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3, "nts_short": "GAC", "nts_long": "///0/2407,///0/2408,///0/2409" }, { "index": 331, "num_nts": 3, "nts_short": "AAA", "nts_long": "///0/2413,///0/2414,///0/2415" }, { "index": 332, "num_nts": 3, "nts_short": "GUA", "nts_long": "///0/2428,///0/2461,///0/2460" }, { "index": 333, "num_nts": 3, "nts_short": "UAG", "nts_long": "///0/2436,///0/2437,///0/2438" }, { "index": 334, "num_nts": 3, "nts_short": "AAA", "nts_long": "///0/2468,///0/169,///0/2469" }, { "index": 335, "num_nts": 3, "nts_short": "UAG", "nts_long": "///0/2514,///0/2513,///0/2564" }, { "index": 336, "num_nts": 3, "nts_short": "UUG", "nts_long": "///0/2527,///0/2528,///0/2529" }, { "index": 337, "num_nts": 3, "nts_short": "UUC", "nts_long": "///0/2545,///0/2546,///0/2547" }, { "index": 338, "num_nts": 3, "nts_short": "GAG", "nts_long": "///0/2558,///0/2800,///0/2578" }, { "index": 339, "num_nts": 3, "nts_short": "UCD", "nts_long": "///0/2563,///0/2565,///E/158" }, { "index": 340, "num_nts": 3, "nts_short": "AGA", 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[ 13 ], "summary": "[1] 5 [0.136 0.142] 5", "num_nts": 7, "nts_short": "CUUCGCG", "nts_long": "///0/136,///0/137,///0/138,///0/139,///0/140,///0/141,///0/142", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "UUCGC", "nts_long": "///0/137,///0/138,///0/139,///0/140,///0/141" } ] }, { "index": 6, "type": "hairpin loop", "bridging_nts": [ 6 ], "stem_indices": [ -5 ], "summary": "[1] 6 [0.164 0.171] 1", "num_nts": 8, "nts_short": "GAAACAUC", "nts_long": "///0/164,///0/165,///0/166,///0/167,///0/168,///0/169,///0/170,///0/171", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "AAACAU", "nts_long": "///0/165,///0/166,///0/167,///0/168,///0/169,///0/170" } ] }, { "index": 7, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 15 ], "summary": "[1] 5 [0.195 0.201] 2", "num_nts": 7, "nts_short": "CGCAACG", "nts_long": "///0/195,///0/196,///0/197,///0/198,///0/199,///0/200,///0/201", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "GCAAC", "nts_long": "///0/196,///0/197,///0/198,///0/199,///0/200" } ] }, { "index": 8, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 17 ], "summary": "[1] 5 [0.217 0.223] 2", "num_nts": 7, "nts_short": "CCGCGAG", "nts_long": "///0/217,///0/218,///0/219,///0/220,///0/221,///0/222,///0/223", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "CGCGA", "nts_long": "///0/218,///0/219,///0/220,///0/221,///0/222" } ] }, { "index": 9, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 20 ], "summary": "[1] 4 [0.252 0.257] 4", "num_nts": 6, "nts_short": "CUCACG", "nts_long": "///0/252,///0/253,///0/254,///0/255,///0/256,///0/257", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "UCAC", "nts_long": "///0/253,///0/254,///0/255,///0/256" } ] }, { "index": 10, "type": "hairpin loop", "bridging_nts": [ 6 ], "stem_indices": [ 25 ], "summary": "[1] 6 [0.312 0.319] 4", "num_nts": 8, "nts_short": "UUGGAAUA", "nts_long": "///0/312,///0/313,///0/314,///0/315,///0/316,///0/317,///0/318,///0/319", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "UGGAAU", "nts_long": "///0/313,///0/314,///0/315,///0/316,///0/317,///0/318" } ] }, { "index": 11, "type": "hairpin loop", "bridging_nts": [ 3 ], "stem_indices": [ -11 ], "summary": "[1] 3 [0.326 0.330] 1", "num_nts": 5, "nts_short": "GAUAC", "nts_long": "///0/326,///0/327,///0/328,///0/329,///0/330", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "AUA", "nts_long": "///0/327,///0/328,///0/329" } ] }, { "index": 12, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 27 ], "summary": "[1] 7 [0.334 0.342] 3", "num_nts": 9, "nts_short": "GUGACAACC", "nts_long": "///0/334,///0/335,///0/336,///0/337,///0/338,///0/339,///0/340,///0/341,///0/342", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "UGACAAC", "nts_long": "///0/335,///0/336,///0/337,///0/338,///0/339,///0/340,///0/341" } ] }, { "index": 13, "type": "hairpin loop", "bridging_nts": [ 8 ], "stem_indices": [ 28 ], "summary": "[1] 8 [0.390 0.399] 7", "num_nts": 10, "nts_short": "GUUGGAUAUC", "nts_long": "///0/390,///0/391,///0/392,///0/393,///0/394,///0/395,///0/396,///0/397,///0/398,///0/399", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 8, "nts_short": "UUGGAUAU", "nts_long": "///0/391,///0/392,///0/393,///0/394,///0/395,///0/396,///0/397,///0/398" } ] }, { "index": 14, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 29 ], "summary": "[1] 7 [0.416 0.424] 5", "num_nts": 9, "nts_short": "GGCAUCGAC", "nts_long": "///0/416,///0/417,///0/418,///0/419,///0/420,///0/421,///0/422,///0/423,///0/424", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "GCAUCGA", "nts_long": "///0/417,///0/418,///0/419,///0/420,///0/421,///0/422,///0/423" } ] }, { "index": 15, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 31 ], "summary": "[1] 4 [0.468 0.473] 2", "num_nts": 6, "nts_short": "UGUGAA", "nts_long": "///0/468,///0/469,///0/470,///0/471,///0/472,///0/473", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GUGA", "nts_long": "///0/469,///0/470,///0/471,///0/472" } ] }, { "index": 16, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 32 ], "summary": "[1] 5 [0.493 0.499] 3", "num_nts": 7, "nts_short": "UCAGAAG", "nts_long": "///0/493,///0/494,///0/495,///0/496,///0/497,///0/498,///0/499", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "CAGAA", "nts_long": "///0/494,///0/495,///0/496,///0/497,///0/498" } ] }, { "index": 17, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 37 ], "summary": "[1] 4 [0.576 0.581] 5", "num_nts": 6, "nts_short": "CGCGAG", "nts_long": "///0/576,///0/577,///0/578,///0/579,///0/580,///0/581", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GCGA", "nts_long": "///0/577,///0/578,///0/579,///0/580" } ] }, { "index": 18, "type": "hairpin loop", "bridging_nts": [ 8 ], "stem_indices": [ 38 ], "summary": "[1] 8 [0.623 0.632] 3", "num_nts": 10, "nts_short": "UUUUGaAAAA", "nts_long": "///0/623,///0/624,///0/625,///0/626,///0/627,///0/628,///0/629,///0/630,///0/631,///0/632", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 8, "nts_short": "UUUGaAAA", "nts_long": "///0/624,///0/625,///0/626,///0/627,///0/628,///0/629,///0/630,///0/631" } ] }, { "index": 19, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 42 ], "summary": "[1] 5 [0.670 0.676] 4", "num_nts": 7, "nts_short": "GAGUAUC", "nts_long": "///0/670,///0/671,///0/672,///0/673,///0/674,///0/675,///0/676", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "AGUAU", "nts_long": "///0/671,///0/672,///0/673,///0/674,///0/675" } ] }, { "index": 20, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 43 ], "summary": "[1] 4 [0.690 0.695] 2", "num_nts": 6, "nts_short": "GGAAAC", "nts_long": "///0/690,///0/691,///0/692,///0/693,///0/694,///0/695", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GAAA", "nts_long": "///0/691,///0/692,///0/693,///0/694" } ] }, { "index": 21, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 46 ], "summary": "[1] 4 [0.733 0.738] 6", "num_nts": 6, "nts_short": "UUCAAG", "nts_long": "///0/733,///0/734,///0/735,///0/736,///0/737,///0/738", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "UCAA", "nts_long": "///0/734,///0/735,///0/736,///0/737" } ] }, { "index": 22, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 51 ], "summary": "[1] 4 [0.804 0.809] 7", "num_nts": 6, "nts_short": "CGAAAG", "nts_long": "///0/804,///0/805,///0/806,///0/807,///0/808,///0/809", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GAAA", "nts_long": "///0/805,///0/806,///0/807,///0/808" } ] }, { "index": 23, "type": "hairpin loop", "bridging_nts": [ 8 ], "stem_indices": [ 54 ], "summary": "[1] 8 [0.837 0.846] 2", "num_nts": 10, "nts_short": "UCCUACAAUA", "nts_long": "///0/837,///0/838,///0/839,///0/840,///0/841,///0/842,///0/843,///0/844,///0/845,///0/846", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 8, "nts_short": "CCUACAAU", "nts_long": "///0/838,///0/839,///0/840,///0/841,///0/842,///0/843,///0/844,///0/845" } ] }, { "index": 24, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 55 ], "summary": "[1] 5 [0.872 0.878] 3", "num_nts": 7, "nts_short": "UGAAAGG", "nts_long": "///0/872,///0/873,///0/874,///0/875,///0/876,///0/877,///0/878", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "GAAAG", "nts_long": "///0/873,///0/874,///0/875,///0/876,///0/877" } ] }, { "index": 25, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 57 ], "summary": "[1] 4 [0.919 0.924] 5", "num_nts": 6, "nts_short": "UCGAAG", "nts_long": "///0/919,///0/920,///0/921,///0/922,///0/923,///0/924", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "CGAA", "nts_long": "///0/920,///0/921,///0/922,///0/923" } ] }, { "index": 26, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 64 ], "summary": "[1] 5 [0.1054 0.1060] 10", "num_nts": 7, "nts_short": "GGUAAGC", "nts_long": "///0/1054,///0/1055,///0/1056,///0/1057,///0/1058,///0/1059,///0/1060", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "GUAAG", "nts_long": "///0/1055,///0/1056,///0/1057,///0/1058,///0/1059" } ] }, { "index": 27, "type": "hairpin loop", "bridging_nts": [ 6 ], "stem_indices": [ 65 ], "summary": "[1] 6 [0.1076 0.1083] 3", "num_nts": 8, "nts_short": "GGAACAAC", "nts_long": "///0/1076,///0/1077,///0/1078,///0/1079,///0/1080,///0/1081,///0/1082,///0/1083", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GAACAA", "nts_long": "///0/1077,///0/1078,///0/1079,///0/1080,///0/1081,///0/1082" } ] }, { "index": 28, "type": "hairpin loop", "bridging_nts": [ 9 ], "stem_indices": [ 75 ], "summary": "[1] 9 [0.1168 0.1178] 3", "num_nts": 11, "nts_short": "CUUAGAAGCAG", "nts_long": "///0/1168,///0/1169,///0/1170,///0/1171,///0/1172,///0/1173,///0/1174,///0/1175,///0/1176,///0/1177,///0/1178", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 9, "nts_short": "UUAGAAGCA", "nts_long": "///0/1169,///0/1170,///0/1171,///0/1172,///0/1173,///0/1174,///0/1175,///0/1176,///0/1177" } ] }, { "index": 29, "type": "hairpin loop", "bridging_nts": [ 6 ], "stem_indices": [ 76 ], "summary": "[1] 6 [0.1196 0.1203] 3", "num_nts": 8, "nts_short": "CGUAACAG", "nts_long": "///0/1196,///0/1197,///0/1198,///0/1199,///0/1200,///0/1201,///0/1202,///0/1203", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GUAACA", "nts_long": "///0/1197,///0/1198,///0/1199,///0/1200,///0/1201,///0/1202" } ] }, { "index": 30, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 78 ], "summary": "[1] 7 [0.1274 0.1282] 5", "num_nts": 9, "nts_short": "ACUCAUACU", "nts_long": "///0/1274,///0/1275,///0/1276,///0/1277,///0/1278,///0/1279,///0/1280,///0/1281,///0/1282", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "CUCAUAC", "nts_long": "///0/1275,///0/1276,///0/1277,///0/1278,///0/1279,///0/1280,///0/1281" } ] }, { "index": 31, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 80 ], "summary": "[1] 4 [0.1326 0.1331] 8", "num_nts": 6, "nts_short": "CGAGAG", "nts_long": "///0/1326,///0/1327,///0/1328,///0/1329,///0/1330,///0/1331", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GAGA", "nts_long": "///0/1327,///0/1328,///0/1329,///0/1330" } ] }, { "index": 32, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 83 ], "summary": "[1] 7 [0.1387 0.1395] 6", "num_nts": 9, "nts_short": "GUGAGAACC", "nts_long": "///0/1387,///0/1388,///0/1389,///0/1390,///0/1391,///0/1392,///0/1393,///0/1394,///0/1395", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "UGAGAAC", "nts_long": "///0/1388,///0/1389,///0/1390,///0/1391,///0/1392,///0/1393,///0/1394" } ] }, { "index": 33, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 88 ], "summary": "[1] 5 [0.1430 0.1436] 2", "num_nts": 7, "nts_short": "GCUGAUC", "nts_long": "///0/1430,///0/1431,///0/1432,///0/1433,///0/1434,///0/1435,///0/1436", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "CUGAU", "nts_long": "///0/1431,///0/1432,///0/1433,///0/1434,///0/1435" } ] }, { "index": 34, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 93 ], "summary": "[1] 5 [0.1468 0.1474] 2", "num_nts": 7, "nts_short": "GCAACUC", "nts_long": "///0/1468,///0/1469,///0/1470,///0/1471,///0/1472,///0/1473,///0/1474", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "CAACU", "nts_long": "///0/1469,///0/1470,///0/1471,///0/1472,///0/1473" } ] }, { "index": 35, "type": "hairpin loop", "bridging_nts": [ 8 ], "stem_indices": [ 94 ], "summary": "[1] 8 [0.1498 0.1507] 5", "num_nts": 10, "nts_short": "GUUAAUAUUC", "nts_long": "///0/1498,///0/1499,///0/1500,///0/1501,///0/1502,///0/1503,///0/1504,///0/1505,///0/1506,///0/1507", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 8, "nts_short": "UUAAUAUU", "nts_long": "///0/1499,///0/1500,///0/1501,///0/1502,///0/1503,///0/1504,///0/1505,///0/1506" } ] }, { "index": 36, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 103 ], "summary": "[1] 5 [0.1594 0.1600] 3", "num_nts": 7, "nts_short": "CGUAAUG", "nts_long": "///0/1594,///0/1595,///0/1596,///0/1597,///0/1598,///0/1599,///0/1600", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "GUAAU", "nts_long": "///0/1595,///0/1596,///0/1597,///0/1598,///0/1599" } ] }, { "index": 37, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ -30 ], "summary": "[1] 4 [0.1628 0.1633] 1", "num_nts": 6, "nts_short": "GGAAAC", "nts_long": "///0/1628,///0/1629,///0/1630,///0/1631,///0/1632,///0/1633", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GAAA", "nts_long": "///0/1629,///0/1630,///0/1631,///0/1632" } ] }, { "index": 38, "type": "hairpin loop", "bridging_nts": [ 3 ], "stem_indices": [ -31 ], "summary": "[1] 3 [0.1651 0.1655] 1", "num_nts": 5, "nts_short": "CCAUG", "nts_long": "///0/1651,///0/1652,///0/1653,///0/1654,///0/1655", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "CAU", "nts_long": "///0/1652,///0/1653,///0/1654" } ] }, { "index": 39, "type": "hairpin loop", "bridging_nts": [ 6 ], "stem_indices": [ 104 ], "summary": "[1] 6 [0.1687 0.1694] 2", "num_nts": 8, "nts_short": "CGACACAG", "nts_long": "///0/1687,///0/1688,///0/1689,///0/1690,///0/1691,///0/1692,///0/1693,///0/1694", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GACACA", "nts_long": "///0/1688,///0/1689,///0/1690,///0/1691,///0/1692,///0/1693" } ] }, { "index": 40, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 105 ], "summary": "[1] 7 [0.1705 0.1713] 3", "num_nts": 9, "nts_short": "CGGCGAAAG", "nts_long": "///0/1705,///0/1706,///0/1707,///0/1708,///0/1709,///0/1710,///0/1711,///0/1712,///0/1713", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "GGCGAAA", "nts_long": "///0/1706,///0/1707,///0/1708,///0/1709,///0/1710,///0/1711,///0/1712" } ] }, { "index": 41, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ -34 ], "summary": "[1] 4 [0.1769 0.1774] 1", "num_nts": 6, "nts_short": "CUUCGG", "nts_long": "///0/1769,///0/1770,///0/1771,///0/1772,///0/1773,///0/1774", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "UUCG", "nts_long": "///0/1770,///0/1771,///0/1772,///0/1773" } ] }, { "index": 42, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ 110 ], "summary": "[1] 5 [0.1793 0.1799] 9", "num_nts": 7, "nts_short": "CGGAACG", "nts_long": "///0/1793,///0/1794,///0/1795,///0/1796,///0/1797,///0/1798,///0/1799", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "GGAAC", "nts_long": "///0/1794,///0/1795,///0/1796,///0/1797,///0/1798" } ] }, { "index": 43, "type": "hairpin loop", "bridging_nts": [ 3 ], "stem_indices": [ -36 ], "summary": "[1] 3 [0.1808 0.1812] 1", "num_nts": 5, "nts_short": "CGCAG", "nts_long": "///0/1808,///0/1809,///0/1810,///0/1811,///0/1812", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "GCA", "nts_long": "///0/1809,///0/1810,///0/1811" } ] }, { "index": 44, "type": "hairpin loop", "bridging_nts": [ 9 ], "stem_indices": [ 113 ], "summary": "[1] 9 [0.1833 0.1843] 2", "num_nts": 11, "nts_short": "UCUAGUAACAA", "nts_long": "///0/1833,///0/1834,///0/1835,///0/1836,///0/1837,///0/1838,///0/1839,///0/1840,///0/1841,///0/1842,///0/1843", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 9, "nts_short": "CUAGUAACA", "nts_long": "///0/1834,///0/1835,///0/1836,///0/1837,///0/1838,///0/1839,///0/1840,///0/1841,///0/1842" } ] }, { "index": 45, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 115 ], "summary": "[1] 4 [0.1862 0.1867] 3", "num_nts": 6, "nts_short": "CGCAAG", "nts_long": "///0/1862,///0/1863,///0/1864,///0/1865,///0/1866,///0/1867", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GCAA", "nts_long": "///0/1863,///0/1864,///0/1865,///0/1866" } ] }, { "index": 46, "type": "hairpin loop", "bridging_nts": [ 6 ], "stem_indices": [ 121 ], "summary": "[1] 6 [0.1916 0.1923] 4", "num_nts": 8, "nts_short": "CGUACAAG", "nts_long": "///0/1916,///0/1917,///0/1918,///0/1919,///0/1920,///0/1921,///0/1922,///0/1923", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GUACAA", "nts_long": "///0/1917,///0/1918,///0/1919,///0/1920,///0/1921,///0/1922" } ] }, { "index": 47, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 123 ], "summary": "[1] 7 [0.1990 0.1998] 5", "num_nts": 9, "nts_short": "CAUCAGUAG", "nts_long": "///0/1990,///0/1991,///0/1992,///0/1993,///0/1994,///0/1995,///0/1996,///0/1997,///0/1998", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "AUCAGUA", "nts_long": "///0/1991,///0/1992,///0/1993,///0/1994,///0/1995,///0/1996,///0/1997" } ] }, { "index": 48, "type": "hairpin loop", "bridging_nts": [ 13 ], "stem_indices": [ 124 ], "summary": "[1] 13 [0.2061 0.2075] 2", "num_nts": 15, "nts_short": "CAUUCCAGUGCGGAG", "nts_long": "///0/2061,///0/2062,///0/2063,///0/2064,///0/2065,///0/2066,///0/2067,///0/2068,///0/2069,///0/2070,///0/2071,///0/2072,///0/2073,///0/2074,///0/2075", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 13, "nts_short": "AUUCCAGUGCGGA", "nts_long": "///0/2062,///0/2063,///0/2064,///0/2065,///0/2066,///0/2067,///0/2068,///0/2069,///0/2070,///0/2071,///0/2072,///0/2073,///0/2074" } ] }, { "index": 49, "type": "hairpin loop", "bridging_nts": [ 8 ], "stem_indices": [ 125 ], "summary": "[1] 8 [0.2068 0.2077] 5", "num_nts": 10, "nts_short": "GUGCGGAGUC", "nts_long": "///0/2068,///0/2069,///0/2070,///0/2071,///0/2072,///0/2073,///0/2074,///0/2075,///0/2076,///0/2077", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 8, "nts_short": "UGCGGAGU", "nts_long": "///0/2069,///0/2070,///0/2071,///0/2072,///0/2073,///0/2074,///0/2075,///0/2076" } ] }, { "index": 50, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 135 ], "summary": "[1] 4 [0.2248 0.2253] 4", "num_nts": 6, "nts_short": "CGGGAG", "nts_long": "///0/2248,///0/2249,///0/2250,///0/2251,///0/2252,///0/2253", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GGGA", "nts_long": "///0/2249,///0/2250,///0/2251,///0/2252" } ] }, { "index": 51, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 136 ], "summary": "[1] 7 [0.2281 0.2289] 2", "num_nts": 9, "nts_short": "CUGGGGCGG", "nts_long": "///0/2281,///0/2282,///0/2283,///0/2284,///0/2285,///0/2286,///0/2287,///0/2288,///0/2289", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "UGGGGCG", "nts_long": "///0/2282,///0/2283,///0/2284,///0/2285,///0/2286,///0/2287,///0/2288" } ] }, { "index": 52, "type": "hairpin loop", "bridging_nts": [ 20 ], "stem_indices": [ -40 ], "summary": "[1] 20 [0.2288 0.2309] 1", "num_nts": 22, "nts_short": "GGUACGCGCUCGAAAAGAUAUC", "nts_long": "///0/2288,///0/2289,///0/2290,///0/2291,///0/2292,///0/2293,///0/2294,///0/2295,///0/2296,///0/2297,///0/2298,///0/2299,///0/2300,///0/2301,///0/2302,///0/2303,///0/2304,///0/2305,///0/2306,///0/2307,///0/2308,///0/2309", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 20, "nts_short": "GUACGCGCUCGAAAAGAUAU", "nts_long": "///0/2289,///0/2290,///0/2291,///0/2292,///0/2293,///0/2294,///0/2295,///0/2296,///0/2297,///0/2298,///0/2299,///0/2300,///0/2301,///0/2302,///0/2303,///0/2304,///0/2305,///0/2306,///0/2307,///0/2308" } ] }, { "index": 53, "type": "hairpin loop", "bridging_nts": [ 11 ], "stem_indices": [ 137 ], "summary": "[1] 11 [0.2298 0.2310] 6", "num_nts": 13, "nts_short": "CGAAAAGAUAUCG", "nts_long": "///0/2298,///0/2299,///0/2300,///0/2301,///0/2302,///0/2303,///0/2304,///0/2305,///0/2306,///0/2307,///0/2308,///0/2309,///0/2310", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 11, "nts_short": "GAAAAGAUAUC", "nts_long": "///0/2299,///0/2300,///0/2301,///0/2302,///0/2303,///0/2304,///0/2305,///0/2306,///0/2307,///0/2308,///0/2309" } ] }, { "index": 54, "type": "hairpin loop", "bridging_nts": [ 6 ], "stem_indices": [ 141 ], "summary": "[1] 6 [0.2358 0.2365] 2", "num_nts": 8, "nts_short": "UGCAAGAG", "nts_long": "///0/2358,///0/2359,///0/2360,///0/2361,///0/2362,///0/2363,///0/2364,///0/2365", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GCAAGA", "nts_long": "///0/2359,///0/2360,///0/2361,///0/2362,///0/2363,///0/2364" } ] }, { "index": 55, "type": "hairpin loop", "bridging_nts": [ 9 ], "stem_indices": [ 143 ], "summary": "[1] 9 [0.2389 0.2399] 9", "num_nts": 11, "nts_short": "UUCCCAACGAG", "nts_long": "///0/2389,///0/2390,///0/2391,///0/2392,///0/2393,///0/2394,///0/2395,///0/2396,///0/2397,///0/2398,///0/2399", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 9, "nts_short": "UCCCAACGA", "nts_long": "///0/2390,///0/2391,///0/2392,///0/2393,///0/2394,///0/2395,///0/2396,///0/2397,///0/2398" } ] }, { "index": 56, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 144 ], "summary": "[1] 4 [0.2411 0.2416] 3", "num_nts": 6, "nts_short": "CGAAAG", "nts_long": "///0/2411,///0/2412,///0/2413,///0/2414,///0/2415,///0/2416", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GAAA", "nts_long": "///0/2412,///0/2413,///0/2414,///0/2415" } ] }, { "index": 57, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 146 ], "summary": "[1] 7 [0.2442 0.2450] 5", "num_nts": 9, "nts_short": "GCUUGAUGC", "nts_long": "///0/2442,///0/2443,///0/2444,///0/2445,///0/2446,///0/2447,///0/2448,///0/2449,///0/2450", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "CUUGAUG", "nts_long": "///0/2443,///0/2444,///0/2445,///0/2446,///0/2447,///0/2448,///0/2449" } ] }, { "index": 58, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 149 ], "summary": "[1] 7 [0.2506 0.2514] 2", "num_nts": 9, "nts_short": "AGCACAUAU", "nts_long": "///0/2506,///0/2507,///0/2508,///0/2509,///0/2510,///0/2511,///0/2512,///0/2513,///0/2514", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "GCACAUA", "nts_long": "///0/2507,///0/2508,///0/2509,///0/2510,///0/2511,///0/2512,///0/2513" } ] }, { "index": 