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      "index": 1,
      "helix_index": 3,
      "num_stems": 4,
      "stem_indices": [
        3,
        4,
        5,
        6
      ]
    },
    {
      "index": 2,
      "helix_index": 5,
      "num_stems": 2,
      "stem_indices": [
        7,
        8
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    },
    {
      "index": 3,
      "helix_index": 7,
      "num_stems": 2,
      "stem_indices": [
        11,
        12
      ]
    },
    {
      "index": 4,
      "helix_index": 16,
      "num_stems": 2,
      "stem_indices": [
        17,
        9
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    },
    {
      "index": 5,
      "helix_index": 18,
      "num_stems": 2,
      "stem_indices": [
        19,
        20
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    },
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      "index": 6,
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      "num_stems": 3,
      "stem_indices": [
        21,
        24,
        25
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    }
  ],
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  "stacks": [
    {
      "index": 1,
      "num_nts": 2,
      "nts_short": "GG",
      "nts_long": "///B/12,///B/346"
    },
    {
      "index": 2,
      "num_nts": 2,
      "nts_short": "CG",
      "nts_long": "///B/29,///B/53"
    },
    {
      "index": 3,
      "num_nts": 2,
      "nts_short": "CU",
      "nts_long": "///B/36,///B/37"
    },
    {
      "index": 4,
      "num_nts": 2,
      "nts_short": "GG",
      "nts_long": "///B/43,///B/44"
    },
    {
      "index": 5,
      "num_nts": 2,
      "nts_short": "AG",
      "nts_long": "///B/47,///B/48"
    },
    {
      "index": 6,
      "num_nts": 2,
      "nts_short": "GC",
      "nts_long": "///B/68,///B/70"
    },
    {
      "index": 7,
      "num_nts": 2,
      "nts_short": "GU",
      "nts_long": "///B/96,///B/97"
    },
    {
      "index": 8,
      "num_nts": 2,
      "nts_short": "GG",
      "nts_long": "///B/109,///B/110"
    },
    {
      "index": 9,
      "num_nts": 2,
      "nts_short": "AA",
      "nts_long": "///B/112,///B/114"
    },
    {
      "index": 10,
      "num_nts": 2,
      "nts_short": "AG",
      "nts_long": "///B/130,///B/133"
    },
    {
      "index": 11,
      "num_nts": 2,
      "nts_short": "AA",
      "nts_long": "///B/134,///B/139"
    },
    {
      "index": 12,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///B/135,///B/181"
    },
    {
      "index": 13,
      "num_nts": 2,
      "nts_short": "CU",
      "nts_long": "///B/146,///B/149"
    },
    {
      "index": 14,
      "num_nts": 2,
      "nts_short": "GC",
      "nts_long": "///B/151,///B/152"
    },
    {
      "index": 15,
      "num_nts": 2,
      "nts_short": "GG",
      "nts_long": "///B/157,///B/161"
    },
    {
      "index": 16,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///B/171,///B/173"
    },
    {
      "index": 17,
      "num_nts": 2,
      "nts_short": "CG",
      "nts_long": "///B/188,///B/190"
    },
    {
      "index": 18,
      "num_nts": 2,
      "nts_short": "AC",
      "nts_long": "///B/200,///B/201"
    },
    {
      "index": 19,
      "num_nts": 2,
      "nts_short": "AA",
      "nts_long": "///B/214,///B/215"
    },
    {
      "index": 20,
      "num_nts": 2,
      "nts_short": "GU",
      "nts_long": "///B/230,///B/231"
    },
    {
      "index": 21,
      "num_nts": 2,
      "nts_short": "CC",
      "nts_long": "///B/237,///B/238"
    },
    {
      "index": 22,
      "num_nts": 2,
      "nts_short": "AC",
      "nts_long": "///B/248,///C/73"
    },
    {
      "index": 23,
      "num_nts": 2,
      "nts_short": "AU",
      "nts_long": "///B/266,///B/267"
    },
    {
      "index": 24,
      "num_nts": 2,
      "nts_short": "AG",
      "nts_long": "///B/268,///B/270"
    },
    {
      "index": 25,
      "num_nts": 2,
      "nts_short": "GU",
      "nts_long": "///B/271,///B/272"
    },
    {
      "index": 26,
      "num_nts": 2,
      "nts_short": "CG",
      "nts_long": "///B/279,///B/280"
    },
    {
      "index": 27,
      "num_nts": 2,
      "nts_short": "AC",
      "nts_long": "///B/282,///B/283"
    },
    {
      "index": 28,
      "num_nts": 2,
      "nts_short": "AA",
      "nts_long": "///B/286,///B/287"
    },
    {
      "index": 29,
      "num_nts": 2,
      "nts_short": "UG",
      "nts_long": "///B/299,///B/300"
    },
    {
      "index": 30,
      "num_nts": 2,
      "nts_short": "UC",
      "nts_long": "///B/303,///B/326"
    },
    {
      "index": 31,
      "num_nts": 2,
      "nts_short": "GG",
      "nts_long": "///B/304,///B/306"
    },
    {
      "index": 32,
      "num_nts": 2,
      "nts_short": "GU",
      "nts_long": "///B/310,///B/311"
    },
    {
      "index": 33,
      "num_nts": 2,
      "nts_short": "GG",
      "nts_long": "///B/312,///B/320"
    },
    {
      "index": 34,
      "num_nts": 2,
      "nts_short": "AG",
      "nts_long": "///B/313,///B/314"
    },
    {
      "index": 35,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///B/316,///B/317"
    },
    {
      "index": 36,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///B/336,///B/337"
    },
    {
      "index": 37,
      "num_nts": 2,
      "nts_short": "GC",
      "nts_long": "///B/357,///B/358"
    },
    {
      "index": 38,
      "num_nts": 2,
      "nts_short": "UU",
      "nts_long": "///B/359,///B/360"
    },
    {
      "index": 39,
      "num_nts": 2,
      "nts_short": "GU",
      "nts_long": "///B/369,///B/370"
    },
    {
      "index": 40,
      "num_nts": 2,
      "nts_short": "CU",
      "nts_long": "c. C & i. \\-3,c. C & i. \\-2"
    },
    {
      "index": 41,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///C/7,///C/50"
    },
    {
      "index": 42,
      "num_nts": 2,
      "nts_short": "GG",
      "nts_long": "///C/19,///C/58"
    },
    {
      "index": 43,
      "num_nts": 2,
      "nts_short": "AC",
      "nts_long": "///C/27,///C/28"
