{
  "assemblies": [
    {
      "name": "GCF_003254395.2",
      "displayName": "honey bee (DH4 2018)",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "metadata": {
          "blatDb": "GCF_003254395.2",
          "ucsc": {
            "genome": "GCF_003254395.2",
            "taxId": "7460",
            "groups": "groups.txt",
            "description": "honey bee (DH4 2018)",
            "twoBitPath": "GCF_003254395.2.2bit",
            "twoBitBptUrl": "GCF_003254395.2.2bit.bpt",
            "chromSizes": "GCF_003254395.2.chrom.sizes.txt",
            "chromAliasBb": "GCF_003254395.2.chromAlias.bb",
            "chromAuthority": "ucsc",
            "organism": "Amel_HAv3.1 Sep. 2018",
            "defaultPos": "NC_037638.1:9251400-9261400",
            "scientificName": "Apis mellifera",
            "htmlPath": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.description.html\">html/GCF_003254395.2_Amel_HAv3.1.description.html</a>",
            "blat": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/003/254/395/GCF_003254395.2",
            "transBlat": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/003/254/395/GCF_003254395.2",
            "isPcr": "dynablat-01.soe.ucsc.edu 4040 dynamic GCF/003/254/395/GCF_003254395.2"
          }
        },
        "trackId": "GCF_003254395.2-ReferenceSequenceTrack",
        "adapter": {
          "type": "TwoBitAdapter",
          "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/GCF_003254395.2.2bit",
          "chromSizes": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/GCF_003254395.2.chrom.sizes.txt"
        }
      },
      "refNameAliases": {
        "adapter": {
          "type": "RefNameAliasAdapter",
          "refNameColumnHeaderName": "ucsc",
          "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/GCF_003254395.2.chromAlias.txt"
        }
      },
      "geneticCodes": {
        "NC_001566.1": 5
      },
      "circularRefNames": ["NC_001566.1"]
    }
  ],
  "tracks": [
    {
      "metadata": {
        "ucsc": {
          "track": "assembly",
          "longLabel": "Assembly",
          "shortLabel": "Assembly",
          "visibility": "hide",
          "colorByStrand": "150,100,30 230,170,40",
          "color": "150,100,30",
          "altColor": "230,170,40",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.assembly.bb",
          "type": "bigBed 6",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.assembly\">html/GCF_003254395.2_Amel_HAv3.1.assembly</a>",
          "searchIndex": "name",
          "searchTrix": "ixIxx/GCF_003254395.2_Amel_HAv3.1.assembly.ix",
          "url": "https://www.ncbi.nlm.nih.gov/nuccore/$$",
          "urlLabel": "NCBI Nucleotide database:",
          "group": "map"
        }
      },
      "category": ["Mapping and Sequencing"],
      "trackId": "GCF_003254395.2-assembly",
      "description": "Assembly",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "Assembly",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.assembly.bb"
      },
      "formatDetails": {
        "feature": "jexl:{'NCBI Nucleotide database':feature.name?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/nuccore/'+(''+feature.name)+'\">'+(''+feature.name)+'</a>':undefined}"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "gap",
          "longLabel": "AGP gap",
          "shortLabel": "Gap (AGP defined)",
          "visibility": "hide",
          "color": "0,0,0",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.gap.bb",
          "type": "bigBed 4",
          "group": "map",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.gap\">html/GCF_003254395.2_Amel_HAv3.1.gap</a>"
        }
      },
      "category": ["Mapping and Sequencing"],
      "trackId": "GCF_003254395.2-gap",
      "description": "AGP gap",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "Gap (AGP defined)",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.gap.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "cytoBandIdeo",
          "shortLabel": "Chromosome Band (Ideogram)",
          "longLabel": "Ideogram for Orientation",
          "group": "map",
          "visibility": "dense",
          "type": "bigBed 4 +",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.cytoBand.bb"
        }
      },
      "category": ["Mapping and Sequencing"],
      "trackId": "GCF_003254395.2-cytoBandIdeo",
