{
  "$schema": "https://jbrowse.org/jb2/schema/v5/config.json",
  "assemblies": [
    {
      "name": "CO92",
      "displayName": "Yersinia pestis CO92",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "trackId": "CO92-refseq",
        "adapter": {
          "type": "BgzipFastaAdapter",
          "uri": "https://jbrowse.org/demos/circular_synteny_yersinia/CO92.fa.gz"
        }
      }
    },
    {
      "name": "KIM",
      "displayName": "Yersinia pestis KIM",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "trackId": "KIM-refseq",
        "adapter": {
          "type": "BgzipFastaAdapter",
          "uri": "https://jbrowse.org/demos/circular_synteny_yersinia/KIM.fa.gz"
        }
      }
    }
  ],
  "tracks": [
    {
      "type": "SyntenyTrack",
      "trackId": "KIM_to_CO92",
      "name": "KIM aligned to CO92",
      "assemblyNames": ["KIM", "CO92"],
      "adapter": {
        "type": "PairwiseIndexedPAFAdapter",
        "uri": "https://jbrowse.org/demos/circular_synteny_yersinia/KIM_to_CO92.pif.gz",
        "csi": true,
        "queryAssembly": "KIM",
        "targetAssembly": "CO92"
      }
    }
  ],
  "defaultSession": {
    "name": "CO92 and KIM on one circle",
    "views": [
      {
        "type": "CircularView",
        "assembly": ["CO92", "KIM"],
        "height": 780,
        "tracks": ["KIM_to_CO92"],
        "filter": [{ "field": "length", "gte": 5000 }],
        "encoding": {
          "color": "strand"
        }
      }
    ]
  }
}