    },
    {
      "index": 44,
      "num_nts": 2,
      "nts_short": "AA",
      "nts_long": "///C/38,///C/39"
    },
    {
      "index": 45,
      "num_nts": 2,
      "nts_short": "CC",
      "nts_long": "///C/63,///C/64"
    },
    {
      "index": 46,
      "num_nts": 2,
      "nts_short": "UC",
      "nts_long": "///C/66,///C/67"
    },
    {
      "index": 47,
      "num_nts": 2,
      "nts_short": "CA",
      "nts_long": "///C/76,///C/77"
    },
    {
      "index": 48,
      "num_nts": 3,
      "nts_short": "CGC",
      "nts_long": "///B/18,///B/19,///B/20"
    },
    {
      "index": 49,
      "num_nts": 3,
      "nts_short": "CGC",
      "nts_long": "///B/21,///B/22,///B/23"
    },
    {
      "index": 50,
      "num_nts": 3,
      "nts_short": "GGG",
      "nts_long": "///B/58,///B/59,///B/60"
    },
    {
      "index": 51,
      "num_nts": 3,
      "nts_short": "AGG",
      "nts_long": "///B/94,///B/105,///B/106"
    },
    {
      "index": 52,
      "num_nts": 3,
      "nts_short": "AAU",
      "nts_long": "///B/118,///B/233,///C/55"
    },
    {
      "index": 53,
      "num_nts": 3,
      "nts_short": "GUG",
      "nts_long": "///B/185,///B/186,///B/187"
    },
    {
      "index": 54,
      "num_nts": 3,
      "nts_short": "ACG",
      "nts_long": "///B/195,///B/197,///B/198"
    },
    {
      "index": 55,
      "num_nts": 3,
      "nts_short": "ACU",
      "nts_long": "///B/234,///B/235,///B/236"
    },
    {
      "index": 56,
      "num_nts": 3,
      "nts_short": "GGA",
      "nts_long": "///B/243,///B/244,///B/245"
    },
    {
      "index": 57,
      "num_nts": 3,
      "nts_short": "AAG",
      "nts_long": "///B/255,///B/254,///B/296"
    },
    {
      "index": 58,
      "num_nts": 3,
      "nts_short": "GGU",
      "nts_long": "///B/261,///B/262,///B/263"
    },
    {
      "index": 59,
      "num_nts": 3,
      "nts_short": "UCG",
      "nts_long": "///B/264,///B/265,///B/285"
    },
    {
      "index": 60,
      "num_nts": 3,
      "nts_short": "CGG",
      "nts_long": "///B/290,///B/260,///B/291"
    },
    {
      "index": 61,
      "num_nts": 3,
      "nts_short": "UGA",
      "nts_long": "///B/302,///B/329,///B/328"
    },
    {
      "index": 62,
      "num_nts": 3,
      "nts_short": "UAA",
      "nts_long": "///B/331,///B/330,///B/352"
    },
    {
      "index": 63,
      "num_nts": 3,
      "nts_short": "CCC",
      "nts_long": "///B/342,///B/343,///B/345"
    },
    {
      "index": 64,
      "num_nts": 3,
      "nts_short": "CAG",
      "nts_long": "///C/13,///C/14,///C/15"
    },
    {
      "index": 65,
      "num_nts": 3,
      "nts_short": "UAC",
      "nts_long": "///C/17,///C/59,///C/62"
    },
    {
      "index": 66,
      "num_nts": 3,
      "nts_short": "GAG",
      "nts_long": "///C/53,///C/52,///C/65"
    },
    {
      "index": 67,
      "num_nts": 4,
      "nts_short": "CGUU",
      "nts_long": "///B/5,///B/4,///B/371,///B/372"
    },
    {
      "index": 68,
      "num_nts": 4,
      "nts_short": "CAGG",
      "nts_long": "///B/10,///B/11,///B/64,///B/63"
    },
    {
      "index": 69,
      "num_nts": 4,
      "nts_short": "AAAU",
      "nts_long": "///B/67,///B/65,///B/361,///B/362"
    },
    {
      "index": 70,
      "num_nts": 4,
      "nts_short": "GCAG",
      "nts_long": "///B/84,///B/85,///B/86,///B/87"
    },
    {
      "index": 71,
      "num_nts": 4,
      "nts_short": "GGAA",
      "nts_long": "///B/91,///B/120,///B/121,///B/232"
    },
    {
      "index": 72,
      "num_nts": 4,
      "nts_short": "CCGG",
      "nts_long": "///B/93,///B/92,///B/107,///B/108"
    },
    {
      "index": 73,
      "num_nts": 4,
      "nts_short": "GGAU",
      "nts_long": "///B/150,///B/170,///B/169,///B/167"
    },
    {
      "index": 74,
      "num_nts": 4,
      "nts_short": "GGGG",
      "nts_long": "///B/155,///B/163,///B/164,///B/165"
    },
    {
      "index": 75,
      "num_nts": 4,
      "nts_short": "GGAG",
      "nts_long": "///B/212,///B/211,///B/217,///B/218"
    },
    {
      "index": 76,
      "num_nts": 4,
      "nts_short": "GACC",
      "nts_long": "///B/250,///B/249,///B/247,///B/353"
    },
    {
      "index": 77,
      "num_nts": 5,
      "nts_short": "CCAAA",
      "nts_long": "///B/102,///B/100,///B/99,///B/98,///B/305"
    },
    {
      "index": 78,
      "num_nts": 5,
      "nts_short": "GCGGC",
      "nts_long": "///B/205,///B/206,///B/207,///B/208,///B/209"
    },
    {
      "index": 79,
      "num_nts": 5,
      "nts_short": "CGUGG",
      "nts_long": "///B/221,///B/222,///B/223,///B/224,///B/225"
    },
    {
      "index": 80,
      "num_nts": 5,
      "nts_short": "GAAUG",
      "nts_long": "///B/332,///B/333,c. C & i. \\-1,///C/0,///C/1"
    },
    {
      "index": 81,
      "num_nts": 5,
      "nts_short": "GAGAC",
      "nts_long": "///C/45,///C/9,///C/47,///C/22,///C/49"
    },
    {
      "index": 82,
      "num_nts": 6,
      "nts_short": "GCUCCA",
      "nts_long": "///B/74,///B/75,///B/76,///B/77,///B/78,///B/79"
    },
    {
      "index": 83,
      "num_nts": 6,
      "nts_short": "GCACAH",
      "nts_long": "///B/364,///B/363,///B/347,///B/348,///B/349,///A/58"
    }
  ],
  "nonStack": {
    "num_nts": 122,
    "nts_short": "GAAUGCUUCGGGAAUUAGGACCCAGUGCACAAGCAACCGCGACCCAAACUAGGGUGAAGGGUAAGGCCGCUUCUCCACGGAUAGAGUCCGACCCUAAGACCUUUGUUCACUCAUUGGUUUAC",
    "nts_long": "///B/1,///B/2,///B/3,///B/17,///B/33,///B/38,///B/39,///B/40,///B/41,///B/42,///B/46,///B/52,///B/62,///B/66,///B/69,///B/80,///B/81,///B/101,///B/111,///B/113,///B/115,///B/119,///B/123,///B/124,///B/125,///B/126,///B/127,///B/128,///B/129,///B/131,///B/132,///B/136,///B/137,///B/138,///B/140,///B/141,///B/142,///B/143,///B/144,///B/145,///B/147,///B/148,///B/153,///B/154,///B/158,///B/159,///B/160,///B/166,///B/168,///B/172,///B/174,///B/175,///B/176,///B/177,///B/178,///B/179,///B/180,///B/182,///B/183,///B/184,///B/189,///B/191,///B/192,///B/193,///B/194,///B/196,///B/199,///B/202,///B/203,///B/204,///B/210,///B/213,///B/216,///B/219,///B/220,///B/226,///B/227,///B/228,///B/229,///B/246,///B/256,///B/257,///B/258,///B/259,///B/269,///B/275,///B/284,///B/288,///B/289,///B/292,///B/295,///B/301,///B/315,///B/325,///B/327,///B/334,///B/344,///B/350,///B/351,///B/367,///B/373,c. C & i. \\-4,///C/8,///C/16,///C/18,///C/20,///C/21,///C/31,///C/32,///C/33,///C/34,///C/35,///C/36,///C/37,///C/40,///C/44,///C/46,///C/48,///C/56,///C/61,///C/74,///C/75"