59, "type": "hairpin loop", "bridging_nts": [ 6 ], "stem_indices": [ 154 ], "summary": "[1] 6 [0.2563 0.2570] 6", "num_nts": 8, "nts_short": "UGCAGAAG", "nts_long": "///0/2563,///0/2564,///0/2565,///0/2566,///0/2567,///0/2568,///0/2569,///0/2570", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GCAGAA", "nts_long": "///0/2564,///0/2565,///0/2566,///0/2567,///0/2568,///0/2569" } ] }, { "index": 60, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 155 ], "summary": "[1] 7 [0.2585 0.2593] 3", "num_nts": 9, "nts_short": "GUugUUCGC", "nts_long": "///0/2585,///0/2586,///0/2587,///0/2588,///0/2589,///0/2590,///0/2591,///0/2592,///0/2593", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "UugUUCG", "nts_long": "///0/2586,///0/2587,///0/2588,///0/2589,///0/2590,///0/2591,///0/2592" } ] }, { "index": 61, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 157 ], "summary": "[1] 4 [0.2629 0.2634] 3", "num_nts": 6, "nts_short": "CGUGAG", "nts_long": "///0/2629,///0/2630,///0/2631,///0/2632,///0/2633,///0/2634", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GUGA", "nts_long": "///0/2630,///0/2631,///0/2632,///0/2633" } ] }, { "index": 62, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ -48 ], "summary": "[1] 4 [0.2695 0.2700] 1", "num_nts": 6, "nts_short": "CGAGAG", "nts_long": "///0/2695,///0/2696,///0/2697,///0/2698,///0/2699,///0/2700", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GAGA", "nts_long": "///0/2696,///0/2697,///0/2698,///0/2699" } ] }, { "index": 63, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 164 ], "summary": "[1] 4 [0.2737 0.2742] 5", "num_nts": 6, "nts_short": "CGAGAG", "nts_long": "///0/2737,///0/2738,///0/2739,///0/2740,///0/2741,///0/2742", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GAGA", "nts_long": "///0/2738,///0/2739,///0/2740,///0/2741" } ] }, { "index": 64, "type": "hairpin loop", "bridging_nts": [ 13 ], "stem_indices": [ 166 ], "summary": "[1] 13 [0.2780 0.2794] 4", "num_nts": 15, "nts_short": "CUGAACGCAUCUAAG", "nts_long": "///0/2780,///0/2781,///0/2782,///0/2783,///0/2784,///0/2785,///0/2786,///0/2787,///0/2788,///0/2789,///0/2790,///0/2791,///0/2792,///0/2793,///0/2794", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 13, "nts_short": "UGAACGCAUCUAA", "nts_long": "///0/2781,///0/2782,///0/2783,///0/2784,///0/2785,///0/2786,///0/2787,///0/2788,///0/2789,///0/2790,///0/2791,///0/2792,///0/2793" } ] }, { "index": 65, "type": "hairpin loop", "bridging_nts": [ 7 ], "stem_indices": [ 168 ], "summary": "[1] 7 [0.2836 0.2844] 5", "num_nts": 9, "nts_short": "GUACAAGAC", "nts_long": "///0/2836,///0/2837,///0/2838,///0/2839,///0/2840,///0/2841,///0/2842,///0/2843,///0/2844", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "UACAAGA", "nts_long": "///0/2837,///0/2838,///0/2839,///0/2840,///0/2841,///0/2842,///0/2843" } ] }, { "index": 66, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ -50 ], "summary": "[1] 4 [0.2876 0.2881] 1", "num_nts": 6, "nts_short": "GGUAAC", "nts_long": "///0/2876,///0/2877,///0/2878,///0/2879,///0/2880,///0/2881", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GUAA", "nts_long": "///0/2877,///0/2878,///0/2879,///0/2880" } ] }, { "index": 67, "type": "hairpin loop", "bridging_nts": [ 5 ], "stem_indices": [ -51 ], "summary": "[1] 5 [9.37 9.43] 1", "num_nts": 7, "nts_short": "CAUCCCG", "nts_long": "///9/37,///9/38,///9/39,///9/40,///9/41,///9/42,///9/43", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "AUCCC", "nts_long": "///9/38,///9/39,///9/40,///9/41,///9/42" } ] }, { "index": 68, "type": "hairpin loop", "bridging_nts": [ 4 ], "stem_indices": [ 180 ], "summary": "[1] 4 [9.89 9.94] 2", "num_nts": 6, "nts_short": "CGCGAG", "nts_long": "///9/89,///9/90,///9/91,///9/92,///9/93,///9/94", "num_stems": 1, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GCGA", "nts_long": "///9/90,///9/91,///9/92,///9/93" } ] } ], "num_bulges": 39, "bulges": [ { "index": 1, "type": "bulge", "bridging_nts": [ 0, 1 ], "stem_indices": [ 3, 4 ], "summary": "[2] 0 1 [0.33 0.450 0.34 0.448] 2 6", "num_nts": 5, "nts_short": "GCGAC", "nts_long": "///0/33,///0/34,///0/448,///0/449,///0/450", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 1, "nts_short": "A", "nts_long": "///0/449" } ] }, { "index": 2, "type": "bulge", "bridging_nts": [ 0, 1 ], "stem_indices": [ -4, 14 ], "summary": "[2] 0 1 [0.153 0.184 0.154 0.182] 1 5", "num_nts": 5, "nts_short": "CCGAG", "nts_long": "///0/153,///0/154,///0/182,///0/183,///0/184", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 1, "nts_short": "A", "nts_long": "///0/183" } ] }, { "index": 3, "type": "bulge", "bridging_nts": [ 0, 1 ], "stem_indices": [ 21, 22 ], "summary": "[2] 0 1 [0.274 0.376 0.275 0.374] 2 6", "num_nts": 5, "nts_short": "GGUGC", "nts_long": "///0/274,///0/275,///0/374,///0/375,///0/376", 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1, "nts_short": "U", "nts_long": "///0/559" }, { "index": 2, "num_nts": 1, "nts_short": "C", "nts_long": "///0/598" } ] }, { "index": 2, "type": "symmetric internal loop", "bridging_nts": [ 1, 1 ], "stem_indices": [ 47, -19 ], "summary": "[2] 1 1 [0.763 0.901 0.765 0.899] 2 1", "num_nts": 6, "nts_short": "CCGCUG", "nts_long": "///0/763,///0/764,///0/765,///0/899,///0/900,///0/901", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "C", "nts_long": "///0/764" }, { "index": 2, "num_nts": 1, "nts_short": "U", "nts_long": "///0/900" } ] }, { "index": 3, "type": "symmetric internal loop", "bridging_nts": [ 1, 1 ], "stem_indices": [ -27, 79 ], "summary": "[2] 1 1 [0.1303 0.1351 0.1305 0.1349] 1 8", "num_nts": 6, "nts_short": "CUCGUG", "nts_long": "///0/1303,///0/1304,///0/1305,///0/1349,///0/1350,///0/1351", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "U", "nts_long": "///0/1304" }, { "index": 2, "num_nts": 1, "nts_short": "U", "nts_long": "///0/1350" } ] }, { "index": 4, "type": "symmetric internal loop", "bridging_nts": [ 1, 1 ], "stem_indices": [ 107, 108 ], "summary": "[2] 1 1 [0.1741 0.2038 0.1743 0.2036] 8 2", "num_nts": 6, "nts_short": "UAGCCA", "nts_long": "///0/1741,///0/1742,///0/1743,///0/2036,///0/2037,///0/2038", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "A", "nts_long": "///0/1742" }, { "index": 2, "num_nts": 1, "nts_short": "C", "nts_long": "///0/2037" } ] }, { "index": 5, "type": "symmetric internal loop", "bridging_nts": [ 1, 1 ], "stem_indices": [ -44, 142 ], "summary": "[2] 1 1 [0.2360 0.2426 0.2362 0.2424] 1 3", "num_nts": 6, "nts_short": "CAAUAG", "nts_long": "///0/2360,///0/2361,///0/2362,///0/2424,///0/2425,///0/2426", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2361" }, { "index": 2, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2425" } ] }, { "index": 6, "type": "symmetric internal loop", "bridging_nts": [ 1, 1 ], "stem_indices": [ 178, -52 ], "summary": "[2] 1 1 [9.72 9.109 9.74 9.107] 2 1", "num_nts": 6, "nts_short": "CAGCCG", "nts_long": "///9/72,///9/73,///9/74,///9/107,///9/108,///9/109", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "A", "nts_long": "///9/73" }, { "index": 2, "num_nts": 1, "nts_short": "C", "nts_long": "///9/108" } ] }, { "index": 7, "type": "asymmetric internal loop", "bridging_nts": [ 1, 2 ], "stem_indices": [ 4, -2 ], "summary": "[2] 1 2 [0.39 0.443 0.41 0.440] 6 1", "num_nts": 7, "nts_short": "GCGCAAC", "nts_long": "///0/39,///0/40,///0/41,///0/440,///0/441,///0/442,///0/443", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "C", "nts_long": "///0/40" }, { "index": 2, "num_nts": 2, "nts_short": "AA", "nts_long": "///0/441,///0/442" } ] }, { "index": 8, "type": "asymmetric internal loop", "bridging_nts": [ 2, 1 ], "stem_indices": [ -13, 32 ], "summary": "[2] 2 1 [0.488 0.503 0.491 0.501] 1 3", "num_nts": 7, "nts_short": "UACCGAG", "nts_long": "///0/488,///0/489,///0/490,///0/491,///0/501,///0/502,///0/503", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/489,///0/490" }, { "index": 2, "num_nts": 1, "nts_short": "A", "nts_long": "///0/502" } ] }, { "index": 9, "type": "asymmetric internal loop", "bridging_nts": [ 2, 1 ], "stem_indices": [ 52, 53 ], "summary": "[2] 2 1 [0.830 0.851 0.833 0.849] 3 2", "num_nts": 7, "nts_short": "GUUGCUC", "nts_long": "///0/830,///0/831,///0/832,///0/833,///0/849,///0/850,///0/851", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "UU", "nts_long": "///0/831,///0/832" }, { "index": 2, "num_nts": 1, "nts_short": "U", "nts_long": "///0/850" } ] }, { "index": 10, "type": "asymmetric internal loop", "bridging_nts": [ 1, 2 ], "stem_indices": [ -26, -27 ], "summary": "[2] 1 2 [0.1301 0.1354 0.1303 0.1351] 1 1", "num_nts": 7, "nts_short": "CGCGACG", "nts_long": "///0/1301,///0/1302,///0/1303,///0/1351,///0/1352,///0/1353,///0/1354", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "G", "nts_long": "///0/1302" }, { "index": 2, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/1352,///0/1353" } ] }, { "index": 11, "type": "asymmetric internal loop", "bridging_nts": [ 1, 2 ], "stem_indices": [ 92, 93 ], "summary": "[2] 1 2 [0.1465 0.1478 0.1467 0.1475] 6 2", "num_nts": 7, "nts_short": "ACCGACU", "nts_long": "///0/1465,///0/1466,///0/1467,///0/1475,///0/1476,///0/1477,///0/1478", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "C", "nts_long": "///0/1466" }, { "index": 2, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/1476,///0/1477" } ] }, { "index": 12, "type": "asymmetric internal loop", "bridging_nts": [ 2, 1 ], "stem_indices": [ 126, 127 ], "summary": "[2] 2 1 [0.2090 0.2654 0.2093 0.2652] 7 3", "num_nts": 7, "nts_short": "GGGGUAC", "nts_long": "///0/2090,///0/2091,///0/2092,///0/2093,///0/2652,///0/2653,///0/2654", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "GG", "nts_long": "///0/2091,///0/2092" }, { "index": 2, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2653" } ] }, { "index": 13, "type": "asymmetric internal loop", "bridging_nts": [ 1, 2 ], "stem_indices": [ 127, 128 ], "summary": "[2] 1 2 [0.2095 0.2650 0.2097 0.2647] 3 2", "num_nts": 7, "nts_short": "AAGCUAU", "nts_long": "///0/2095,///0/2096,///0/2097,///0/2647,///0/2648,///0/2649,///0/2650", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2096" }, { "index": 2, "num_nts": 2, "nts_short": "UA", "nts_long": "///0/2648,///0/2649" } ] }, { "index": 14, "type": "asymmetric internal loop", "bridging_nts": [ 1, 2 ], "stem_indices": [ 132, 133 ], "summary": "[2] 1 2 [0.2122 0.2272 0.2124 0.2269] 5 8", "num_nts": 7, "nts_short": "CAGCGGG", "nts_long": "///0/2122,///0/2123,///0/2124,///0/2269,///0/2270,///0/2271,///0/2272", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2123" }, { "index": 2, "num_nts": 2, "nts_short": "GG", "nts_long": "///0/2270,///0/2271" } ] }, { "index": 15, "type": "asymmetric internal loop", "bridging_nts": [ 1, 2 ], "stem_indices": [ 169, 170 ], "summary": "[2] 1 2 [0.2855 0.2903 0.2857 0.2900] 3 4", "num_nts": 7, "nts_short": "GACGCAC", "nts_long": "///0/2855,///0/2856,///0/2857,///0/2900,///0/2901,///0/2902,///0/2903", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2856" }, { "index": 2, "num_nts": 2, "nts_short": "CA", "nts_long": "///0/2901,///0/2902" } ] }, { "index": 16, "type": "symmetric internal loop", "bridging_nts": [ 2, 2 ], "stem_indices": [ 8, 9 ], "summary": "[2] 2 2 [0.58 0.88 0.61 0.85] 2 2", "num_nts": 8, "nts_short": "CAAGCACG", "nts_long": "///0/58,///0/59,///0/60,///0/61,///0/85,///0/86,///0/87,///0/88", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "AA", "nts_long": "///0/59,///0/60" }, { "index": 2, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/86,///0/87" } ] }, { "index": 17, "type": "asymmetric internal loop", "bridging_nts": [ 1, 3 ], "stem_indices": [ -23, 55 ], "summary": "[2] 1 3 [0.868 0.884 0.870 0.880] 1 3", "num_nts": 8, "nts_short": "GGGCCAUC", "nts_long": "///0/868,///0/869,///0/870,///0/880,///0/881,///0/882,///0/883,///0/884", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "G", "nts_long": "///0/869" }, { "index": 2, "num_nts": 3, "nts_short": "CAU", "nts_long": "///0/881,///0/882,///0/883" } ] }, { "index": 18, "type": "symmetric internal loop", "bridging_nts": [ 2, 2 ], "stem_indices": [ 62, 63 ], "summary": "[2] 2 2 [0.965 0.1003 0.968 0.1000] 2 2", "num_nts": 8, "nts_short": "AUUGCUGU", "nts_long": "///0/965,///0/966,///0/967,///0/968,///0/1000,///0/1001,///0/1002,///0/1003", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "UU", "nts_long": "///0/966,///0/967" }, { "index": 2, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/1001,///0/1002" } ] }, { "index": 19, "type": "symmetric internal loop", "bridging_nts": [ 2, 2 ], "stem_indices": [ 74, 75 ], "summary": "[2] 2 2 [0.1163 0.1183 0.1166 0.1180] 3 3", "num_nts": 8, "nts_short": "GUGAUACC", "nts_long": "///0/1163,///0/1164,///0/1165,///0/1166,///0/1180,///0/1181,///0/1182,///0/1183", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/1164,///0/1165" }, { "index": 2, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/1181,///0/1182" } ] }, { "index": 20, "type": "asymmetric internal loop", "bridging_nts": [ 3, 1 ], "stem_indices": [ 87, 88 ], "summary": "[2] 3 1 [0.1425 0.1439 0.1429 0.1437] 6 2", "num_nts": 8, "nts_short": "GCACUAGC", "nts_long": "///0/1425,///0/1426,///0/1427,///0/1428,///0/1429,///0/1437,///0/1438,///0/1439", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "CAC", "nts_long": "///0/1426,///0/1427,///0/1428" }, { "index": 2, "num_nts": 1, "nts_short": "G", "nts_long": "///0/1438" } ] }, { "index": 21, "type": "asymmetric internal loop", "bridging_nts": [ 1, 3 ], "stem_indices": [ -43, 140 ], "summary": "[2] 1 3 [0.2331 0.2355 0.2333 0.2351] 1 6", "num_nts": 8, "nts_short": "CAGCGAAG", "nts_long": "///0/2331,///0/2332,///0/2333,///0/2351,///0/2352,///0/2353,///0/2354,///0/2355", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2332" }, { "index": 2, "num_nts": 3, "nts_short": "GAA", "nts_long": "///0/2352,///0/2353,///0/2354" } ] }, { "index": 22, "type": "asymmetric internal loop", "bridging_nts": [ 1, 3 ], "stem_indices": [ -46, 148 ], "summary": "[2] 1 3 [0.2494 0.2528 0.2496 0.2524] 1 6", "num_nts": 8, "nts_short": "GUCGGCUU", "nts_long": "///0/2494,///0/2495,///0/2496,///0/2524,///0/2525,///0/2526,///0/2527,///0/2528", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "U", "nts_long": "///0/2495" }, { "index": 2, "num_nts": 3, "nts_short": "GCU", "nts_long": "///0/2525,///0/2526,///0/2527" } ] }, { "index": 23, "type": "asymmetric internal loop", "bridging_nts": [ 1, 3 ], "stem_indices": [ 151, -47 ], "summary": "[2] 1 3 [0.2545 0.2613 0.2547 0.2609] 3 1", "num_nts": 8, "nts_short": "UUCGUGAG", "nts_long": "///0/2545,///0/2546,///0/2547,///0/2609,///0/2610,///0/2611,///0/2612,///0/2613", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "U", "nts_long": "///0/2546" }, { "index": 2, "num_nts": 3, "nts_short": "UGA", "nts_long": "///0/2610,///0/2611,///0/2612" } ] }, { "index": 24, "type": "asymmetric internal loop", "bridging_nts": [ 3, 1 ], "stem_indices": [ 161, 162 ], "summary": "[2] 3 1 [0.2717 0.2763 0.2721 0.2761] 5 4", "num_nts": 8, "nts_short": "CCACUACG", "nts_long": "///0/2717,///0/2718,///0/2719,///0/2720,///0/2721,///0/2761,///0/2762,///0/2763", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "CAC", "nts_long": "///0/2718,///0/2719,///0/2720" }, { "index": 2, "num_nts": 1, "nts_short": "C", "nts_long": "///0/2762" } ] }, { "index": 25, "type": "symmetric internal loop", "bridging_nts": [ 2, 2 ], "stem_indices": [ 172, -50 ], "summary": "[2] 2 2 [0.2873 0.2884 0.2876 0.2881] 5 1", "num_nts": 8, "nts_short": "CGAGCGAG", "nts_long": "///0/2873,///0/2874,///0/2875,///0/2876,///0/2881,///0/2882,///0/2883,///0/2884", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/2874,///0/2875" }, { "index": 2, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/2882,///0/2883" } ] }, { "index": 26, "type": "asymmetric internal loop", "bridging_nts": [ 4, 1 ], "stem_indices": [ 33, 34 ], "summary": "[2] 4 1 [0.548 0.608 0.553 0.606] 10 2", "num_nts": 9, "nts_short": "UACAAGCGA", "nts_long": "///0/548,///0/549,///0/550,///0/551,///0/552,///0/553,///0/606,///0/607,///0/608", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "ACAA", "nts_long": "///0/549,///0/550,///0/551,///0/552" }, { "index": 2, "num_nts": 1, "nts_short": "G", "nts_long": "///0/607" } ] }, { "index": 27, "type": "symmetric internal loop", "bridging_nts": [ 3, 3 ], "stem_indices": [ 41, 42 ], "summary": "[2] 3 3 [0.663 0.683 0.667 0.679] 3 4", "num_nts": 10, "nts_short": "CUAACGGGAG", "nts_long": "///0/663,///0/664,///0/665,///0/666,///0/667,///0/679,///0/680,///0/681,///0/682,///0/683", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "UAA", "nts_long": "///0/664,///0/665,///0/666" }, { "index": 2, "num_nts": 3, "nts_short": "GGA", "nts_long": "///0/680,///0/681,///0/682" } ] }, { "index": 28, "type": "symmetric internal loop", "bridging_nts": [ 3, 3 ], "stem_indices": [ 44, 45 ], "summary": "[2] 3 3 [0.705 0.723 0.709 0.719] 4 4", "num_nts": 10, "nts_short": "CGCAGCGAGG", "nts_long": "///0/705,///0/706,///0/707,///0/708,///0/709,///0/719,///0/720,///0/721,///0/722,///0/723", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "GCA", "nts_long": "///0/706,///0/707,///0/708" }, { "index": 2, "num_nts": 3, "nts_short": "GAG", "nts_long": "///0/720,///0/721,///0/722" } ] }, { "index": 29, "type": "symmetric internal loop", "bridging_nts": [ 3, 3 ], "stem_indices": [ -21, 51 ], "summary": "[2] 3 3 [0.794 0.819 0.798 0.815] 1 7", "num_nts": 10, "nts_short": "UGAAGUGGAA", "nts_long": "///0/794,///0/795,///0/796,///0/797,///0/798,///0/815,///0/816,///0/817,///0/818,///0/819", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "GAA", "nts_long": "///0/795,///0/796,///0/797" }, { "index": 2, "num_nts": 3, "nts_short": "GGA", "nts_long": "///0/816,///0/817,///0/818" } ] }, { "index": 30, "type": "symmetric internal loop", "bridging_nts": [ 3, 3 ], "stem_indices": [ 60, -24 ], "summary": "[2] 3 3 [0.952 0.1015 0.956 0.1011] 9 1", "num_nts": 10, "nts_short": "GGUAGCAAAC", "nts_long": "///0/952,///0/953,///0/954,///0/955,///0/956,///0/1011,///0/1012,///0/1013,///0/1014,///0/1015", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "GUA", "nts_long": "///0/953,///0/954,///0/955" }, { "index": 2, "num_nts": 3, "nts_short": "AAA", "nts_long": "///0/1012,///0/1013,///0/1014" } ] }, { "index": 31, "type": "symmetric internal loop", "bridging_nts": [ 3, 3 ], "stem_indices": [ 66, 67 ], "summary": "[2] 3 3 [0.1095 0.1261 0.1099 0.1257] 7 3", "num_nts": 10, "nts_short": "UUAAGCGAGA", "nts_long": "///0/1095,///0/1096,///0/1097,///0/1098,///0/1099,///0/1257,///0/1258,///0/1259,///0/1260,///0/1261", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "UAA", "nts_long": "///0/1096,///0/1097,///0/1098" }, { "index": 2, "num_nts": 3, "nts_short": "GAG", "nts_long": "///0/1258,///0/1259,///0/1260" } ] }, { "index": 32, "type": "symmetric internal loop", "bridging_nts": [ 3, 3 ], "stem_indices": [ 97, 98 ], "summary": "[2] 3 3 [0.1542 0.1643 0.1546 0.1639] 8 6", "num_nts": 10, "nts_short": "GGUCGUCAAC", "nts_long": "///0/1542,///0/1543,///0/1544,///0/1545,///0/1546,///0/1639,///0/1640,///0/1641,///0/1642,///0/1643", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "GUC", "nts_long": "///0/1543,///0/1544,///0/1545" }, { "index": 2, "num_nts": 3, "nts_short": "CAA", "nts_long": "///0/1640,///0/1641,///0/1642" } ] }, { "index": 33, "type": "asymmetric internal loop", "bridging_nts": [ 5, 1 ], "stem_indices": [ 106, 107 ], "summary": "[2] 5 1 [0.1728 0.2047 0.1734 0.2045] 4 8 k-turn:undecided", "num_nts": 10, "nts_short": "GAGCAACGGC", "nts_long": "///0/1728,///0/1729,///0/1730,///0/1731,///0/1732,///0/1733,///0/1734,///0/2045,///0/2046,///0/2047", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "AGCAA", "nts_long": "///0/1729,///0/1730,///0/1731,///0/1732,///0/1733" }, { "index": 2, "num_nts": 1, "nts_short": "G", "nts_long": "///0/2046" } ] }, { "index": 34, "type": "asymmetric internal loop", "bridging_nts": [ 4, 2 ], "stem_indices": [ -32, -33 ], "summary": "[2] 4 2 [0.1747 0.2034 0.1752 0.2031] 1 1", "num_nts": 10, "nts_short": "AUUCGGCUGU", "nts_long": "///0/1747,///0/1748,///0/1749,///0/1750,///0/1751,///0/1752,///0/2031,///0/2032,///0/2033,///0/2034", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "UUCG", "nts_long": "///0/1748,///0/1749,///0/1750,///0/1751" }, { "index": 2, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/2032,///0/2033" } ] }, { "index": 35, "type": "symmetric internal loop", "bridging_nts": [ 3, 3 ], "stem_indices": [ 148, 149 ], "summary": "[2] 3 3 [0.2501 0.2519 0.2505 0.2515] 6 2", "num_nts": 10, "nts_short": "GCAAGCGACC", "nts_long": "///0/2501,///0/2502,///0/2503,///0/2504,///0/2505,///0/2515,///0/2516,///0/2517,///0/2518,///0/2519", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "CAA", "nts_long": "///0/2502,///0/2503,///0/2504" }, { "index": 2, "num_nts": 3, "nts_short": "GAC", "nts_long": "///0/2516,///0/2517,///0/2518" } ] }, { "index": 36, "type": "symmetric internal loop", "bridging_nts": [ 3, 3 ], "stem_indices": [ 177, -51 ], "summary": "[2] 3 3 [9.33 9.47 9.37 9.43] 4 1", "num_nts": 10, "nts_short": "UACCCGAACA", "nts_long": "///9/33,///9/34,///9/35,///9/36,///9/37,///9/43,///9/44,///9/45,///9/46,///9/47", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "ACC", "nts_long": "///9/34,///9/35,///9/36" }, { "index": 2, "num_nts": 3, "nts_short": "AAC", "nts_long": "///9/44,///9/45,///9/46" } ] }, { "index": 37, "type": "asymmetric internal loop", "bridging_nts": [ 4, 3 ], "stem_indices": [ 36, -15 ], "summary": "[2] 4 3 [0.562 0.595 0.567 0.591] 3 1", "num_nts": 11, "nts_short": "ACGAAUAGACU", "nts_long": "///0/562,///0/563,///0/564,///0/565,///0/566,///0/567,///0/591,///0/592,///0/593,///0/594,///0/595", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "CGAA", "nts_long": "///0/563,///0/564,///0/565,///0/566" }, { "index": 2, "num_nts": 3, "nts_short": "GAC", "nts_long": "///0/592,///0/593,///0/594" } ] }, { "index": 38, "type": "asymmetric internal loop", "bridging_nts": [ 3, 4 ], "stem_indices": [ -29, 101 ], "summary": "[2] 3 4 [0.1570 0.1627 0.1574 0.1622] 1 5", "num_nts": 11, "nts_short": "CGAACGCAUAG", "nts_long": "///0/1570,///0/1571,///0/1572,///0/1573,///0/1574,///0/1622,///0/1623,///0/1624,///0/1625,///0/1626,///0/1627", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "GAA", "nts_long": "///0/1571,///0/1572,///0/1573" }, { "index": 