      "description": "Ideogram for Orientation",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "Chromosome Band (Ideogram)",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.cytoBand.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "gc5Base",
          "shortLabel": "GC Percent",
          "longLabel": "GC Percent in 5-Base Windows",
          "group": "map",
          "visibility": "dense",
          "autoScale": "Off",
          "maxHeightPixels": "128:36:16",
          "graphTypeDefault": "Bar",
          "gridDefault": "OFF",
          "windowingFunction": "Mean",
          "color": "0,0,0",
          "altColor": "128,128,128",
          "viewLimits": "30:70",
          "type": "bigWig 0 100",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.gc5Base.bw",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.gc5Base\">html/GCF_003254395.2_Amel_HAv3.1.gc5Base</a>"
        }
      },
      "category": ["Mapping and Sequencing"],
      "trackId": "GCF_003254395.2-gc5Base",
      "description": "GC Percent in 5-Base Windows",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "GC Percent",
      "type": "QuantitativeTrack",
      "adapter": {
        "type": "BigWigAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.gc5Base.bw"
      },
      "displays": [
        {
          "type": "LinearWiggleDisplay",
          "displayId": "GCF_003254395.2-gc5Base-LinearWiggleDisplay",
          "encoding": {
            "y": {
              "field": "score",
              "scale": {
                "domainMin": 30,
                "domainMax": 70
              }
            }
          }
        }
      ]
    },
    {
      "metadata": {
        "ucsc": {
          "track": "gapOverlap",
          "parent": "tanDups on",
          "shortLabel": "Gap Overlaps",
          "longLabel": "Paired exactly identical sequence on each side of a gap",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.gapOverlap.bb",
          "type": "bigBed 12"
        }
      },
      "category": ["Mapping and Sequencing"],
      "trackId": "GCF_003254395.2-gapOverlap",
      "description": "Paired exactly identical sequence on each side of a gap",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "Tandem Dups - Gap Overlaps",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.gapOverlap.bb",
        "disableGeneHeuristic": true
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "tandemDups",
          "parent": "tanDups on",
          "shortLabel": "Tandem Dups",
          "longLabel": "Paired exactly identical sequence survey over entire genome assembly",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.tandemDups.bb",
          "type": "bigBed 12"
        }
      },
      "category": ["Mapping and Sequencing"],
      "trackId": "GCF_003254395.2-tandemDups",
      "description": "Paired exactly identical sequence survey over entire genome assembly",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "Tandem Dups",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.tandemDups.bb",
        "disableGeneHeuristic": true
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "repeatMasker",
          "shortLabel": "RepeatMasker",
          "longLabel": "RepeatMasker Repetitive Elements",
          "type": "bigRmsk 9 +",
          "visibility": "pack",
          "group": "varRep",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.rmsk.bb",
          "maxWindowToDraw": "5000000",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.repeatMasker\">html/GCF_003254395.2_Amel_HAv3.1.repeatMasker</a>"
        }
      },
      "category": ["Variation and Repeats"],
      "trackId": "GCF_003254395.2-repeatMasker",
      "description": "RepeatMasker Repetitive Elements",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "RepeatMasker",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.rmsk.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "simpleRepeat",
          "shortLabel": "Simple Repeats",
          "longLabel": "Simple Tandem Repeats by TRF",
          "group": "varRep",
          "visibility": "dense",
          "type": "bigBed 4 +",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.simpleRepeat.bb",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.simpleRepeat\">html/GCF_003254395.2_Amel_HAv3.1.simpleRepeat</a>"
        }
      },
      "category": ["Variation and Repeats"],
      "trackId": "GCF_003254395.2-simpleRepeat",