  },
  "num_atom2bases": 26,
  "atom2bases": [
    {
      "index": 1,
      "type": "sugar",
      "atom": "///B/17/O2'",
      "nt": "///B/18",
      "vert_dist": 2.934
    },
    {
      "index": 2,
      "type": "sugar",
      "atom": "///B/39/O4'",
      "nt": "///B/38",
      "vert_dist": 3.391
    },
    {
      "index": 3,
      "type": "sugar",
      "atom": "///B/46/O2'",
      "nt": "///B/45",
      "vert_dist": 3.326
    },
    {
      "index": 4,
      "type": "sugar",
      "atom": "///B/63/O4'",
      "nt": "///B/66",
      "vert_dist": 3.115
    },
    {
      "index": 5,
      "type": "sugar",
      "atom": "///B/112/O2'",
      "nt": "///B/114",
      "vert_dist": 2.978
    },
    {
      "index": 6,
      "type": "phosphate",
      "atom": "///B/132/OP2",
      "nt": "///B/132",
      "vert_dist": 2.899
    },
    {
      "index": 7,
      "type": "sugar",
      "atom": "///B/143/O2'",
      "nt": "///B/144",
      "vert_dist": 3.029
    },
    {
      "index": 8,
      "type": "sugar",
      "atom": "///B/147/O2'",
      "nt": "///B/148",
      "vert_dist": 2.930
    },
    {
      "index": 9,
      "type": "sugar",
      "atom": "///B/150/O4'",
      "nt": "///B/148",
      "vert_dist": 3.322
    },
    {
      "index": 10,
      "type": "phosphate",
      "atom": "///B/160/OP1",
      "nt": "///B/157",
      "vert_dist": 2.921
    },
    {
      "index": 11,
      "type": "phosphate",
      "atom": "///B/160/O5'",
      "nt": "///B/157",
      "vert_dist": 2.998
    },
    {
      "index": 12,
      "type": "phosphate",
      "atom": "///B/159/OP1",
      "nt": "///B/159",
      "vert_dist": 3.124
    },
    {
      "index": 13,
      "type": "phosphate",
      "atom": "///B/160/OP1",
      "nt": "///B/160",
      "vert_dist": 3.205
    },
    {
      "index": 14,
      "type": "phosphate",
      "atom": "///B/214/OP1",
      "nt": "///B/212",
      "vert_dist": 3.305
    },
    {
      "index": 15,
      "type": "phosphate",
      "atom": "///B/214/OP2",
      "nt": "///B/212",
      "vert_dist": 3.278
    },
    {
      "index": 16,
      "type": "sugar",
      "atom": "///B/226/O2'",
      "nt": "///B/227",
      "vert_dist": 2.700
    },
    {
      "index": 17,
      "type": "sugar",
      "atom": "///B/269/O2'",
      "nt": "///B/270",
      "vert_dist": 2.930
    },
    {
      "index": 18,
      "type": "sugar",
      "atom": "///B/275/O2'",
      "nt": "///B/276",
      "vert_dist": 2.782
    },
    {
      "index": 19,
      "type": "sugar",
      "atom": "///B/285/O2'",
      "nt": "///B/286",
      "vert_dist": 2.953
    },
    {
      "index": 20,
      "type": "sugar",
      "atom": "///B/303/O4'",
      "nt": "///B/304",
      "vert_dist": 2.744
    },
    {
      "index": 21,
      "type": "phosphate",
      "atom": "///B/305/OP1",
      "nt": "///B/305",
      "vert_dist": 2.836
    },
    {
      "index": 22,
      "type": "sugar",
      "atom": "///B/332/O4'",
      "nt": "///B/333",
      "vert_dist": 2.804
    },
    {
      "index": 23,
      "type": "sugar",
      "atom": "///B/345/O4'",
      "nt": "///B/346",
      "vert_dist": 3.294
    },
    {
      "index": 24,
      "type": "phosphate",
      "atom": "///C/17/OP1",
      "nt": "///C/18",
      "vert_dist": 2.833
    },
    {
      "index": 25,
      "type": "phosphate",
      "atom": "///C/38/O3'",
      "nt": "///C/37",
      "vert_dist": 3.419
    },
    {
      "index": 26,
      "type": "phosphate",
      "atom": "///C/51/OP1",
      "nt": "///C/48",
      "vert_dist": 3.353
    }
  ],
  "num_hairpins": 11,
  "hairpins": [
    {
      "index": 1,
      "type": "hairpin loop",
      "bridging_nts": [
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      ],
      "stem_indices": [
        -3
      ],
      "summary": "[1] 4 [B.38 B.43] 1",
      "num_nts": 6,
      "nts_short": "CUUCGG",
      "nts_long": "///B/38,///B/39,///B/40,///B/41,///B/42,///B/43",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 4,
          "nts_short": "UUCG",
          "nts_long": "///B/39,///B/40,///B/41,///B/42"
        }
      ]
    },
    {
      "index": 2,
      "type": "hairpin loop",
      "bridging_nts": [
        5
      ],
      "stem_indices": [
        11
      ],
      "summary": "[1] 5 [B.96 B.102] 3",
      "num_nts": 7,
      "nts_short": "GUAACGC",
      "nts_long": "///B/96,///B/97,///B/98,///B/99,///B/100,///B/101,///B/102",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 5,
          "nts_short": "UAACG",
          "nts_long": "///B/97,///B/98,///B/99,///B/100,///B/101"
        }
      ]
    },
    {
      "index": 3,
      "type": "hairpin loop",
      "bridging_nts": [
        6
      ],
      "stem_indices": [
        12
      ],
      "summary": "[1] 6 [B.109 B.116] 2",
      "num_nts": 8,
      "nts_short": "GGGAAACC",
      "nts_long": "///B/109,///B/110,///B/111,///B/112,///B/113,///B/114,///B/115,///B/116",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 6,
          "nts_short": "GGAAAC",
          "nts_long": "///B/110,///B/111,///B/112,///B/113,///B/114,///B/115"
        }
      ]
    },
    {
      "index": 4,
      "type": "hairpin loop",
      "bridging_nts": [
        4
      ],
      "stem_indices": [
        13
      ],
      "summary": "[1] 4 [B.156 B.161] 2",
      "num_nts": 6,
      "nts_short": "CGCAAG",
      "nts_long": "///B/156,///B/157,///B/158,///B/159,///B/160,///B/161",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 4,
          "nts_short": "GCAA",
          "nts_long": "///B/157,///B/158,///B/159,///B/160"
        }
      ]
    },
    {
      "index": 5,
      "type": "hairpin loop",
      "bridging_nts": [
        9
