2AW7|1|A|G|633"]},"motif_id":"IL_66744.1","chainbreak":"3","common_name":"SSU Helix 21 (h21) IL2 E.coli","annotation":"","bp_signature":"cWW-L-R-R-L-L-L-L-cWW-cWW"}, {"num_instances":2,"num_nucleotides":10,"alignment":{"IL_2QBG_002":["2QBG|1|A|G|23","2QBG|1|A|G|24","2QBG|1|A|C|26","2QBG|1|A|C|27","2QBG|1|A|C|28","2QBG|1|A|G|56","2QBG|1|A|A|57","2QBG|1|A|A|58","2QBG|1|A|A|59","2QBG|1|A|C|60"],"IL_4IOA_105":["4IOA|1|Y|G|25","4IOA|1|Y|G|26","4IOA|1|Y|A|28","4IOA|1|Y|C|29","4IOA|1|Y|C|30","4IOA|1|Y|G|58","4IOA|1|Y|A|59","4IOA|1|Y|A|60","4IOA|1|Y|A|61","4IOA|1|Y|C|62"]},"motif_id":"IL_67024.1","chainbreak":"5","common_name":"","annotation":"","bp_signature":"cWW-R-R-R-tSW-L-cWW"}, {"num_instances":15,"num_nucleotides":6,"alignment":{"IL_4NVV_044":["4NVV|1|A|C|1241","4NVV|1|A|G|1242","4NVV|1|A|U|1243","4NVV|1|A|A|1293","4NVV|1|A|U|1295","4NVV|1|A|G|1296"],"IL_4IOA_043":["4IOA|1|X|C|1210","4IOA|1|X|G|1211","4IOA|1|X|U|1212","4IOA|1|X|A|1260","4IOA|1|X|U|1262","4IOA|1|X|G|1263"],"IL_2QBG_045":["2QBG|1|B|C|1196","2QBG|1|B|G|1197","2QBG|1|B|U|1198","2QBG|1|B|A|1247","2QBG|1|B|U|1249","2QBG|1|B|G|1250"],"IL_1S72_046":["1S72|1|0|C|1301","1S72|1|0|G|1302","1S72|1|0|C|1303","1S72|1|0|G|1351","1S72|1|0|C|1353","1S72|1|0|G|1354"],"IL_3U5H_062":["3U5H|1|5|C|1376","3U5H|1|5|G|1377","3U5H|1|5|U|1378","3U5H|1|5|A|1428","3U5H|1|5|U|1430","3U5H|1|5|G|1431"],"IL_1VW3_035":["1VW3|1|A|C|1230","1VW3|1|A|A|1231","1VW3|1|A|U|1232","1VW3|1|A|A|1280","1VW3|1|A|A|1282","1VW3|1|A|G|1283"],"IL_3U5H_052":["3U5H|1|5|A|1133","3U5H|1|5|G|1134","3U5H|1|5|A|1135","3U5H|1|5|U|1123","3U5H|1|5|U|1124","3U5H|1|5|U|1125"],"IL_4NVV_032":["4NVV|1|A|U|951","4NVV|1|A|G|952","4NVV|1|A|U|953","4NVV|1|A|A|917","4NVV|1|A|U|918","4NVV|1|A|A|919"],"IL_4BPP_065":["4BPP|1|A|U|1244","4BPP|1|A|A|1247","4BPP|1|A|U|1248","4BPP|1|A|A|1407","4BPP|1|A|U|1408","4BPP|1|A|G|1409"],"IL_2AW7_049":["2AW7|1|A|U|1052","2AW7|1|A|A|1055","2AW7|1|A|U|1056","2AW7|1|A|A|1204","2AW7|1|A|U|1205","2AW7|1|A|G|1206"],"IL_3U5F_067":["3U5F|1|6|U|1272","3U5F|1|6|A|1275","3U5F|1|6|U|1276","3U5F|1|6|A|1436","3U5F|1|6|U|1437","3U5F|1|6|G|1438"],"IL_1FJG_041":["1FJG|1|A|U|1052","1FJG|1|A|A|1055","1FJG|1|A|U|1056","1FJG|1|A|A|1204","1FJG|1|A|U|1205","1FJG|1|A|G|1206"],"IL_3U5F_065":["3U5F|1|6|A|1234","3U5F|1|6|C|1235","3U5F|1|6|A|1236","3U5F|1|6|U|1249","3U5F|1|6|U|1250","3U5F|1|6|U|1251"],"IL_3U5F_093":["3U5F|1|6|C|1711","3U5F|1|6|A|1712","3U5F|1|6|G|1713","3U5F|1|6|U|1688","3U5F|1|6|A|1689","3U5F|1|6|G|1690"],"IL_1VW3_070":["1VW3|1|A|U|2437","1VW3|1|A|U|2439","1VW3|1|A|G|2440","1VW3|1|A|C|2608","1VW3|1|A|G|2609","1VW3|1|A|A|2610"]},"motif_id":"IL_67813.1","chainbreak":"3","common_name":"cWW