      "description": "Simple Tandem Repeats by TRF",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "Simple Repeats",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.simpleRepeat.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "ncbiRefSeq",
          "parent": "refSeqComposite on",
          "color": "12,12,120",
          "shortLabel": "RefSeq All",
          "type": "bigGenePred",
          "urls": "name2=\"https://www.ncbi.nlm.nih.gov/gene/?term=$$\" geneName=\"https://www.ncbi.nlm.nih.gov/gene/$$\" geneName2=\"https://www.ncbi.nlm.nih.gov/nuccore/$$\"",
          "labelFields": "name2,geneName,geneName2",
          "defaultLabelFields": "name2",
          "searchIndex": "name",
          "searchTrix": "ixIxx/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeq.ix",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeq.bb",
          "longLabel": "NCBI RefSeq genes, curated and predicted sets (NM_*, XM_*, NR_*, XR_*, NP_* or YP_*)",
          "idXref": "ncbiRefSeqLink mrnaAcc name",
          "baseColorUseCds": "given",
          "baseColorDefault": "genomicCodons",
          "priority": "1"
        }
      },
      "category": ["Genes and Gene Predictions"],
      "trackId": "GCF_003254395.2-ncbiRefSeq",
      "description": "NCBI RefSeq genes, curated and predicted sets (NM_*, XM_*, NR_*, XR_*, NP_* or YP_*)",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "NCBI RefSeq - RefSeq All",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeq.bb",
        "aggregateField": "name2"
      },
      "formatDetails": {
        "subfeatures": "jexl:{'name2':feature.name2?(replaceAll((''+feature.name2),',','')==(''+feature.name2)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/gene/?term='+split((''+feature.name2),'|')[0]+'\">'+(split((''+feature.name2),'|')[1]?split((''+feature.name2),'|')[1]:(''+feature.name2))+'</a>':feature.name2):feature.name2,'geneName':feature.geneName?(replaceAll((''+feature.geneName),',','')==(''+feature.geneName)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/gene/'+split((''+feature.geneName),'|')[0]+'\">'+(split((''+feature.geneName),'|')[1]?split((''+feature.geneName),'|')[1]:(''+feature.geneName))+'</a>':feature.geneName):feature.geneName,'geneName2':feature.geneName2?(replaceAll((''+feature.geneName2),',','')==(''+feature.geneName2)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/nuccore/'+split((''+feature.geneName2),'|')[0]+'\">'+(split((''+feature.geneName2),'|')[1]?split((''+feature.geneName2),'|')[1]:(''+feature.geneName2))+'</a>':feature.geneName2):feature.geneName2}"
      },
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_003254395.2-ncbiRefSeq-LinearBasicDisplay",
          "labels": {
            "name": "jexl:get(feature,'name')"
          }
        }
      ]
    },
    {
      "metadata": {
        "ucsc": {
          "track": "ncbiRefSeqCurated",
          "color": "12,12,120",
          "parent": "refSeqComposite on",
          "shortLabel": "RefSeq Curated",
          "longLabel": "NCBI RefSeq genes, curated subset (NM_*, NR_*, NP_* or YP_*)",
          "type": "bigGenePred",
          "urls": "name2=\"https://www.ncbi.nlm.nih.gov/gene/?term=$$\" geneName=\"https://www.ncbi.nlm.nih.gov/gene/$$\" geneName2=\"https://www.ncbi.nlm.nih.gov/nuccore/$$\"",
          "labelFields": "name2,geneName,geneName2",
          "defaultLabelFields": "name2",
          "searchIndex": "name",
          "searchTrix": "ixIxx/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeqCurated.ix",
          "idXref": "ncbiRefSeqLink mrnaAcc name",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeqCurated.bb",
          "baseColorUseCds": "given",
          "baseColorDefault": "genomicCodons",
          "priority": "2"
        }
      },
      "category": ["Genes and Gene Predictions"],
      "trackId": "GCF_003254395.2-ncbiRefSeqCurated",
      "description": "NCBI RefSeq genes, curated subset (NM_*, NR_*, NP_* or YP_*)",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "NCBI RefSeq - RefSeq Curated",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeqCurated.bb",
        "aggregateField": "name2"
      },
      "formatDetails": {
