{
  "assemblies": [
    {
      "name": "GCF_000307795.1",
      "displayName": "H. pylori 26695",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "metadata": {
          "blatDb": "GCF_000307795.1",
          "ucsc": {
            "genome": "GCF_000307795.1",
            "taxId": "85962",
            "groups": "groups.txt",
            "description": "Helicobacter pylori (26695 2012)",
            "twoBitPath": "GCF_000307795.1.2bit",
            "twoBitBptUrl": "GCF_000307795.1.2bit.bpt",
            "chromSizes": "GCF_000307795.1.chrom.sizes.txt",
            "chromAliasBb": "GCF_000307795.1.chromAlias.bb",
            "organism": "ASM30779v1 Oct. 2012",
            "defaultPos": "NC_018939.1:555964-565964",
            "scientificName": "Helicobacter pylori 26695",
            "htmlPath": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/000/307/795/GCF_000307795.1/html/GCF_000307795.1_ASM30779v1.description.html\">html/GCF_000307795.1_ASM30779v1.description.html</a>",
            "blat": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/000/307/795/GCF_000307795.1",
            "transBlat": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/000/307/795/GCF_000307795.1",
            "isPcr": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/000/307/795/GCF_000307795.1"
          }
        },
        "trackId": "GCF_000307795.1-ReferenceSequenceTrack",
        "adapter": {
          "type": "TwoBitAdapter",
          "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/000/307/795/GCF_000307795.1/GCF_000307795.1.2bit",
          "chromSizes": "https://hgdownload.soe.ucsc.edu/hubs/GCF/000/307/795/GCF_000307795.1/GCF_000307795.1.chrom.sizes.txt"
        }
      },
      "refNameAliases": {
        "adapter": {
          "type": "RefNameAliasAdapter",
          "refNameColumnHeaderName": "ucsc",
          "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/000/307/795/GCF_000307795.1/GCF_000307795.1.chromAlias.txt"
        }
      },
      "geneticCodes": {
        "NC_018939.1": 11
      },
      "aliases": ["hpylori_26695"]
    },
    {
      "name": "GCF_025998455.1",
      "displayName": "H. pylori CHC155",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "metadata": {
          "blatDb": "GCF_025998455.1",
          "ucsc": {
            "genome": "GCF_025998455.1",
            "taxId": "210",
            "groups": "groups.txt",
            "description": "Helicobacter pylori (CHC155 2022)",
            "twoBitPath": "GCF_025998455.1.2bit",
            "twoBitBptUrl": "GCF_025998455.1.2bit.bpt",
            "chromSizes": "GCF_025998455.1.chrom.sizes.txt",
            "chromAliasBb": "GCF_025998455.1.chromAlias.bb",
            "organism": "ASM2599845v1 Oct. 2022",
            "defaultPos": "NZ_AP026446.1:565533-575533",
            "scientificName": "Helicobacter pylori",
            "htmlPath": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/025/998/455/GCF_025998455.1/html/GCF_025998455.1_ASM2599845v1.description.html\">html/GCF_025998455.1_ASM2599845v1.description.html</a>",
            "blat": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/025/998/455/GCF_025998455.1",
            "transBlat": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/025/998/455/GCF_025998455.1",
            "isPcr": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/025/998/455/GCF_025998455.1"
          }
        },
        "trackId": "GCF_025998455.1-ReferenceSequenceTrack",
        "adapter": {
          "type": "TwoBitAdapter",
          "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/025/998/455/GCF_025998455.1/GCF_025998455.1.2bit",
          "chromSizes": "https://hgdownload.soe.ucsc.edu/hubs/GCF/025/998/455/GCF_025998455.1/GCF_025998455.1.chrom.sizes.txt"