AG or water inserted cWW Y-Y. | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | cWW AG or UU | cWH basepair with syn base | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif | 16S h34 ILa : Part of larger motif","annotation":"More than one motif | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | Single sheared with 1 to 3 bulged bases. More than one Motif. | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | There are also a small number of poorly modeled motifs and motifs with different central \nbasepairs. | More than one motif | Single sheared with 1 to 3 bulged bases. More than one Motif. | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | Single sheared with 1 to 3 bulged bases. More than one Motif.","bp_signature":"cWW-cWS-cWW"}, {"num_instances":3,"num_nucleotides":5,"alignment":{"IL_4NVV_057":["4NVV|1|A|C|1509","4NVV|1|A|C|1510","4NVV|1|A|G|1495","4NVV|1|A|A|1496","4NVV|1|A|G|1497"],"IL_4FAW_005":["4FAW|1|A|G|128","4FAW|1|A|G|129","4FAW|1|A|U|234","4FAW|1|A|G|236","4FAW|1|A|U|238"],"IL_3RW6_003":["3RW6|1|H|A|20","3RW6|1|H|G|21","3RW6|1|H|U|38","3RW6|1|H|A|40","3RW6|1|H|U|41"]},"motif_id":"IL_67887.2","chainbreak":"2","common_name":"","annotation":"","bp_signature":"cWW-tSH-cWW"}, {"num_instances":1,"num_nucleotides":6,"alignment":{"IL_3U5H_107":["3U5H|1|5|G|2770","3U5H|1|5|U|2771","3U5H|1|5|C|2772","3U5H|1|5|C|2773","3U5H|1|5|G|2787","3U5H|1|5|C|2788"]},"motif_id":"IL_68767.1","chainbreak":"2","common_name":"","annotation":"","bp_signature":"cWW-L-L-cWW"}, {"num_instances":0,"num_nucleotides":0,"alignment":null,"motif_id":"IL_68827.1","chainbreak":"2","common_name":"Reverse Kink-Turn","annotation":"Group I Intron","bp_signature":"cWW-tSH-tHH-R-R-R-cWW"}, {"num_instances":3,"num_nucleotides":7,"alignment":{"IL_4A1B_070":["4A1B|1|1|G|1648","4A1B|1|1|G|1649","4A1B|1|1|U|1650","4A1B|1|1|A|1651","4A1B|1|1|U|1843","4A1B|1|1|U|1844","4A1B|1|1|C|1846"],"IL_2FQN_002":["2FQN|1|A|C|7","2FQN|1|A|G|8","2FQN|1|A|C|9","2FQN|1|A|U|10","2FQN|1|B|A|38","2FQN|1|B|A|39","2FQN|1|B|G|42"],"IL_3U5F_017":["3U5F|1|6|C|270","3U5F|1|6|A|271","3U5F|1|6|U|272","3U5F|1|6|G|273","3U5F|1|6|U|283","3U5F|1|6|G|284","3U5F|1|6|G|285"]},"motif_id":"IL_69106.2","chainbreak":"4","common_name":"Leadzyme