2, "num_nts": 4, "nts_short": "CAUA", "nts_long": "///0/1623,///0/1624,///0/1625,///0/1626" } ] }, { "index": 39, "type": "asymmetric internal loop", "bridging_nts": [ 4, 3 ], "stem_indices": [ 171, 172 ], "summary": "[2] 4 3 [0.2864 0.2892 0.2869 0.2888] 4 5", "num_nts": 11, "nts_short": "UGUGCGUUAAG", "nts_long": "///0/2864,///0/2865,///0/2866,///0/2867,///0/2868,///0/2869,///0/2888,///0/2889,///0/2890,///0/2891,///0/2892", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GUGC", "nts_long": "///0/2865,///0/2866,///0/2867,///0/2868" }, { "index": 2, "num_nts": 3, "nts_short": "UAA", "nts_long": "///0/2889,///0/2890,///0/2891" } ] }, { "index": 40, "type": "asymmetric internal loop", "bridging_nts": [ 5, 3 ], "stem_indices": [ 61, 62 ], "summary": "[2] 5 3 [0.958 0.1008 0.964 0.1004] 2 2", "num_nts": 12, "nts_short": "GCGACCGCAAAC", "nts_long": "///0/958,///0/959,///0/960,///0/961,///0/962,///0/963,///0/964,///0/1004,///0/1005,///0/1006,///0/1007,///0/1008", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "CGACC", "nts_long": "///0/959,///0/960,///0/961,///0/962,///0/963" }, { "index": 2, "num_nts": 3, "nts_short": "AAA", "nts_long": "///0/1005,///0/1006,///0/1007" } ] }, { "index": 41, "type": "asymmetric internal loop", "bridging_nts": [ 3, 5 ], "stem_indices": [ 91, 92 ], "summary": "[2] 3 5 [0.1456 0.1489 0.1460 0.1483] 2 6", "num_nts": 12, "nts_short": "CUAAGCGAAAUG", "nts_long": "///0/1456,///0/1457,///0/1458,///0/1459,///0/1460,///0/1483,///0/1484,///0/1485,///0/1486,///0/1487,///0/1488,///0/1489", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "UAA", "nts_long": "///0/1457,///0/1458,///0/1459" }, { "index": 2, "num_nts": 5, "nts_short": "GAAAU", "nts_long": "///0/1484,///0/1485,///0/1486,///0/1487,///0/1488" } ] }, { "index": 42, "type": "symmetric internal loop", "bridging_nts": [ 4, 4 ], "stem_indices": [ 165, 166 ], "summary": "[2] 4 4 [0.2772 0.2802 0.2777 0.2797] 3 4", "num_nts": 12, "nts_short": "GGUAAGCGAAAC", "nts_long": "///0/2772,///0/2773,///0/2774,///0/2775,///0/2776,///0/2777,///0/2797,///0/2798,///0/2799,///0/2800,///0/2801,///0/2802", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GUAA", "nts_long": "///0/2773,///0/2774,///0/2775,///0/2776" }, { "index": 2, "num_nts": 4, "nts_short": "GAAA", "nts_long": "///0/2798,///0/2799,///0/2800,///0/2801" } ] }, { "index": 43, "type": "asymmetric internal loop", "bridging_nts": [ 3, 6 ], "stem_indices": [ 10, 11 ], "summary": "[2] 3 6 [0.77 0.100 0.81 0.93] 6 3 k-turn:normal", "num_nts": 13, "nts_short": "GGGAGCGAAGAAC", "nts_long": "///0/77,///0/78,///0/79,///0/80,///0/81,///0/93,///0/94,///0/95,///0/96,///0/97,///0/98,///0/99,///0/100", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "GGA", "nts_long": "///0/78,///0/79,///0/80" }, { "index": 2, "num_nts": 6, "nts_short": "GAAGAA", "nts_long": "///0/94,///0/95,///0/96,///0/97,///0/98,///0/99" } ] }, { "index": 44, "type": "asymmetric internal loop", "bridging_nts": [ 5, 4 ], "stem_indices": [ 16, 17 ], "summary": "[2] 5 4 [0.210 0.229 0.216 0.224] 5 2", "num_nts": 13, "nts_short": "UUAGUAAUGAACG", "nts_long": "///0/210,///0/211,///0/212,///0/213,///0/214,///0/215,///0/216,///0/224,///0/225,///0/226,///0/227,///0/228,///0/229", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "UAGUA", "nts_long": "///0/211,///0/212,///0/213,///0/214,///0/215" }, { "index": 2, "num_nts": 4, "nts_short": "GAAC", "nts_long": "///0/225,///0/226,///0/227,///0/228" } ] }, { "index": 45, "type": "asymmetric internal loop", "bridging_nts": [ 6, 3 ], "stem_indices": [ 22, 23 ], "summary": "[2] 6 3 [0.280 0.369 0.287 0.365] 6 4 k-turn:undecided", "num_nts": 13, "nts_short": "CUCUCAUCGUGCG", "nts_long": "///0/280,///0/281,///0/282,///0/283,///0/284,///0/285,///0/286,///0/287,///0/365,///0/366,///0/367,///0/368,///0/369", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "UCUCAU", "nts_long": "///0/281,///0/282,///0/283,///0/284,///0/285,///0/286" }, { "index": 2, "num_nts": 3, "nts_short": "UGC", "nts_long": "///0/366,///0/367,///0/368" } ] }, { "index": 46, "type": "asymmetric internal loop", "bridging_nts": [ 4, 5 ], "stem_indices": [ -15, 37 ], "summary": "[2] 4 5 [0.567 0.591 0.572 0.585] 1 5", "num_nts": 13, "nts_short": "UGACCGCCAGUAA", "nts_long": "///0/567,///0/568,///0/569,///0/570,///0/571,///0/572,///0/585,///0/586,///0/587,///0/588,///0/589,///0/590,///0/591", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GACC", "nts_long": "///0/568,///0/569,///0/570,///0/571" }, { "index": 2, "num_nts": 5, "nts_short": "CAGUA", "nts_long": "///0/586,///0/587,///0/588,///0/589,///0/590" } ] }, { "index": 47, "type": "asymmetric internal loop", "bridging_nts": [ 3, 6 ], "stem_indices": [ -19, 48 ], "summary": "[2] 3 6 [0.765 0.899 0.769 0.892] 1 6", "num_nts": 13, "nts_short": "GAAUCGCAACAGC", "nts_long": "///0/765,///0/766,///0/767,///0/768,///0/769,///0/892,///0/893,///0/894,///0/895,///0/896,///0/897,///0/898,///0/899", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "AAU", "nts_long": "///0/766,///0/767,///0/768" }, { "index": 2, "num_nts": 6, "nts_short": "CAACAG", "nts_long": "///0/893,///0/894,///0/895,///0/896,///0/897,///0/898" } ] }, { "index": 48, "type": "asymmetric internal loop", "bridging_nts": [ 5, 4 ], "stem_indices": [ 69, 70 ], "summary": "[2] 5 4 [0.1115 0.1248 0.1121 0.1243] 6 2", "num_nts": 13, "nts_short": "UUAAGUGCUCAAA", "nts_long": "///0/1115,///0/1116,///0/1117,///0/1118,///0/1119,///0/1120,///0/1121,///0/1243,///0/1244,///0/1245,///0/1246,///0/1247,///0/1248", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "UAAGU", "nts_long": "///0/1116,///0/1117,///0/1118,///0/1119,///0/1120" }, { "index": 2, "num_nts": 4, "nts_short": "UCAA", "nts_long": "///0/1244,///0/1245,///0/1246,///0/1247" } ] }, { "index": 49, "type": "asymmetric internal loop", "bridging_nts": [ 6, 3 ], "stem_indices": [ 79, 80 ], "summary": "[2] 6 3 [0.1312 0.1342 0.1319 0.1338] 8 8 k-turn:normal", "num_nts": 13, "nts_short": "GAUGGAAGUGGAC", "nts_long": "///0/1312,///0/1313,///0/1314,///0/1315,///0/1316,///0/1317,///0/1318,///0/1319,///0/1338,///0/1339,///0/1340,///0/1341,///0/1342", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "AUGGAA", "nts_long": "///0/1313,///0/1314,///0/1315,///0/1316,///0/1317,///0/1318" }, { "index": 2, "num_nts": 3, "nts_short": "GGA", "nts_long": "///0/1339,///0/1340,///0/1341" } ] }, { "index": 50, "type": "asymmetric internal loop", "bridging_nts": [ 5, 4 ], "stem_indices": [ 81, 82 ], "summary": "[2] 5 4 [0.1367 0.2057 0.1373 0.2052] 2 2", "num_nts": 13, "nts_short": "AUAGUAGUGAACU", "nts_long": "///0/1367,///0/1368,///0/1369,///0/1370,///0/1371,///0/1372,///0/1373,///0/2052,///0/2053,///0/2054,///0/2055,///0/2056,///0/2057", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "UAGUA", "nts_long": "///0/1368,///0/1369,///0/1370,///0/1371,///0/1372" }, { "index": 2, "num_nts": 4, "nts_short": "GAAC", "nts_long": "///0/2053,///0/2054,///0/2055,///0/2056" } ] }, { "index": 51, "type": "asymmetric internal loop", "bridging_nts": [ 7, 2 ], "stem_indices": [ 95, 96 ], "summary": "[2] 7 2 [0.1521 0.1665 0.1529 0.1662] 8 3 k-turn:reverse", "num_nts": 13, "nts_short": "CAGUGAAAGCGAG", "nts_long": "///0/1521,///0/1522,///0/1523,///0/1524,///0/1525,///0/1526,///0/1527,///0/1528,///0/1529,///0/1662,///0/1663,///0/1664,///0/1665", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "AGUGAAA", "nts_long": "///0/1522,///0/1523,///0/1524,///0/1525,///0/1526,///0/1527,///0/1528" }, { "index": 2, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/1663,///0/1664" } ] }, { "index": 52, "type": "asymmetric internal loop", "bridging_nts": [ 4, 5 ], "stem_indices": [ 101, 102 ], "summary": "[2] 4 5 [0.1578 0.1618 0.1583 0.1612] 5 5", "num_nts": 13, "nts_short": "CCAACUACGAACG", "nts_long": "///0/1578,///0/1579,///0/1580,///0/1581,///0/1582,///0/1583,///0/1612,///0/1613,///0/1614,///0/1615,///0/1616,///0/1617,///0/1618", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "CAAC", "nts_long": "///0/1579,///0/1580,///0/1581,///0/1582" }, { "index": 2, "num_nts": 5, "nts_short": "CGAAC", "nts_long": "///0/1613,///0/1614,///0/1615,///0/1616,///0/1617" } ] }, { "index": 53, "type": "asymmetric internal loop", "bridging_nts": [ 4, 5 ], "stem_indices": [ 102, 103 ], "summary": "[2] 4 5 [0.1587 0.1608 0.1592 0.1602] 5 3 k-turn:normal", "num_nts": 13, "nts_short": "UGGAAGCAGGAAG", "nts_long": "///0/1587,///0/1588,///0/1589,///0/1590,///0/1591,///0/1592,///0/1602,///0/1603,///0/1604,///0/1605,///0/1606,///0/1607,///0/1608", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GGAA", "nts_long": "///0/1588,///0/1589,///0/1590,///0/1591" }, { "index": 2, "num_nts": 5, "nts_short": "AGGAA", "nts_long": "///0/1603,///0/1604,///0/1605,///0/1606,///0/1607" } ] }, { "index": 54, "type": "asymmetric internal loop", "bridging_nts": [ 4, 5 ], "stem_indices": [ 109, -34 ], "summary": "[2] 4 5 [0.1764 0.1780 0.1769 0.1774] 5 1", "num_nts": 13, "nts_short": "CGUACCGAAGAAG", "nts_long": "///0/1764,///0/1765,///0/1766,///0/1767,///0/1768,///0/1769,///0/1774,///0/1775,///0/1776,///0/1777,///0/1778,///0/1779,///0/1780", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GUAC", "nts_long": "///0/1765,///0/1766,///0/1767,///0/1768" }, { "index": 2, "num_nts": 5, "nts_short": "AAGAA", "nts_long": "///0/1775,///0/1776,///0/1777,///0/1778,///0/1779" } ] }, { "index": 55, "type": "asymmetric internal loop", "bridging_nts": [ 5, 4 ], "stem_indices": [ 160, -48 ], "summary": "[2] 5 4 [0.2689 0.2705 0.2695 0.2700] 8 1", "num_nts": 13, "nts_short": "AUAGUACGGAACU", "nts_long": "///0/2689,///0/2690,///0/2691,///0/2692,///0/2693,///0/2694,///0/2695,///0/2700,///0/2701,///0/2702,///0/2703,///0/2704,///0/2705", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "UAGUA", "nts_long": "///0/2690,///0/2691,///0/2692,///0/2693,///0/2694" }, { "index": 2, "num_nts": 4, "nts_short": "GAAC", "nts_long": "///0/2701,///0/2702,///0/2703,///0/2704" } ] }, { "index": 56, "type": "symmetric internal loop", "bridging_nts": [ 5, 5 ], "stem_indices": [ 1, -1 ], "summary": "[2] 5 5 [0.21 0.522 0.27 0.516] 9 1", "num_nts": 14, "nts_short": "GUGGAUUAUGAAAU", "nts_long": "///0/21,///0/22,///0/23,///0/24,///0/25,///0/26,///0/27,///0/516,///0/517,///0/518,///0/519,///0/520,///0/521,///0/522", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "UGGAU", "nts_long": "///0/22,///0/23,///0/24,///0/25,///0/26" }, { "index": 2, "num_nts": 5, "nts_short": "UGAAA", "nts_long": "///0/517,///0/518,///0/519,///0/520,///0/521" } ] }, { "index": 57, "type": "asymmetric internal loop", "bridging_nts": [ 3, 7 ], "stem_indices": [ 58, 59 ], "summary": "[2] 3 7 [0.936 0.1034 0.940 0.1026] 6 3 k-turn:normal", "num_nts": 14, "nts_short": "CCGAGUGUUUGACG", "nts_long": "///0/936,///0/937,///0/938,///0/939,///0/940,///0/1026,///0/1027,///0/1028,///0/1029,///0/1030,///0/1031,///0/1032,///0/1033,///0/1034", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "CGA", "nts_long": "///0/937,///0/938,///0/939" }, { "index": 2, "num_nts": 7, "nts_short": "GUUUGAC", "nts_long": "///0/1027,///0/1028,///0/1029,///0/1030,///0/1031,///0/1032,///0/1033" } ] }, { "index": 58, "type": "asymmetric internal loop", "bridging_nts": [ 7, 3 ], "stem_indices": [ 72, 73 ], "summary": "[2] 7 3 [0.1147 0.1216 0.1155 0.1212] 10 5 k-turn:normal", "num_nts": 14, "nts_short": "CCUAGACAGCCGAG", "nts_long": "///0/1147,///0/1148,///0/1149,///0/1150,///0/1151,///0/1152,///0/1153,///0/1154,///0/1155,///0/1212,///0/1213,///0/1214,///0/1215,///0/1216", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "CUAGACA", "nts_long": "///0/1148,///0/1149,///0/1150,///0/1151,///0/1152,///0/1153,///0/1154" }, { "index": 2, "num_nts": 3, "nts_short": "CGA", "nts_long": "///0/1213,///0/1214,///0/1215" } ] }, { "index": 59, "type": "symmetric internal loop", "bridging_nts": [ 5, 5 ], "stem_indices": [ 120, 121 ], "summary": "[2] 5 5 [0.1907 0.1932 0.1913 0.1926] 3 4", "num_nts": 14, "nts_short": "UGAACACGACGAAG", "nts_long": "///0/1907,///0/1908,///0/1909,///0/1910,///0/1911,///0/1912,///0/1913,///0/1926,///0/1927,///0/1928,///0/1929,///0/1930,///0/1931,///0/1932", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "GAACA", "nts_long": "///0/1908,///0/1909,///0/1910,///0/1911,///0/1912" }, { "index": 2, "num_nts": 5, "nts_short": "ACGAA", "nts_long": "///0/1927,///0/1928,///0/1929,///0/1930,///0/1931" } ] }, { "index": 60, "type": "asymmetric internal loop", "bridging_nts": [ 3, 7 ], "stem_indices": [ 158, 159 ], "summary": "[2] 3 7 [0.2672 0.2817 0.2676 0.2809] 6 4", "num_nts": 14, "nts_short": "CUGACGGAAAAGAG", "nts_long": "///0/2672,///0/2673,///0/2674,///0/2675,///0/2676,///0/2809,///0/2810,///0/2811,///0/2812,///0/2813,///0/2814,///0/2815,///0/2816,///0/2817", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "UGA", "nts_long": "///0/2673,///0/2674,///0/2675" }, { "index": 2, "num_nts": 7, "nts_short": "GAAAAGA", "nts_long": "///0/2810,///0/2811,///0/2812,///0/2813,///0/2814,///0/2815,///0/2816" } ] }, { "index": 61, "type": "asymmetric internal loop", "bridging_nts": [ 6, 4 ], "stem_indices": [ 175, 176 ], "summary": "[2] 6 4 [9.21 9.59 9.28 9.54] 6 2", "num_nts": 14, "nts_short": "GGUUGCCUAUAAGC", "nts_long": "///9/21,///9/22,///9/23,///9/24,///9/25,///9/26,///9/27,///9/28,///9/54,///9/55,///9/56,///9/57,///9/58,///9/59", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GUUGCC", "nts_long": "///9/22,///9/23,///9/24,///9/25,///9/26,///9/27" }, { "index": 2, "num_nts": 4, "nts_short": "UAAG", "nts_long": "///9/55,///9/56,///9/57,///9/58" } ] }, { "index": 62, "type": "asymmetric internal loop", "bridging_nts": [ 5, 6 ], "stem_indices": [ 14, -5 ], "summary": "[2] 5 6 [0.158 0.178 0.164 0.171] 5 1", "num_nts": 15, "nts_short": "AGAACUGCUCAGUAU", "nts_long": "///0/158,///0/159,///0/160,///0/161,///0/162,///0/163,///0/164,///0/171,///0/172,///0/173,///0/174,///0/175,///0/176,///0/177,///0/178", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "GAACU", "nts_long": "///0/159,///0/160,///0/161,///0/162,///0/163" }, { "index": 2, "num_nts": 6, "nts_short": "UCAGUA", "nts_long": "///0/172,///0/173,///0/174,///0/175,///0/176,///0/177" } ] }, { "index": 63, "type": "asymmetric internal loop", "bridging_nts": [ 5, 6 ], "stem_indices": [ 23, 24 ], "summary": "[2] 5 6 [0.290 0.362 0.296 0.355] 4 7", "num_nts": 15, "nts_short": "CCGACCGCCAGUACG", "nts_long": "///0/290,///0/291,///0/292,///0/293,///0/294,///0/295,///0/296,///0/355,///0/356,///0/357,///0/358,///0/359,///0/360,///0/361,///0/362", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "CGACC", "nts_long": "///0/291,///0/292,///0/293,///0/294,///0/295" }, { "index": 2, "num_nts": 6, "nts_short": "CAGUAC", "nts_long": "///0/356,///0/357,///0/358,///0/359,///0/360,///0/361" } ] }, { "index": 64, "type": "asymmetric internal loop", "bridging_nts": [ 6, 5 ], "stem_indices": [ -52, 179 ], "summary": "[2] 6 5 [9.74 9.107 9.81 9.101] 1 6", "num_nts": 15, "nts_short": "GGGAGUACGGAAAUC", "nts_long": "///9/74,///9/75,///9/76,///9/77,///9/78,///9/79,///9/80,///9/81,///9/101,///9/102,///9/103,///9/104,///9/105,///9/106,///9/107", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GGAGUA", "nts_long": "///9/75,///9/76,///9/77,///9/78,///9/79,///9/80" }, { "index": 2, "num_nts": 5, "nts_short": "GAAAU", "nts_long": "///9/102,///9/103,///9/104,///9/105,///9/106" } ] }, { "index": 65, "type": "asymmetric internal loop", "bridging_nts": [ 5, 7 ], "stem_indices": [ 114, 115 ], "summary": "[2] 5 7 [0.1854 0.1877 0.1860 0.1869] 7 3", "num_nts": 16, "nts_short": "CGCAAAUACUCGUACG", "nts_long": "///0/1854,///0/1855,///0/1856,///0/1857,///0/1858,///0/1859,///0/1860,///0/1869,///0/1870,///0/1871,///0/1872,///0/1873,///0/1874,///0/1875,///0/1876,///0/1877", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "GCAAA", "nts_long": "///0/1855,///0/1856,///0/1857,///0/1858,///0/1859" }, { "index": 2, "num_nts": 7, "nts_short": "CUCGUAC", "nts_long": "///0/1870,///0/1871,///0/1872,///0/1873,///0/1874,///0/1875,///0/1876" } ] }, { "index": 66, "type": "asymmetric internal loop", "bridging_nts": [ 10, 2 ], "stem_indices": [ -38, 123 ], "summary": "[2] 10 2 [0.1975 0.2005 0.1986 0.2002] 1 5", "num_nts": 16, "nts_short": "CGUAGUACCUUGCUUG", "nts_long": "///0/1975,///0/1976,///0/1977,///0/1978,///0/1979,///0/1980,///0/1981,///0/1982,///0/1983,///0/1984,///0/1985,///0/1986,///0/2002,///0/2003,///0/2004,///0/2005", "num_stems": 2, "bridges": [ { "index": 1, "num_nts": 10, "nts_short": "GUAGUACCUU", "nts_long": "///0/1976,///0/1977,///0/1978,///0/1979,///0/1980,///0/1981,///0/1982,///0/1983,///0/1984,///0/1985" }, { "index": 2, "num_nts": 2, "nts_short": "UU", "nts_long": "///0/2003,///0/2004" } ] } ], "num_junctions": 37, "junctions": [ { "index": 1, "type": "3-way junction", "bridging_nts": [ 1, 2, 0 ], "stem_indices": [ -17, 40, 47 ], "summary": "[3] 1 2 0 [0.644 0.903 0.646 0.759 0.762 0.902] 1 13 2", "num_nts": 9, "nts_short": "GUGCGACGU", "nts_long": "///0/644,///0/645,///0/646,///0/759,///0/760,///0/761,///0/762,///0/902,///0/903", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "U", "nts_long": "///0/645" }, { "index": 2, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/760,///0/761" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" } ] }, { "index": 2, "type": "3-way junction", "bridging_nts": [ 0, 6, 0 ], "stem_indices": [ -1, 2, -12 ], "summary": "[3] 0 6 0 [0.27 0.516 0.28 0.480 0.487 0.515] 1 2 1", "num_nts": 12, "nts_short": "UGCUGCAAAGCA", "nts_long": "///0/27,///0/28,///0/480,///0/481,///0/482,///0/483,///0/484,///0/485,///0/486,///0/487,///0/515,///0/516", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 6, "nts_short": "UGCAAA", "nts_long": "///0/481,///0/482,///0/483,///0/484,///0/485,///0/486" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" } ] }, { "index": 3, "type": "3-way junction", "bridging_nts": [ 1, 1, 4 ], "stem_indices": [ 139, -43, 141 ], "summary": "[3] 1 1 4 [0.2329 0.2371 0.2331 0.2355 0.2357 0.2366] 7 1 2", "num_nts": 12, "nts_short": "CUCGAGCAAAAG", "nts_long": "///0/2329,///0/2330,///0/2331,///0/2355,///0/2356,///0/2357,///0/2366,///0/2367,///0/2368,///0/2369,///0/2370,///0/2371", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "U", "nts_long": "///0/2330" }, { "index": 2, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2356" }, { "index": 3, "num_nts": 4, "nts_short": "AAAA", "nts_long": "///0/2367,///0/2368,///0/2369,///0/2370" } ] }, { "index": 4, "type": "3-way junction", "bridging_nts": [ 1, 4, 2 ], "stem_indices": [ -20, 50, 52 ], "summary": "[3] 1 4 2 [0.789 0.856 0.791 0.823 0.828 0.853] 1 3 3", "num_nts": 13, "nts_short": "CAAUGUUAGCGUG", "nts_long": "///0/789,///0/790,///0/791,///0/823,///0/824,///0/825,///0/826,///0/827,///0/828,///0/853,///0/854,///0/855,///0/856", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "A", "nts_long": "///0/790" }, { "index": 2, "num_nts": 4, "nts_short": "GUUA", "nts_long": "///0/824,///0/825,///0/826,///0/827" }, { "index": 3, "num_nts": 2, "nts_short": "GU", "nts_long": "///0/854,///0/855" } ] }, { "index": 5, "type": "3-way junction", "bridging_nts": [ 3, 0, 4 ], "stem_indices": [ 96, 97, -31 ], "summary": "[3] 3 0 4 [0.1531 0.1660 0.1535 0.1650 0.1651 0.1655] 3 8 1", "num_nts": 13, "nts_short": "UGACGCCGAAAAG", "nts_long": "///0/1531,///0/1532,///0/1533,///0/1534,///0/1535,///0/1650,///0/1651,///0/1655,///0/1656,///0/1657,///0/1658,///0/1659,///0/1660", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "GAC", "nts_long": "///0/1532,///0/1533,///0/1534" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 4, "nts_short": "AAAA", "nts_long": "///0/1656,///0/1657,///0/1658,///0/1659" } ] }, { "index": 6, "type": "3-way junction", "bridging_nts": [ 0, 4, 3 ], "stem_indices": [ 167, 168, 169 ], "summary": "[3] 0 4 3 [0.2831 0.2909 0.2832 0.2848 0.2853 0.2905] 4 5 3", "num_nts": 13, "nts_short": "CCGUCGAUAACAG", "nts_long": "///0/2831,///0/2832,///0/2848,///0/2849,///0/2850,///0/2851,///0/2852,///0/2853,///0/2905,///0/2906,///0/2907,///0/2908,///0/2909", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 4, "nts_short": "UCGA", "nts_long": "///0/2849,///0/2850,///0/2851,///0/2852" }, { "index": 3, "num_nts": 3, "nts_short": "ACA", "nts_long": "///0/2906,///0/2907,///0/2908" } ] }, { "index": 7, "type": "3-way junction", "bridging_nts": [ 0, 5, 3 ], "stem_indices": [ 6, 7, 10 ], "summary": "[3] 0 5 3 [0.52 0.109 0.53 0.66 0.72 0.105] 3 3 6", "num_nts": 14, "nts_short": "ACGAUAAGCGAUUU", "nts_long": "///0/52,///0/53,///0/66,///0/67,///0/68,///0/69,///0/70,///0/71,///0/72,///0/105,///0/106,///0/107,///0/108,///0/109", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 5, "nts_short": "AUAAG", "nts_long": "///0/67,///0/68,///0/69,///0/70,///0/71" }, { "index": 3, "num_nts": 3, "nts_short": "AUU", "nts_long": "///0/106,///0/107,///0/108" } ] }, { "index": 8, "type": "3-way junction", "bridging_nts": [ 5, 1, 2 ], "stem_indices": [ 48, 49, -23 ], "summary": "[3] 5 1 2 [0.774 0.887 0.780 0.866 0.868 0.884] 6 9 1", "num_nts": 14, "nts_short": "CGAUCUAUAGCGAG", "nts_long": "///0/774,///0/775,///0/776,///0/777,///0/778,///0/779,///0/780,///0/866,///0/867,///0/868,///0/884,///0/885,///0/886,///0/887", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 5, "nts_short": "GAUCU", "nts_long": "///0/775,///0/776,///0/777,///0/778,///0/779" }, { "index": 2, "num_nts": 1, "nts_short": "A", "nts_long": "///0/867" }, { "index": 3, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/885,///0/886" } ] }, { "index": 9, "type": "3-way junction", "bridging_nts": [ 4, 2, 2 ], "stem_indices": [ 84, 85, 105 ], "summary": "[3] 4 2 2 [0.1404 0.1718 0.1409 0.1700 0.1703 0.1715] 4 4 3", "num_nts": 14, "nts_short": "CUAAUGCAUGCAAG", "nts_long": "///0/1404,///0/1405,///0/1406,///0/1407,///0/1408,///0/1409,///0/1700,///0/1701,///0/1702,///0/1703,///0/1715,///0/1716,///0/1717,///0/1718", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "UAAU", "nts_long": "///0/1405,///0/1406,///0/1407,///0/1408" }, { "index": 2, "num_nts": 2, "nts_short": "AU", "nts_long": "///0/1701,///0/1702" }, { "index": 3, "num_nts": 2, "nts_short": "AA", "nts_long": "///0/1716,///0/1717" } ] }, { "index": 10, "type": "3-way junction", "bridging_nts": [ 2, 5, 1 ], "stem_indices": [ 85, 86, 104 ], "summary": "[3] 2 5 1 [0.1412 0.1697 0.1415 0.1680 0.1686 0.1695] 4 2 2", "num_nts": 