        }
      },
      "refNameAliases": {
        "adapter": {
          "type": "RefNameAliasAdapter",
          "refNameColumnHeaderName": "ucsc",
          "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/025/998/455/GCF_025998455.1/GCF_025998455.1.chromAlias.txt"
        }
      },
      "geneticCodes": {
        "NZ_AP026446.1": 11
      },
      "aliases": ["hpylori_chc155"]
    },
    {
      "name": "GCF_000982695.1",
      "displayName": "H. pylori J99",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "metadata": {
          "blatDb": "GCF_000982695.1",
          "ucsc": {
            "genome": "GCF_000982695.1",
            "taxId": "85963",
            "groups": "groups.txt",
            "description": "Helicobacter pylori (J99 2015)",
            "twoBitPath": "GCF_000982695.1.2bit",
            "twoBitBptUrl": "GCF_000982695.1.2bit.bpt",
            "chromSizes": "GCF_000982695.1.chrom.sizes.txt",
            "chromAliasBb": "GCF_000982695.1.chromAlias.bb",
            "organism": "ASM98269v1 Apr. 2015",
            "defaultPos": "NZ_CP011330.1:566122-576122",
            "scientificName": "Helicobacter pylori J99",
            "htmlPath": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/000/982/695/GCF_000982695.1/html/GCF_000982695.1_ASM98269v1.description.html\">html/GCF_000982695.1_ASM98269v1.description.html</a>",
            "blat": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/000/982/695/GCF_000982695.1",
            "transBlat": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/000/982/695/GCF_000982695.1",
            "isPcr": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/000/982/695/GCF_000982695.1"
          }
        },
        "trackId": "GCF_000982695.1-ReferenceSequenceTrack",
        "adapter": {
          "type": "TwoBitAdapter",
          "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/000/982/695/GCF_000982695.1/GCF_000982695.1.2bit",
          "chromSizes": "https://hgdownload.soe.ucsc.edu/hubs/GCF/000/982/695/GCF_000982695.1/GCF_000982695.1.chrom.sizes.txt"
        }
      },
      "refNameAliases": {
        "adapter": {
          "type": "RefNameAliasAdapter",
          "refNameColumnHeaderName": "ucsc",
          "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/000/982/695/GCF_000982695.1/GCF_000982695.1.chromAlias.txt"
        }
      },
      "geneticCodes": {
        "NZ_CP011330.1": 11
      },
      "aliases": ["hpylori_j99"]
    }
  ],
  "configuration": {},
  "connections": [],
  "defaultSession": {
    "name": "H. pylori demo",
    "views": [
      {
        "type": "LinearGenomeView",
        "loc": "NC_018939.1:391,180..408,961",
        "assembly": "GCF_000307795.1",
        "tracklist": true,
        "tracks": ["GCF_000307795.1-ncbiGff", "26695_vs_j99.pif"]
      }
    ]
  },
  "tracks": [
    {
      "type": "SyntenyTrack",
      "trackId": "26695_vs_j99.pif",
      "name": "26695_vs_j99.pif",
      "adapter": {
        "type": "PairwiseIndexedPAFAdapter",
        "pifGzLocation": {
          "uri": "26695_vs_j99.pif.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "26695_vs_j99.pif.gz.tbi",
            "locationType": "UriLocation"
          },
          "indexType": "TBI"
        },
        "assemblyNames": ["GCF_000982695.1", "GCF_000307795.1"]
      },
      "assemblyNames": ["GCF_000982695.1", "GCF_000307795.1"]
    },
    {
      "type": "SyntenyTrack",
      "trackId": "26695_vs_chc155.pif",
      "name": "26695_vs_chc155.pif",
      "adapter": {
        "type": "PairwiseIndexedPAFAdapter",
        "pifGzLocation": {
          "uri": "26695_vs_chc155.pif.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "26695_vs_chc155.pif.gz.tbi",