Motif. SSU Decoding site motif, extended. | cWW-L-cWW-cWW | Leadzyme Motif. SSU Decoding site motif, extended. | cWW-L-cWW-cWW | Leadzyme Motif. LSU H101 IL2. SSU Decoding site.","annotation":"More than one motif","bp_signature":"cWW-L-cWW-cWW"}, {"num_instances":3,"num_nucleotides":8,"alignment":{"IL_4NVV_101":["4NVV|1|A|U|2699","4NVV|1|A|U|2700","4NVV|1|A|C|2703","4NVV|1|A|G|2731","4NVV|1|A|G|2732","4NVV|1|A|U|2733","4NVV|1|A|A|2734","4NVV|1|A|G|2735"],"IL_4IOA_098":["4IOA|1|X|U|2666","4IOA|1|X|C|2667","4IOA|1|X|C|2670","4IOA|1|X|G|2698","4IOA|1|X|G|2699","4IOA|1|X|U|2700","4IOA|1|X|A|2701","4IOA|1|X|G|2702"],"IL_2QBG_103":["2QBG|1|B|U|2687","2QBG|1|B|G|2688","2QBG|1|B|C|2691","2QBG|1|B|G|2718","2QBG|1|B|G|2719","2QBG|1|B|U|2720","2QBG|1|B|A|2721","2QBG|1|B|G|2722"]},"motif_id":"IL_69536.2","chainbreak":"3","common_name":"LSU Helix 96 (H96) IL2","annotation":"","bp_signature":"cWW-tSH-R-R-cWW"}, {"num_instances":6,"num_nucleotides":10,"alignment":{"IL_4NVV_110":["4NVV|1|B|U|34","4NVV|1|B|U|35","4NVV|1|B|C|36","4NVV|1|B|C|37","4NVV|1|B|C|38","4NVV|1|B|G|44","4NVV|1|B|A|45","4NVV|1|B|A|46","4NVV|1|B|C|47","4NVV|1|B|A|48"],"IL_1S72_102":["1S72|1|9|U|33","1S72|1|9|A|34","1S72|1|9|C|35","1S72|1|9|C|36","1S72|1|9|C|37","1S72|1|9|G|43","1S72|1|9|A|44","1S72|1|9|A|45","1S72|1|9|C|46","1S72|1|9|A|47"],"IL_1MJI_002":["1MJI|1|C|A|34","1MJI|1|C|C|35","1MJI|1|C|C|36","1MJI|1|C|C|37","1MJI|1|C|C|38","1MJI|1|C|G|44","1MJI|1|C|A|45","1MJI|1|C|A|46","1MJI|1|C|C|47","1MJI|1|C|U|48"],"IL_4A1C_007":["4A1C|1|3|A|32","4A1C|1|3|U|33","4A1C|1|3|C|34","4A1C|1|3|C|35","4A1C|1|3|C|36","4A1C|1|3|G|41","4A1C|1|3|A|42","4A1C|1|3|A|43","4A1C|1|3|C|44","4A1C|1|3|U|45"],"IL_3U5H_147":["3U5H|1|7|U|32","3U5H|1|7|U|33","3U5H|1|7|C|34","3U5H|1|7|C|35","3U5H|1|7|C|36","3U5H|1|7|G|41","3U5H|1|7|A|42","3U5H|1|7|U|43","3U5H|1|7|C|44","3U5H|1|7|A|45"],"IL_2QBG_004":["2QBG|1|A|A|34","2QBG|1|A|C|35","2QBG|1|A|C|36","2QBG|1|A|C|37","2QBG|1|A|C|38","2QBG|1|A|G|44","2QBG|1|A|A|45","2QBG|1|A|A|46","2QBG|1|A|C|47","2QBG|1|A|U|48"]},"motif_id":"IL_70237.4","chainbreak":"5","common_name":"","annotation":"","bp_signature":"cWW-L-L-cWS-tSW-R-R-cWW"}, {"num_instances":2,"num_nucleotides":11