        "subfeatures": "jexl:{'name2':feature.name2?(replaceAll((''+feature.name2),',','')==(''+feature.name2)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/gene/?term='+split((''+feature.name2),'|')[0]+'\">'+(split((''+feature.name2),'|')[1]?split((''+feature.name2),'|')[1]:(''+feature.name2))+'</a>':feature.name2):feature.name2,'geneName':feature.geneName?(replaceAll((''+feature.geneName),',','')==(''+feature.geneName)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/gene/'+split((''+feature.geneName),'|')[0]+'\">'+(split((''+feature.geneName),'|')[1]?split((''+feature.geneName),'|')[1]:(''+feature.geneName))+'</a>':feature.geneName):feature.geneName,'geneName2':feature.geneName2?(replaceAll((''+feature.geneName2),',','')==(''+feature.geneName2)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/nuccore/'+split((''+feature.geneName2),'|')[0]+'\">'+(split((''+feature.geneName2),'|')[1]?split((''+feature.geneName2),'|')[1]:(''+feature.geneName2))+'</a>':feature.geneName2):feature.geneName2}"
      },
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_003254395.2-ncbiRefSeqCurated-LinearBasicDisplay",
          "labels": {
            "name": "jexl:get(feature,'name')"
          }
        }
      ]
    },
    {
      "metadata": {
        "ucsc": {
          "track": "ncbiRefSeqPredicted",
          "color": "12,12,120",
          "parent": "refSeqComposite on",
          "shortLabel": "RefSeq Predicted",
          "longLabel": "NCBI RefSeq genes, predicted subset (XM_* or XR_*)",
          "type": "bigGenePred",
          "urls": "name2=\"https://www.ncbi.nlm.nih.gov/gene/?term=$$\" geneName=\"https://www.ncbi.nlm.nih.gov/gene/$$\" geneName2=\"https://www.ncbi.nlm.nih.gov/nuccore/$$\"",
          "labelFields": "name2,geneName,geneName2",
          "defaultLabelFields": "name2",
          "searchIndex": "name",
          "searchTrix": "ixIxx/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeqPredicted.ix",
          "idXref": "ncbiRefSeqLink mrnaAcc name",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeqPredicted.bb",
          "baseColorUseCds": "given",
          "baseColorDefault": "genomicCodons",
          "priority": "3"
        }
      },
      "category": ["Genes and Gene Predictions"],
      "trackId": "GCF_003254395.2-ncbiRefSeqPredicted",
      "description": "NCBI RefSeq genes, predicted subset (XM_* or XR_*)",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "NCBI RefSeq - RefSeq Predicted",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeqPredicted.bb",
        "aggregateField": "name2"
      },
      "formatDetails": {
        "subfeatures": "jexl:{'name2':feature.name2?(replaceAll((''+feature.name2),',','')==(''+feature.name2)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/gene/?term='+split((''+feature.name2),'|')[0]+'\">'+(split((''+feature.name2),'|')[1]?split((''+feature.name2),'|')[1]:(''+feature.name2))+'</a>':feature.name2):feature.name2,'geneName':feature.geneName?(replaceAll((''+feature.geneName),',','')==(''+feature.geneName)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/gene/'+split((''+feature.geneName),'|')[0]+'\">'+(split((''+feature.geneName),'|')[1]?split((''+feature.geneName),'|')[1]:(''+feature.geneName))+'</a>':feature.geneName):feature.geneName,'geneName2':feature.geneName2?(replaceAll((''+feature.geneName2),',','')==(''+feature.geneName2)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/nuccore/'+split((''+feature.geneName2),'|')[0]+'\">'+(split((''+feature.geneName2),'|')[1]?split((''+feature.geneName2),'|')[1]:(''+feature.geneName2))+'</a>':feature.geneName2):feature.geneName2}"
      },
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_003254395.2-ncbiRefSeqPredicted-LinearBasicDisplay",
          "labels": {
            "name": "jexl:get(feature,'name')"
          }
        }
      ]
    },
    {
      "metadata": {
        "ucsc": {
          "track": "ncbiRefSeqOther",
          "color": "32,32,32",
          "parent": "refSeqComposite on",
          "shortLabel": "RefSeq Other",
          "longLabel": "NCBI RefSeq other annotations (not NM_*, NR_*, XM_*, XR_*, NP_* or YP_*)",
          "priority": "4",
          "searchIndex": "name",
          "searchTrix": "ixIxx/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeqOther.ix",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeqOther.bb",
          "type": "bigBed 12 +",
          "labelFields": "name",
          "skipEmptyFields": "on",
          "urls": "GeneID=\"https://www.ncbi.nlm.nih.gov/gene/$$\" MIM=\"https://www.ncbi.nlm.nih.gov/omim/$$\" HGNC=\"http://www.genenames.org/cgi-bin/gene_symbol_report?hgnc_id=$$\" FlyBase=\"http://flybase.org/reports/$$\" WormBase=\"http://www.wormbase.org/db/gene/gene?name=$$\" RGD=\"https://rgd.mcw.edu/rgdweb/search/search.html?term=$$\" SGD=\"https://www.yeastgenome.org/locus/$$\" miRBase=\"http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=$$\" ZFIN=\"https://zfin.org/$$\" MGI=\"http://www.informatics.jax.org/marker/$$\""