14, "nts_short": "UAAGCGAGAACGUG", "nts_long": "///0/1412,///0/1413,///0/1414,///0/1415,///0/1680,///0/1681,///0/1682,///0/1683,///0/1684,///0/1685,///0/1686,///0/1695,///0/1696,///0/1697", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "AA", "nts_long": "///0/1413,///0/1414" }, { "index": 2, "num_nts": 5, "nts_short": "GAGAA", "nts_long": "///0/1681,///0/1682,///0/1683,///0/1684,///0/1685" }, { "index": 3, "num_nts": 1, "nts_short": "U", "nts_long": "///0/1696" } ] }, { "index": 11, "type": "3-way junction", "bridging_nts": [ 3, 5, 1 ], "stem_indices": [ -7, 19, 21 ], "summary": "[3] 3 5 1 [0.240 0.379 0.244 0.267 0.273 0.377] 1 2 2", "num_nts": 15, "nts_short": "CAAACGUGUCAGCAG", "nts_long": "///0/240,///0/241,///0/242,///0/243,///0/244,///0/267,///0/268,///0/269,///0/270,///0/271,///0/272,///0/273,///0/377,///0/378,///0/379", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "AAA", "nts_long": "///0/241,///0/242,///0/243" }, { "index": 2, "num_nts": 5, "nts_short": "UGUCA", "nts_long": "///0/268,///0/269,///0/270,///0/271,///0/272" }, { "index": 3, "num_nts": 1, "nts_short": "A", "nts_long": "///0/378" } ] }, { "index": 12, "type": "3-way junction", "bridging_nts": [ 2, 3, 5 ], "stem_indices": [ 133, 134, 135 ], "summary": "[3] 2 3 5 [0.2131 0.2262 0.2134 0.2241 0.2245 0.2256] 8 3 4", "num_nts": 16, "nts_short": "GCUGCUCACGGACACC", "nts_long": "///0/2131,///0/2132,///0/2133,///0/2134,///0/2241,///0/2242,///0/2243,///0/2244,///0/2245,///0/2256,///0/2257,///0/2258,///0/2259,///0/2260,///0/2261,///0/2262", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "CU", "nts_long": "///0/2132,///0/2133" }, { "index": 2, "num_nts": 3, "nts_short": "UCA", "nts_long": "///0/2242,///0/2243,///0/2244" }, { "index": 3, "num_nts": 5, "nts_short": "GACAC", "nts_long": "///0/2257,///0/2258,///0/2259,///0/2260,///0/2261" } ] }, { "index": 13, "type": "3-way junction", "bridging_nts": [ 2, 2, 6 ], "stem_indices": [ 152, 153, 155 ], "summary": "[3] 2 2 6 [0.2552 0.2602 0.2555 0.2580 0.2583 0.2595] 5 3 3", "num_nts": 16, "nts_short": "CAUCGUGAUAUUAAAG", "nts_long": "///0/2552,///0/2553,///0/2554,///0/2555,///0/2580,///0/2581,///0/2582,///0/2583,///0/2595,///0/2596,///0/2597,///0/2598,///0/2599,///0/2600,///0/2601,///0/2602", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "AU", "nts_long": "///0/2553,///0/2554" }, { "index": 2, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/2581,///0/2582" }, { "index": 3, "num_nts": 6, "nts_short": "AUUAAA", "nts_long": "///0/2596,///0/2597,///0/2598,///0/2599,///0/2600,///0/2601" } ] }, { "index": 14, "type": "3-way junction", "bridging_nts": [ 4, 3, 3 ], "stem_indices": [ 173, 174, 178 ], "summary": "[3] 4 3 3 [9.9 9.114 9.14 9.67 9.71 9.110] 6 2 2", "num_nts": 16, "nts_short": "CCACAGCGUUCGUUCG", "nts_long": "///9/9,///9/10,///9/11,///9/12,///9/13,///9/14,///9/67,///9/68,///9/69,///9/70,///9/71,///9/110,///9/111,///9/112,///9/113,///9/114", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "CACA", "nts_long": "///9/10,///9/11,///9/12,///9/13" }, { "index": 2, "num_nts": 3, "nts_short": "GUU", "nts_long": "///9/68,///9/69,///9/70" }, { "index": 3, "num_nts": 3, "nts_short": "UUC", "nts_long": "///9/111,///9/112,///9/113" } ] }, { "index": 15, "type": "3-way junction", "bridging_nts": [ 1, 8, 2 ], "stem_indices": [ 73, 74, 76 ], "summary": "[3] 1 8 2 [0.1159 0.1208 0.1161 0.1185 0.1194 0.1205] 5 3 3", "num_nts": 17, "nts_short": "GGAUCUAAGAAAAUUAC", "nts_long": "///0/1159,///0/1160,///0/1161,///0/1185,///0/1186,///0/1187,///0/1188,///0/1189,///0/1190,///0/1191,///0/1192,///0/1193,///0/1194,///0/1205,///0/1206,///0/1207,///0/1208", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "G", "nts_long": "///0/1160" }, { "index": 2, "num_nts": 8, "nts_short": "CUAAGAAA", "nts_long": "///0/1186,///0/1187,///0/1188,///0/1189,///0/1190,///0/1191,///0/1192,///0/1193" }, { "index": 3, "num_nts": 2, "nts_short": "UA", "nts_long": "///0/1206,///0/1207" } ] }, { "index": 16, "type": "3-way junction", "bridging_nts": [ 2, 15, 4 ], "stem_indices": [ 2, 3, 31 ], "summary": "[3] 2 15 4 [0.29 0.479 0.32 0.451 0.467 0.474] 2 2 2", "num_nts": 27, "nts_short": "CUCGCGAUAGUGAACAAGUAGCGAACG", "nts_long": "///0/29,///0/30,///0/31,///0/32,///0/451,///0/452,///0/453,///0/454,///0/455,///0/456,///0/457,///0/458,///0/459,///0/460,///0/461,///0/462,///0/463,///0/464,///0/465,///0/466,///0/467,///0/474,///0/475,///0/476,///0/477,///0/478,///0/479", "num_stems": 3, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "UC", "nts_long": "///0/30,///0/31" }, { "index": 2, "num_nts": 15, "nts_short": "GAUAGUGAACAAGUA", "nts_long": "///0/452,///0/453,///0/454,///0/455,///0/456,///0/457,///0/458,///0/459,///0/460,///0/461,///0/462,///0/463,///0/464,///0/465,///0/466" }, { "index": 3, "num_nts": 4, "nts_short": "GAAC", "nts_long": "///0/475,///0/476,///0/477,///0/478" } ] }, { "index": 17, "type": "4-way junction", "bridging_nts": [ 0, 0, 0, 0 ], "stem_indices": [ 98, 99, -29, -30 ], "summary": "[4] 0 0 0 0 [0.1551 0.1634 0.1552 0.1569 0.1570 0.1627 0.1628 0.1633] 6 6 1 1", "num_nts": 8, "nts_short": "CGUCGGCG", "nts_long": "///0/1551,///0/1552,///0/1569,///0/1570,///0/1627,///0/1628,///0/1633,///0/1634", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 4, "num_nts": 0, "nts_short": "", "nts_long": "" } ] }, { "index": 18, "type": "4-way junction", "bridging_nts": [ 0, 0, 0, 0 ], "stem_indices": [ -42, 138, 142, 141 ], "summary": "[4] 0 0 0 0 [0.2317 0.2359 0.2318 0.2421 0.2422 0.2364 0.2365 0.2358] 1 2 3 2", "num_nts": 8, "nts_short": "CCGUAGUG", "nts_long": "///0/2317,///0/2318,///0/2421,///0/2422,///0/2364,///0/2365,///0/2358,///0/2359", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 4, "num_nts": 0, "nts_short": "", "nts_long": "" } ] }, { "index": 19, "type": "4-way junction", "bridging_nts": [ 1, 0, 1, 0 ], "stem_indices": [ 29, 30, 146, 30 ], "summary": "[4] 1 0 1 0 [0.416 0.424 0.418 0.2449 0.2450 0.2442 0.2444 0.423] 5 6 5 6", "is_repeated": true, "num_nts": 10, "nts_short": "GGCGCGCUAC", "nts_long": "///0/416,///0/417,///0/418,///0/2449,///0/2450,///0/2442,///0/2443,///0/2444,///0/423,///0/424", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "G", "nts_long": "///0/417" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 1, "nts_short": "C", "nts_long": "///0/2443" }, { "index": 4, "num_nts": 0, "nts_short": "", "nts_long": "" } ] }, { "index": 20, "type": "4-way junction", "bridging_nts": [ 1, 1, 0, 1 ], "stem_indices": [ 7, 8, 11, 9 ], "summary": "[4] 1 1 0 1 [0.55 0.64 0.57 0.89 0.91 0.83 0.84 0.62] 3 2 3 2", "num_nts": 11, "nts_short": "UGCGAGCGCUG", "nts_long": "///0/55,///0/56,///0/57,///0/89,///0/90,///0/91,///0/83,///0/84,///0/62,///0/63,///0/64", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "G", "nts_long": "///0/56" }, { "index": 2, "num_nts": 1, "nts_short": "A", "nts_long": "///0/90" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 4, "num_nts": 1, "nts_short": "U", "nts_long": "///0/63" } ] }, { "index": 21, "type": "4-way junction", "bridging_nts": [ 2, 0, 2, 1 ], "stem_indices": [ 159, 160, 161, 165 ], "summary": "[4] 2 0 2 1 [0.2679 0.2806 0.2682 0.2712 0.2713 0.2767 0.2770 0.2804] 4 8 5 3", "num_nts": 13, "nts_short": "GAACGGCACGCAC", "nts_long": "///0/2679,///0/2680,///0/2681,///0/2682,///0/2712,///0/2713,///0/2767,///0/2768,///0/2769,///0/2770,///0/2804,///0/2805,///0/2806", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "AA", "nts_long": "///0/2680,///0/2681" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/2768,///0/2769" }, { "index": 4, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2805" } ] }, { "index": 22, "type": "4-way junction", "bridging_nts": [ 2, 1, 0, 5 ], "stem_indices": [ 39, -17, 56, -26 ], "summary": "[4] 2 1 0 5 [0.641 0.1360 0.644 0.903 0.905 0.1300 0.1301 0.1354] 6 1 6 1", "num_nts": 16, "nts_short": "GGAGUUCGCGAAAAUC", "nts_long": "///0/641,///0/642,///0/643,///0/644,///0/903,///0/904,///0/905,///0/1300,///0/1301,///0/1354,///0/1355,///0/1356,///0/1357,///0/1358,///0/1359,///0/1360", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/642,///0/643" }, { "index": 2, "num_nts": 1, "nts_short": "U", "nts_long": "///0/904" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 4, "num_nts": 5, "nts_short": "AAAAU", "nts_long": "///0/1355,///0/1356,///0/1357,///0/1358,///0/1359" } ] }, { "index": 23, "type": "4-way junction", "bridging_nts": [ 3, 3, 1, 1 ], "stem_indices": [ 138, 139, 143, 144 ], "summary": "[4] 3 3 1 1 [0.2319 0.2420 0.2323 0.2377 0.2381 0.2407 0.2409 0.2418] 2 7 9 3", "num_nts": 16, "nts_short": "CUAUGUUGACGACGUG", "nts_long": "///0/2319,///0/2320,///0/2321,///0/2322,///0/2323,///0/2377,///0/2378,///0/2379,///0/2380,///0/2381,///0/2407,///0/2408,///0/2409,///0/2418,///0/2419,///0/2420", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 3, "nts_short": "UAU", "nts_long": "///0/2320,///0/2321,///0/2322" }, { "index": 2, "num_nts": 3, "nts_short": "UGA", "nts_long": "///0/2378,///0/2379,///0/2380" }, { "index": 3, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2408" }, { "index": 4, "num_nts": 1, "nts_short": "U", "nts_long": "///0/2419" } ] }, { "index": 24, "type": "4-way junction", "bridging_nts": [ 0, 0, 5, 4 ], "stem_indices": [ -41, -42, -44, 145 ], "summary": "[4] 0 0 5 4 [0.2316 0.2464 0.2317 0.2359 0.2360 0.2426 0.2432 0.2459] 1 1 1 5", "num_nts": 17, "nts_short": "GCGCGCGAACCGAUGAC", "nts_long": "///0/2316,///0/2317,///0/2359,///0/2360,///0/2426,///0/2427,///0/2428,///0/2429,///0/2430,///0/2431,///0/2432,///0/2459,///0/2460,///0/2461,///0/2462,///0/2463,///0/2464", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 5, "nts_short": "CGAAC", "nts_long": "///0/2427,///0/2428,///0/2429,///0/2430,///0/2431" }, { "index": 4, "num_nts": 4, "nts_short": "AUGA", "nts_long": "///0/2460,///0/2461,///0/2462,///0/2463" } ] }, { "index": 25, "type": "4-way junction", "bridging_nts": [ 7, 0, 3, 0 ], "stem_indices": [ 82, 83, 84, 106 ], "summary": "[4] 7 0 3 0 [0.1374 0.2051 0.1382 0.1400 0.1401 0.1721 0.1725 0.2050] 2 6 4 4", "num_nts": 18, "nts_short": "CAGCGAUAGCGCUGUCGG", "nts_long": "///0/1374,///0/1375,///0/1376,///0/1377,///0/1378,///0/1379,///0/1380,///0/1381,///0/1382,///0/1400,///0/1401,///0/1721,///0/1722,///0/1723,///0/1724,///0/1725,///0/2050,///0/2051", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "AGCGAUA", "nts_long": "///0/1375,///0/1376,///0/1377,///0/1378,///0/1379,///0/1380,///0/1381" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 3, "nts_short": "UGU", "nts_long": "///0/1722,///0/1723,///0/1724" }, { "index": 4, "num_nts": 0, "nts_short": "", "nts_long": "" } ] }, { "index": 26, "type": "4-way junction", "bridging_nts": [ 0, 4, 6, 2 ], "stem_indices": [ 18, -7, 28, 29 ], "summary": "[4] 0 4 6 2 [0.239 0.431 0.240 0.379 0.384 0.405 0.412 0.428] 3 1 7 5", "num_nts": 20, "nts_short": "CCGAGUAGCGAAUAACGAAG", "nts_long": "///0/239,///0/240,///0/379,///0/380,///0/381,///0/382,///0/383,///0/384,///0/405,///0/406,///0/407,///0/408,///0/409,///0/410,///0/411,///0/412,///0/428,///0/429,///0/430,///0/431", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 4, "nts_short": "AGUA", "nts_long": "///0/380,///0/381,///0/382,///0/383" }, { "index": 3, "num_nts": 6, "nts_short": "GAAUAA", "nts_long": "///0/406,///0/407,///0/408,///0/409,///0/410,///0/411" }, { "index": 4, "num_nts": 2, "nts_short": "AA", "nts_long": "///0/429,///0/430" } ] }, { "index": 27, "type": "4-way junction", "bridging_nts": [ 1, 0, 8, 4 ], "stem_indices": [ 116, 117, 122, -37 ], "summary": "[4] 1 0 8 4 [0.1889 0.2013 0.1891 0.1946 0.1947 0.1965 0.1974 0.2008] 3 3 2 1", "num_nts": 21, "nts_short": "CUGCGCUUAAGGUAGUGAAUG", "nts_long": "///0/1889,///0/1890,///0/1891,///0/1946,///0/1947,///0/1965,///0/1966,///0/1967,///0/1968,///0/1969,///0/1970,///0/1971,///0/1972,///0/1973,///0/1974,///0/2008,///0/2009,///0/2010,///0/2011,///0/2012,///0/2013", "num_stems": 4, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "U", "nts_long": "///0/1890" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 8, "nts_short": "UUAAGGUA", "nts_long": "///0/1966,///0/1967,///0/1968,///0/1969,///0/1970,///0/1971,///0/1972,///0/1973" }, { "index": 4, "num_nts": 4, "nts_short": "GAAU", "nts_long": "///0/2009,///0/2010,///0/2011,///0/2012" } ] }, { "index": 28, "type": "5-way junction", "bridging_nts": [ 2, 2, 0, 0, 5 ], "stem_indices": [ 131, 132, -39, 137, -41 ], "summary": "[5] 2 2 0 0 5 [0.2115 0.2470 0.2118 0.2276 0.2279 0.2292 0.2293 0.2315 0.2316 0.2464] 4 5 1 6 1", "num_nts": 19, "nts_short": "UUUAUUUGCGCGCAGAAAA", "nts_long": "///0/2115,///0/2116,///0/2117,///0/2118,///0/2276,///0/2277,///0/2278,///0/2279,///0/2292,///0/2293,///0/2315,///0/2316,///0/2464,///0/2465,///0/2466,///0/2467,///0/2468,///0/2469,///0/2470", "num_stems": 5, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "UU", "nts_long": "///0/2116,///0/2117" }, { "index": 2, "num_nts": 2, "nts_short": "UU", "nts_long": "///0/2277,///0/2278" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 4, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 5, "num_nts": 5, "nts_short": "AGAAA", "nts_long": "///0/2465,///0/2466,///0/2467,///0/2468,///0/2469" } ] }, { "index": 29, "type": "5-way junction", "bridging_nts": [ 2, 3, 2, 0, 3 ], "stem_indices": [ 40, 41, 43, -18, 46 ], "summary": "[5] 2 3 2 0 3 [0.658 0.747 0.661 0.685 0.689 0.696 0.699 0.727 0.728 0.743] 13 3 2 1 6", "num_nts": 20, "nts_short": "CAAGCACAGCGACGCGGGAG", "nts_long": "///0/658,///0/659,///0/660,///0/661,///0/685,///0/686,///0/687,///0/688,///0/689,///0/696,///0/697,///0/698,///0/699,///0/727,///0/728,///0/743,///0/744,///0/745,///0/746,///0/747", "num_stems": 5, "bridges": [ { "index": 1, "num_nts": 2, "nts_short": "AA", "nts_long": "///0/659,///0/660" }, { "index": 2, "num_nts": 3, "nts_short": "ACA", "nts_long": "///0/686,///0/687,///0/688" }, { "index": 3, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/697,///0/698" }, { "index": 4, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 5, "num_nts": 3, "nts_short": "GGA", "nts_long": "///0/744,///0/745,///0/746" } ] }, { "index": 30, "type": "5-way junction", "bridging_nts": [ 6, 4, 0, 2, 1 ], "stem_indices": [ 5, 6, 12, -3, 13 ], "summary": "[5] 6 4 0 2 1 [0.43 0.148 0.50 0.111 0.116 0.124 0.125 0.129 0.132 0.146] 2 3 3 1 5", "num_nts": 23, "nts_short": "UGAUGAAGCGAAUGCUACAAUGA", "nts_long": "///0/43,///0/44,///0/45,///0/46,///0/47,///0/48,///0/49,///0/50,///0/111,///0/112,///0/113,///0/114,///0/115,///0/116,///0/124,///0/125,///0/129,///0/130,///0/131,///0/132,///0/146,///0/147,///0/148", "num_stems": 5, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GAUGAA", "nts_long": "///0/44,///0/45,///0/46,///0/47,///0/48,///0/49" }, { "index": 2, "num_nts": 4, "nts_short": "GAAU", "nts_long": "///0/112,///0/113,///0/114,///0/115" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 4, "num_nts": 2, "nts_short": "CA", "nts_long": "///0/130,///0/131" }, { "index": 5, "num_nts": 1, "nts_short": "G", "nts_long": "///0/147" } ] }, { "index": 31, "type": "5-way junction", "bridging_nts": [ 7, 0, 0, 7, 1 ], "stem_indices": [ -33, 109, 110, -36, 111 ], "summary": "[5] 7 0 0 7 1 [0.1752 0.2031 0.1760 0.1784 0.1785 0.1807 0.1808 0.1812 0.1820 0.2029] 1 5 9 1 7", "num_nts": 25, "nts_short": "GCAAGUUAGUGUCGUGACUCGGCAC", "nts_long": "///0/1752,///0/1753,///0/1754,///0/1755,///0/1756,///0/1757,///0/1758,///0/1759,///0/1760,///0/1784,///0/1785,///0/1807,///0/1808,///0/1812,///0/1813,///0/1814,///0/1815,///0/1816,///0/1817,///0/1818,///0/1819,///0/1820,///0/2029,///0/2030,///0/2031", "num_stems": 5, "bridges": [ { "index": 1, "num_nts": 7, "nts_short": "CAAGUUA", "nts_long": "///0/1753,///0/1754,///0/1755,///0/1756,///0/1757,///0/1758,///0/1759" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 4, "num_nts": 7, "nts_short": "UGACUCG", "nts_long": "///0/1813,///0/1814,///0/1815,///0/1816,///0/1817,///0/1818,///0/1819" }, { "index": 5, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2030" } ] }, { "index": 32, "type": "5-way junction", "bridging_nts": [ 6, 7, 7, 4, 4 ], "stem_indices": [ 128, 129, -45, 150, 156 ], "summary": "[5] 6 7 7 4 4 [0.2098 0.2646 0.2105 0.2481 0.2489 0.2533 0.2541 0.2618 0.2623 0.2641] 2 4 1 2 4", "num_nts": 38, "nts_short": "CGAAGACCGGAUAACAGCCUCGAUGUGuUPAGCGGCUG", "nts_long": "///0/2098,///0/2099,///0/2100,///0/2101,///0/2102,///0/2103,///0/2104,///0/2105,///0/2481,///0/2482,///0/2483,///0/2484,///0/2485,///0/2486,///0/2487,///0/2488,///0/2489,///0/2533,///0/2534,///0/2535,///0/2536,///0/2537,///0/2538,///0/2539,///0/2540,///0/2541,///0/2618,///0/2619,///0/2620,///0/2621,///0/2622,///0/2623,///0/2641,///0/2642,///0/2643,///0/2644,///0/2645,///0/2646", "num_stems": 5, "bridges": [ { "index": 1, "num_nts": 6, "nts_short": "GAAGAC", "nts_long": "///0/2099,///0/2100,///0/2101,///0/2102,///0/2103,///0/2104" }, { "index": 2, "num_nts": 7, "nts_short": "GAUAACA", "nts_long": "///0/2482,///0/2483,///0/2484,///0/2485,///0/2486,///0/2487,///0/2488" }, { "index": 3, "num_nts": 7, "nts_short": "CUCGAUG", "nts_long": "///0/2534,///0/2535,///0/2536,///0/2537,///0/2538,///0/2539,///0/2540" }, { "index": 4, "num_nts": 4, "nts_short": "uUPA", "nts_long": "///0/2619,///0/2620,///0/2621,///0/2622" }, { "index": 5, "num_nts": 4, "nts_short": "GGCU", "nts_long": "///0/2642,///0/2643,///0/2644,///0/2645" } ] }, { "index": 33, "type": "6-way junction", "bridging_nts": [ 1, 1, 0, 1, 0, 5 ], "stem_indices": [ -16, 38, 39, 81, 124, 125 ], "summary": "[6] 1 1 0 1 0 5 [0.619 0.2074 0.621 0.634 0.636 0.1365 0.1366 0.2058 0.2060 0.2076 0.2077 0.2068] 1 3 6 2 2 5", "num_nts": 20, "nts_short": "UACGAGCCGUAUCGUGCGGA", "nts_long": "///0/619,///0/620,///0/621,///0/634,///0/635,///0/636,///0/1365,///0/1366,///0/2058,///0/2059,///0/2060,///0/2076,///0/2077,///0/2068,///0/2069,///0/2070,///0/2071,///0/2072,///0/2073,///0/2074", "num_stems": 6, "bridges": [ { "index": 1, "num_nts": 1, "nts_short": "A", "nts_long": "///0/620" }, { "index": 2, "num_nts": 1, "nts_short": "A", "nts_long": "///0/635" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 4, "num_nts": 1, "nts_short": "U", "nts_long": "///0/2059" }, { "index": 5, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 6, "num_nts": 5, "nts_short": "UGCGG", "nts_long": "///0/2069,///0/2070,///0/2071,///0/2072,///0/2073" } ] }, { "index": 34, "type": "6-way junction", "bridging_nts": [ 0, 3, 9, 3, 3, 6 ], "stem_indices": [ -2, 5, -4, 15, 16, 18 ], "summary": "[6] 0 3 9 3 3 6 [0.41 0.440 0.42 0.149 0.153 0.184 0.194 0.202 0.206 0.233 0.237 0.433] 1 2 1 2 5 3", "num_nts": 36, "nts_short": "GCGGAACGGAACAGAAAAUGAUGUACAGCUAAACAC", "nts_long": "///0/41,///0/42,///0/149,///0/150,///0/151,///0/152,///0/153,///0/184,///0/185,///0/186,///0/187,///0/188,///0/189,///0/190,///0/191,///0/192,///0/193,///0/194,///0/202,///0/203,///0/204,///0/205,///0/206,///0/233,///0/234,///0/235,///0/236,///0/237,///0/433,///0/434,///0/435,///0/436,///0/437,///0/438,///0/439,///0/440", "num_stems": 6, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 3, "nts_short": "GAA", "nts_long": "///0/150,///0/151,///0/152" }, { "index": 3, "num_nts": 9, "nts_short": "GAACAGAAA", "nts_long": "///0/185,///0/186,///0/187,///0/188,///0/189,///0/190,///0/191,///0/192,///0/193" }, { "index": 4, "num_nts": 3, "nts_short": "GAU", "nts_long": "///0/203,///0/204,///0/205" }, { "index": 5, "num_nts": 3, "nts_short": "ACA", "nts_long": "///0/234,///0/235,///0/236" }, { "index": 6, "num_nts": 6, "nts_short": "UAAACA", "nts_long": "///0/434,///0/435,///0/436,///0/437,///0/438,///0/439" } ] }, { "index": 35, "type": "6-way junction", "bridging_nts": [ 0, 0, 11, 10, 3, 0 ], "stem_indices": [ 67, 68, 70, 71, 68, -25 ], "summary": "[6] 0 0 11 10 3 0 [0.1101 0.1255 0.1102 0.1241 0.1242 0.1122 0.1134 0.1228 0.1239 0.1104 0.1108 0.1254] 3 3 2 3 3 1", "is_repeated": true, "num_nts": 36, "nts_short": "UCGAUAAUCCUCUGAAGCCAAAAUGAUCGCCAAGCA", "nts_long": "///0/1101,///0/1102,///0/1241,///0/1242,///0/1122,///0/1123,///0/1124,///0/1125,///0/1126,///0/1127,///0/1128,///0/1129,///0/1130,///0/1131,///0/1132,///0/1133,///0/1134,///0/1228,///0/1229,///0/1230,///0/1231,///0/1232,///0/1233,///0/1234,///0/1235,///0/1236,///0/1237,///0/1238,///0/1239,///0/1104,///0/1105,///0/1106,///0/1107,///0/1108,///0/1254,///0/1255", "num_stems": 6, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 3, "num_nts": 11, "nts_short": "AAUCCUCUGAA", "nts_long": "///0/1123,///0/1124,///0/1125,///0/1126,///0/1127,///0/1128,///0/1129,///0/1130,///0/1131,///0/1132,///0/1133" }, { "index": 4, "num_nts": 10, "nts_short": "CAAAAUGAUC", "nts_long": "///0/1229,///0/1230,///0/1231,///0/1232,///0/1233,///0/1234,///0/1235,///0/1236,///0/1237,///0/1238" }, { "index": 5, "num_nts": 3, "nts_short": "CAA", "nts_long": "///0/1105,///0/1106,///0/1107" }, { "index": 6, "num_nts": 0, "nts_short": "", "nts_long": "" } ] }, { "index": 36, "type": "7-way junction", "bridging_nts": [ 4, 2, 5, 4, 3, 0, 4 ], "stem_indices": [ 56, 57, 58, 64, 65, 66, 77 ], "summary": "[7] 4 2 5 4 3 0 4 [0.910 0.1295 0.915 0.928 0.931 0.1039 0.1045 0.1069 0.1074 0.1085 0.1089 0.1267 0.1268 0.1290] 6 5 6 10 3 7 2", "num_nts": 36, "nts_short": "CGAAACGACCGAUUCCGCAGGAGCAGAGCCGAGUAG", "nts_long": "///0/910,///0/911,///0/912,///0/913,///0/914,///0/915,///0/928,///0/929,///0/930,///0/931,///0/1039,///0/1040,///0/1041,///0/1042,///0/1043,///0/1044,///0/1045,///0/1069,///0/1070,///0/1071,///0/1072,///0/1073,///0/1074,///0/1085,///0/1086,///0/1087,///0/1088,///0/1089,///0/1267,///0/1268,///0/1290,///0/1291,///0/1292,///0/1293,///0/1294,///0/1295", "num_stems": 7, "bridges": [ { "index": 1, "num_nts": 4, "nts_short": "GAAA", "nts_long": "///0/911,///0/912,///0/913,///0/914" }, { "index": 2, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/929,///0/930" }, { "index": 3, "num_nts": 5, "nts_short": "AUUCC", "nts_long": "///0/1040,///0/1041,///0/1042,///0/1043,///0/1044" }, { "index": 4, "num_nts": 4, "nts_short": "AGGA", "nts_long": "///0/1070,///0/1071,///0/1072,///0/1073" }, { "index": 5, "num_nts": 3, "nts_short": "AGA", "nts_long": "///0/1086,///0/1087,///0/1088" }, { "index": 6, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 7, "num_nts": 4, "nts_short": "AGUA", "nts_long": "///0/1291,///0/1292,///0/1293,///0/1294" } ] }, { "index": 37, "type": "9-way junction", "bridging_nts": [ 0, 4, 0, 1, 1, 3, 0, 0, 1 ], "stem_indices": [ -28, 87, 89, 95, 90, 91, 94, 