,"alignment":{"IL_4M4O_003":["4M4O|1|B|U|15","4M4O|1|B|A|16","4M4O|1|B|A|17","4M4O|1|B|A|18","4M4O|1|B|G|19","4M4O|1|B|A|20","4M4O|1|B|G|21","4M4O|1|B|U|22","4M4O|1|B|G|23","4M4O|1|B|C|44","4M4O|1|B|A|45"],"IL_4M6D_012":["4M6D|1|H|U|15","4M6D|1|H|A|16","4M6D|1|H|A|17","4M6D|1|H|A|18","4M6D|1|H|G|19","4M6D|1|H|A|20","4M6D|1|H|G|21","4M6D|1|H|U|22","4M6D|1|H|G|23","4M6D|1|H|C|44","4M6D|1|H|A|45"]},"motif_id":"IL_70401.1","chainbreak":"9","common_name":"","annotation":"","bp_signature":"cWW-L-L-tWW-L-L-L-cWW"}, {"num_instances":5,"num_nucleotides":13,"alignment":{"IL_4IOA_065":["4IOA|1|X|U|1789","4IOA|1|X|G|1790","4IOA|1|X|C|1791","4IOA|1|X|A|1793","4IOA|1|X|A|1794","4IOA|1|X|C|1795","4IOA|1|X|G|1805","4IOA|1|X|G|1806","4IOA|1|X|A|1807","4IOA|1|X|G|1809","4IOA|1|X|U|1810","4IOA|1|X|A|1811","4IOA|1|X|A|1813"],"IL_2QBG_071":["2QBG|1|B|U|1798","2QBG|1|B|G|1799","2QBG|1|B|C|1800","2QBG|1|B|A|1802","2QBG|1|B|A|1803","2QBG|1|B|C|1804","2QBG|1|B|G|1813","2QBG|1|B|G|1814","2QBG|1|B|A|1815","2QBG|1|B|G|1817","2QBG|1|B|U|1818","2QBG|1|B|A|1819","2QBG|1|B|A|1821"],"IL_4NVV_070":["4NVV|1|A|U|1829","4NVV|1|A|G|1830","4NVV|1|A|C|1831","4NVV|1|A|A|1833","4NVV|1|A|A|1834","4NVV|1|A|C|1835","4NVV|1|A|G|1844","4NVV|1|A|G|1845","4NVV|1|A|A|1846","4NVV|1|A|G|1848","4NVV|1|A|U|1849","4NVV|1|A|A|1850","4NVV|1|A|A|1852"],"IL_1VW3_053":["1VW3|1|A|U|1705","1VW3|1|A|G|1706","1VW3|1|A|C|1707","1VW3|1|A|G|1709","1VW3|1|A|A|1710","1VW3|1|A|A|1711","1VW3|1|A|U|1721","1VW3|1|A|U|1722","1VW3|1|A|A|1723","1VW3|1|A|G|1725","1VW3|1|A|U|1726","1VW3|1|A|A|1727","1VW3|1|A|A|1729"],"IL_1S72_065":["1S72|1|0|C|1854","1S72|1|0|G|1855","1S72|1|0|C|1856","1S72|1|0|A|1858","1S72|1|0|A|1859","1S72|1|0|U|1860","1S72|1|0|A|1869","1S72|1|0|C|1870","1S72|1|0|U|1871","1S72|1|0|G|1873","1S72|1|0|U|1874","1S72|1|0|A|1875","1S72|1|0|G|1877"]},"motif_id":"IL_71229.1","chainbreak":"6","common_name":"","annotation":"","bp_signature":"cWW-cSS-tSS-tHH-tWW-tHH-tHS-cWW"}, {"num_instances":1,"num_nucleotides":14,"alignment":{"IL_3U5H_040":["3U5H|1|5|G|991","3U5H|1|5|A|992","3U5H|1|5|G|993","3U5H|1|5|G|994","3U5H|1|5|U|995","3U5H|1|5|A|996","3U5H|1|5|A|997","3U5H|1|5|U|1052","3U5H|1|5|A|1053","3U5H|1|5|A|1054","3U5H|1|5|A|1055","3U5H|1|5|U|1056","3U5H|1|5|A|1057","3U5H|1|5|U|1058"]},"motif_id":"IL_71685.1","chainbreak":"6","common_name":"Sarcin-like with an intercalated