        }
      },
      "category": ["Genes and Gene Predictions"],
      "trackId": "GCF_003254395.2-ncbiRefSeqOther",
      "description": "NCBI RefSeq other annotations (not NM_*, NR_*, XM_*, XR_*, NP_* or YP_*)",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "NCBI RefSeq - RefSeq Other",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.ncbiRefSeqOther.bb"
      },
      "formatDetails": {
        "feature": "jexl:{'GeneID':feature.GeneID?(replaceAll((''+feature.GeneID),',','')==(''+feature.GeneID)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/gene/'+split((''+feature.GeneID),'|')[0]+'\">'+(split((''+feature.GeneID),'|')[1]?split((''+feature.GeneID),'|')[1]:(''+feature.GeneID))+'</a>':feature.GeneID):feature.GeneID,'MIM':feature.MIM?(replaceAll((''+feature.MIM),',','')==(''+feature.MIM)?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/omim/'+split((''+feature.MIM),'|')[0]+'\">'+(split((''+feature.MIM),'|')[1]?split((''+feature.MIM),'|')[1]:(''+feature.MIM))+'</a>':feature.MIM):feature.MIM,'HGNC':feature.HGNC?(replaceAll((''+feature.HGNC),',','')==(''+feature.HGNC)?'<a href=\"'+'http://www.genenames.org/cgi-bin/gene_symbol_report?hgnc_id='+split((''+feature.HGNC),'|')[0]+'\">'+(split((''+feature.HGNC),'|')[1]?split((''+feature.HGNC),'|')[1]:(''+feature.HGNC))+'</a>':feature.HGNC):feature.HGNC,'FlyBase':feature.FlyBase?(replaceAll((''+feature.FlyBase),',','')==(''+feature.FlyBase)?'<a href=\"'+'http://flybase.org/reports/'+split((''+feature.FlyBase),'|')[0]+'\">'+(split((''+feature.FlyBase),'|')[1]?split((''+feature.FlyBase),'|')[1]:(''+feature.FlyBase))+'</a>':feature.FlyBase):feature.FlyBase,'WormBase':feature.WormBase?(replaceAll((''+feature.WormBase),',','')==(''+feature.WormBase)?'<a href=\"'+'http://www.wormbase.org/db/gene/gene?name='+split((''+feature.WormBase),'|')[0]+'\">'+(split((''+feature.WormBase),'|')[1]?split((''+feature.WormBase),'|')[1]:(''+feature.WormBase))+'</a>':feature.WormBase):feature.WormBase,'RGD':feature.RGD?(replaceAll((''+feature.RGD),',','')==(''+feature.RGD)?'<a href=\"'+'https://rgd.mcw.edu/rgdweb/search/search.html?term='+split((''+feature.RGD),'|')[0]+'\">'+(split((''+feature.RGD),'|')[1]?split((''+feature.RGD),'|')[1]:(''+feature.RGD))+'</a>':feature.RGD):feature.RGD,'SGD':feature.SGD?(replaceAll((''+feature.SGD),',','')==(''+feature.SGD)?'<a href=\"'+'https://www.yeastgenome.org/locus/'+split((''+feature.SGD),'|')[0]+'\">'+(split((''+feature.SGD),'|')[1]?split((''+feature.SGD),'|')[1]:(''+feature.SGD))+'</a>':feature.SGD):feature.SGD,'miRBase':feature.miRBase?(replaceAll((''+feature.miRBase),',','')==(''+feature.miRBase)?'<a href=\"'+'http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc='+split((''+feature.miRBase),'|')[0]+'\">'+(split((''+feature.miRBase),'|')[1]?split((''+feature.miRBase),'|')[1]:(''+feature.miRBase))+'</a>':feature.miRBase):feature.miRBase,'ZFIN':feature.ZFIN?(replaceAll((''+feature.ZFIN),',','')==(''+feature.ZFIN)?'<a href=\"'+'https://zfin.org/'+split((''+feature.ZFIN),'|')[0]+'\">'+(split((''+feature.ZFIN),'|')[1]?split((''+feature.ZFIN),'|')[1]:(''+feature.ZFIN))+'</a>':feature.ZFIN):feature.ZFIN,'MGI':feature.MGI?(replaceAll((''+feature.MGI),',','')==(''+feature.MGI)?'<a href=\"'+'http://www.informatics.jax.org/marker/'+split((''+feature.MGI),'|')[0]+'\">'+(split((''+feature.MGI),'|')[1]?split((''+feature.MGI),'|')[1]:(''+feature.MGI))+'</a>':feature.MGI):feature.MGI}"
      },
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_003254395.2-ncbiRefSeqOther-LinearBasicDisplay",
          "labels": {
            "name": "jexl:get(feature,'name')"
          }
        }
      ]
    },
    {
      "metadata": {
        "ucsc": {
          "track": "ncbiRefSeqPsl",
          "priority": "5",
          "parent": "refSeqComposite off",
          "shortLabel": "RefSeq Alignments",
          "longLabel": "RefSeq Alignments of RNAs",
          "type": "bigPsl",
          "searchIndex": "name",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.bigPsl.bb",
          "indelDoubleInsert": "on",
          "indelQueryInsert": "on",
          "showDiffBasesAllScales": ".",
          "showDiffBasesMaxZoom": "10000.0",
          "showCdsMaxZoom": "10000.0",