      ],
      "stem_indices": [
        15
      ],
      "summary": "[1] 9 [B.188 B.198] 2",
      "num_nts": 11,
      "nts_short": "CGGUAAGAGCG",
      "nts_long": "///B/188,///B/189,///B/190,///B/191,///B/192,///B/193,///B/194,///B/195,///B/196,///B/197,///B/198",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 9,
          "nts_short": "GGUAAGAGC",
          "nts_long": "///B/189,///B/190,///B/191,///B/192,///B/193,///B/194,///B/195,///B/196,///B/197"
        }
      ]
    },
    {
      "index": 6,
      "type": "hairpin loop",
      "bridging_nts": [
        3
      ],
      "stem_indices": [
        -11
      ],
      "summary": "[1] 3 [B.212 B.216] 1",
      "num_nts": 5,
      "nts_short": "GUAAC",
      "nts_long": "///B/212,///B/213,///B/214,///B/215,///B/216",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 3,
          "nts_short": "UAA",
          "nts_long": "///B/213,///B/214,///B/215"
        }
      ]
    },
    {
      "index": 7,
      "type": "hairpin loop",
      "bridging_nts": [
        5
      ],
      "stem_indices": [
        17
      ],
      "summary": "[1] 5 [B.274 B.280] 3",
      "num_nts": 7,
      "nts_short": "CGGCCCG",
      "nts_long": "///B/274,///B/275,///B/276,///B/277,///B/278,///B/279,///B/280",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 5,
          "nts_short": "GGCCC",
          "nts_long": "///B/275,///B/276,///B/277,///B/278,///B/279"
        }
      ]
    },
    {
      "index": 8,
      "type": "hairpin loop",
      "bridging_nts": [
        4
      ],
      "stem_indices": [
        20
      ],
      "summary": "[1] 4 [B.313 B.318] 2",
      "num_nts": 6,
      "nts_short": "AGCGAU",
      "nts_long": "///B/313,///B/314,///B/315,///B/316,///B/317,///B/318",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 4,
          "nts_short": "GCGA",
          "nts_long": "///B/314,///B/315,///B/316,///B/317"
        }
      ]
    },
    {
      "index": 9,
      "type": "hairpin loop",
      "bridging_nts": [
        9
      ],
      "stem_indices": [
        22
      ],
      "summary": "[1] 9 [C.13 C.23] 4",
      "num_nts": 11,
      "nts_short": "CAGUUGGUUAG",
      "nts_long": "///C/13,///C/14,///C/15,///C/16,///C/17,///C/18,///C/19,///C/20,///C/21,///C/22,///C/23",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 9,
          "nts_short": "AGUUGGUUA",
          "nts_long": "///C/14,///C/15,///C/16,///C/17,///C/18,///C/19,///C/20,///C/21,///C/22"
        }
      ]
    },
    {
      "index": 10,
      "type": "hairpin loop",
      "bridging_nts": [
        9
      ],
      "stem_indices": [
        23
      ],
      "summary": "[1] 9 [C.31 C.41] 4",
      "num_nts": 11,
      "nts_short": "CACUCAUAAUG",
      "nts_long": "///C/31,///C/32,///C/33,///C/34,///C/35,///C/36,///C/37,///C/38,///C/39,///C/40,///C/41",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 9,
          "nts_short": "ACUCAUAAU",
          "nts_long": "///C/32,///C/33,///C/34,///C/35,///C/36,///C/37,///C/38,///C/39,///C/40"
        }
      ]
    },
    {
      "index": 11,
      "type": "hairpin loop",
      "bridging_nts": [
        7
      ],
      "stem_indices": [
        25
      ],
      "summary": "[1] 7 [C.54 C.62] 2",
      "num_nts": 9,
      "nts_short": "GUUCGAAUC",
      "nts_long": "///C/54,///C/55,///C/56,///C/57,///C/58,///C/59,///C/60,///C/61,///C/62",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 7,
          "nts_short": "UUCGAAU",
          "nts_long": "///C/55,///C/56,///C/57,///C/58,///C/59,///C/60,///C/61"
        }
      ]
    }
  ],
  "num_bulges": 5,
  "bulges": [
    {
      "index": 1,
      "type": "bulge",
      "bridging_nts": [
        0,
        1
      ],
      "stem_indices": [
        4,
        5
      ],
      "summary": "[2] 0 1 [B.28 B.53 B.29 B.51] 6 4",
      "num_nts": 5,
      "nts_short": "UCGGG",
      "nts_long": "///B/28,///B/29,///B/51,///B/52,///B/53",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/52"
        }
      ]
    },
    {
      "index": 2,
      "type": "bulge",
      "bridging_nts": [
        1,
        0
      ],
      "stem_indices": [
        5,
        6
      ],
      "summary": "[2] 1 0 [B.32 B.48 B.34 B.47] 4 2",
      "num_nts": 5,
      "nts_short": "CGUAG",
      "nts_long": "///B/32,///B/33,///B/34,///B/47,///B/48",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/33"
        },
        {
          "index": 2,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        }
      ]
    },
    {
      "index": 3,
      "type": "bulge",
      "bridging_nts": [
        1,
        0
      ],
      "stem_indices": [
        7,
        8
      ],
      "summary": "[2] 1 0 [B.68 B.358 B.70 B.357] 2 5",
      "num_nts": 5,
      "nts_short": "GUCGC",
      "nts_long": "///B/68,///B/69,///B/70,///B/357,///B/358",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///B/69"
        },
        {
          "index": 2,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        }
      ]
    },
    {
      "index": 4,
      "type": "bulge",
      "bridging_nts": [
        0,
        1
      ],
      "stem_indices": [
        -9,
        13
      ],
      "summary": "[2] 0 1 [B.154 B.164 B.155 B.162] 1 2",
      "num_nts": 5,
      "nts_short": "CGCGG",
      "nts_long": "///B/154,///B/155,///B/162,///B/163,///B/164",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/163"
        }
      ]
    },
    {
      "index": 5,
      "type": "bulge",
      "bridging_nts": [
        1,
        0
      ],
      "stem_indices": [
        -12,
        19
      ],
      "summary": "[2] 1 0 [B.304 B.326 B.306 B.325] 1 5",
      "num_nts": 5,
      "nts_short": "GAGCC",
      "nts_long": "///B/304,///B/305,///B/306,///B/325,///B/326",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "A",
          "nts_long": "///B/305"
        },
        {
          "index": 2,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        }
      ]
    }
  ],
  "num_iloops": 9,
  "iloops": [
    {
      "index": 1,
      "type": "symmetric internal loop",
