[ {
  "name" : "Ig variable region alignment",
  "sequences" : [ {
    "sequence" : {
      "name" : "JX560779",
      "sequence" : "-----------------------ACCUU---CAGCAGCUA-------UGCUAUCAGCUGGGUGCGACAGGCCCCUGGACAAGGGCUUGAGUGGAUGGGAGGGAUCAUCCCUAUCUUUG--GUACAGCAAACUAC-GCACAGAAGUUCCAGGGCAGAGUCACGAUUACCGCGGACAAAUCCACGAGCACAGCCUACAUGGAGCUGAGCAGCCUGAGAUCUGAGGACACGGCCGUGUAUUACUGUGC-------GAGAGUU---------GUUAAUA---------------CAG-CCUUUGACUACUGGGGCCAGGGCACCCUGGUCACCGUC",
      "circular" : false,
      "sequenceType" : "Nucleotide",
      "qualities" : null,
      "chromatogram" : null
    },
    "annotations" : [ {
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      "type" : "CDS",
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        "min" : 24,
        "max" : 332,
        "direction" : "Right",
        "truncatedMin" : true,
        "truncatedMax" : true
      } ],
      "qualifiers" : [ {
        "name" : "codon_start",
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      }, {
        "name" : "transl_table",
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      }, {
        "name" : "product",
        "value" : "immunoglobulin heavy chain variable region"
      }, {
        "name" : "protein_id",
        "value" : "AFX62340.1"
      }, {
        "name" : "db_xref",
        "value" : "GI:418205593"
      }, {
        "name" : "translation",
        "value" : "TFSSYAISWVRQAPGQGLEWMGGIIPIFGTANYAQKFQGRVTITADKSTSTAYMELSSLRSEDTAVYYCARVVNTAFDYWGQGTLVTV"
      }, {
        "name" : "NCBI Feature Key",
        "value" : "CDS"
      } ]
    }, {
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      "type" : "source",
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        "max" : 332,
        "direction" : "Right",
        "truncatedMin" : false,
        "truncatedMax" : false
      } ],
      "qualifiers" : [ {
        "name" : "organism",
        "value" : "Homo sapiens"
      }, {
        "name" : "mol_type",
        "value" : "mRNA"
      }, {
        "name" : "isolate",
        "value" : "VH1-69/D3-16/JH4"
      }, {
        "name" : "db_xref",
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      }, {
        "name" : "NCBI Feature Key",
        "value" : "source"
      } ]
    } ]
  }, {
    "sequence" : {
      "name" : "JX560780",
      "sequence" : "--------------------------UUUUUCAGCAGCUA-------UGCUAUCAGCUGGGUGCGACAGGCCCCUGGACAAGGGCUUGAGUGGAUGGGAGGGAUCAUCCCUAUCUUUG--GUACAGCAAACUAC-GCACAGAAGUUCCAGGGCAGAGUCACGAUUACCGCGGACGAAUCCACGAGCACAGCCUACAUGGAGCUGAGCAGCCUGAGAUCUGAGGACACGGCCGUGUAUUACUGUGC-------GAGAGAUACAAAUCCGGGGACUACG---GUGAC-UACGCUGUACUUCGAUCUCUGGGGCCAGGGCACCCUGGUCACCGUC",
      "circular" : false,
      "sequenceType" : "Nucleotide",
      "qualities" : null,
      "chromatogram" : null
    },
    "annotations" : [ {
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        "max" : 332,
        "direction" : "Right",
        "truncatedMin" : false,
        "truncatedMax" : false
      } ],
      "qualifiers" : [ {
        "name" : "organism",
        "value" : "Homo sapiens"
      }, {
        "name" : "mol_type",
        "value" : "mRNA"
      }, {
        "name" : "isolate",
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      }, {
        "name" : "db_xref",
        "value" : "taxon:9606"
      }, {
        "name" : "NCBI Feature Key",
        "value" : "source"
      } ]
    }, {
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      "type" : "CDS",
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        "max" : 332,
        "direction" : "Right",
        "truncatedMin" : true,
        "truncatedMax" : true
      } ],
      "qualifiers" : [ {
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        "value" : "1"
      }, {
        "name" : "transl_table",
        "value" : "1"
      }, {
        "name" : "product",
        "value" : "immunoglobulin heavy chain variable region"
      }, {
        "name" : "protein_id",
        "value" : "AFX62341.1"
      }, {
        "name" : "db_xref",
        "value" : "GI:418205595"
      }, {
        "name" : "translation",
        "value" : "FFSSYAISWVRQAPGQGLEWMGGIIPIFGTANYAQKFQGRVTITADESTSTAYMELSSLRSEDTAVYYCARDTNPGTTVTTLYFDLWGQGTLVTV"
      }, {
        "name" : "NCBI Feature Key",
        "value" : "CDS"
      } ]
    } ]
  }, {
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      "name" : "JX560781",
      "sequence" : "-----------------------ACCUUU---ACCAGCUA------UGG-UA-CAGCUGGGUGCGACAGGCCCCUGGACAAGGGCUUGAGUGGAUGGGAUGGAUCAGCGCUUACAAUG--GUAACACAAACUAU-GCACAGAAGCUCCAGGGCAGAGUCACCAUGACCACAGACACAUCCACGAGCACAGCCUACAUGGAGCUGAGGAGCCUGAGAUCUGACGACACGGCCGUGUAUUACUGUGC-------GAGAGAUGGA--UCUGGCUACUAUGAUAGUAACGAAAGGAGUA--UGGACGUCUGGGGCCAGGGCACCCUGGUCACCGUC",