            "locationType": "UriLocation"
          },
          "indexType": "TBI"
        },
        "assemblyNames": ["GCF_025998455.1", "GCF_000307795.1"]
      },
      "assemblyNames": ["GCF_025998455.1", "GCF_000307795.1"]
    },
    {
      "type": "SyntenyTrack",
      "trackId": "chc155_vs_j99.pif",
      "name": "chc155_vs_j99.pif",
      "adapter": {
        "type": "PairwiseIndexedPAFAdapter",
        "pifGzLocation": {
          "uri": "chc155_vs_j99.pif.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "chc155_vs_j99.pif.gz.tbi",
            "locationType": "UriLocation"
          },
          "indexType": "TBI"
        },
        "assemblyNames": ["GCF_000982695.1", "GCF_025998455.1"]
      },
      "assemblyNames": ["GCF_000982695.1", "GCF_025998455.1"]
    },
    {
      "type": "FeatureTrack",
      "trackId": "GCF_000307795.1-ncbiGff",
      "name": "NCBI RefSeq - RefSeq All (GFF)",
      "adapter": {
        "type": "Gff3TabixAdapter",
        "gffGzLocation": {
          "uri": "https://jbrowse.org/hubs/genark/GCF/000/307/795/GCF_000307795.1/GCF_000307795.1_ASM30779v1_genomic.gff.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "https://jbrowse.org/hubs/genark/GCF/000/307/795/GCF_000307795.1/GCF_000307795.1_ASM30779v1_genomic.gff.gz.csi",
            "locationType": "UriLocation"
          },
          "indexType": "CSI"
        }
      },
      "category": ["Genes and Gene Predictions"],
      "assemblyNames": ["GCF_000307795.1"],
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_000307795.1-ncbiGff-LinearBasicDisplay",
          "labels": {
            "name": "jexl:get(feature,'standard_name')||get(feature,'name')||get(feature,'gene')||get(feature,'note')||get(feature,'function')||get(feature,'regulatory_class')||split(get(feature,'target')||'',' ')[0]"
          },
          "mouseover": "jexl:get(feature,'standard_name')||get(feature,'name')||get(feature,'gene')||get(feature,'note')||get(feature,'function')||get(feature,'regulatory_class')||split(get(feature,'target')||'',' ')[0]"
        }
      ],
      "textSearching": {
        "indexingAttributes": ["Name", "ID", "gene_synonym"],
        "indexingFeatureTypesToExclude": [
          "CDS",
          "exon",
          "region",
          "match",
          "cDNA_match",
          "biological_region",
          "enhancer",
          "silencer",
          "promoter",
          "protein_binding_site",
          "transcriptional_cis_regulatory_region",
          "nucleotide_motif"
        ]
      }
    },
    {
      "type": "FeatureTrack",
      "trackId": "GCF_025998455.1-ncbiGff",
      "name": "NCBI RefSeq - RefSeq All (GFF)",
      "adapter": {
        "type": "Gff3TabixAdapter",
        "gffGzLocation": {
          "uri": "https://jbrowse.org/hubs/genark/GCF/025/998/455/GCF_025998455.1/GCF_025998455.1_ASM2599845v1_genomic.gff.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "https://jbrowse.org/hubs/genark/GCF/025/998/455/GCF_025998455.1/GCF_025998455.1_ASM2599845v1_genomic.gff.gz.csi",
            "locationType": "UriLocation"
          },
          "indexType": "CSI"
        }
      },
      "category": ["Genes and Gene Predictions"],
      "assemblyNames": ["GCF_025998455.1"],
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_025998455.1-ncbiGff-LinearBasicDisplay",
          "labels": {
            "name": "jexl:get(feature,'standard_name')||get(feature,'name')||get(feature,'gene')||get(feature,'note')||get(feature,'function')||get(feature,'regulatory_class')||split(get(feature,'target')||'',' ')[0]"
          },
          "mouseover": "jexl:get(feature,'standard_name')||get(feature,'name')||get(feature,'gene')||get(feature,'note')||get(feature,'function')||get(feature,'regulatory_class')||split(get(feature,'target')||'',' ')[0]"