basepair","annotation":"","bp_signature":"cWW-cWW-bif-R-cSH-tWH-tHS-cWW"}, {"num_instances":8,"num_nucleotides":6,"alignment":{"IL_1S72_062":["1S72|1|0|A|1747","1S72|1|0|U|1748","1S72|1|0|G|1752","1S72|1|0|C|2031","1S72|1|0|U|2032","1S72|1|0|U|2034"],"IL_4A1B_081":["4A1B|1|1|A|1925","4A1B|1|1|G|1926","4A1B|1|1|G|1930","4A1B|1|1|C|2328","4A1B|1|1|U|2329","4A1B|1|1|U|2331"],"IL_3U5H_085":["3U5H|1|5|A|1901","3U5H|1|5|G|1902","3U5H|1|5|G|1906","3U5H|1|5|C|2333","3U5H|1|5|U|2334","3U5H|1|5|U|2336"],"IL_2QBG_040":["2QBG|1|B|G|1031","2QBG|1|B|A|1032","2QBG|1|B|G|1034","2QBG|1|B|C|1121","2QBG|1|B|G|1122","2QBG|1|B|C|1123"],"IL_4IOA_037":["4IOA|1|X|G|1042","4IOA|1|X|A|1043","4IOA|1|X|G|1045","4IOA|1|X|C|1132","4IOA|1|X|G|1133","4IOA|1|X|C|1134"],"IL_4A1C_001":["4A1C|1|2|C|67","4A1C|1|2|A|68","4A1C|1|2|A|69","4A1C|1|2|U|94","4A1C|1|2|C|95","4A1C|1|2|G|97"],"IL_3U5F_006":["3U5F|1|6|U|58","3U5F|1|6|C|59","3U5F|1|6|G|63","3U5F|1|6|C|87","3U5F|1|6|U|88","3U5F|1|6|G|89"],"IL_4BPP_006":["4BPP|1|A|U|57","4BPP|1|A|G|58","4BPP|1|A|G|62","4BPP|1|A|C|83","4BPP|1|A|U|84","4BPP|1|A|G|85"]},"motif_id":"IL_71837.1","chainbreak":"3","common_name":"cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | cWH basepair with syn base | cWW AG or water inserted cWW Y-Y. | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75)","annotation":"More than one motif | More than one motif | Single sheared with 1 to 3 bulged bases. More than one Motif. | More than one motif | Single sheared with 1 to 3 bulged bases. More than one Motif. | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | Single sheared with 1 to 3 bulged bases. More than one Motif. | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | Single sheared with 1 to 3 bulged bases. More than one Motif. | There are also a small number of poorly modeled motifs and motifs with different central \nbasepairs. | More than one motif | Single sheared with 1 to 3 bulged bases. More than one Motif. | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | Single sheared with 1 to 3 bulged bases. More than one Motif. | More than one motif | Single sheared with 1 to 3 bulged bases. More than one