      "circular" : false,
      "sequenceType" : "Nucleotide",
      "qualities" : null,
      "chromatogram" : null
    },
    "annotations" : [ {
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        "max" : 332,
        "direction" : "Right",
        "truncatedMin" : false,
        "truncatedMax" : false
      } ],
      "qualifiers" : [ {
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        "value" : "Homo sapiens"
      }, {
        "name" : "mol_type",
        "value" : "mRNA"
      }, {
        "name" : "isolate",
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      }, {
        "name" : "db_xref",
        "value" : "taxon:9606"
      }, {
        "name" : "NCBI Feature Key",
        "value" : "source"
      } ]
    }, {
      "name" : "immunoglobulin heavy chain variable region CDS",
      "type" : "CDS",
      "intervals" : [ {
        "min" : 24,
        "max" : 332,
        "direction" : "Right",
        "truncatedMin" : true,
        "truncatedMax" : true
      } ],
      "qualifiers" : [ {
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        "value" : "3"
      }, {
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        "value" : "1"
      }, {
        "name" : "product",
        "value" : "immunoglobulin heavy chain variable region"
      }, {
        "name" : "protein_id",
        "value" : "AFX62342.1"
      }, {
        "name" : "db_xref",
        "value" : "GI:418205597"
      }, {
        "name" : "translation",
        "value" : "LYQLWYSWVRQAPGQGLEWMGWISAYNGNTNYAQKLQGRVTMTTDTSTSTAYMELRSLRSDDTAVYYCARDGSGYYDSNERSMDVWGQGTLVTV"
      }, {
        "name" : "NCBI Feature Key",
        "value" : "CDS"
      } ]
    } ]
  }, {
    "sequence" : {
      "name" : "JX560782",
      "sequence" : "ACGCUGACCUGCACUUCUCUGGGUUCUCACUCAGCA-CUAGUGGAGUGGGUGUGGGCUGGAUCCGUCAGCCCCCAGGAAAGGCCCUGGAGUGGCUUGCA---CUCAUUUAUUGGAAUGAUGAUAAGC--GCUACAGCCCA-UCUCUGAAGAGCAGGCUCACCAUCACCAAGGACACCUCCAAAAACCAGGUGGUCCUUACAAUGACCAACAUGGACCCUGUGGACACAGCCACAUAUUACUGUGCACACAGUGAACCAUGG---UUCGGGGAGU-------UAUCCUACCCAGU-CUUUGACUACUGGGGCCAGGGCACCCUGGUCACCGUC",
      "circular" : false,
      "sequenceType" : "Nucleotide",
      "qualities" : null,
      "chromatogram" : null
    },
    "annotations" : [ {
      "name" : "source Homo sapiens",
      "type" : "source",
      "intervals" : [ {
        "min" : 1,
        "max" : 332,
        "direction" : "Right",
        "truncatedMin" : false,
        "truncatedMax" : false
      } ],
      "qualifiers" : [ {
        "name" : "organism",
        "value" : "Homo sapiens"
      }, {
        "name" : "mol_type",
        "value" : "mRNA"
      }, {
        "name" : "isolate",
        "value" : "VH2-05/3-10/JH4"
      }, {
        "name" : "db_xref",
        "value" : "taxon:9606"
      }, {
        "name" : "NCBI Feature Key",
        "value" : "source"
      } ]
    }, {
      "name" : "immunoglobulin heavy chain variable region CDS",
      "type" : "CDS",
      "intervals" : [ {
        "min" : 1,
        "max" : 332,
        "direction" : "Right",
        "truncatedMin" : true,
        "truncatedMax" : true
      } ],
      "qualifiers" : [ {
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        "value" : "3"
      }, {
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        "value" : "1"
      }, {
        "name" : "product",
        "value" : "immunoglobulin heavy chain variable region"
      }, {
        "name" : "protein_id",
        "value" : "AFX62343.1"
      }, {
        "name" : "db_xref",
        "value" : "GI:418205599"
      }, {
        "name" : "translation",
        "value" : "ADLHFSGFSLSTSGVGVGWIRQPPGKALEWLALIYWNDDKRYSPSLKSRLTITKDTSKNQVVLTMTNMDPVDTATYYCAHSEPWFGELSYPVFDYWGQGTLVTV"
      }, {
        "name" : "NCBI Feature Key",
        "value" : "CDS"
      } ]
    } ],
    "annotationTracks" : [ {
      "name" : "CDR",
      "qualifiers" : [
        {
          "name" : "foo",
          "value" : "bar"
        }
      ],
      "annotations": [ {
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        "type" : "CDR",
        "intervals" : [ {
          "min" : 2,
          "max" : 331,
          "direction" : "Right",
          "truncatedMin" : true,
          "truncatedMax" : true
        } ],
        "qualifiers" : [ {
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        }, {
          "name" : "protein_id",
          "value" : "AFX62343.1"
        }, {
          "name" : "db_xref",
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        } ]
	  }, {
        "name" : "CDR2",
        "type" : "CDR",
        "intervals" : [ {