      "bridging_nts": [
        1,
        1
      ],
      "stem_indices": [
        -1,
        1
      ],
      "summary": "[2] 1 1 [B.3 B.371 B.5 B.369] 1 6",
      "num_nts": 6,
      "nts_short": "AGCGUU",
      "nts_long": "///B/3,///B/4,///B/5,///B/369,///B/370,///B/371",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/4"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///B/370"
        }
      ]
    },
    {
      "index": 2,
      "type": "symmetric internal loop",
      "bridging_nts": [
        1,
        1
      ],
      "stem_indices": [
        3,
        4
      ],
      "summary": "[2] 1 1 [B.21 B.60 B.23 B.58] 2 6",
      "num_nts": 6,
      "nts_short": "CGCGGG",
      "nts_long": "///B/21,///B/22,///B/23,///B/58,///B/59,///B/60",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/22"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/59"
        }
      ]
    },
    {
      "index": 3,
      "type": "symmetric internal loop",
      "bridging_nts": [
        1,
        1
      ],
      "stem_indices": [
        -2,
        -3
      ],
      "summary": "[2] 1 1 [B.36 B.45 B.38 B.43] 1 1",
      "num_nts": 6,
      "nts_short": "CUCGGG",
      "nts_long": "///B/36,///B/37,///B/38,///B/43,///B/44,///B/45",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///B/37"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/44"
        }
      ]
    },
    {
      "index": 4,
      "type": "symmetric internal loop",
      "bridging_nts": [
        1,
        1
      ],
      "stem_indices": [
        -7,
        11
      ],
      "summary": "[2] 1 1 [B.92 B.106 B.94 B.104] 1 3",
      "num_nts": 6,
      "nts_short": "CCAUGG",
      "nts_long": "///B/92,///B/93,///B/94,///B/104,///B/105,///B/106",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "C",
          "nts_long": "///B/93"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/105"
        }
      ]
    },
    {
      "index": 5,
      "type": "symmetric internal loop",
      "bridging_nts": [
        1,
        1
      ],
      "stem_indices": [
        14,
        15
      ],
      "summary": "[2] 1 1 [B.185 B.201 B.187 B.199] 2 2",
      "num_nts": 6,
      "nts_short": "GUGCAC",
      "nts_long": "///B/185,///B/186,///B/187,///B/199,///B/200,///B/201",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///B/186"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "A",
          "nts_long": "///B/200"
        }
      ]
    },
    {
      "index": 6,
      "type": "symmetric internal loop",
      "bridging_nts": [
        1,
        1
      ],
      "stem_indices": [
        19,
        20
      ],
      "summary": "[2] 1 1 [B.310 B.321 B.312 B.319] 5 2",
      "num_nts": 6,
      "nts_short": "GUGUGC",
      "nts_long": "///B/310,///B/311,///B/312,///B/319,///B/320,///B/321",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///B/311"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/320"
        }
      ]
    },
    {
      "index": 7,
      "type": "symmetric internal loop",
      "bridging_nts": [
        1,
        1
      ],
      "stem_indices": [
        24,
        25
      ],
      "summary": "[2] 1 1 [C.51 C.65 C.53 C.63] 2 2",
      "num_nts": 6,
      "nts_short": "CAGCCG",
      "nts_long": "///C/51,///C/52,///C/53,///C/63,///C/64,///C/65",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "A",
          "nts_long": "///C/52"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "C",
          "nts_long": "///C/64"
        }
      ]
    },
    {
      "index": 8,
      "type": "symmetric internal loop",
      "bridging_nts": [
        2,
        2
      ],
      "stem_indices": [
        -5,
        -6
      ],
      "summary": "[2] 2 2 [B.75 B.246 B.78 B.243] 1 1",
      "num_nts": 8,
      "nts_short": "CUCCGGAG",
      "nts_long": "///B/75,///B/76,///B/77,///B/78,///B/243,///B/244,///B/245,///B/246",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 2,
          "nts_short": "UC",
          "nts_long": "///B/76,///B/77"
        },
        {
          "index": 2,
          "num_nts": 2,
          "nts_short": "GA",
          "nts_long": "///B/244,///B/245"
        }
      ]
    },
    {
      "index": 9,
      "type": "asymmetric internal loop",
      "bridging_nts": [
        3,
        4
      ],
      "stem_indices": [
        -10,
        -11
      ],
      "summary": "[2] 3 4 [B.208 B.221 B.212 B.216] 1 1",
      "num_nts": 11,
      "nts_short": "GCUGGCAGUCC",
      "nts_long": "///B/208,///B/209,///B/210,///B/211,///B/212,///B/216,///B/217,///B/218,///B/219,///B/220,///B/221",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 3,
          "nts_short": "CUG",
          "nts_long": "///B/209,///B/210,///B/211"
        },
        {
          "index": 2,
          "num_nts": 4,
          "nts_short": "AGUC",
          "nts_long": "///B/217,///B/218,///B/219,///B/220"
        }
      ]
    }
  ],
  "num_junctions": 6,
  "junctions": [
    {
      "index": 1,
      "type": "4-way junction",
      "bridging_nts": [
        0,
        1,
        2,
        0
      ],
      "stem_indices": [
        10,
        -7,
        12,
        -8
      ],
      "summary": "[4] 0 1 2 0 [B.91 B.238 B.92 B.106 B.108 B.117 B.120 B.237] 5 1 2 1",
      "num_nts": 11,
      "nts_short": "GCGGGCACGCC",
      "nts_long": "///B/91,///B/92,///B/106,///B/107,///B/108,///B/117,///B/118,///B/119,///B/120,///B/237,///B/238",
      "num_stems": 4,
      "bridges": [
        {
          "index": 1,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/107"
        },
        {
          "index": 3,
          "num_nts": 2,
          "nts_short": "AC",
          "nts_long": "///B/118,///B/119"
        },
        {
          "index": 4,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        }
      ]
    },
    {
      "index": 2,
      "type": "4-way junction",
      "bridging_nts": [
        2,
        1,
        5,
        0
      ],
      "stem_indices": [
        21,
        22,
        23,
        24
      ],
      "summary": "[4] 2 1 5 0 [C.7 C.67 C.10 C.26 C.28 C.44 C.50 C.66] 7 4 4 2",