Motif.","bp_signature":"cWW-cWW-cWW"}, {"num_instances":6,"num_nucleotides":12,"alignment":{"IL_3U5H_086":["3U5H|1|5|C|1918","3U5H|1|5|G|1919","3U5H|1|5|U|1920","3U5H|1|5|A|1921","3U5H|1|5|A|1922","3U5H|1|5|C|1923","3U5H|1|5|G|1928","3U5H|1|5|G|1929","3U5H|1|5|A|1930","3U5H|1|5|A|1932","3U5H|1|5|A|1933","3U5H|1|5|G|1934"],"IL_4IOA_063":["4IOA|1|X|C|1703","4IOA|1|X|G|1704","4IOA|1|X|U|1705","4IOA|1|X|A|1706","4IOA|1|X|A|1707","4IOA|1|X|C|1708","4IOA|1|X|G|1713","4IOA|1|X|A|1714","4IOA|1|X|A|1715","4IOA|1|X|A|1717","4IOA|1|X|A|1718","4IOA|1|X|G|1719"],"IL_2QBG_066":["2QBG|1|B|C|1686","2QBG|1|B|G|1687","2QBG|1|B|U|1688","2QBG|1|B|A|1689","2QBG|1|B|A|1690","2QBG|1|B|C|1691","2QBG|1|B|G|1696","2QBG|1|B|G|1697","2QBG|1|B|A|1698","2QBG|1|B|A|1700","2QBG|1|B|A|1701","2QBG|1|B|G|1702"],"IL_1S72_063":["1S72|1|0|C|1764","1S72|1|0|G|1765","1S72|1|0|U|1766","1S72|1|0|A|1767","1S72|1|0|C|1768","1S72|1|0|C|1769","1S72|1|0|G|1774","1S72|1|0|A|1775","1S72|1|0|A|1776","1S72|1|0|A|1778","1S72|1|0|A|1779","1S72|1|0|G|1780"],"IL_4A1B_082":["4A1B|1|1|C|1942","4A1B|1|1|G|1943","4A1B|1|1|U|1944","4A1B|1|1|A|1945","4A1B|1|1|A|1946","4A1B|1|1|C|1947","4A1B|1|1|G|1952","4A1B|1|1|G|1953","4A1B|1|1|A|1954","4A1B|1|1|A|1956","4A1B|1|1|A|1957","4A1B|1|1|G|1958"],"IL_4NVV_068":["4NVV|1|A|C|1733","4NVV|1|A|G|1734","4NVV|1|A|U|1735","4NVV|1|A|A|1736","4NVV|1|A|A|1737","4NVV|1|A|C|1738","4NVV|1|A|G|1743","4NVV|1|A|G|1744","4NVV|1|A|A|1745","4NVV|1|A|A|1747","4NVV|1|A|A|1748","4NVV|1|A|G|1749"]},"motif_id":"IL_72158.4","chainbreak":"6","common_name":"LSU Helix 62 (H62) IL","annotation":"one bulged base","bp_signature":"cWW-tSH-tSH-tHH-tHS-cWW"}, {"num_instances":1,"num_nucleotides":11,"alignment":{"IL_4NVV_062":["4NVV|1|A|G|1572","4NVV|1|A|G|1573","4NVV|1|A|A|1574","4NVV|1|A|A|1575","4NVV|1|A|G|1576","4NVV|1|A|U|1587","4NVV|1|A|G|1588","4NVV|1|A|A|1589","4NVV|1|A|A|1591","4NVV|1|A|A|1592","4NVV|1|A|C|1593"]},"motif_id":"IL_72293.1","chainbreak":"6","common_name":"","annotation":"","bp_signature":"cWW-tSH-R-tHH-tHS-cWW"}, {"num_instances":3,"num_nucleotides":6,"alignment":{"IL_2ZI0_001":["2ZI0|1|C|U|9","2ZI0|1|C|U|10","2ZI0|1|C|A|11","2ZI0|1|D|U|9","2ZI0|1|D|U|10","2ZI0|1|D|A|11"],"IL_4J39_001":["4J39|1|B|G|9","4J39|1|B|C|10","4J39|1|B|C|11","4J39|1|B|G|9||||4_555","4J39|1|B|C|10||||4_555","4J39|1|B|C|11||||4_555"],"IL_4ERD_003":["4ERD|1|C|G|146","4ERD|1|C|G|147","4ERD|1|C|A|148","4ERD|1|D|U|119","4ERD|1|D|C|120","4ERD|1|D|C|123"]},"motif_id":"IL_72641.1","chainbreak":"3","common_name":"cWW AG or UU | cWH basepair with syn base | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif","annotation":"More than one motif | This should be combined with the neighboring IL into one larger motif having two triples in major groove. | Single sheared with 1 to 3 bulged bases. More than one Motif.","bp_signature":"cWW-L-R-cWW"}, {"num_instances":7,"num_nucleotides":6,"alignment":{"IL_3UCZ_004":["3UCZ|1|R|G|76","3UCZ|1|R|U|77","3UCZ|1|R|A|61","3UCZ|1|R|A|62","3UCZ|1|R|A|63","3UCZ|1|R|C|64"],"IL_3IWN_005":["3IWN|1|A|G|71","3IWN|1|A|U|72","3IWN|1|A|A|51","3IWN|1|A|A|52","3IWN|1|A|A|53","3IWN|1|A|C|54"],"IL_2AW7_054":["2AW7|1|A|G|1142","2AW7|1|A|G|1143","2AW7|1|A|C|1129","2AW7|1|A|A|1130","2AW7|1|A|G|1131","2AW7|1|A|C|1132"],"IL_2AW7_013":["2AW7|1|A|G|213","2AW7|1|A|C|214","2AW7|1|A|G|203","2AW7|1|A|G|204","2AW7|1|A|A|205","2AW7|1|A|C|206"],"IL_4A1B_066":["4A1B|1|1|G|1539","4A1B|1|1|U|1541","4A1B|1|1|A|1527","4A1B|1|1|A|1529","4A1B|1|1|A|1530","4A1B|1|1|C|1531"],"IL_2QBG_003":["2QBG|1|A|C|30","2QBG|1|A|C|31","2QBG|1|A|G|51","2QBG|1|A|A|52","2QBG|1|A|A|53","2QBG|1|A|G|54"],"IL_2AW7_044":["2AW7|1|A|G|933","2AW7|1|A|A|935","2AW7|1|A|U|1380","2AW7|1|A|C|1382","2AW7|1|A|C|1383","2AW7|1|A|C|1384"]},"motif_id":"IL_73000.2","chainbreak":"2","common_name":"cHS-cWS","annotation":"SSU Helix 39 (h39) IL and 5S Loop B2 with AA Bulge","bp_signature":"cWW-cSW-cSH-cWW"}, 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More than one Motif. | There are also a small number of poorly modeled motifs and motifs with different central \nbasepairs.","bp_signature":"cWW-cWH-cWW"}, {"num_instances":3,"num_nucleotides":10,"alignment":{"IL_2GDI_006":["2GDI|1|Y|U|20","2GDI|1|Y|G|21","2GDI|1|Y|C|38","2GDI|1|Y|U|39","2GDI|1|Y|G|40","2GDI|1|Y|A|41","2GDI|1|Y|G|42","2GDI|1|Y|A|43","2GDI|1|Y|A|44","2GDI|1|Y|A|45"],"IL_2GDI_002":["2GDI|1|X|U|20","2GDI|1|X|G|21","2GDI|1|X|C|38","2GDI|1|X|U|39","2GDI|1|X|G|40","2GDI|1|X|A|41","2GDI|1|X|G|42","2GDI|1|X|A|43","2GDI|1|X|A|44","2GDI|1|X|A|45"],"IL_2HOJ_002":["2HOJ|1|A|U|20","2HOJ|1|A|G|21","2HOJ|1|A|C|38","2HOJ|1|A|U|39","2HOJ|1|A|G|40","2HOJ|1|A|A|41","2HOJ|1|A|G|42","2HOJ|1|A|A|43","2HOJ|1|A|A|44","2HOJ|1|A|A|45"]},"motif_id":"IL_82563.1","chainbreak":"2","common_name":"Thi-box riboswitch T-loop","annotation":"This T-loop is actually an IL not an HL! 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Sarcin-ricin 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