          "showCdsAllScales": ".",
          "baseColorDefault": "diffCodons",
          "pslSequence": "no",
          "baseColorUseSequence": "lfExtra",
          "baseColorUseCds": "table given",
          "color": "0,0,0"
        }
      },
      "category": ["Genes and Gene Predictions"],
      "trackId": "GCF_003254395.2-ncbiRefSeqPsl",
      "description": "RefSeq Alignments of RNAs",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "NCBI RefSeq - RefSeq Alignments",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.bigPsl.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "cpgIslandExt",
          "parent": "cpgIslands off",
          "shortLabel": "CpG Islands",
          "longLabel": "CpG Islands (Islands < 300 Bases are Light Green)",
          "type": "bigBed 4 +",
          "priority": "1",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.cpgIslandExt.bb"
        }
      },
      "category": ["Regulation"],
      "trackId": "GCF_003254395.2-cpgIslandExt",
      "description": "CpG Islands (Islands < 300 Bases are Light Green)",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "CpG Islands",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.cpgIslandExt.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "cpgIslandExtUnmasked",
          "parent": "cpgIslands on",
          "shortLabel": "Unmasked CpG",
          "longLabel": "CpG Islands on All Sequence (Islands < 300 Bases are Light Green)",
          "type": "bigBed 4 +",
          "priority": "2",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.cpgIslandExtUnmasked.bb"
        }
      },
      "category": ["Regulation"],
      "trackId": "GCF_003254395.2-cpgIslandExtUnmasked",
      "description": "CpG Islands on All Sequence (Islands < 300 Bases are Light Green)",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "CpG Islands - Unmasked CpG",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.cpgIslandExtUnmasked.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "windowMasker",
          "shortLabel": "WM + SDust",
          "longLabel": "Genomic Intervals Masked by WindowMasker + SDust",
          "group": "varRep",
          "visibility": "dense",
          "type": "bigBed 3",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.windowMasker.bb",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.windowMasker\">html/GCF_003254395.2_Amel_HAv3.1.windowMasker</a>"
        }
      },
      "category": ["Variation and Repeats"],
      "trackId": "GCF_003254395.2-windowMasker",
      "description": "Genomic Intervals Masked by WindowMasker + SDust",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "WM + SDust",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.windowMasker.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "allGaps",
          "shortLabel": "All Gaps",
          "longLabel": "All gaps of unknown nucleotides (N's), including AGP annotated gaps",
          "group": "map",
          "visibility": "hide",
          "type": "bigBed 3",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.allGaps.bb",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.allGaps\">html/GCF_003254395.2_Amel_HAv3.1.allGaps</a>"
        }
      },
      "category": ["Mapping and Sequencing"],
      "trackId": "GCF_003254395.2-allGaps",
      "description": "All gaps of unknown nucleotides (N's), including AGP annotated gaps",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "All Gaps",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.allGaps.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "augustus",
          "shortLabel": "Augustus",
          "longLabel": "Augustus Gene Predictions",
          "group": "genes",
          "visibility": "dense",
          "color": "180,0,0",
          "type": "bigGenePred",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.augustus.bb",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.augustus\">html/GCF_003254395.2_Amel_HAv3.1.augustus</a>"
        }
      },
      "category": ["Genes and Gene Predictions"],
      "trackId": "GCF_003254395.2-augustus",
      "description": "Augustus Gene Predictions",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "Augustus",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.augustus.bb"
      }
    },
    {
      "metadata": {
        "ucsc": {
          "track": "xenoRefGene",
          "shortLabel": "RefSeq mRNAs",
          "longLabel": "RefSeq mRNAs mapped to this assembly",