89, 90 ], "summary": "[9] 0 4 0 1 1 3 0 0 1 [0.1419 0.1678 0.1420 0.1444 0.1449 0.1513 0.1514 0.1672 0.1674 0.1453 0.1455 0.1490 0.1494 0.1511 0.1512 0.1450 0.1451 0.1676] 1 6 2 8 3 2 5 2 3", "is_repeated": true, "num_nts": 28, "nts_short": "UCGGUUAGCCGUCGUCGGAAAUGCCGUA", "nts_long": "///0/1419,///0/1420,///0/1444,///0/1445,///0/1446,///0/1447,///0/1448,///0/1449,///0/1513,///0/1514,///0/1672,///0/1673,///0/1674,///0/1453,///0/1454,///0/1455,///0/1490,///0/1491,///0/1492,///0/1493,///0/1494,///0/1511,///0/1512,///0/1450,///0/1451,///0/1676,///0/1677,///0/1678", "num_stems": 9, "bridges": [ { "index": 1, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 2, "num_nts": 4, "nts_short": "GUUA", "nts_long": "///0/1445,///0/1446,///0/1447,///0/1448" }, { "index": 3, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 4, "num_nts": 1, "nts_short": "U", "nts_long": "///0/1673" }, { "index": 5, "num_nts": 1, "nts_short": "U", "nts_long": "///0/1454" }, { "index": 6, "num_nts": 3, "nts_short": "GAA", "nts_long": "///0/1491,///0/1492,///0/1493" }, { "index": 7, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 8, "num_nts": 0, "nts_short": "", "nts_long": "" }, { "index": 9, "num_nts": 1, "nts_short": "U", "nts_long": "///0/1677" } ] } ], 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"num_nts": 1, "nts_short": "G", "nts_long": "///0/1563" }, { "index": 13, "num_nts": 1, "nts_short": "A", "nts_long": "///0/1829" }, { "index": 14, "num_nts": 1, "nts_short": "U", "nts_long": "///0/1831" }, { "index": 15, "num_nts": 3, "nts_short": "AUA", "nts_long": "///0/1845,///0/1846,///0/1847" }, { "index": 16, "num_nts": 1, "nts_short": "G", "nts_long": "///0/1884" }, { "index": 17, "num_nts": 1, "nts_short": "A", "nts_long": "///0/1886" }, { "index": 18, "num_nts": 3, "nts_short": "GGG", "nts_long": "///0/1949,///0/1950,///0/1951" }, { "index": 19, "num_nts": 4, "nts_short": "UUAA", "nts_long": "///0/2016,///0/2017,///0/2018,///0/2019" }, { "index": 20, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/2082,///0/2083" }, { "index": 21, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/2237,///0/2238" }, { "index": 22, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/2344,///0/2345" }, { "index": 23, "num_nts": 4, "nts_short": "UGUA", "nts_long": "///0/2661,///0/2662,///0/2663,///0/2664" }, { "index": 24, "num_nts": 3, "nts_short": "GUA", "nts_long": "///0/2725,///0/2726,///0/2727" }, { "index": 25, "num_nts": 1, "nts_short": "G", "nts_long": "///0/2755" }, { "index": 26, "num_nts": 1, "nts_short": "A", "nts_long": "///0/2757" }, { "index": 27, "num_nts": 5, "nts_short": "GCCGA", "nts_long": "///0/2823,///0/2824,///0/2825,///0/2826,///0/2827" }, { "index": 28, "num_nts": 2, "nts_short": "AA", "nts_long": "///0/2913,///0/2914" }, { "index": 29, "num_nts": 3, "nts_short": "UUA", "nts_long": "///9/1,///9/2,///9/3" }, { "index": 30, "num_nts": 3, "nts_short": "ACC", "nts_long": "///9/120,///9/121,///9/122" } ], "num_kissingLoops": 5, "kissingLoops": [ { "index": 1, "stem_index": -40, "is_isoCanonPair": true, "hairpin_indices": [ 51, 53 ] }, { "index": 2, "stem_index": -6, "is_isoCanonPair": true, "hairpin_indices": [ 6, 8 ] }, { "index": 3, "stem_index": 8, "hairpin_indices": [ 1, 3 ] }, { "index": 4, "stem_index": 9, "hairpin_indices": [ 1, 3 ] }, { "index": 5, "stem_index": 30, "hairpin_indices": [ 14, 57 ] } ], "num_Aminors": 155, "Aminors": [ { "index": 1, "type": "X", "desc_short": "A vs A-U (WC)", "desc_long": "///0/11 vs ///0/2085,///0/2659", "A_nt1": { "desc": "///0/11 vs ///0/2085", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.64]" }, "A_nt2": { "desc": "///0/11 vs ///0/2659", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 2, "type": "I", "desc_short": "A vs U-A (WC)", "desc_long": "///0/48 vs ///0/43,///0/148", "A_nt1": { "desc": "///0/48 vs ///0/43", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.94]" }, "A_nt2": { "desc": "///0/48 vs ///0/148", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.53]" } }, { "index": 3, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/67 vs ///0/53,///0/66", "A_nt1": { "desc": "///0/67 vs ///0/53", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/67 vs ///0/66", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N1-N2(amino)[3.01]" } }, { "index": 4, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/69 vs ///0/54,///0/65", "A_nt1": { "desc": "///0/69 vs ///0/54", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.79],N3-N2(amino)[2.78]" }, "A_nt2": { "desc": "///0/69 vs ///0/65", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.71],O2'(hydroxyl)-O2(carbonyl)[2.59]" } }, { "index": 5, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/98 vs ///0/81,///0/93", "A_nt1": { "desc": "///0/98 vs ///0/81", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.70],N3-N2(amino)[2.99]" }, "A_nt2": { "desc": "///0/98 vs ///0/93", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 6, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/151 vs ///0/41,///0/440", "A_nt1": { "desc": "///0/151 vs ///0/41", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-N2(amino)[3.20]" }, "A_nt2": { "desc": "///0/151 vs ///0/440", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 7, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/152 vs ///0/41,///0/440", "A_nt1": { "desc": "///0/152 vs ///0/41", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/152 vs ///0/440", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.94],N3-O2'(hydroxyl)[2.70]" } }, { "index": 8, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/160 vs ///0/769,///0/892", "A_nt1": { "desc": "///0/160 vs ///0/769", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/160 vs ///0/892", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[2.73]" } }, { "index": 9, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/161 vs ///0/769,///0/892", "A_nt1": { "desc": "///0/161 vs ///0/769", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O3'-O2'(hydroxyl)[3.16],O2'(hydroxyl)-O2'(hydroxyl)[2.70],O2'(hydroxyl)-O2(carbonyl)[2.63]" }, "A_nt2": { "desc": "///0/161 vs ///0/892", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N3-N2(amino)[3.08]" } }, { "index": 10, "type": "X", "desc_short": "A vs U-G (Wobble)", "desc_long": "///0/166 vs ///0/919,///0/924", "A_nt1": { "desc": "///0/166 vs ///0/919", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/166 vs ///0/924", "face_type": "+", "hbonds_num": 3, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[2.86],N6(amino)-N3[3.22],N1-N2(amino)[2.95]" } }, { "index": 11, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/169 vs ///0/2119,///0/2275", "A_nt1": { "desc": "///0/169 vs ///0/2119", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.84]" }, "A_nt2": { "desc": "///0/169 vs ///0/2275", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "OP1-O2'(hydroxyl)[2.93]" } }, { "index": 12, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/193 vs ///0/413,///0/427", "A_nt1": { "desc": "///0/193 vs ///0/413", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.54],N3-N2(amino)[3.00]" }, "A_nt2": { "desc": "///0/193 vs ///0/427", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O3'-O2'(hydroxyl)[3.04],O2'(hydroxyl)-O2'(hydroxyl)[2.57],O2'(hydroxyl)-O2(carbonyl)[2.55]" } }, { "index": 13, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/198 vs ///0/416,///0/424", "A_nt1": { "desc": "///0/198 vs ///0/416", "face_type": "+", "hbonds_num": 3, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[2.85],N6(amino)-N3[2.90],N1-N2(amino)[2.80]" }, "A_nt2": { "desc": "///0/198 vs ///0/424", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 14, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/222 vs ///0/164,///0/171", "A_nt1": { "desc": "///0/222 vs ///0/164", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-N2(amino)[3.17]" }, "A_nt2": { "desc": "///0/222 vs ///0/171", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.68]" } }, { "index": 15, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/242 vs ///0/273,///0/377", "A_nt1": { "desc": "///0/242 vs ///0/273", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/242 vs ///0/377", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.80],N3-O2'(hydroxyl)[2.75]" } }, { "index": 16, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/243 vs ///0/274,///0/376", "A_nt1": { "desc": "///0/243 vs ///0/274", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.63],N3-N2(amino)[3.06]" }, "A_nt2": { "desc": "///0/243 vs ///0/376", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.67],O2'(hydroxyl)-O2(carbonyl)[2.83]" } }, { "index": 17, "type": "X", "desc_short": "A vs U-U (--)", "desc_long": "///0/285 vs ///0/286,///0/366", "A_nt1": { "desc": "///0/285 vs ///0/286", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/285 vs ///0/366", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N6(amino)-O2(carbonyl)[3.12]" } }, { "index": 18, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/305 vs ///0/326,///0/330", "A_nt1": { "desc": "///0/305 vs ///0/326", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.92],N3-O2'(hydroxyl)[2.89]" }, "A_nt2": { "desc": "///0/305 vs ///0/330", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 19, "type": "I", "desc_short": "A vs U-A (WC)", "desc_long": "///0/306 vs ///0/325,///0/340", "A_nt1": { "desc": "///0/306 vs ///0/325", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.71],O2'(hydroxyl)-O2(carbonyl)[2.98]" }, "A_nt2": { "desc": "///0/306 vs ///0/340", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.75]" } }, { "index": 20, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/439 vs ///0/153,///0/184", "A_nt1": { "desc": "///0/439 vs ///0/153", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.78],N3-O2'(hydroxyl)[2.70]" }, "A_nt2": { "desc": "///0/439 vs ///0/184", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 21, "type": "X", "desc_short": "A vs C-A (~Wobble)", "desc_long": "///0/442 vs ///0/40,///0/441", "A_nt1": { "desc": "///0/442 vs ///0/40", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2(carbonyl)[3.05],N6(amino)-N3[3.36]" }, "A_nt2": { "desc": "///0/442 vs ///0/441", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "OP2-O2'(hydroxyl)[3.00],N6(amino)-N3[2.89]" } }, { "index": 22, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/449 vs ///0/1305,///0/1349", "A_nt1": { "desc": "///0/449 vs ///0/1305", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O3'-O2'(hydroxyl)[3.15],O2'(hydroxyl)-O2'(hydroxyl)[2.47],O2'(hydroxyl)-O2(carbonyl)[3.15]" }, "A_nt2": { "desc": "///0/449 vs ///0/1349", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.64],N3-N2(amino)[3.00]" } }, { "index": 23, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/455 vs ///0/32,///0/451", "A_nt1": { "desc": "///0/455 vs ///0/32", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/455 vs ///0/451", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.67],N3-O2'(hydroxyl)[2.87]" } }, { "index": 24, "type": "I", "desc_short": "A vs A-U (WC)", "desc_long": "///0/472 vs ///0/773,///0/888", "A_nt1": { "desc": "///0/472 vs ///0/773", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.94]" }, "A_nt2": { "desc": "///0/472 vs ///0/888", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.53]" } }, { "index": 25, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/520 vs ///0/638,///0/1363", "A_nt1": { "desc": "///0/520 vs ///0/638", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.70],N3-O2'(hydroxyl)[2.80]" }, "A_nt2": { "desc": "///0/520 vs ///0/1363", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 26, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/521 vs ///0/637,///0/1364", "A_nt1": { "desc": "///0/521 vs ///0/637", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.89],O2'(hydroxyl)-O2(carbonyl)[3.03]" }, "A_nt2": { "desc": "///0/521 vs ///0/1364", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.68],N3-N2(amino)[3.11]" } }, { "index": 27, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/532 vs ///0/2084,///0/2660", "A_nt1": { "desc": "///0/532 vs ///0/2084", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O3'-O2'(hydroxyl)[3.08],O2'(hydroxyl)-O2'(hydroxyl)[2.70],O2'(hydroxyl)-O2(carbonyl)[2.65]" }, "A_nt2": { "desc": "///0/532 vs ///0/2660", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.52],N3-N2(amino)[3.20]" } }, { "index": 28, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/536 vs ///0/2061,///0/2075", "A_nt1": { "desc": "///0/536 vs ///0/2061", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.53]" }, "A_nt2": { "desc": "///0/536 vs ///0/2075", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.49],N3-N2(amino)[3.01]" } }, { "index": 29, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/551 vs ///0/1322,///0/1335", "A_nt1": { "desc": "///0/551 vs ///0/1322", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/551 vs ///0/1335", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.78],N3-O2'(hydroxyl)[2.77]" } }, { "index": 30, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/552 vs ///0/1323,///0/1334", "A_nt1": { "desc": "///0/552 vs ///0/1323", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.72],N3-N2(amino)[3.07]" }, "A_nt2": { "desc": "///0/552 vs ///0/1334", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.72],O2'(hydroxyl)-O2(carbonyl)[2.92]" } }, { "index": 31, "type": "II", "desc_short": "A vs A-U (WC)", "desc_long": "///0/565 vs ///0/1092,///0/1264", "A_nt1": { "desc": "///0/565 vs ///0/1092", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/565 vs ///0/1264", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[3.12],O2'(hydroxyl)-O2'(hydroxyl)[2.80],N3-O2'(hydroxyl)[2.74]" } }, { "index": 32, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/566 vs ///0/1093,///0/1263", "A_nt1": { "desc": "///0/566 vs ///0/1093", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.71],N3-N2(amino)[3.21]" }, "A_nt2": { "desc": "///0/566 vs ///0/1263", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.97],O2'(hydroxyl)-O2(carbonyl)[3.07]" } }, { "index": 33, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/580 vs ///0/1110,///0/1253", "A_nt1": { "desc": "///0/580 vs ///0/1110", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.97],N3-N2(amino)[3.03]" }, "A_nt2": { "desc": "///0/580 vs ///0/1253", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.53]" } }, { "index": 34, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/602 vs ///0/554,///0/605", "A_nt1": { "desc": "///0/602 vs ///0/554", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/602 vs ///0/605", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-O2'(hydroxyl)[3.22]" } }, { "index": 35, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/643 vs ///0/762,///0/902", "A_nt1": { "desc": "///0/643 vs ///0/762", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.59],O2'(hydroxyl)-O2(carbonyl)[2.75]" }, "A_nt2": { "desc": "///0/643 vs ///0/902", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.58],N3-N2(amino)[3.05]" } }, { "index": 36, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/665 vs ///0/208,///0/231", "A_nt1": { "desc": "///0/665 vs ///0/208", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/665 vs ///0/231", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[3.27],N1-O2'(hydroxyl)[3.29]" } }, { "index": 37, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/666 vs ///0/208,///0/231", "A_nt1": { "desc": "///0/666 vs ///0/208", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.77],O2'(hydroxyl)-O2(carbonyl)[2.83]" }, "A_nt2": { "desc": "///0/666 vs ///0/231", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.71],N3-N2(amino)[2.93]" } }, { "index": 38, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/674 vs ///0/36,///0/446", "A_nt1": { "desc": "///0/674 vs ///0/36", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2(carbonyl)[3.25],N1-O2'(hydroxyl)[2.69]" }, "A_nt2": { "desc": "///0/674 vs ///0/446", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N6(amino)*N2(amino)[3.14]" } }, { "index": 39, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/682 vs ///0/209,///0/230", "A_nt1": { "desc": "///0/682 vs ///0/209", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-N2(amino)[3.53]" }, "A_nt2": { "desc": "///0/682 vs ///0/230", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O3'-O2'(hydroxyl)[2.95],O2'(hydroxyl)-O2'(hydroxyl)[2.78],O2'(hydroxyl)-O2(carbonyl)[2.88]" } }, { "index": 40, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/692 vs ///0/2439,///0/2453", "A_nt1": { "desc": "///0/692 vs ///0/2439", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/692 vs ///0/2453", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N1-N2(amino)[2.85],N3-O2'(hydroxyl)[2.87]" } }, { "index": 41, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/698 vs ///0/729,///0/742", "A_nt1": { "desc": "///0/698 vs ///0/729", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O3'-O2'(hydroxyl)[2.88],O2'(hydroxyl)-O2'(hydroxyl)[2.60],O2'(hydroxyl)-O2(carbonyl)[2.81]" }, "A_nt2": { "desc": "///0/698 vs ///0/742", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.69],N3-N2(amino)[3.08]" } }, { "index": 42, "type": "II", "desc_short": "A vs A-U (WC)", "desc_long": "///0/736 vs ///0/2382,///0/2406", "A_nt1": { "desc": "///0/736 vs ///0/2382", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/736 vs ///0/2406", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-O2'(hydroxyl)[2.72]" } }, { "index": 43, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/737 vs ///0/2383,///0/2405", "A_nt1": { "desc": "///0/737 vs ///0/2383", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[3.58]" }, "A_nt2": { "desc": "///0/737 vs ///0/2405", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.89]" } }, { "index": 44, "type": "X", "desc_short": "A vs A-U (WC)", "desc_long": "///0/766 vs ///0/2108,///0/2478", "A_nt1": { "desc": "///0/766 vs ///0/2108", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/766 vs ///0/2478", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O4'-O2'(hydroxyl)[3.01],N3-O2'(hydroxyl)[2.69]" } }, { "index": 45, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/767 vs ///0/2110,///0/2477", "A_nt1": { "desc": "///0/767 vs ///0/2110", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.66],N3-N2(amino)[3.05]" }, "A_nt2": { "desc": "///0/767 vs ///0/2477", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.80],O2'(hydroxyl)-O2(carbonyl)[3.17]" } }, { "index": 46, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/776 vs ///0/871,///0/879", "A_nt1": { "desc": "///0/776 vs ///0/871", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N6(amino)-N3[3.15],N1-N2(amino)[3.21]" }, "A_nt2": { "desc": "///0/776 vs ///0/879", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 47, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/867 vs ///0/870,///0/880", "A_nt1": { "desc": "///0/867 vs ///0/870", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-N2(amino)[3.13]" }, "A_nt2": { "desc": "///0/867 vs ///0/880", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.70]" } }, { "index": 48, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/874 vs ///0/1832,///0/1844", "A_nt1": { "desc": "///0/874 vs ///0/1832", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.52],N3-N2(amino)[3.16]" }, "A_nt2": { "desc": "///0/874 vs ///0/1844", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.64],O2'(hydroxyl)-O2(carbonyl)[2.65]" } }, { "index": 49, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/923 vs ///0/2106,///0/2480", "A_nt1": { "desc": "///0/923 vs ///0/2106", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/923 vs ///0/2480", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-N3[2.97],N1-O2'(hydroxyl)[2.66]" } }, { "index": 50, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/943 vs ///0/941,///0/1025", "A_nt1": { "desc": "///0/943 vs ///0/941", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/943 vs ///0/1025", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N6(amino)-O2(carbonyl)[2.56]" } }, { "index": 51, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/961 vs ///0/958,///0/1008", "A_nt1": { "desc": "///0/961 vs ///0/958", "face_type": "+", "hbonds_num": 3, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[2.68],N6(amino)-N3[3.00],N1-N2(amino)[3.09]" }, "A_nt2": { "desc": "///0/961 vs ///0/1008", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 52, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1006 vs ///0/2298,///0/2310", "A_nt1": { "desc": "///0/1006 vs ///0/2298", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[3.04],O2'(hydroxyl)-O2'(hydroxyl)[2.66],N3-O2'(hydroxyl)[2.57]" }, "A_nt2": { "desc": "///0/1006 vs ///0/2310", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 53, "type": "I", "desc_short": "A vs U-A (WC)", "desc_long": "///0/1007 vs ///0/2297,///0/2311", "A_nt1": { "desc": "///0/1007 vs ///0/2297", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.65]" }, "A_nt2": { "desc": "///0/1007 vs ///0/2311", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.62]" } }, { "index": 54, "type": "I", "desc_short": "A vs G-U (Wobble)", "desc_long": "///0/1032 vs ///0/940,///0/1026", "A_nt1": { "desc": "///0/1032 vs ///0/940", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.57],N3-N2(amino)[2.94]" }, "A_nt2": { "desc": "///0/1032 vs ///0/1026", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 55, "type": "II", "desc_short": "A vs U-G (Wobble)", "desc_long": "///0/1057 vs ///0/2492,///0/2529", "A_nt1": { "desc": "///0/1057 vs ///0/2492", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[2.74],O2'(hydroxyl)-O2'(hydroxyl)[2.85],N3-O2'(hydroxyl)[2.70]" }, "A_nt2": { "desc": "///0/1057 vs ///0/2529", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 56, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1058 vs ///0/2491,///0/2530", "A_nt1": { "desc": "///0/1058 vs ///0/2491", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.56],N3-N2(amino)[2.96]" }, "A_nt2": { "desc": "///0/1058 vs ///0/2530", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.99]" } }, { "index": 57, "type": "II", "desc_short": "A vs A-U (WC)", "desc_long": "///0/1078 vs ///0/2067,///0/2078", "A_nt1": { "desc": "///0/1078 vs ///0/2067", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1078 