      "num_nts": 16,
      "nts_short": "GUAGCACGGGGUCAUC",
      "nts_long": "///C/7,///C/8,///C/9,///C/10,///C/26,///C/27,///C/28,///C/44,///C/45,///C/46,///C/47,///C/48,///C/49,///C/50,///C/66,///C/67",
      "num_stems": 4,
      "bridges": [
        {
          "index": 1,
          "num_nts": 2,
          "nts_short": "UA",
          "nts_long": "///C/8,///C/9"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "A",
          "nts_long": "///C/27"
        },
        {
          "index": 3,
          "num_nts": 5,
          "nts_short": "GGGUC",
          "nts_long": "///C/45,///C/46,///C/47,///C/48,///C/49"
        },
        {
          "index": 4,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        }
      ]
    },
    {
      "index": 3,
      "type": "4-way junction",
      "bridging_nts": [
        1,
        5,
        3,
        4
      ],
      "stem_indices": [
        1,
        2,
        -4,
        7
      ],
      "summary": "[4] 1 5 3 4 [B.10 B.364 B.12 B.342 B.348 B.63 B.67 B.359] 6 5 1 2",
      "num_nts": 21,
      "nts_short": "CAGCCACGACGGAAAUUAUCG",
      "nts_long": "///B/10,///B/11,///B/12,///B/342,///B/343,///B/344,///B/345,///B/346,///B/347,///B/348,///B/63,///B/64,///B/65,///B/66,///B/67,///B/359,///B/360,///B/361,///B/362,///B/363,///B/364",
      "num_stems": 4,
      "bridges": [
        {
          "index": 1,
          "num_nts": 1,
          "nts_short": "A",
          "nts_long": "///B/11"
        },
        {
          "index": 2,
          "num_nts": 5,
          "nts_short": "CACGA",
          "nts_long": "///B/343,///B/344,///B/345,///B/346,///B/347"
        },
        {
          "index": 3,
          "num_nts": 3,
          "nts_short": "GAA",
          "nts_long": "///B/64,///B/65,///B/66"
        },
        {
          "index": 4,
          "num_nts": 4,
          "nts_short": "UAUC",
          "nts_long": "///B/360,///B/361,///B/362,///B/363"
        }
      ]
    },
    {
      "index": 4,
      "type": "4-way junction",
      "bridging_nts": [
        33,
        19,
        5,
        15
      ],
      "stem_indices": [
        -8,
        -9,
        14,
        -10
      ],
      "summary": "[4] 33 19 5 15 [B.120 B.237 B.154 B.164 B.184 B.202 B.208 B.221] 1 1 2 1",
      "num_nts": 80,
      "nts_short": "GACCAGUGCAACAGAGAGCAAACCGCCGAUGGCCCGGAUCAGGUAAGGGUGAAAGGCGCGCGGCGUGGCACGGUAAACUC",
      "nts_long": "///B/120,///B/121,///B/122,///B/123,///B/124,///B/125,///B/126,///B/127,///B/128,///B/129,///B/130,///B/131,///B/132,///B/133,///B/134,///B/135,///B/136,///B/137,///B/138,///B/139,///B/140,///B/141,///B/142,///B/143,///B/144,///B/145,///B/146,///B/147,///B/148,///B/149,///B/150,///B/151,///B/152,///B/153,///B/154,///B/164,///B/165,///B/166,///B/167,///B/168,///B/169,///B/170,///B/171,///B/172,///B/173,///B/174,///B/175,///B/176,///B/177,///B/178,///B/179,///B/180,///B/181,///B/182,///B/183,///B/184,///B/202,///B/203,///B/204,///B/205,///B/206,///B/207,///B/208,///B/221,///B/222,///B/223,///B/224,///B/225,///B/226,///B/227,///B/228,///B/229,///B/230,///B/231,///B/232,///B/233,///B/234,///B/235,///B/236,///B/237",
      "num_stems": 4,
      "bridges": [
        {
          "index": 1,
          "num_nts": 33,
          "nts_short": "ACCAGUGCAACAGAGAGCAAACCGCCGAUGGCC",
          "nts_long": "///B/121,///B/122,///B/123,///B/124,///B/125,///B/126,///B/127,///B/128,///B/129,///B/130,///B/131,///B/132,///B/133,///B/134,///B/135,///B/136,///B/137,///B/138,///B/139,///B/140,///B/141,///B/142,///B/143,///B/144,///B/145,///B/146,///B/147,///B/148,///B/149,///B/150,///B/151,///B/152,///B/153"
        },
        {
          "index": 2,
          "num_nts": 19,
          "nts_short": "GAUCAGGUAAGGGUGAAAG",
          "nts_long": "///B/165,///B/166,///B/167,///B/168,///B/169,///B/170,///B/171,///B/172,///B/173,///B/174,///B/175,///B/176,///B/177,///B/178,///B/179,///B/180,///B/181,///B/182,///B/183"
        },
        {
          "index": 3,
          "num_nts": 5,
          "nts_short": "GCGCG",
          "nts_long": "///B/203,///B/204,///B/205,///B/206,///B/207"
        },
        {
          "index": 4,
          "num_nts": 15,
          "nts_short": "GUGGCACGGUAAACU",
          "nts_long": "///B/222,///B/223,///B/224,///B/225,///B/226,///B/227,///B/228,///B/229,///B/230,///B/231,///B/232,///B/233,///B/234,///B/235,///B/236"
        }
      ]
    },
    {
      "index": 5,
      "type": "5-way junction",
      "bridging_nts": [
        3,
        0,
        2,
        2,
        0
      ],
      "stem_indices": [
        -6,
        9,
        17,
        9,
        10
      ],
      "summary": "[5] 3 0 2 2 0 [B.78 B.243 B.82 B.279 B.280 B.274 B.277 B.84 B.87 B.242] 1 3 3 3 5",
      "is_repeated": true,
      "num_nts": 17,
      "nts_short": "CAUAGCGCGGCGCAGCG",
      "nts_long": "///B/78,///B/79,///B/80,///B/81,///B/82,///B/279,///B/280,///B/274,///B/275,///B/276,///B/277,///B/84,///B/85,///B/86,///B/87,///B/242,///B/243",
      "num_stems": 5,
      "bridges": [
        {
          "index": 1,
          "num_nts": 3,
          "nts_short": "AUA",
          "nts_long": "///B/79,///B/80,///B/81"
        },
        {
          "index": 2,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 3,
          "num_nts": 2,
          "nts_short": "GG",
          "nts_long": "///B/275,///B/276"
        },
        {
          "index": 4,
          "num_nts": 2,
          "nts_short": "CA",
          "nts_long": "///B/85,///B/86"
        },
        {
          "index": 5,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        }
      ]
    },
    {
      "index": 6,
      "type": "7-way junction",
      "bridging_nts": [
        3,
        1,
        4,
        0,
        3,
        4,
        11
      ],
      "stem_indices": [
        2,
        3,
        -4,
        8,
        -5,
        16,
        -12
      ],
      "summary": "[7] 3 1 4 0 3 4 11 [B.16 B.338 B.20 B.61 B.63 B.348 B.353 B.74 B.75 B.246 B.250 B.299 B.304 B.326] 5 2 1 5 1 4 1",
      "num_nts": 40,