          "group": "rna",
          "visibility": "pack",
          "color": "180,0,0",
          "type": "bigGenePred",
          "bigDataUrl": "bbi/GCF_003254395.2_Amel_HAv3.1.xenoRefGene.bb",
          "url": "https://www.ncbi.nlm.nih.gov/nuccore/$$",
          "urlLabel": "NCBI Nucleotide database:",
          "labelFields": "name,geneName,geneName2",
          "defaultLabelFields": "geneName",
          "searchIndex": "name",
          "searchTrix": "ixIxx/GCF_003254395.2_Amel_HAv3.1.xenoRefGene.ix",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/html/GCF_003254395.2_Amel_HAv3.1.xenoRefGene\">html/GCF_003254395.2_Amel_HAv3.1.xenoRefGene</a>"
        }
      },
      "category": ["mRNA and EST"],
      "trackId": "GCF_003254395.2-xenoRefGene",
      "description": "RefSeq mRNAs mapped to this assembly",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "RefSeq mRNAs (xeno)",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/bbi/GCF_003254395.2_Amel_HAv3.1.xenoRefGene.bb",
        "aggregateField": "geneName"
      },
      "formatDetails": {
        "subfeatures": "jexl:{'NCBI Nucleotide database':feature.name?'<a href=\"'+'https://www.ncbi.nlm.nih.gov/nuccore/'+(''+feature.name)+'\">'+(''+feature.name)+'</a>':undefined}"
      },
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_003254395.2-xenoRefGene-LinearBasicDisplay",
          "labels": {
            "name": "jexl:get(feature,'name')"
          }
        }
      ]
    },
    {
      "metadata": {
        "ucsc": {
          "track": "evaSnp8",
          "shortLabel": "EVA SNP Release 8",
          "longLabel": "Short Genetic Variants from European Variant Archive Release 8",
          "type": "bigBed 9 +",
          "visibility": "dense",
          "group": "varRep",
          "itemRgb": "on",
          "bigDataUrl": "contrib/evaSnp8/evaSnp8.bb",
          "url": "https://www.ebi.ac.uk/eva/?variant&accessionID=$$",
          "searchIndex": "name",
          "mouseOver": "<b>Ref/Alt allele(s)</b>: $ref>$alt<br> <b>Var type</b>: $ucscClass<br> <b>AA change</b>: $aaChange",
          "filterValues.varClass": "SNV|SNV,deletion|Deletion,indel|Indel,insertion|Insertion,MNV|MNV,sequence_alteration|Sequence alteration",
          "filterLabel.varClass": "Variant class from EVA SO term",
          "filterLabel.ucscClass": "Functional effect per UCSC Variant Annotation",
          "filterValues.ucscClass": "downstream_gene_variant|Downstream gene variant,upstream_gene_variant|Upstream gene variant,intron_variant|Intron variant,NMD_transcript_variant|Nonsense-mediated mRNA decay (NMD) variant,5_prime_UTR_variant|5 prime UTR variant,3_prime_UTR_variant|3 prime UTR variant,missense_variant|Missense variant,synonymous_variant|Synonymous variant,non_coding_transcript_exon_variant|Non-coding transcript exon variant,no_sequence_alteration|No sequence alteration,splice_region_variant|Splice region variant,frameshift_variant|Frameshift variant,stop_gained|Stop gained,splice_acceptor_variant|Splice acceptor variant,inframe_deletion|Inframe deletion,inframe_insertion|Inframe insertion,splice_donor_variant|Splice donor variant,coding_sequence_variant|Coding sequence variant,initiator_codon_variant|Initiator codon variant,stop_lost|Stop lost,stop_retained_variant|Stop retained variant,intergenic_variant|Intergenic variant",
          "filterType.ucscClass": "multipleListOnlyOr",
          "filterValues.itemRgb": "255,,0,,0|Protein-altering and splice variants,0,,128,,0|Synonymous variants,0,,0,,255|Non-coding transcripts or UTR variants,0,,0,,0|Intergenic and intronic variants",
          "filterLabel.itemRgb": "General variant types by color grouping",
          "maxWindowCoverage": "250000",
          "maxItems": "1000000",
          "html": "<a href=\"https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/contrib/evaSnp8/description\">contrib/evaSnp8/description</a>"
        }
      },
      "category": ["Variation and Repeats"],
      "trackId": "GCF_003254395.2-evaSnp8",
      "description": "Short Genetic Variants from European Variant Archive Release 8",
      "assemblyNames": ["GCF_003254395.2"],
      "name": "EVA SNP Release 8",
      "type": "FeatureTrack",
      "adapter": {
        "type": "BigBedAdapter",
        "uri": "https://hgdownload.soe.ucsc.edu/hubs/GCF/003/254/395/GCF_003254395.2/contrib/evaSnp8/evaSnp8.bb"
      },
      "formatDetails": {