vs ///0/2078", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.66],N3-O2'(hydroxyl)[2.63]" } }, { "index": 58, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1079 vs ///0/2068,///0/2077", "A_nt1": { "desc": "///0/1079 vs ///0/2068", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.48],N3-N2(amino)[3.17]" }, "A_nt2": { "desc": "///0/1079 vs ///0/2077", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.56]" } }, { "index": 59, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1081 vs ///0/1045,///0/1069", "A_nt1": { "desc": "///0/1081 vs ///0/1045", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1081 vs ///0/1069", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.73],N3-O2'(hydroxyl)[2.79]" } }, { "index": 60, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1082 vs ///0/1046,///0/1068", "A_nt1": { "desc": "///0/1082 vs ///0/1046", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.73],N3-N2(amino)[2.99]" }, "A_nt2": { "desc": "///0/1082 vs ///0/1068", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.74],O2'(hydroxyl)-O2(carbonyl)[3.15]" } }, { "index": 61, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1097 vs ///0/1074,///0/1085", "A_nt1": { "desc": "///0/1097 vs ///0/1074", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1097 vs ///0/1085", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.88],N3-O2'(hydroxyl)[2.69]" } }, { "index": 62, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1098 vs ///0/1075,///0/1084", "A_nt1": { "desc": "///0/1098 vs ///0/1075", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.88],N3-N2(amino)[3.17]" }, "A_nt2": { "desc": "///0/1098 vs ///0/1084", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.94],O2'(hydroxyl)-O2(carbonyl)[2.98]" } }, { "index": 63, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1106 vs ///0/1099,///0/1257", "A_nt1": { "desc": "///0/1106 vs ///0/1099", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1106 vs ///0/1257", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[3.00],O2'(hydroxyl)-O2'(hydroxyl)[2.83],N3-O2'(hydroxyl)[2.56]" } }, { "index": 64, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1107 vs ///0/1100,///0/1256", "A_nt1": { "desc": "///0/1107 vs ///0/1100", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.63],N3-N2(amino)[2.98]" }, "A_nt2": { "desc": "///0/1107 vs ///0/1256", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.67],O2'(hydroxyl)-O2(carbonyl)[2.89]" } }, { "index": 65, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1124 vs ///0/1076,///0/1083", "A_nt1": { "desc": "///0/1124 vs ///0/1076", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1124 vs ///0/1083", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2(carbonyl)[2.83],N1-O2'(hydroxyl)[2.72]" } }, { "index": 66, "type": "II", "desc_short": "A vs U-A (WC)", "desc_long": "///0/1132 vs ///0/2499,///0/2521", "A_nt1": { "desc": "///0/1132 vs ///0/2499", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1132 vs ///0/2521", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[3.09],O2'(hydroxyl)-O2'(hydroxyl)[2.86],N3-O2'(hydroxyl)[2.53]" } }, { "index": 67, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1133 vs ///0/2500,///0/2520", "A_nt1": { "desc": "///0/1133 vs ///0/2500", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.75]" }, "A_nt2": { "desc": "///0/1133 vs ///0/2520", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-N2(amino)[3.44]" } }, { "index": 68, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1152 vs ///0/1147,///0/1216", "A_nt1": { "desc": "///0/1152 vs ///0/1147", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.91]" }, "A_nt2": { "desc": "///0/1152 vs ///0/1216", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.83],N3-N2(amino)[2.95]" } }, { "index": 69, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1188 vs ///0/1158,///0/1209", "A_nt1": { "desc": "///0/1188 vs ///0/1158", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1188 vs ///0/1209", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-O2'(hydroxyl)[2.62]" } }, { "index": 70, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1231 vs ///0/2498,///0/2522", "A_nt1": { "desc": "///0/1231 vs ///0/2498", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2(carbonyl)[2.70],N1-O2'(hydroxyl)[2.70]" }, "A_nt2": { "desc": "///0/1231 vs ///0/2522", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 71, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1232 vs ///0/2551,///0/2603", "A_nt1": { "desc": "///0/1232 vs ///0/2551", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O4'-O2'(hydroxyl)[2.65],N3-O2'(hydroxyl)[2.86]" }, "A_nt2": { "desc": "///0/1232 vs ///0/2603", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 72, "type": "I", "desc_short": "A vs U-A (WC)", "desc_long": "///0/1233 vs ///0/2550,///0/2604", "A_nt1": { "desc": "///0/1233 vs ///0/2550", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O3'-O2'(hydroxyl)[3.15],O2'(hydroxyl)-O2'(hydroxyl)[2.60],O2'(hydroxyl)-O2(carbonyl)[2.79]" }, "A_nt2": { "desc": "///0/1233 vs ///0/2604", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.60]" } }, { "index": 73, "type": "I", "desc_short": "A vs U-A (WC)", "desc_long": "///0/1247 vs ///0/1122,///0/1242", "A_nt1": { "desc": "///0/1247 vs ///0/1122", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1247 vs ///0/1242", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.61]" } }, { "index": 74, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1259 vs ///0/1074,///0/1085", "A_nt1": { "desc": "///0/1259 vs ///0/1074", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.92],N3-N2(amino)[3.19]" }, "A_nt2": { "desc": "///0/1259 vs ///0/1085", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 75, "type": "II", "desc_short": "A vs U-A (WC)", "desc_long": "///0/1318 vs ///0/27,///0/516", "A_nt1": { "desc": "///0/1318 vs ///0/27", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.83],N3-O2'(hydroxyl)[2.72]" }, "A_nt2": { "desc": "///0/1318 vs ///0/516", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 76, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1330 vs ///0/905,///0/1300", "A_nt1": { "desc": "///0/1330 vs ///0/905", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.79],O2'(hydroxyl)-O2(carbonyl)[3.25]" }, "A_nt2": { "desc": "///0/1330 vs ///0/1300", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.77],N3-N2(amino)[2.86]" } }, { "index": 77, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1357 vs ///0/621,///0/634", "A_nt1": { "desc": "///0/1357 vs ///0/621", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.64]" }, "A_nt2": { "desc": "///0/1357 vs ///0/634", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 78, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1358 vs ///0/763,///0/901", "A_nt1": { "desc": "///0/1358 vs ///0/763", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1358 vs ///0/901", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.77],N3-N2(amino)[3.44]" } }, { "index": 79, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1375 vs ///0/1735,///0/2044", "A_nt1": { "desc": "///0/1375 vs ///0/1735", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1375 vs ///0/2044", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.72],N3-O2'(hydroxyl)[2.76]" } }, { "index": 80, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1381 vs ///0/1401,///0/1721", "A_nt1": { "desc": "///0/1381 vs ///0/1401", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.81],N3-N2(amino)[3.12]" }, "A_nt2": { "desc": "///0/1381 vs ///0/1721", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O3'-O2'(hydroxyl)[2.75],O2'(hydroxyl)-O2(carbonyl)[3.25]" } }, { "index": 81, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1393 vs ///0/1725,///0/2050", "A_nt1": { "desc": "///0/1393 vs ///0/1725", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2(carbonyl)[3.16],N1-O2'(hydroxyl)[2.51]" }, "A_nt2": { "desc": "///0/1393 vs ///0/2050", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 82, "type": "II", "desc_short": "A vs A-U (WC)", "desc_long": "///0/1458 vs ///0/784,///0/862", "A_nt1": { "desc": "///0/1458 vs ///0/784", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.75],N3-O2'(hydroxyl)[2.65]" }, "A_nt2": { "desc": "///0/1458 vs ///0/862", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 83, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1459 vs ///0/783,///0/863", "A_nt1": { "desc": "///0/1459 vs ///0/783", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.68],O2'(hydroxyl)-O2(carbonyl)[2.96]" }, "A_nt2": { "desc": "///0/1459 vs ///0/863", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.69],N3-N2(amino)[3.21]" } }, { "index": 84, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1470 vs ///0/157,///0/179", "A_nt1": { "desc": "///0/1470 vs ///0/157", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N1-N2(amino)[2.96],N3-O2'(hydroxyl)[2.65]" }, "A_nt2": { "desc": "///0/1470 vs ///0/179", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 85, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1476 vs ///0/1467,///0/1475", "A_nt1": { "desc": "///0/1476 vs ///0/1467", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N6(amino)-O2(carbonyl)[2.82]" }, "A_nt2": { "desc": "///0/1476 vs ///0/1475", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "O4'-O2'(hydroxyl)[3.59]" } }, { "index": 86, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1486 vs ///0/1452,///0/1675", "A_nt1": { "desc": "///0/1486 vs ///0/1452", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N1-N2(amino)[3.07],N3-O2'(hydroxyl)[2.70]" }, "A_nt2": { "desc": "///0/1486 vs ///0/1675", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 87, "type": "X", "desc_short": "A vs U-A (WC)", "desc_long": "///0/1487 vs ///0/785,///0/861", "A_nt1": { "desc": "///0/1487 vs ///0/785", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1487 vs ///0/861", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.76]" } }, { "index": 88, "type": "X", "desc_short": "A vs U-G (Wobble)", "desc_long": "///0/1487 vs ///0/1412,///0/1697", "A_nt1": { "desc": "///0/1487 vs ///0/1412", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1487 vs ///0/1697", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N3-N2(amino)[2.97]" } }, { "index": 89, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1492 vs ///0/1514,///0/1672", "A_nt1": { "desc": "///0/1492 vs ///0/1514", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.84],N3-O2'(hydroxyl)[2.70]" }, "A_nt2": { "desc": "///0/1492 vs ///0/1672", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 90, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1493 vs ///0/1449,///0/1513", "A_nt1": { "desc": "///0/1493 vs ///0/1449", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.64],N3-N2(amino)[2.94]" }, "A_nt2": { "desc": "///0/1493 vs ///0/1513", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.94],O2'(hydroxyl)-O2(carbonyl)[2.94]" } }, { "index": 91, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1501 vs ///0/1421,///0/1443", "A_nt1": { "desc": "///0/1501 vs ///0/1421", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[3.10],O2'(hydroxyl)-O2'(hydroxyl)[2.87],N3-O2'(hydroxyl)[2.65]" }, "A_nt2": { "desc": "///0/1501 vs ///0/1443", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 92, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1502 vs ///0/1420,///0/1444", "A_nt1": { "desc": "///0/1502 vs ///0/1420", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1502 vs ///0/1444", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.57]" } }, { "index": 93, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1572 vs ///0/1495,///0/1510", "A_nt1": { "desc": "///0/1572 vs ///0/1495", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.91],N3-O2'(hydroxyl)[2.75]" }, "A_nt2": { "desc": "///0/1572 vs ///0/1510", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 94, "type": "I", "desc_short": "A vs A-U (WC)", "desc_long": "///0/1573 vs ///0/1494,///0/1511", "A_nt1": { "desc": "///0/1573 vs ///0/1494", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1573 vs ///0/1511", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.62]" } }, { "index": 95, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1590 vs ///0/1592,///0/1602", "A_nt1": { "desc": "///0/1590 vs ///0/1592", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1590 vs ///0/1602", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.91]" } }, { "index": 96, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1598 vs ///0/1538,///0/1647", "A_nt1": { "desc": "///0/1598 vs ///0/1538", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1598 vs ///0/1647", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[3.22],N1-O2'(hydroxyl)[2.55]" } }, { "index": 97, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1615 vs ///0/1541,///0/1644", "A_nt1": { "desc": "///0/1615 vs ///0/1541", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1615 vs ///0/1644", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.72],N3-O2'(hydroxyl)[2.83]" } }, { "index": 98, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1616 vs ///0/1542,///0/1643", "A_nt1": { "desc": "///0/1616 vs ///0/1542", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.99],N3-N2(amino)[3.35]" }, "A_nt2": { "desc": "///0/1616 vs ///0/1643", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.65]" } }, { "index": 99, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1631 vs ///0/1554,///0/1567", "A_nt1": { "desc": "///0/1631 vs ///0/1554", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.80],N3-O2'(hydroxyl)[2.82]" }, "A_nt2": { "desc": "///0/1631 vs ///0/1567", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 100, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1632 vs ///0/1553,///0/1568", "A_nt1": { "desc": "///0/1632 vs ///0/1553", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.86],O2'(hydroxyl)-O2(carbonyl)[3.14]" }, "A_nt2": { "desc": "///0/1632 vs ///0/1568", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.67],N3-N2(amino)[3.44]" } }, { "index": 101, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1656 vs ///0/1456,///0/1489", "A_nt1": { "desc": "///0/1656 vs ///0/1456", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1656 vs ///0/1489", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[2.78],N6(amino)-N3[3.27]" } }, { "index": 102, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1657 vs ///0/1456,///0/1489", "A_nt1": { "desc": "///0/1657 vs ///0/1456", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1657 vs ///0/1489", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-N2(amino)[2.91]" } }, { "index": 103, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1658 vs ///0/1456,///0/1489", "A_nt1": { "desc": "///0/1658 vs ///0/1456", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[2.74],O2'(hydroxyl)-O2'(hydroxyl)[2.70],N3-O2'(hydroxyl)[2.63]" }, "A_nt2": { "desc": "///0/1658 vs ///0/1489", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 104, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1659 vs ///0/1455,///0/1490", "A_nt1": { "desc": "///0/1659 vs ///0/1455", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1659 vs ///0/1490", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N3-N2(amino)[3.37]" } }, { "index": 105, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1685 vs ///0/1416,///0/1679", "A_nt1": { "desc": "///0/1685 vs ///0/1416", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-N2(amino)[3.17]" }, "A_nt2": { "desc": "///0/1685 vs ///0/1679", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[3.18],N1-O2'(hydroxyl)[2.55]" } }, { "index": 106, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1691 vs ///0/1430,///0/1436", "A_nt1": { "desc": "///0/1691 vs ///0/1430", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N6(amino)-N3[3.04]" }, "A_nt2": { "desc": "///0/1691 vs ///0/1436", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 107, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1811 vs ///0/2731,///0/2751", "A_nt1": { "desc": "///0/1811 vs ///0/2731", "face_type": "+", "hbonds_num": 3, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[3.01],N6(amino)-N3[3.30],N1-N2(amino)[2.85]" }, "A_nt2": { "desc": "///0/1811 vs ///0/2751", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 108, "type": "X", "desc_short": "A vs U-A (WC)", "desc_long": "///0/1857 vs ///0/2246,///0/2255", "A_nt1": { "desc": "///0/1857 vs ///0/2246", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.58]" }, "A_nt2": { "desc": "///0/1857 vs ///0/2255", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 109, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1858 vs ///0/1854,///0/1877", "A_nt1": { "desc": "///0/1858 vs ///0/1854", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[2.99],O2'(hydroxyl)-O2'(hydroxyl)[2.58],N3-O2'(hydroxyl)[2.60]" }, "A_nt2": { "desc": "///0/1858 vs ///0/1877", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 110, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1859 vs ///0/1853,///0/1878", "A_nt1": { "desc": "///0/1859 vs ///0/1853", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.69],O2'(hydroxyl)-O2(carbonyl)[3.32]" }, "A_nt2": { "desc": "///0/1859 vs ///0/1878", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N3-N2(amino)[3.22]" } }, { "index": 111, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1865 vs ///0/1468,///0/1474", "A_nt1": { "desc": "///0/1865 vs ///0/1468", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[2.98],O2'(hydroxyl)-O2'(hydroxyl)[2.75],N3-O2'(hydroxyl)[2.63]" }, "A_nt2": { "desc": "///0/1865 vs ///0/1474", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 112, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1866 vs ///0/1467,///0/1475", "A_nt1": { "desc": "///0/1866 vs ///0/1467", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.59]" }, "A_nt2": { "desc": "///0/1866 vs ///0/1475", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.72],N3-N2(amino)[2.97]" } }, { "index": 113, "type": "X", "desc_short": "A vs U-A (WC)", "desc_long": "///0/1909 vs ///0/2127,///0/2266", "A_nt1": { "desc": "///0/1909 vs ///0/2127", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1909 vs ///0/2266", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.69],N3-O2'(hydroxyl)[2.75]" } }, { "index": 114, "type": "X", "desc_short": "A vs G-U (Wobble)", "desc_long": "///0/1909 vs ///0/2128,///0/2265", "A_nt1": { "desc": "///0/1909 vs ///0/2128", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[3.48]" }, "A_nt2": { "desc": "///0/1909 vs ///0/2265", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 115, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1921 vs ///0/418,///0/2449", "A_nt1": { "desc": "///0/1921 vs ///0/418", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1921 vs ///0/2449", "face_type": "+", "hbonds_num": 3, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[3.17],N6(amino)-N3[3.12],N1-N2(amino)[3.14]" } }, { "index": 116, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1922 vs ///0/418,///0/2449", "A_nt1": { "desc": "///0/1922 vs ///0/418", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1922 vs ///0/2449", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.74]" } }, { "index": 117, "type": "II", "desc_short": "A vs U-A (WC)", "desc_long": "///0/1930 vs ///0/2127,///0/2266", "A_nt1": { "desc": "///0/1930 vs ///0/2127", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[3.07],O2'(hydroxyl)-O2'(hydroxyl)[2.75],N3-O2'(hydroxyl)[2.81]" }, "A_nt2": { "desc": "///0/1930 vs ///0/2266", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 118, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1931 vs ///0/2126,///0/2267", "A_nt1": { "desc": "///0/1931 vs ///0/2126", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[3.29]" }, "A_nt2": { "desc": "///0/1931 vs ///0/2267", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.89],N3-N2(amino)[3.12]" } }, { "index": 119, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1941 vs ///0/1849,///0/1882", "A_nt1": { "desc": "///0/1941 vs ///0/1849", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.65],N3-N2(amino)[3.50]" }, "A_nt2": { "desc": "///0/1941 vs ///0/1882", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 120, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1968 vs ///0/1893,///0/1944", "A_nt1": { "desc": "///0/1968 vs ///0/1893", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[2.99],O2'(hydroxyl)-O2'(hydroxyl)[2.67],N3-O2'(hydroxyl)[2.68]" }, "A_nt2": { "desc": "///0/1968 vs ///0/1944", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-N2(amino)[3.42]" } }, { "index": 121, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1969 vs ///0/1892,///0/1945", "A_nt1": { "desc": "///0/1969 vs ///0/1892", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[3.01]" }, "A_nt2": { "desc": "///0/1969 vs ///0/1945", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.69],N3-N2(amino)[3.23]" } }, { "index": 122, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/1978 vs ///0/1975,///0/2005", "A_nt1": { "desc": "///0/1978 vs ///0/1975", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/1978 vs ///0/2005", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-N2(amino)[2.81]" } }, { "index": 123, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/1994 vs ///0/2584,///0/2594", "A_nt1": { "desc": "///0/1994 vs ///0/2584", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.71],N3-N2(amino)[2.98]" }, "A_nt2": { "desc": "///0/1994 vs ///0/2594", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.66],O2'(hydroxyl)-O2(carbonyl)[2.84]" } }, { "index": 124, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/2007 vs ///0/2627,///0/2636", "A_nt1": { "desc": "///0/2007 vs ///0/2627", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-O2'(hydroxyl)[2.76]" }, "A_nt2": { "desc": "///0/2007 vs ///0/2636", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 125, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2010 vs ///0/1889,///0/2013", "A_nt1": { "desc": "///0/2010 vs ///0/1889", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.70]" }, "A_nt2": { "desc": "///0/2010 vs ///0/2013", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.56],O2'(hydroxyl)-N3[2.76],N3-N2(amino)[3.03]" } }, { "index": 126, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/2011 