      "nts_short": "GUCGCGAGCAGAACGCGCAAGUGCUUGCUAGAUGAAUGAC",
      "nts_long": "///B/16,///B/17,///B/18,///B/19,///B/20,///B/61,///B/62,///B/63,///B/348,///B/349,///B/350,///B/351,///B/352,///B/353,///B/74,///B/75,///B/246,///B/247,///B/248,///B/249,///B/250,///B/299,///B/300,///B/301,///B/302,///B/303,///B/304,///B/326,///B/327,///B/328,///B/329,///B/330,///B/331,///B/332,///B/333,///B/334,///B/335,///B/336,///B/337,///B/338",
      "num_stems": 7,
      "bridges": [
        {
          "index": 1,
          "num_nts": 3,
          "nts_short": "UCG",
          "nts_long": "///B/17,///B/18,///B/19"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "A",
          "nts_long": "///B/62"
        },
        {
          "index": 3,
          "num_nts": 4,
          "nts_short": "AGAA",
          "nts_long": "///B/349,///B/350,///B/351,///B/352"
        },
        {
          "index": 4,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 5,
          "num_nts": 3,
          "nts_short": "CAA",
          "nts_long": "///B/247,///B/248,///B/249"
        },
        {
          "index": 6,
          "num_nts": 4,
          "nts_short": "GCUU",
          "nts_long": "///B/300,///B/301,///B/302,///B/303"
        },
        {
          "index": 7,
          "num_nts": 11,
          "nts_short": "UAGAUGAAUGA",
          "nts_long": "///B/327,///B/328,///B/329,///B/330,///B/331,///B/332,///B/333,///B/334,///B/335,///B/336,///B/337"
        }
      ]
    }
  ],
  "num_ssSegments": 7,
  "ssSegments": [
    {
      "index": 1,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///B/1,///B/2"
    },
    {
      "index": 2,
      "num_nts": 18,
      "nts_short": "AAAUAGGGGUUCAUAAGG",
      "nts_long": "///B/254,///B/255,///B/256,///B/257,///B/258,///B/259,///B/260,///B/261,///B/262,///B/263,///B/264,///B/265,///B/266,///B/267,///B/268,///B/269,///B/270,///B/271"
    },
    {
      "index": 3,
      "num_nts": 9,
      "nts_short": "CUGAACCCG",
      "nts_long": "///B/283,///B/284,///B/285,///B/286,///B/287,///B/288,///B/289,///B/290,///B/291"
    },
    {
      "index": 4,
      "num_nts": 1,
      "nts_short": "A",
      "nts_long": "///B/295"
    },
    {
      "index": 5,
      "num_nts": 2,
      "nts_short": "UC",
      "nts_long": "///B/372,///B/373"
    },
    {
      "index": 6,
      "num_nts": 5,
      "nts_short": "UCUAU",
      "nts_long": "c. C & i. \\-4,c. C & i. \\-3,c. C & i. \\-2,c. C & i. \\-1,///C/0"
    },
    {
      "index": 7,
      "num_nts": 1,
      "nts_short": "A",
      "nts_long": "///C/77"
    }
  ],
  "num_kissingLoops": 1,
  "kissingLoops": [
    {
      "index": 1,
      "stem_index": -13,
      "is_isoCanonPair": true,
      "hairpin_indices": [
        9,
        11
      ]
    }
  ],
  "num_Aminors": 9,
  "Aminors": [
    {
      "index": 1,
      "type": "X",
      "desc_short": "A vs C-G (WC)",
      "desc_long": "///B/81 vs ///B/274,///B/280",
      "A_nt1": {
        "desc": "///B/81 vs ///B/274",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      },
      "A_nt2": {
        "desc": "///B/81 vs ///B/280",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "N6(amino)-O2'(hydroxyl)[2.34]"
      }
    },
    {
      "index": 2,
      "type": "X",
      "desc_short": "A vs G-C (WC)",
      "desc_long": "///B/99 vs ///B/72,///B/355",
      "A_nt1": {
        "desc": "///B/99 vs ///B/72",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "N3-O2'(hydroxyl)[2.69]"
      },
      "A_nt2": {
        "desc": "///B/99 vs ///B/355",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      }
    },
    {
      "index": 3,
      "type": "X",
      "desc_short": "A vs G-C (WC)",
      "desc_long": "///B/118 vs ///C/53,///C/63",
      "A_nt1": {
        "desc": "///B/118 vs ///C/53",
        "face_type": "+",
        "hbonds_num": 1,
        "hbonds_desc": "N6(amino)*N2(amino)[3.19]"
      },
      "A_nt2": {
        "desc": "///B/118 vs ///C/63",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "N6(amino)-O2(carbonyl)[2.65]"
      }
    },
    {
      "index": 4,
      "type": "I",
      "desc_short": "A vs C-G (WC)",
      "desc_long": "///B/215 vs ///B/92,///B/106",
      "A_nt1": {
        "desc": "///B/215 vs ///B/92",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.67],O2'(hydroxyl)-O2(carbonyl)[3.04]"
      },
      "A_nt2": {
        "desc": "///B/215 vs ///B/106",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      }
    },
    {
      "index": 5,
      "type": "X",
      "desc_short": "A vs C-G (WC)",
      "desc_long": "///B/249 vs ///B/75,///B/246",
      "A_nt1": {
        "desc": "///B/249 vs ///B/75",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      },
      "A_nt2": {
        "desc": "///B/249 vs ///B/246",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "N3-N2(amino)[2.84]"
      }
    },
    {
      "index": 6,
      "type": "X",
      "desc_short": "A vs U-G (--)",
      "desc_long": "///B/249 vs ///B/76,///B/246",
      "A_nt1": {
        "desc": "///B/249 vs ///B/76",
        "face_type": "+",
        "hbonds_num": 1,
        "hbonds_desc": "N3*O2(carbonyl)[2.65]"
      },
      "A_nt2": {
        "desc": "///B/249 vs ///B/246",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "N3-N2(amino)[2.84]"
      }
    },
    {
      "index": 7,
      "type": "X",
      "desc_short": "A vs G-C (WC)",
      "desc_long": "///B/305 vs ///B/73,///B/354",
      "A_nt1": {
        "desc": "///B/305 vs ///B/73",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "N6(amino)-N3[2.73],N1-O2'(hydroxyl)[2.64]"
      },
      "A_nt2": {
        "desc": "///B/305 vs ///B/354",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      }
    },
    {
      "index": 8,
      "type": "I",
      "desc_short": "A vs G-C (WC)",
      "desc_long": "///B/317 vs ///B/95,///B/103",
      "A_nt1": {
        "desc": "///B/317 vs ///B/95",
        "face_type": "+",
        "hbonds_num": 2,
        "hbonds_desc": "N1-O2'(hydroxyl)[3.47],N3-N2(amino)[2.96]"
      },
      "A_nt2": {