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          "max" : 332,
          "direction" : "Right",
          "truncatedMin" : true,
          "truncatedMax" : true
        } ],
        "qualifiers" : [ {
            "name" : "transl_table",
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          }, {
            "name" : "protein_id",
            "value" : "AFX62343.1"
          }, {
            "name" : "db_xref",
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          } ]
      }, {
        "name" : "CDR3",
        "type" : "CDR",
        "intervals" : [ {
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          "max" : 331,
          "direction" : "Right",
          "truncatedMin" : true,
          "truncatedMax" : true
        } ],
        "qualifiers" : [ {
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        }, {
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          "value" : "AFX62343.1"
        }, {
          "name" : "db_xref",
          "value" : "GI:418205599"
        } ]
      } ]
	}, {
      "name" : "Misc Tracks - this is a long label",
      "qualifiers" : [
        {
          "name" : "foo2",
          "value" : "bar2"
        }
      ],
      "annotations": [ {
        "name" : "Misc",
        "type" : "misc_feature",
        "intervals" : [ {
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          "max" : 112,
          "direction" : "Right",
          "truncatedMin" : false,
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        }, {
          "min" : 154,
          "max" : 202,
          "direction" : "Left",
          "truncatedMin" : false,
          "truncatedMax" : false
        }, {
          "min" : 126,
          "max" : 143,
          "direction" : "Undirected",
          "truncatedMin" : false,
          "truncatedMax" : false
        } ],
        "qualifiers" : []
      }, {
        "name" : "Test gene 1",
        "type" : "gene",
        "intervals" : [ {
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          "max" : 135,
          "direction" : "Right",
          "truncatedMin" : false,
          "truncatedMax" : true
        }, {
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          "direction" : "Right",
          "truncatedMin" : true,
          "truncatedMax" : false
        } ],
        "qualifiers" : []
      }, {
        "name" : "Test gene 2",
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        "intervals" : [ {
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          "max" : 150,
          "direction" : "Left",
          "truncatedMin" : false,
          "truncatedMax" : true
        } ],
        "qualifiers" : []
      } ]
	} ]
  }, {
    "sequence" : {
      "name" : "JX560783",
      "sequence" : "-----------------------ACCUU---CAGUAGCUA-U------GGCAUGCACUGGGUCCGCCAGGCUCCAGGCAAGGGGCUGGAGUGGGUGGCAGUUAU-AUC-AUAUGAUGGAAGUAAUAAAUACUAU-GCAGACUCCGUGAAGGGCCGAUUCACCAUCUCCAGAGACAAUUCCAAGAACACGCUGUAUCUGCAAAUGAACAGCCUGAGAGCUGAGGACACGGCUGUGUAUUACUGUGC-------GAAAGAUGG------GGUGGCU----------------GUUUCCUUUGACUACUGGGGCCAGGGCACCCUGGUCACCGUC",
      "circular" : false,
      "sequenceType" : "Nucleotide",
      "qualities" : null,
      "chromatogram" : null
    },
    "annotations" : [ {
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        "min" : 24,
        "max" : 332,
        "direction" : "Right",
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        "truncatedMax" : false
      } ],
      "qualifiers" : [ {
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        "value" : "Homo sapiens"
      }, {
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        "value" : "taxon:9606"
      }, {
        "name" : "NCBI Feature Key",
        "value" : "source"
      } ]
    }, {
      "name" : "immunoglobulin heavy chain variable region CDS",
      "type" : "CDS",
      "intervals" : [ {
        "min" : 24,
        "max" : 332,
        "direction" : "Right",
        "truncatedMin" : true,
        "truncatedMax" : true
      } ],
      "qualifiers" : [ {
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      }, {
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      }, {
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        "value" : "immunoglobulin heavy chain variable region"
      }, {
        "name" : "protein_id",
        "value" : "AFX62344.1"
      }, {
        "name" : "db_xref",
        "value" : "GI:418205601"
      }, {
        "name" : "translation",
        "value" : "TFSSYGMHWVRQAPGKGLEWVAVISYDGSNKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKDGVAVSFDYWGQGTLVTV"
      }, {
        "name" : "NCBI Feature Key",
        "value" : "CDS"
      } ]
    } ]
  } ]
} ]