        }
      ],
      "textSearching": {
        "indexingAttributes": ["Name", "ID", "gene_synonym"],
        "indexingFeatureTypesToExclude": [
          "CDS",
          "exon",
          "region",
          "match",
          "cDNA_match",
          "biological_region",
          "enhancer",
          "silencer",
          "promoter",
          "protein_binding_site",
          "transcriptional_cis_regulatory_region",
          "nucleotide_motif"
        ]
      }
    },
    {
      "type": "FeatureTrack",
      "trackId": "GCF_000982695.1-ncbiGff",
      "name": "NCBI RefSeq - RefSeq All (GFF)",
      "adapter": {
        "type": "Gff3TabixAdapter",
        "gffGzLocation": {
          "uri": "https://jbrowse.org/hubs/genark/GCF/000/982/695/GCF_000982695.1/GCF_000982695.1_ASM98269v1_genomic.gff.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "https://jbrowse.org/hubs/genark/GCF/000/982/695/GCF_000982695.1/GCF_000982695.1_ASM98269v1_genomic.gff.gz.csi",
            "locationType": "UriLocation"
          },
          "indexType": "CSI"
        }
      },
      "category": ["Genes and Gene Predictions"],
      "assemblyNames": ["GCF_000982695.1"],
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_000982695.1-ncbiGff-LinearBasicDisplay",
          "labels": {
            "name": "jexl:get(feature,'standard_name')||get(feature,'name')||get(feature,'gene')||get(feature,'note')||get(feature,'function')||get(feature,'regulatory_class')||split(get(feature,'target')||'',' ')[0]"
          },
          "mouseover": "jexl:get(feature,'standard_name')||get(feature,'name')||get(feature,'gene')||get(feature,'note')||get(feature,'function')||get(feature,'regulatory_class')||split(get(feature,'target')||'',' ')[0]"
        }
      ],
      "textSearching": {
        "indexingAttributes": ["Name", "ID", "gene_synonym"],
        "indexingFeatureTypesToExclude": [
          "CDS",
          "exon",
          "region",
          "match",
          "cDNA_match",
          "biological_region",
          "enhancer",
          "silencer",
          "promoter",
          "protein_binding_site",
          "transcriptional_cis_regulatory_region",
          "nucleotide_motif"
        ]
      }
    }
  ],
  "aggregateTextSearchAdapters": [
    {
      "type": "TrixTextSearchAdapter",
      "ixFilePath": {
        "uri": "https://jbrowse.org/hubs/genark/GCF/000/307/795/GCF_000307795.1/trix/GCF_000307795.1.ix",
        "locationType": "UriLocation"
      },
      "ixxFilePath": {
        "uri": "https://jbrowse.org/hubs/genark/GCF/000/307/795/GCF_000307795.1/trix/GCF_000307795.1.ixx",
        "locationType": "UriLocation"
      },
      "assemblyNames": ["GCF_000307795.1"]
    },
    {
      "type": "TrixTextSearchAdapter",
      "ixFilePath": {
        "uri": "https://jbrowse.org/hubs/genark/GCF/025/998/455/GCF_025998455.1/trix/GCF_025998455.1.ix",
        "locationType": "UriLocation"
      },
      "ixxFilePath": {
        "uri": "https://jbrowse.org/hubs/genark/GCF/025/998/455/GCF_025998455.1/trix/GCF_025998455.1.ixx",
        "locationType": "UriLocation"
      },
      "assemblyNames": ["GCF_025998455.1"]
    },
    {
      "type": "TrixTextSearchAdapter",
      "ixFilePath": {
        "uri": "https://jbrowse.org/hubs/genark/GCF/000/982/695/GCF_000982695.1/trix/GCF_000982695.1.ix",
        "locationType": "UriLocation"
      },
      "ixxFilePath": {
        "uri": "https://jbrowse.org/hubs/genark/GCF/000/982/695/GCF_000982695.1/trix/GCF_000982695.1.ixx",
        "locationType": "UriLocation"
      },
      "assemblyNames": ["GCF_000982695.1"]
    }
  ]
}