vs ///0/1849,///0/1882", "A_nt1": { "desc": "///0/2011 vs ///0/1849", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-N2(amino)[3.18]" }, "A_nt2": { "desc": "///0/2011 vs ///0/1882", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O3'-O2'(hydroxyl)[3.38]" } }, { "index": 127, "type": "II", "desc_short": "A vs G-C (WC)", "desc_long": "///0/2022 vs ///0/830,///0/851", "A_nt1": { "desc": "///0/2022 vs ///0/830", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-N2(amino)[2.75]" }, "A_nt2": { "desc": "///0/2022 vs ///0/851", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-O2'(hydroxyl)[2.75]" } }, { "index": 128, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2291 vs ///0/2281,///0/2289", "A_nt1": { "desc": "///0/2291 vs ///0/2281", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/2291 vs ///0/2289", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[2.71],N1-N2(amino)[2.93]" } }, { "index": 129, "type": "II", "desc_short": "A vs G-U (Wobble)", "desc_long": "///0/2307 vs ///0/1052,///0/1062", "A_nt1": { "desc": "///0/2307 vs ///0/1052", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-N2(amino)[3.14]" }, "A_nt2": { "desc": "///0/2307 vs ///0/1062", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[2.88],O2'(hydroxyl)-O2'(hydroxyl)[2.88],N3-O2'(hydroxyl)[2.63]" } }, { "index": 130, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/2361 vs ///0/2295,///0/2313", "A_nt1": { "desc": "///0/2361 vs ///0/2295", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.71],N3-N2(amino)[3.06]" }, "A_nt2": { "desc": "///0/2361 vs ///0/2313", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.93]" } }, { "index": 131, "type": "I", "desc_short": "A vs U-G (Wobble)", "desc_long": "///0/2370 vs ///0/2358,///0/2365", "A_nt1": { "desc": "///0/2370 vs ///0/2358", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/2370 vs ///0/2365", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.67],N3-N2(amino)[2.92]" } }, { "index": 132, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2394 vs ///0/915,///0/928", "A_nt1": { "desc": "///0/2394 vs ///0/915", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/2394 vs ///0/928", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N1-N2(amino)[2.99],N3-O2'(hydroxyl)[2.69]" } }, { "index": 133, "type": "X", "desc_short": "A vs A-U (WC)", "desc_long": "///0/2395 vs ///0/916,///0/927", "A_nt1": { "desc": "///0/2395 vs ///0/916", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N6(amino)-N3[3.28]" }, "A_nt2": { "desc": "///0/2395 vs ///0/927", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-O2'(hydroxyl)[2.72]" } }, { "index": 134, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2425 vs ///0/2294,///0/2314", "A_nt1": { "desc": "///0/2425 vs ///0/2294", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O3'-O2'(hydroxyl)[3.18],O2'(hydroxyl)-O2'(hydroxyl)[2.59]" }, "A_nt2": { "desc": "///0/2425 vs ///0/2314", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.71],N3-N2(amino)[3.22]" } }, { "index": 135, "type": "I", "desc_short": "A vs A-U (WC)", "desc_long": "///0/2469 vs ///0/2118,///0/2276", "A_nt1": { "desc": "///0/2469 vs ///0/2118", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/2469 vs ///0/2276", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[3.10]" } }, { "index": 136, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2566 vs ///0/2695,///0/2700", "A_nt1": { "desc": "///0/2566 vs ///0/2695", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.89],N3-O2'(hydroxyl)[2.55]" }, "A_nt2": { "desc": "///0/2566 vs ///0/2700", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 137, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2599 vs ///0/2556,///0/2579", "A_nt1": { "desc": "///0/2599 vs ///0/2556", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O3'[3.00],O2'(hydroxyl)-O2'(hydroxyl)[2.65],N3-O2'(hydroxyl)[2.81]" }, "A_nt2": { "desc": "///0/2599 vs ///0/2579", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 138, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2600 vs ///0/2555,///0/2580", "A_nt1": { "desc": "///0/2600 vs ///0/2555", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.62]" }, "A_nt2": { "desc": "///0/2600 vs ///0/2580", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.60],N3-N2(amino)[3.08]" } }, { "index": 139, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2633 vs ///0/2114,///0/2471", "A_nt1": { "desc": "///0/2633 vs ///0/2114", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.85]" }, "A_nt2": { "desc": "///0/2633 vs ///0/2471", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.64],N3-N2(amino)[3.30]" } }, { "index": 140, "type": "II", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2680 vs ///0/2682,///0/2712", "A_nt1": { "desc": "///0/2680 vs ///0/2682", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "N3-O2'(hydroxyl)[2.66]" }, "A_nt2": { "desc": "///0/2680 vs ///0/2712", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-N2(amino)[2.97]" } }, { "index": 141, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/2681 vs ///0/2713,///0/2767", "A_nt1": { "desc": "///0/2681 vs ///0/2713", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.63],N3-N2(amino)[3.49]" }, "A_nt2": { "desc": "///0/2681 vs ///0/2767", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O3'-O2'(hydroxyl)[3.08]" } }, { "index": 142, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2776 vs ///0/2559,///0/2574", "A_nt1": { "desc": "///0/2776 vs ///0/2559", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.87]" }, "A_nt2": { "desc": "///0/2776 vs ///0/2574", "face_type": "-", "hbonds_num": 3, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.70],O2'(hydroxyl)-N3[3.28],N3-N2(amino)[2.76]" } }, { "index": 143, "type": "X", "desc_short": "A vs G-C (WC)", "desc_long": "///0/2799 vs ///0/2558,///0/2575", "A_nt1": { "desc": "///0/2799 vs ///0/2558", "face_type": "-", "hbonds_num": 4, "hbonds_desc": "O3'-O2'(hydroxyl)[2.85],O2'(hydroxyl)-O2'(hydroxyl)[2.84],O2'(hydroxyl)-N3[2.65],N3-N2(amino)[2.88]" }, "A_nt2": { "desc": "///0/2799 vs ///0/2575", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 144, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///0/2827 vs ///0/2667,///0/2822", "A_nt1": { "desc": "///0/2827 vs ///0/2667", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.84],N3-N2(amino)[2.77]" }, "A_nt2": { "desc": "///0/2827 vs ///0/2822", "face_type": "-", "hbonds_num": 1, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[3.26]" } }, { "index": 145, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2840 vs ///0/2088,///0/2656", "A_nt1": { "desc": "///0/2840 vs ///0/2088", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2(carbonyl)[2.91],N1-O2'(hydroxyl)[2.62]" }, "A_nt2": { "desc": "///0/2840 vs ///0/2656", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 146, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2841 vs ///0/2087,///0/2657", "A_nt1": { "desc": "///0/2841 vs ///0/2087", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///0/2841 vs ///0/2657", "face_type": "+", "hbonds_num": 3, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[3.02],N6(amino)-N3[2.88],N1-N2(amino)[3.06]" } }, { "index": 147, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2875 vs ///0/1787,///0/1805", "A_nt1": { "desc": "///0/2875 vs ///0/1787", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N1-O2'(hydroxyl)[2.71]" }, "A_nt2": { "desc": "///0/2875 vs ///0/1805", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.48],N3-N2(amino)[3.27]" } }, { "index": 148, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2883 vs ///0/1786,///0/1806", "A_nt1": { "desc": "///0/2883 vs ///0/1786", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[3.12],O2'(hydroxyl)-O2(carbonyl)[3.30]" }, "A_nt2": { "desc": "///0/2883 vs ///0/1806", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.84],N3-N2(amino)[3.19]" } }, { "index": 149, "type": "I", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2906 vs ///0/2833,///0/2847", "A_nt1": { "desc": "///0/2906 vs ///0/2833", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.80],O2'(hydroxyl)-O2(carbonyl)[2.49]" }, "A_nt2": { "desc": "///0/2906 vs ///0/2847", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.92],N3-N2(amino)[3.08]" } }, { "index": 150, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///0/2908 vs ///0/2832,///0/2848", "A_nt1": { "desc": "///0/2908 vs ///0/2832", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2(carbonyl)[2.61],N1-O2'(hydroxyl)[2.95]" }, "A_nt2": { "desc": "///0/2908 vs ///0/2848", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 151, "type": "I", "desc_short": "A vs G-C (WC)", "desc_long": "///9/3 vs ///9/21,///9/59", "A_nt1": { "desc": "///9/3 vs ///9/21", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N1-O2'(hydroxyl)[2.69],N3-N2(amino)[3.07]" }, "A_nt2": { "desc": "///9/3 vs ///9/59", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 152, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///9/52 vs ///9/30,///9/50", "A_nt1": { "desc": "///9/52 vs ///9/30", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2(carbonyl)[2.73],N1-O2'(hydroxyl)[2.79]" }, "A_nt2": { "desc": "///9/52 vs ///9/50", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 153, "type": "X", "desc_short": "A vs U-A (WC)", "desc_long": "///9/56 vs ///9/28,///9/54", "A_nt1": { "desc": "///9/56 vs ///9/28", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" }, "A_nt2": { "desc": "///9/56 vs ///9/54", "face_type": "+", "hbonds_num": 1, "hbonds_desc": "N6(amino)-N3[3.18]" } }, { "index": 154, "type": "X", "desc_short": "A vs C-G (WC)", "desc_long": "///9/56 vs ///9/29,///9/53", "A_nt1": { "desc": "///9/56 vs ///9/29", "face_type": "-", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2(carbonyl)[3.02],N1-O2'(hydroxyl)[2.94]" }, "A_nt2": { "desc": "///9/56 vs ///9/53", "face_type": "+", "hbonds_num": 0, "hbonds_desc": "" } }, { "index": 155, "type": "X", "desc_short": "A vs U-A (WC)", "desc_long": "///9/57 vs ///9/28,///9/54", "A_nt1": { "desc": "///9/57 vs ///9/28", "face_type": "+", "hbonds_num": 2, "hbonds_desc": "N6(amino)-O2'(hydroxyl)[3.02],N6(amino)-O2(carbonyl)[2.68]" }, "A_nt2": { "desc": "///9/57 vs ///9/54", "face_type": "-", "hbonds_num": 0, "hbonds_desc": "" } } ], "num_riboseZippers": 46, "riboseZippers": [ { "index": 1, "num_nts": 4, "nts_short": "UUAG", "nts_long": "///0/26,///0/27,///0/1318,///0/1319" }, { "index": 2, "num_nts": 4, "nts_short": "ACAC", "nts_long": "///0/152,///0/153,///0/439,///0/440" }, { "index": 3, "num_nts": 4, "nts_short": "AACC", "nts_long": "///0/160,///0/161,///0/769,///0/770" }, { "index": 4, "num_nts": 4, "nts_short": "AGAU", "nts_long": "///0/189,///0/190,///0/204,///0/205" }, { "index": 5, "num_nts": 4, "nts_short": "CGAA", "nts_long": "///0/208,///0/209,///0/665,///0/666" }, { "index": 6, "num_nts": 4, "nts_short": "UAAA", "nts_long": "///0/233,///0/234,///0/436,///0/437" }, { "index": 7, "num_nts": 4, "nts_short": "AACC", "nts_long": "///0/242,///0/243,///0/376,///0/377" }, { "index": 8, "num_nts": 4, "nts_short": "AAUG", "nts_long": "///0/305,///0/306,///0/325,///0/326" }, { "index": 9, "num_nts": 4, "nts_short": "GAAC", "nts_long": "///0/471,///0/472,///0/773,///0/774" }, { "index": 10, "num_nts": 4, "nts_short": "AACC", "nts_long": "///0/520,///0/521,///0/637,///0/638" }, { "index": 11, "num_nts": 4, "nts_short": "AACC", "nts_long": "///0/551,///0/552,///0/1334,///0/1335" }, { "index": 12, "num_nts": 4, "nts_short": "AACU", "nts_long": "///0/565,///0/566,///0/1263,///0/1264" }, { "index": 13, "num_nts": 4, "nts_short": "GAGU", "nts_long": "///0/579,///0/580,///0/1110,///0/1111" }, { "index": 14, "num_nts": 4, "nts_short": "GACG", "nts_long": "///0/697,///0/698,///0/729,///0/730" }, { "index": 15, "num_nts": 4, "nts_short": "AACU", "nts_long": "///0/736,///0/737,///0/2405,///0/2406" }, { "index": 16, "num_nts": 4, "nts_short": "CAAA", "nts_long": "///0/783,///0/784,///0/1458,///0/1459" }, { "index": 17, "num_nts": 4, "nts_short": "AACG", "nts_long": "///0/790,///0/791,///0/1708,///0/1709" }, { "index": 18, "num_nts": 4, "nts_short": "CCGA", "nts_long": "///0/905,///0/906,///0/1329,///0/1330" }, { "index": 19, "num_nts": 4, "nts_short": "GACC", "nts_long": "///0/911,///0/912,///0/930,///0/931" }, { "index": 20, "num_nts": 4, "nts_short": "AGAC", "nts_long": "///0/955,///0/956,///9/80,///9/81" }, { "index": 21, "num_nts": 4, "nts_short": "AAUC", "nts_long": "///0/1006,///0/1007,///0/2297,///0/2298" }, { "index": 22, "num_nts": 4, "nts_short": "AAGA", "nts_long": "///0/1012,///0/1013,///9/102,///9/103" }, { "index": 23, "num_nts": 4, "nts_short": "AUAG", "nts_long": "///0/1040,///0/1041,///0/1294,///0/1295" }, { "index": 24, "num_nts": 4, "nts_short": "AAGU", "nts_long": "///0/1057,///0/1058,///0/2491,///0/2492" }, { "index": 25, "num_nts": 4, "nts_short": "UGUA", "nts_long": "///0/1062,///0/1063,///0/2306,///0/2307" }, { "index": 26, "num_nts": 4, "nts_short": "CCAA", "nts_long": "///0/1068,///0/1069,///0/1081,///0/1082" }, { "index": 27, "num_nts": 4, "nts_short": "AACU", "nts_long": "///0/1078,///0/1079,///0/2077,///0/2078" }, { "index": 28, "num_nts": 4, "nts_short": "CCAA", "nts_long": "///0/1084,///0/1085,///0/1097,///0/1098" }, { "index": 29, "num_nts": 4, "nts_short": "AACC", "nts_long": "///0/1106,///0/1107,///0/1256,///0/1257" }, { "index": 30, "num_nts": 4, "nts_short": "AACC", "nts_long": "///0/1188,///0/1189,///0/1208,///0/1209" }, { "index": 31, "num_nts": 4, "nts_short": "CUAA", "nts_long": "///0/1456,///0/1457,///0/1657,///0/1658" }, { "index": 32, "num_nts": 4, "nts_short": "CGAA", "nts_long": "///0/1467,///0/1468,///0/1865,///0/1866" }, { "index": 33, "num_nts": 4, "nts_short": "AACC", "nts_long": "///0/1492,///0/1493,///0/1513,///0/1514" }, { "index": 34, "num_nts": 4, "nts_short": "CCAA", "nts_long": "///0/1553,///0/1554,///0/1631,///0/1632" }, { "index": 35, "num_nts": 4, "nts_short": "AACC", "nts_long": "///0/1615,///0/1616,///0/1643,///0/1644" }, { "index": 36, "num_nts": 4, "nts_short": "CCGA", "nts_long": "///0/1786,///0/1787,///0/2882,///0/2883" }, { "index": 37, "num_nts": 4, "nts_short": "UAGG", "nts_long": "///0/1838,///0/1839,///0/2642,///0/2643" }, { "index": 38, "num_nts": 4, "nts_short": "CCAA", "nts_long": "///0/1853,///0/1854,///0/1858,///0/1859" }, { "index": 39, "num_nts": 4, "nts_short": "CCAA", "nts_long": "///0/1892,///0/1893,///0/1968,///0/1969" }, { "index": 40, "num_nts": 4, "nts_short": "AACU", "nts_long": "///0/1930,///0/1931,///0/2126,///0/2127" }, { "index": 41, "num_nts": 4, "nts_short": "CACU", "nts_long": "///0/1993,///0/1994,///0/2594,///0/2595" }, { "index": 42, "num_nts": 4, "nts_short": "CUGA", "nts_long": "///0/2114,///0/2115,///0/2632,///0/2633" }, { "index": 43, "num_nts": 4, "nts_short": "CCAA", "nts_long": "///0/2555,///0/2556,///0/2599,///0/2600" }, { "index": 44, "num_nts": 4, "nts_short": "GCGA", "nts_long": "///0/2558,///0/2559,///0/2798,///0/2799" }, { "index": 45, "num_nts": 4, "nts_short": "GCAA", "nts_long": "///0/2574,///0/2575,///0/2775,///0/2776" }, { "index": 46, "num_nts": 4, "nts_short": "CGGA", "nts_long": "///0/2822,///0/2823,///0/2826,///0/2827" } ], "num_Kturns": 8, "Kturns": [ { "index": 1, "type": "Normal k-turn", "iloop_index": 43, "bounding_stems": [ 11, 10 ], "Cstem_index": 11, "NCstem_index": 10, "Cstem_pair": "C-G (///0/93,///0/81) WC", "NCstem_pair": "C-G (///0/100,///0/77) WC", "GA_pair": "G-A (///0/97,///0/80) Sheared", "bending_angle": 52.200, "strand1": { "num_nts": 15, "nts_short": "GGCGAAGAACCACAG", "nts_long": "///0/91,///0/92,///0/93,///0/94,///0/95,///0/96,///0/97,///0/98,///0/99,///0/100,///0/101,///0/102,///0/103,///0/104,///0/105" }, "strand2": { "num_nts": 12, "nts_short": "CUGUGGGGAGCC", "nts_long": "///0/72,///0/73,///0/74,///0/75,///0/76,///0/77,///0/78,///0/79,///0/80,///0/81,///0/82,///0/83" } }, { "index": 2, "type": "Normal k-turn", "iloop_index": 49, "bounding_stems": [ 79, 80 ], "Cstem_index": 79, "NCstem_index": 80, "Cstem_pair": "G-C (///0/1312,///0/1342) WC", "NCstem_pair": "G-U (///0/1319,///0/1338) Wobble", "GA_pair": "G-A (///0/1316,///0/1341) Sheared", "bending_angle": 34.054, "strand1": { "num_nts": 22, "nts_short": "CUAAUUGGAUGGAAGCAGGGGC", "nts_long": "///0/1305,///0/1306,///0/1307,///0/1308,///0/1309,///0/1310,///0/1311,///0/1312,///0/1313,///0/1314,///0/1315,///0/1316,///0/1317,///0/1318,///0/1319,///0/1320,///0/1321,///0/1322,///0/1323,///0/1324,///0/1325,///0/1326" }, "strand2": { "num_nts": 19, "nts_short": "GCUCCUGUGGACCGAUUAG", "nts_long": "///0/1331,///0/1332,///0/1333,///0/1334,///0/1335,///0/1336,///0/1337,///0/1338,///0/1339,///0/1340,///0/1341,///0/1342,///0/1343,///0/1344,///0/1345,///0/1346,///0/1347,///0/1348,///0/1349" } }, { "index": 3, "type": "Normal k-turn", "iloop_index": 53, "bounding_stems": [ 103, 102 ], "Cstem_index": 103, "NCstem_index": 102, "Cstem_pair": "C-G (///0/1602,///0/1592) WC", "NCstem_pair": "G-U (///0/1608,///0/1587) Wobble", "GA_pair": "G-A (///0/1605,///0/1590) Sheared", "bending_angle": 40.200, "strand1": { "num_nts": 13, "nts_short": "GGCAGGAAGCGGA", "nts_long": "///0/1600,///0/1601,///0/1602,///0/1603,///0/1604,///0/1605,///0/1606,///0/1607,///0/1608,///0/1609,///0/1610,///0/1611,///0/1612" }, "strand2": { "num_nts": 12, "nts_short": "UCCGUGGAAGCC", "nts_long": "///0/1583,///0/1584,///0/1585,///0/1586,///0/1587,///0/1588,///0/1589,///0/1590,///0/1591,///0/1592,///0/1593,///0/1594" } }, { "index": 4, "type": "Normal k-turn", "iloop_index": 57, "bounding_stems": [ 59, 58 ], "Cstem_index": 59, "NCstem_index": 58, "Cstem_pair": "U-G (///0/1026,///0/940) Wobble", "NCstem_pair": "G-C (///0/1034,///0/936) WC", "GA_pair": "G-A (///0/1031,///0/939) Sheared", "bending_angle": 62.681, "strand1": { "num_nts": 16, "nts_short": "GCUGUUUGACGCGGGG", "nts_long": "///0/1024,///0/1025,///0/1026,///0/1027,///0/1028,///0/1029,///0/1030,///0/1031,///0/1032,///0/1033,///0/1034,///0/1035,///0/1036,///0/1037,///0/1038,///0/1039" }, "strand2": { "num_nts": 12, "nts_short": "CUCCGCCGAGGU", "nts_long": "///0/931,///0/932,///0/933,///0/934,///0/935,///0/936,///0/937,///0/938,///0/939,///0/940,///0/941,///0/942" } }, { "index": 5, "type": "Normal k-turn", "iloop_index": 58, "bounding_stems": [ 72, 73 ], "Cstem_index": 72, "NCstem_index": 73, "Cstem_pair": "C-G (///0/1147,///0/1216) WC", "NCstem_pair": "G-C (///0/1155,///0/1212) WC", "GA_pair": "G-A (///0/1151,///0/1215) Sheared", "bending_angle": 76.673, "strand1": { "num_nts": 22, "nts_short": "GUCUCGAGCCCUAGACAGCCGG", "nts_long": "///0/1138,///0/1139,///0/1140,///0/1141,///0/1142,///0/1143,///0/1144,///0/1145,///0/1146,///0/1147,///0/1148,///0/1149,///0/1150,///0/1151,///0/1152,///0/1153,///0/1154,///0/1155,///0/1156,///0/1157,///0/1158,///0/1159" }, "strand2": { "num_nts": 18, "nts_short": "CCGGCCGAGGUUUGAGGC", "nts_long": "///0/1208,///0/1209,///0/1210,///0/1211,///0/1212,///0/1213,///0/1214,///0/1215,///0/1216,///0/1217,///0/1218,///0/1219,///0/1220,///0/1221,///0/1222,///0/1223,///0/1224,///0/1225" } }, { "index": 6, "type": "REVERSE k-turn [A-G]", "iloop_index": 51, "bounding_stems": [ 95, 96 ], "Cstem_index": 95, "NCstem_index": 96, "Cstem_pair": "C-G (///0/1521,///0/1665) WC", "NCstem_pair": "G-C (///0/1529,///0/1662) WC", "GA_pair": "A-G (///0/1528,///0/1663) Sheared", "bending_angle": 54.535, "strand1": { "num_nts": 18, "nts_short": "CAUCAUGCAGUGAAAGUU", "nts_long": "///0/1514,///0/1515,///0/1516,///0/1517,///0/1518,///0/1519,///0/1520,///0/1521,///0/1522,///0/1523,///0/1524,///0/1525,///0/1526,///0/1527,///0/1528,///0/1529,///0/1530,///0/1531" }, "strand2": { "num_nts": 13, "nts_short": "GACGAGCAUGAUG", "nts_long": "///0/1660,///0/1661,///0/1662,///0/1663,///0/1664,///0/1665,///0/1666,///0/1667,///0/1668,///0/1669,///0/1670,///0/1671,///0/1672" } }, { "index": 7, "type": "Undecided case [A-G]", "iloop_index": 33, "bounding_stems": [ 106, 107 ], "Cstem_index": 106, "NCstem_index": 107, "Cstem_pair": "G-C (///0/1728,///0/2047) WC", "NCstem_pair": "C-G (///0/1734,///0/2045) WC", "GA_pair": "A-G (///0/1733,///0/2046) Sheared", "bending_angle": 52.668, "strand1": { "num_nts": 17, "nts_short": "CGGGAGCAACCAACGUU", "nts_long": "///0/1725,///0/1726,///0/1727,///0/1728,///0/1729,///0/1730,///0/1731,///0/1732,///0/1733,///0/1734,///0/1735,///0/1736,///0/1737,///0/1738,///0/1739,///0/1740,///0/1741" }, "strand2": { "num_nts": 13, "nts_short": "AACGUUGGGCCCG", "nts_long": "///0/2038,///0/2039,///0/2040,///0/2041,///0/2042,///0/2043,///0/2044,///0/2045,///0/2046,///0/2047,///0/2048,///0/2049,///0/2050" } }, { "index": 8, "type": "Undecided case [A-G]", "iloop_index": 45, "bounding_stems": [ 22, 23 ], "Cstem_index": 22, "NCstem_index": 23, "Cstem_pair": "C-G (///0/280,///0/369) WC", "NCstem_pair": "C-G (///0/287,///0/365) WC", "GA_pair": "A-G (///0/285,///0/367) Sheared", "bending_angle": 89.712, "strand1": { "num_nts": 16, "nts_short": "GCUACCUCUCAUCAGC", "nts_long": "///0/275,///0/276,///0/277,///0/278,///0/279,///0/280,///0/281,///0/282,///0/283,///0/284,///0/285,///0/286,///0/287,///0/288,///0/289,///0/290" }, "strand2": { "num_nts": 13, "nts_short": "GCUGUGCGGUAGU", "nts_long": "///0/362,///0/363,///0/364,///0/365,///0/366,///0/367,///0/368,///0/369,///0/370,///0/371,///0/372,///0/373,///0/374" } } ], "num_splayUnits": 258, "splayUnits": [ { "index": 1, "num_nts": 2, "nts_short": "CG", "nts_long": "///0/31,///0/32" }, { "index": 2, "num_nts": 3, "nts_short": "AUG", "nts_long": "///0/45,///0/46,///0/47" }, { "index": 3, "num_nts": 3, "nts_short": "AUA", "nts_long": "///0/67,///0/68,///0/69" }, { "index": 4, "num_nts": 2, "nts_short": "AG", "nts_long": "///0/70,///0/71" }, { "index": 5, "num_nts": 2, "nts_short": "CG", "nts_long": "///0/83,///0/84" }, { "index": 6, "num_nts": 3, "nts_short": "ACG", "nts_long": "///0/86,///0/87,///0/88" }, { "index": 7, "num_nts": 3, "nts_short": "AAG", "nts_long": "///0/95,///0/96,///0/97" }, { "index": 8, "num_nts": 2, "nts_short": "UU", "nts_long": "///0/108,///0/109" }, { "index": 9, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/115,///0/116" }, { "index": 10, "num_nts": 4, "nts_short": "AAUC", "nts_long": "///0/119,///0/120,///0/121,///0/122" }, { "index": 11, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/129,///0/130" }, { "index": 12, "num_nts": 3, "nts_short": "UUC", "nts_long": "///0/137,///0/138,///0/139" }, { "index": 