        "desc": "///B/317 vs ///B/103",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.32],O2'(hydroxyl)-O2(carbonyl)[2.80]"
      }
    },
    {
      "index": 9,
      "type": "X",
      "desc_short": "A vs G-C (WC)",
      "desc_long": "///B/361 vs ///B/63,///B/348",
      "A_nt1": {
        "desc": "///B/361 vs ///B/63",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      },
      "A_nt2": {
        "desc": "///B/361 vs ///B/348",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "N3-O2'(hydroxyl)[2.72]"
      }
    }
  ],
  "num_splayUnits": 55,
  "splayUnits": [
    {
      "index": 1,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///B/1,///B/2"
    },
    {
      "index": 2,
      "num_nts": 2,
      "nts_short": "AG",
      "nts_long": "///B/11,///B/12"
    },
    {
      "index": 3,
      "num_nts": 3,
      "nts_short": "CGU",
      "nts_long": "///B/32,///B/33,///B/34"
    },
    {
      "index": 4,
      "num_nts": 2,
      "nts_short": "UU",
      "nts_long": "///B/39,///B/40"
    },
    {
      "index": 5,
      "num_nts": 3,
      "nts_short": "GGG",
      "nts_long": "///B/51,///B/52,///B/53"
    },
    {
      "index": 6,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///B/61,///B/62"
    },
    {
      "index": 7,
      "num_nts": 2,
      "nts_short": "UA",
      "nts_long": "///B/80,///B/81"
    },
    {
      "index": 8,
      "num_nts": 2,
      "nts_short": "GC",
      "nts_long": "///B/91,///B/92"
    },
    {
      "index": 9,
      "num_nts": 2,
      "nts_short": "GC",
      "nts_long": "///B/101,///B/102"
    },
    {
      "index": 10,
      "num_nts": 5,
      "nts_short": "AAACC",
      "nts_long": "///B/112,///B/113,///B/114,///B/115,///B/116"
    },
    {
      "index": 11,
      "num_nts": 4,
      "nts_short": "CACG",
      "nts_long": "///B/117,///B/118,///B/119,///B/120"
    },
    {
      "index": 12,
      "num_nts": 2,
      "nts_short": "CC",
      "nts_long": "///B/122,///B/123"
    },
    {
      "index": 13,
      "num_nts": 3,
      "nts_short": "CAA",
      "nts_long": "///B/128,///B/129,///B/130"
    },
    {
      "index": 14,
      "num_nts": 2,
      "nts_short": "CA",
      "nts_long": "///B/131,///B/132"
    },
    {
      "index": 15,
      "num_nts": 4,
      "nts_short": "GAGA",
      "nts_long": "///B/133,///B/134,///B/135,///B/136"
    },
    {
      "index": 16,
      "num_nts": 2,
      "nts_short": "CC",
      "nts_long": "///B/145,///B/146"
    },
    {
      "index": 17,
      "num_nts": 2,
      "nts_short": "UG",
      "nts_long": "///B/149,///B/150"
    },
    {
      "index": 18,
      "num_nts": 3,
      "nts_short": "CCC",
      "nts_long": "///B/152,///B/153,///B/154"
    },
    {
      "index": 19,
      "num_nts": 2,
      "nts_short": "GC",
      "nts_long": "///B/157,///B/158"
    },
    {
      "index": 20,
      "num_nts": 2,
      "nts_short": "UA",
      "nts_long": "///B/172,///B/173"
    },
    {
      "index": 21,
      "num_nts": 6,
      "nts_short": "GAAAGG",
      "nts_long": "///B/179,///B/180,///B/181,///B/182,///B/183,///B/184"
    },
    {
      "index": 22,
      "num_nts": 3,
      "nts_short": "GGU",
      "nts_long": "///B/189,///B/190,///B/191"
    },
    {
      "index": 23,
      "num_nts": 3,
      "nts_short": "AAG",
      "nts_long": "///B/192,///B/193,///B/194"
    },
    {
      "index": 24,
      "num_nts": 3,
      "nts_short": "AGC",
      "nts_long": "///B/195,///B/196,///B/197"
    },
    {
      "index": 25,
      "num_nts": 2,
      "nts_short": "GC",
      "nts_long": "///B/203,///B/204"
    },
    {
      "index": 26,
      "num_nts": 2,
      "nts_short": "GU",
      "nts_long": "///B/212,///B/213"
    },
    {
      "index": 27,
      "num_nts": 3,
      "nts_short": "GUC",
      "nts_long": "///B/218,///B/219,///B/220"
    },
    {
      "index": 28,
      "num_nts": 2,
      "nts_short": "AC",
      "nts_long": "///B/227,///B/228"
    },
    {
      "index": 29,
      "num_nts": 3,
      "nts_short": "AAA",
      "nts_long": "///B/232,///B/233,///B/234"
    },
    {
      "index": 30,
      "num_nts": 2,
      "nts_short": "CG",
      "nts_long": "///B/242,///B/243"
    },
    {
      "index": 31,
      "num_nts": 3,
      "nts_short": "CAA",
      "nts_long": "///B/247,///B/248,///B/249"
    },
    {
      "index": 32,
      "num_nts": 2,
      "nts_short": "AA",
      "nts_long": "///B/255,///B/256"
    },
    {
      "index": 33,
      "num_nts": 3,
      "nts_short": "UAG",
      "nts_long": "///B/257,///B/258,///B/259"
    },
    {
      "index": 34,
      "num_nts": 2,
      "nts_short": "CA",
      "nts_long": "///B/265,///B/266"
    },
    {
      "index": 35,
      "num_nts": 2,
      "nts_short": "UA",
      "nts_long": "///B/267,///B/268"
    },
    {
      "index": 36,
      "num_nts": 2,
      "nts_short": "UG",
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      "   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": "7uo1",
    "num_aaChains": 1,
    "aaChains": "A=112",
    "num_naChains": 2,
    "naChains": "B=373,C=82",
    "num_atoms": 16588,
    "num_waters": 0,
    "num_metals": 10,
    "metals_desc": "Ca=10",
    "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": 20,
    "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-stacks.pdb",
        "desc": "an ensemble of base stacks"
      },
      {
        "index": 16,
        "name": "dssr-atom2bases.pdb",
        "desc": "an ensemble of atom-base stacking interactions"
      },
      {
        "index": 17,
        "name": "dssr-rotmat.txt",
        "desc": "position vector and rotation matrix"
      },
      {
        "index": 18,
        "name": "dssr-viewV.pdb",
        "desc": "vertical view of the principal moment of inertia"
      },
      {
        "index": 19,
        "name": "dssr-viewH.pdb",
        "desc": "horizontal view of the principal moment of inertia"
      },
      {
        "index": 20,
        "name": "dssr-viewT.pdb",
        "desc": "top view of the principal moment of inertia"
      }
    ],
    "time_used": "999"
  }
}