13, "num_nts": 3, "nts_short": "AAA", "nts_long": "///0/165,///0/166,///0/167" }, { "index": 14, "num_nts": 3, "nts_short": "AAA", "nts_long": "///0/192,///0/193,///0/194" }, { "index": 15, "num_nts": 3, "nts_short": "GCA", "nts_long": "///0/196,///0/197,///0/198" }, { "index": 16, 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"num_nts": 2, "nts_short": "AC", "nts_long": "///0/1919,///0/1920" }, { "index": 171, "num_nts": 3, "nts_short": "CAA", "nts_long": "///0/1940,///0/1941,///0/1942" }, { "index": 172, "num_nts": 2, "nts_short": "CG", "nts_long": "///0/1946,///0/1947" }, { "index": 173, "num_nts": 2, "nts_short": "GG", "nts_long": "///0/1970,///0/1971" }, { "index": 174, "num_nts": 3, "nts_short": "AGU", "nts_long": "///0/1978,///0/1979,///0/1980" }, { "index": 175, "num_nts": 3, "nts_short": "UUG", "nts_long": "///0/1984,///0/1985,///0/1986" }, { "index": 176, "num_nts": 2, "nts_short": "UC", "nts_long": "///0/1992,///0/1993" }, { "index": 177, "num_nts": 3, "nts_short": "GUA", "nts_long": "///0/1995,///0/1996,///0/1997" }, { "index": 178, "num_nts": 4, "nts_short": "UUGC", "nts_long": "///0/2003,///0/2004,///0/2005,///0/2006" }, { "index": 179, "num_nts": 2, "nts_short": "AU", "nts_long": "///0/2007,///0/2008" }, { "index": 180, "num_nts": 3, "nts_short": "AUG", "nts_long": "///0/2011,///0/2012,///0/2013" }, { "index": 181, "num_nts": 3, "nts_short": "CAG", "nts_long": "///0/2021,///0/2022,///0/2023" }, { "index": 182, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/2032,///0/2033" }, { "index": 183, "num_nts": 2, "nts_short": "GU", "nts_long": "///0/2058,///0/2059" }, { "index": 184, "num_nts": 2, "nts_short": "AU", "nts_long": "///0/2062,///0/2063" }, { "index": 185, "num_nts": 2, "nts_short": "GC", "nts_long": "///0/2070,///0/2071" }, { "index": 186, "num_nts": 4, "nts_short": "GGAG", "nts_long": "///0/2072,///0/2073,///0/2074,///0/2075" }, { "index": 187, "num_nts": 2, "nts_short": "UC", "nts_long": "///0/2076,///0/2077" }, { "index": 188, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/2083,///0/2084" }, { "index": 189, "num_nts": 3, "nts_short": "AAG", "nts_long": "///0/2095,///0/2096,///0/2097" }, { "index": 190, "num_nts": 3, "nts_short": "AAG", "nts_long": "///0/2100,///0/2101,///0/2102" }, { "index": 191, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/2103,///0/2104" }, { "index": 192, "num_nts": 3, "nts_short": "AUG", "nts_long": "///0/2108,///0/2109,///0/2110" }, { "index": 193, "num_nts": 3, "nts_short": "UUA", "nts_long": "///0/2116,///0/2117,///0/2118" }, { "index": 194, "num_nts": 2, "nts_short": "GG", "nts_long": "///0/2270,///0/2271" }, { "index": 195, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/2278,///0/2279" }, { "index": 196, "num_nts": 3, "nts_short": "UGG", "nts_long": "///0/2282,///0/2283,///0/2284" }, { "index": 197, "num_nts": 2, "nts_short": "CG", "nts_long": "///0/2292,///0/2293" }, { "index": 198, "num_nts": 3, "nts_short": "AAA", "nts_long": "///0/2301,///0/2302,///0/2303" }, { "index": 199, "num_nts": 3, "nts_short": "UCG", "nts_long": "///0/2308,///0/2309,///0/2310" }, { "index": 200, "num_nts": 2, "nts_short": "GC", "nts_long": "///0/2316,///0/2317" }, { "index": 201, "num_nts": 3, "nts_short": "AUG", "nts_long": "///0/2321,///0/2322,///0/2323" }, { "index": 202, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/2352,///0/2353" }, { "index": 203, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/2358,///0/2359" }, { "index": 204, "num_nts": 3, "nts_short": "AAA", "nts_long": "///0/2367,///0/2368,///0/2369" }, { "index": 205, "num_nts": 2, "nts_short": "AG", "nts_long": "///0/2370,///0/2371" }, { "index": 206, "num_nts": 4, "nts_short": "UGAC", "nts_long": "///0/2378,///0/2379,///0/2380,///0/2381" }, { "index": 207, "num_nts": 2, "nts_short": "CC", "nts_long": "///0/2391,///0/2392" }, { "index": 208, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/2419,///0/2420" }, { "index": 209, "num_nts": 2, "nts_short": "GU", "nts_long": "///0/2421,///0/2422" }, { "index": 210, "num_nts": 2, "nts_short": "GC", "nts_long": "///0/2426,///0/2427" }, { "index": 211, "num_nts": 3, "nts_short": "GCU", "nts_long": "///0/2442,///0/2443,///0/2444" }, { "index": 212, "num_nts": 5, "nts_short": "UGACA", "nts_long": "///0/2461,///0/2462,///0/2463,///0/2464,///0/2465" }, { "index": 213, "num_nts": 3, "nts_short": "GAA", "nts_long": "///0/2466,///0/2467,///0/2468" }, { "index": 214, "num_nts": 3, "nts_short": "UAC", "nts_long": "///0/2473,///0/2474,///0/2475" }, { "index": 215, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/2482,///0/2483" }, { "index": 216, "num_nts": 2, "nts_short": "GC", "nts_long": "///0/2507,///0/2508" }, { "index": 217, "num_nts": 2, "nts_short": "CA", "nts_long": "///0/2510,///0/2511" }, { "index": 218, "num_nts": 2, "nts_short": "UA", "nts_long": "///0/2512,///0/2513" }, { "index": 219, "num_nts": 5, "nts_short": "CGAUG", "nts_long": "///0/2536,///0/2537,///0/2538,///0/2539,///0/2540" }, { "index": 220, "num_nts": 2, "nts_short": "AU", "nts_long": "///0/2553,///0/2554" }, { "index": 221, "num_nts": 4, "nts_short": "UGCA", "nts_long": "///0/2563,///0/2564,///0/2565,///0/2566" }, { "index": 222, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/2581,///0/2582" }, { "index": 223, "num_nts": 2, "nts_short": "AG", "nts_long": "///0/2601,///0/2602" }, { "index": 224, "num_nts": 4, "nts_short": "GUCG", "nts_long": "///0/2606,///0/2607,///0/2608,///0/2609" }, { "index": 225, "num_nts": 4, "nts_short": "UGAG", "nts_long": "///0/2610,///0/2611,///0/2612,///0/2613" }, { "index": 226, "num_nts": 2, "nts_short": "UP", "nts_long": "///0/2620,///0/2621" }, { "index": 227, "num_nts": 3, "nts_short": "CAG", "nts_long": "///0/2636,///0/2637,///0/2638" }, { "index": 228, "num_nts": 4, "nts_short": "GCUG", "nts_long": "///0/2643,///0/2644,///0/2645,///0/2646" }, { "index": 229, "num_nts": 3, "nts_short": "CUA", "nts_long": "///0/2647,///0/2648,///0/2649" }, { "index": 230, "num_nts": 2, "nts_short": "GA", "nts_long": "///0/2679,///0/2680" }, { "index": 231, "num_nts": 3, "nts_short": "GUA", "nts_long": "///0/2725,///0/2726,///0/2727" }, { "index": 232, "num_nts": 2, "nts_short": "CG", "nts_long": "///0/2737,///0/2738" }, { "index": 233, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/2746,///0/2747" }, { "index": 234, "num_nts": 3, "nts_short": "GUG", "nts_long": "///0/2748,///0/2749,///0/2750" }, { "index": 235, "num_nts": 2, "nts_short": "CG", "nts_long": "///0/2762,///0/2763" }, { "index": 236, "num_nts": 2, "nts_short": "CA", "nts_long": "///0/2767,///0/2768" }, { "index": 237, "num_nts": 3, "nts_short": "CGC", "nts_long": "///0/2785,///0/2786,///0/2787" }, { "index": 238, "num_nts": 3, "nts_short": "UCU", "nts_long": "///0/2789,///0/2790,///0/2791" }, { "index": 239, "num_nts": 7, "nts_short": "AAAAGAG", "nts_long": "///0/2811,///0/2812,///0/2813,///0/2814,///0/2815,///0/2816,///0/2817" }, { "index": 240, "num_nts": 2, "nts_short": "CC", "nts_long": "///0/2824,///0/2825" }, { "index": 241, "num_nts": 2, "nts_short": "UA", "nts_long": "///0/2837,///0/2838" }, { "index": 242, "num_nts": 2, "nts_short": "CA", "nts_long": "///0/2839,///0/2840" }, { "index": 243, "num_nts": 4, "nts_short": "GUCG", "nts_long": "///0/2848,///0/2849,///0/2850,///0/2851" }, { "index": 244, "num_nts": 2, "nts_short": "UG", "nts_long": "///0/2866,///0/2867" }, { "index": 245, "num_nts": 3, "nts_short": "UAA", "nts_long": "///0/2889,///0/2890,///0/2891" }, { "index": 246, "num_nts": 3, "nts_short": "CAC", "nts_long": "///0/2895,///0/2896,///0/2897" }, { "index": 247, "num_nts": 2, "nts_short": "AC", "nts_long": "///0/2906,///0/2907" }, { "index": 248, "num_nts": 2, "nts_short": "UU", "nts_long": "///9/1,///9/2" }, { "index": 249, "num_nts": 2, "nts_short": "AG", "nts_long": "///9/3,///9/4" }, { "index": 250, "num_nts": 3, "nts_short": "CAC", "nts_long": "///9/10,///9/11,///9/12" }, { "index": 251, "num_nts": 2, "nts_short": "AG", "nts_long": "///9/13,///9/14" }, { "index": 252, "num_nts": 2, "nts_short": "GU", "nts_long": "///9/22,///9/23" }, { "index": 253, "num_nts": 2, "nts_short": "UG", "nts_long": "///9/24,///9/25" }, { "index": 254, "num_nts": 2, "nts_short": "UC", "nts_long": "///9/39,///9/40" }, { "index": 255, "num_nts": 2, "nts_short": "CG", "nts_long": "///9/42,///9/43" }, { "index": 256, "num_nts": 3, "nts_short": "GUG", "nts_long": "///9/86,///9/87,///9/88" }, { "index": 257, "num_nts": 2, "nts_short": "CG", "nts_long": "///9/113,///9/114" }, { "index": 258, "num_nts": 2, "nts_short": "CC", "nts_long": "///9/121,///9/122" } ], "num_HtypePknots": 3, "HtypePknots": [ { "index": 1, "desc": "stem#124(hairpin#48) vs stem#125(hairpin#49) L1 groove=MAJOR nts=2 AU ///0/2062,///0/2063" }, { "index": 2, "desc": "stem#124(hairpin#48) vs stem#125(hairpin#49) L2 groove=----- nts=6 UGCGGA ///0/2069,///0/2070,///0/2071,///0/2072,///0/2073,///0/2074" }, { "index": 3, "desc": "stem#124(hairpin#48) vs stem#125(hairpin#49) L3 groove=----- nts=0" } ], "pseudoknot_order": 3, "pseudoknot_nts": [ { "index": 1, "symbols": "[]", "num_nts": 56, "nts_short": "CCGCGCGGCGGUACCAUCGAGCCCGGGGCGCCACGUGCCGCAGAUCUGUUGAUGUA", "nts_long": "///0/57,///0/58,///0/61,///0/62,///0/84,///0/85,///0/88,///0/89,///0/168,///0/219,///0/324,///0/325,///0/340,///0/341,///0/418,///0/419,///0/420,///0/421,///0/422,///0/423,///0/820,///0/1102,///0/1103,///0/1104,///0/1239,///0/1240,///0/1241,///0/1449,///0/1450,///0/1512,///0/1513,///0/1830,///0/2060,///0/2061,///0/2075,///0/2076,///0/2288,///0/2309,///0/2317,///0/2359,///0/2360,///0/2362,///0/2363,///0/2364,///0/2422,///0/2423,///0/2424,///0/2426,///0/2444,///0/2445,///0/2446,///0/2447,///0/2448,///0/2449,///0/2756,///0/2896" }, { "index": 2, "symbols": "{}", "num_nts": 8, "nts_short": "UAUCUAGA", "nts_long": "///0/308,///0/339,///0/1561,///0/1562,///0/1771,///0/1885,///0/2738,///0/2739" }, { "index": 3, "symbols": "<>", "num_nts": 2, "nts_short": "UA", "nts_long": "///0/619,///0/2074" } ], "dbn": { "all_chains": { "num_nts": 2876, "num_chars": 2885, "bseq": "UAUGCCAGCUGGUGGAUUGCUCGGCUCAGGCGCUGAUGAAGGACGUGCCAAGCUGCGAUAAGCUGUGGGGAGCCGCACGGAGGCGAAGAACCACAGAUUUCCGAAUGAGAAUCUCU&AACAAUUGCUUCGCGCAAUGAGGAACCCCGAGAACUGAAACAUCUCAGUAUCGGGAGGAACAGAAAACGCAACGUGAUGUCGUUAGUAACCGCGAGUGAACGCGAUACAGCCCAAACCGAAGCCCUCACGGGCAAUGUGGUGUCAGGGCUACCUCUCAUCAGCCGACCGUCUUCACGAAGUCUCUUGGAAUAGAGCGUGAUACAGGGUGACAACCCCGUACUGAAGACCAGUACGCUGUGCGGUAGUGCCAGAGUAGCGGGGGUUGGAUAUCCCUCGCGAAUAACGCAGGCAUCGACUGCGAAGGCUAAACACAACCUGAGACCGAUAGUGAACAAGUAGUGUGAACGAACGCUGCAAAGUACCCUCAGAAGGGAGGCGAAAUAGAGCAUGAAAUCAGUUGGCGAUCGAGCGACAGGGCAUACAAGGUCCCUUGACGAAUGACCGAGACGCGAGUCUCCAGUAAGACUCACGGGAAGCCGAUGUUCUGUCGUACGUUUUGaAAAACGAGCCAGGGAGUGUGUCUGUAUGGCAAGUCUAACCGGAGUAUCCGGGGAGGCACAGGGAAACCGACAUGGCCGCAGGGCUU&GCCCGAGGGCCGCCGUCUUCAAGGGCGGGGAGCCAUGUGGACACGACCCGAAUCCGGACGAUCUACGCAUGGACAAGAUGAAGCGUGCCGAAAGGCACGUGGAAGUCUGUUAGAGUUGGUGUCCUACAAUACCCUCUCGUGAUCUAUGUGUAGGGGUGAAAGGCCCAUCGAGUCCGGCAACAGCUGGUUCCAAUCGAAACAUGUCGAAGCAUGACCUCCGCCGAGGUAGUCUGUGAGGUAGAGCGACCGAUUGGU&CCUGUCAAACUCCAAACUUACAGACGCUGUUUGACGCGGGGAUUCCGGUGCGCGGGGUAAGCCUGUGUACCAGGAGGGGAACAACCCAGAGAUAGGUUAAGGUCCCCAAGUGUGGAUUAAGUGUAAUCCUCUGAAGGUGGUCUCGAGCCCUAGACAGCCGGGAGGUGAGCUUAGAAGCAGCUACCCUCUAAGAAAAGCGUAACAGCUUACCGGCCGAGGUUUGAGGCGCCCAAAAUGAUCGGGACUCAAAUCCACCACCGAGACCUGUCCGUACCACUCAUACUGGUAAUCGAGUAGAUUGGCGCUCUAAUUGGAUGGAAGCAGGGGCGAGAGCUCCUGUGGACCGAUUAGUGACGAAAAUCCUGGCCAUAGUAGCAGCGAUAGUCGGGUGAGAACCCCGACGGCCUAAUGGAUAAGGGUUCCUCAGCACUGCUGAUCAGCUGAGGGUUAGCCGGUCCUAAGUCUCACCGCAACUCGACUGAGACGAAAUGGGAAACAGGUUAAUAUUCCUGUGCCAUCAUGCAGUGAAAGUUGACGCCCUGGGGUCGAUCACGCCGGGCA&UCGCCCGGUCGAACCGUCCAACUCCGUGGAAGCCGUAAUGGCAGGAAGCGGACGAACGGCGGCAUAGGGAAACGUGAUUCAACCUGGGGCCCAUGAAAAGACGAGCAUGAUGUCCGUACCGAGAACCGACACAGGUGUCCAUGGCGGCGAAAGCCAAGGCCUGUCGGGAGCAACCAACGUUAGGGAAUUCGGCAAGUUAGUCCCGUACCUUCGGAAGAAGGGAUGCCUGCUCCGGAACGGAGCAGGUCGCAGUGACUCGGAAGCUCGGACUGUCUAGUAACAACAUAGGUGACCGCAAAUCCGCAAGGACUCGUACGGUCACUGAAUCCUGCCCAGUGCAGGUAUCUGAACACCUCGUACAAGAGGACGAAGGACCUGUCAACGGCGGGGG&UCUUAAGGUAGCGUAGUACCUUGCCGCAUCAGUAGCGGCUUGCAUGAAUGGAUUAACCAGAGCUUCACUGUCCCAACGUUGGGCCCGGUGAACUGUACAUUCCAGUGCGGAGUCUGGAGACACCCAGGGGGAAGCGAAGACCCUAUGGAGCUUUACUGCAGGCUGUCGCUGAG&GACUCUCACUCCGGGAGGAGGACACCGAUAGCCGGGCAGUUUGACUGGGGCGGUACGCGCUCGAAAAGAUAUCGAGCGCGCCCUAUGGUCAUCUCAGCCGGG&GACCCGGCGAAGAGUGCAAGAGCAAAAGAUGACUUGACAGUGUUCUUCCCAACGAGGAACGCUGACGCGAAAGCGUGGUCUAGCGAACCAAUUAGCCUGCUUGAUGCGGGCAAUUGAUGACAGAAAAGCUACCCUAGGGAUAACAGAGUCGUCACUCGCAAGAGCACAUAUCGACCGAGUGGCUUGCUACCUCGAUGUCGGUUCCCUCCAUCCUGCCCGUGCAGAAGCGGGCAAGGGUGAGGUugUUCGCCUAUUAAAGGAGGUCGUGAGCUGGGuUPAGACCGUCGUGAGACAGGUCGGCUGCUAUCUACUGGGUGUGUA&GGUGUCUGACAAGAACGACCGUAUAGUACGAGAGGAACUACGGUUGGUGGCCACUGGUGUACCGGUUGUUCGAGAGAGCACGUGCCGGGUAGCCACGCCACACGGGGUAAGAGCUGAACGCAUCUAAGCUCGAAACCCACUUGGAAAAGAGACACCGCCGAGGUCCCGCGUACAAGACGCGGUCGAUAGACUCGGGGUGUGCGCGUCGAGGUAACGAGACGUUAAGCCCACGAGCACUAACAGACCAA&UUAGGCGGCCACAGCGGUGGGGUUGCCUCCCGUACCCAUCCCGAACACGGAAGAUAAGCCCACCAGCGUUCCAGGGAGUACUGGAGUGCGCGAGCCUCUGGGAAAUCCGGUUCGCCGCCACC", "bseqUP": 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2060, "nt_name": "A", "nt_code": "A", "nt_id": "///0/2060", "linked_nts": [ "///0/2059", "///0/2061" ], "nt_type": "RNA", "dbn": "[", "summary": "pseudoknotted,anti,~C3'-endo,BI,canonical,non-canonical,non-pair-contact,helix,stem-end,coaxial-stack,multiplet,junction-loop,phosphate", "alpha": -60.734, "beta": 167.411, "gamma": 54.520, "delta": 83.905, "epsilon": -144.694, "zeta": -75.082, "epsilon_zeta": -69.612, "bb_type": "BI", "chi": -162.649, "glyco_bond": "anti", "C5prime_xyz": [ -1.344, 8.696, 0.608 ], "P_xyz": [ 1.274, 8.984, 0.759 ], "form": "A", "ssZp": 4.362, "Dp": 4.623, "splay_angle": 20.791, "splay_distance": 3.281, "splay_ratio": 0.181, "d22": null, "d64": null, "eta": 170.208, "theta": -140.178, "eta_prime": -173.126, "theta_prime": -140.701, "eta_base": -119.451, "theta_base": -105.127, "v0": 4.550, "v1": -27.687, "v2": 38.939, "v3": -37.329, "v4": 20.668, "amplitude": 39.828, "phase_angle": 12.131, "puckering": "C3'-endo", "sugar_class": "~C3'-endo", "bin": "33p", 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"acceptable", "distance": 3.175, "atom1_id": "///Z/73/OG1", "atom2_id": "///Z/76/N", "atom_pair": "O:N", "residue_pair": "aa:aa" }, { "index": 10683, "atom1_serNum": 91026, "atom2_serNum": 91052, "donAcc_type": "acceptable", "distance": 3.065, "atom1_id": "///Z/74/O", "atom2_id": "///Z/78/OG1", "atom_pair": "O:O", "residue_pair": "aa:aa" }, { "index": 10684, "atom1_serNum": 91033, "atom2_serNum": 91047, "donAcc_type": "standard", "distance": 3.211, "atom1_id": "///Z/75/O", "atom2_id": "///Z/78/N", "atom_pair": "O:N", "residue_pair": "aa:aa" }, { "index": 10685, "atom1_serNum": 91033, "atom2_serNum": 91054, "donAcc_type": "standard", "distance": 3.527, "atom1_id": "///Z/75/O", "atom2_id": "///Z/79/N", "atom_pair": "O:N", "residue_pair": "aa:aa" }, { "index": 10686, "atom1_serNum": 91037, "atom2_serNum": 91061, "donAcc_type": "standard", "distance": 3.646, "atom1_id": "///Z/76/O", "atom2_id": "///Z/80/N", "atom_pair": "O:N", "residue_pair": "aa:aa" }, { "index": 10687, "atom1_serNum": 91050, "atom2_serNum": 91083, "donAcc_type": "standard", "distance": 3.858, "atom1_id": "///Z/78/O", "atom2_id": "///Z/82/N", "atom_pair": "O:N", "residue_pair": "aa:aa" } ], "refCoords": { "purine": [ " 12 ATOMS, 12 BONDS", " 1 N -2.2500 5.0000 0.4000", " 2 N -2.2500 -0.5000 0.4000", " 3 N -2.2500 -0.5000 -0.4000", " 4 N -2.2500 5.0000 -0.4000", " 5 C 1.2500 5.0000 0.4000", " 6 C 1.2500 -0.5000 0.4000", " 7 C 1.2500 -0.5000 -0.4000", " 8 C 1.2500 5.0000 -0.4000", " 9 C -2.2500 5.0000 0.4000", " 10 C -2.2500 -0.5000 0.4000", " 11 C -2.2500 -0.5000 -0.4000", " 12 C -2.2500 5.0000 -0.4000", " 1 1 2", " 2 2 3", " 3 3 4", " 4 4 1", " 5 5 6", " 6 6 7", " 7 7 8", " 8 5 8", " 9 9 5", " 10 10 6", " 11 11 7", " 12 12 8" ], "pyrimidine": [ " 12 ATOMS, 12 BONDS", " 1 N -2.2500 5.0000 0.4000", " 2 N -2.2500 1.0000 0.4000", " 3 N -2.2500 1.0000 -0.4000", " 4 N -2.2500 5.0000 -0.4000", " 5 C 1.2500 5.0000 0.4000", " 6 C 1.2500 1.0000 0.4000", " 7 C 1.2500 1.0000 -0.4000", " 8 C 1.2500 5.0000 -0.4000", " 9 C -2.2500 5.0000 0.4000", " 10 C -2.2500 1.0000 0.4000", " 11 C -2.2500 1.0000 -0.4000", " 12 C -2.2500 5.0000 -0.4000", " 1 1 2", " 2 2 3", " 3 3 4", " 4 4 1", " 5 5 6", " 6 6 7", " 7 7 8", " 8 5 8", " 9 9 5", " 10 10 6", " 11 11 7", " 12 12 8" ], "wc_pair": [ " 12 ATOMS, 12 BONDS", " 1 N -2.2500 5.0000 0.4000", " 2 N -2.2500 -5.0000 0.4000", " 3 N -2.2500 -5.0000 -0.4000", " 4 N -2.2500 5.0000 -0.4000", " 5 C 2.2500 5.0000 0.4000", " 6 C 2.2500 -5.0000 0.4000", " 7 C 2.2500 -5.0000 -0.4000", " 8 C 2.2500 5.0000 -0.4000", " 9 C -2.2500 5.0000 0.4000", " 10 C -2.2500 -5.0000 0.4000", " 11 C -2.2500 -5.0000 -0.4000", " 12 C -2.2500 5.0000 -0.4000", " 1 1 2", " 2 2 3", " 3 3 4", " 4 4 1", " 5 5 6", " 6 6 7", " 7 7 8", " 8 5 8", " 9 9 5", " 10 10 6", " 11 11 7", " 12 12 8" ] }, "metadata": { "license": "http://innovation.columbia.edu/technologies/CU20391", "url": "http://x3dna.org/", "url_alt": "http://home.x3dna.org/", "forum": "http://forum.x3dna.org/", "citation": "Lu et al. (2015). 'DSSR: an integrated software tool for dissecting the spatial structure of RNA.' Nucleic Acids Res., 43(21):e142 [doi:10.1093/nar/gkv716].", "str_id": "1yit", "num_aaChains": 30, "aaChains": "1=56,2=46,3=92,8=7,A=237,B=337,C=246,D=140,E=172,F=119,G=29,H=160,I=70,J=142,K=132,L=145,M=194,N=186,O=115,P=143,Q=95,R=150,S=81,T=119,U=53,V=65,W=154,X=82,Y=142,Z=73", "num_naChains": 2, "naChains": "0=2754,9=122", "num_atoms": 91326, "num_waters": 0, "num_metals": 209, "metals_desc": "Na=85,Mg=118,K=1,Cd=5", "num_notes": 52, "notes": [ { "Aminors": "A-minor interactions (including types I and II)" }, { "Cstem_index": "stem index of the 'Canonical' helix in k-turn" }, { "Cstem_pair": "Cstem bp delineating the k-turn internal loop" }, { "Dp": "perpendicular distance of the 3' P atom to the glycosidic bond" }, { "GA_pair": "sheared G-A pair in k-turn" }, { "HtypePknot": "H-type pseudoknot" }, { "Kturn": "kink-turn (k-turn)" }, { "LW": "Leontis-Westhof" }, { "NCstem_index": "stem index of the 'Non-Canonical' helix in k-turn" }, { "NCstem_pair": "NCstem bp delineating the k-turn internal loop" }, { "Uturn": "U-turn of the UNR- or GNRA-type" }, { "aa": "amino acid" }, { "atom_pair": "symbols of the two atoms involved in an H-bond" }, { "auxfiles": "auxiliary files" }, { "glyco_bond": "conformation of base related to sugar (syn or anti)" }, { "bb_type": "backbone conformation, BI or BII" }, { "bending_angle": "angle between two helical axes" }, { "bp": "base pair" }, { "bseq": "base sequence in one-letter code" }, { "bulge": "bulge loop" }, { "coaxStacks": "coaxial stacking of stems within a helix" }, { "dbn": "dot bracket notation" }, { "desc": "description" }, { "donAcc_type": "donor/acceptor type of the atom pair in an H-bond" }, { "epsilon_zeta": "difference between epsilon and zeta torsion angles" }, { "hairpin": "hairpin loop" }, { "hbond": "hydrogen bond (H-bond)" }, { "helix": "defined by base-stacking interactions, regardless of bp type and backbone connectivity" }, { "id": "identifier" }, { "iloop": "internal loop" }, { "index": "serial number" }, { "isoCanonPairs": "isolated canonical pairs" }, { "junction": "(multi-branched) junction loop" }, { "kissingLoop": "kissing loop" }, { "multiplet": "3+ bases in a coplanar geometry" }, { "na": "nucleic acid" }, { "nonPair": "two nts not forming a pair, but with H-bonding/stacking interactions" }, { "nonStack": "nucleotide not involved in stacking interactions" }, { "nt": "nucleotide" }, { "num": "number" }, { "oArea": "overlap areas between two bases, including exocyclic atoms" }, { "oArea_ring": "overlap areas between two bases, including only ring atoms" }, { "phosContacts": "H-bonding and atom-capping interactions involving a phosphate" }, { "residue_pair": "types of the two residues involved in an H-bond" }, { "rmsd": "root-mean-squares deviation" }, { "serNum": "serial number" }, { "ssSegments": "single-stranded segments not involved in loops" }, { "ssZp": "Z-coordinate of the 3' phosphorus atom with reference to the 5' base plane" }, { "sstr": "secondary structure in dbn" }, { "stem": "helix consisting of only canonical pairs, with a continuous backbone" }, { "str_id": "structure identifier, derived from inpfile with extension removed" }, { "vert_dist": "vertical distance from an atom to a base plane" } ], "num_auxfiles": 21, "auxfiles": [ { "index": 1, "name": "dssr-pairs.pdb", "desc": "an ensemble of base pairs" }, { "index": 2, "name": "dssr-multiplets.pdb", "desc": "an ensemble of multiplets" }, { "index": 3, "name": "dssr-stems.pdb", "desc": "an ensemble of stems" }, { "index": 4, "name": "dssr-helices.pdb", "desc": "an ensemble of helices (coaxial stacking)" }, { "index": 5, "name": "dssr-hairpins.pdb", "desc": "an ensemble of hairpin loops" }, { "index": 6, "name": "dssr-bulges.pdb", "desc": "an ensemble of bulges" }, { "index": 7, "name": "dssr-iloops.pdb", "desc": "an ensemble of internal loops" }, { "index": 8, "name": "dssr-junctions.pdb", "desc": "an ensemble of junctions (multi-branch)" }, { "index": 9, "name": "dssr-2ndstrs.bpseq", "desc": "secondary structure in bpseq format" }, { "index": 10, "name": "dssr-2ndstrs.ct", "desc": "secondary structure in connectivity table format" }, { "index": 11, "name": "dssr-2ndstrs.dbn", "desc": "secondary structure in dot-bracket notation" }, { "index": 12, "name": "dssr-torsions.txt", "desc": "backbone torsion angles and suite names" }, { "index": 13, "name": "dssr-splays.pdb", "desc": "an ensemble of splayed-apart units" }, { "index": 14, "name": "dssr-Aminors.pdb", "desc": "an ensemble of A minor motifs (types I and II)" }, { "index": 15, "name": "dssr-Kturns.pdb", "desc": "an ensemble of kink-turn motifs" }, { "index": 16, "name": "dssr-stacks.pdb", "desc": "an ensemble of base stacks" }, { "index": 17, "name": "dssr-atom2bases.pdb", "desc": "an ensemble of atom-base stacking interactions" }, { "index": 18, "name": "dssr-rotmat.txt", "desc": "position vector and rotation matrix" }, { "index": 19, "name": "dssr-viewV.pdb", "desc": "vertical view of the principal moment of inertia" }, { "index": 20, "name": "dssr-viewH.pdb", "desc": "horizontal view of the principal moment of inertia" }, { "index": 21, "name": "dssr-viewT.pdb", "desc": "top view of the principal moment of inertia" } ], "time_used": "999" } }