        "feature": "jexl:{'Outside Link':feature.name?'<a href=\"'+'https://www.ebi.ac.uk/eva/?variant&accessionID='+(''+feature.name)+'\">'+(''+feature.name)+'</a>':undefined}"
      },
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_003254395.2-evaSnp8-LinearBasicDisplay",
          "mouseover": "jexl:`<b>Ref/Alt allele(s)</b>: ${get(feature,'ref')}>${get(feature,'alt')}<br> <b>Var type</b>: ${get(feature,'ucscClass')}<br> <b>AA change</b>: ${get(feature,'aaChange')}`",
          "encoding": {
            "color": {
              "scale": {
                "type": "identity",
                "domain": [
                  "rgb(255,0,0)",
                  "rgb(0,128,0)",
                  "rgb(0,0,255)",
                  "rgb(0,0,0)"
                ],
                "names": [
                  "Protein-altering and splice variants",
                  "Synonymous variants",
                  "Non-coding transcripts or UTR variants",
                  "Intergenic and intronic variants"
                ]
              },
              "legend": {
                "title": "General variant types by color grouping"
              }
            }
          }
        }
      ]
    },
    {
      "type": "FeatureTrack",
      "trackId": "GCF_003254395.2-ncbiGff",
      "name": "NCBI RefSeq - RefSeq All (GFF)",
      "adapter": {
        "type": "Gff3TabixAdapter",
        "gffGzLocation": {
          "uri": "GCF_003254395.2_Amel_HAv3.1_genomic.gff.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "GCF_003254395.2_Amel_HAv3.1_genomic.gff.gz.csi",
            "locationType": "UriLocation"
          },
          "indexType": "CSI"
        }
      },
      "category": ["Genes and Gene Predictions"],
      "assemblyNames": ["GCF_003254395.2"],
      "metadata": {
        "annotationSource": "NCBI Apis mellifera Annotation Release 104"
      },
      "displays": [
        {
          "type": "LinearBasicDisplay",
          "displayId": "GCF_003254395.2-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"
        ]
      },
      "formatDetails": {
        "feature": "jexl:{dbxref:startsWith(''+feature.dbxref,'GeneID:')?replace(''+feature.dbxref,split(''+feature.dbxref,',')[0],'<a href=\"https://www.ncbi.nlm.nih.gov/gene/'+substring(split(''+feature.dbxref,',')[0],7)+'\">'+split(''+feature.dbxref,',')[0]+'</a>'):feature.dbxref}",
        "subfeatures": "jexl:{transcript_id:feature.transcript_id?'<a href=\"https://www.ncbi.nlm.nih.gov/nuccore/'+feature.transcript_id+'\">'+feature.transcript_id+'</a>':undefined}"
      }
    }
  ],
  "defaultSession": {
    "name": "GCF_003254395.2",
    "widgets": {
      "hierarchicalTrackSelector": {
        "id": "hierarchicalTrackSelector",
        "type": "HierarchicalTrackSelectorWidget",
        "view": "initialView"
      }
    },
    "activeWidgets": {
      "hierarchicalTrackSelector": "hierarchicalTrackSelector"
    },
    "views": [
      {
        "type": "LinearGenomeView",
        "id": "initialView",
        "init": {
          "assembly": "GCF_003254395.2",
          "loc": "NC_037638.1:9251400-9261400"
        }
      }
    ]
  },
  "aggregateTextSearchAdapters": [
    {
      "type": "TrixTextSearchAdapter",
      "textSearchAdapterId": "GCF_003254395.2-index",
      "ixFilePath": {
        "uri": "trix/GCF_003254395.2.ix",
        "locationType": "UriLocation"
      },
      "ixxFilePath": {
        "uri": "trix/GCF_003254395.2.ixx",
        "locationType": "UriLocation"
      },
      "metaFilePath": {
        "uri": "trix/GCF_003254395.2_meta.json",
        "locationType": "UriLocation"
      },
      "assemblyNames": ["GCF_003254395.2"]
    }
  ],
  "plugins": [
    {
      "name": "MafViewer",
      "url": "https://jbrowse.org/plugins/jbrowse-plugin-mafviewer/latest/dist/jbrowse-plugin-mafviewer.umd.production.min.js"
    },
    {
      "name": "Hubs",
      "storePlugin": "Hubs",
      "url": "https://jbrowse.org/plugins/@cmdcolin/jbrowse-plugin-hubs/latest/dist/jbrowse-plugin-hubs.umd.production.min.js"
    },
    {
      "name": "Protein3d",
      "storePlugin": "Protein3d",
      "url": "https://jbrowse.org/plugins/jbrowse-plugin-protein3d/0.15.3/dist/jbrowse-plugin-protein3d.umd.production.min.js"
    },
    {
      "name": "MsaView",
      "storePlugin": "MsaView",
      "url": "https://jbrowse.org/plugins/jbrowse-plugin-msaview/3.10.0/dist/jbrowse-plugin-msaview.umd.production.min.js"
    }
  ],
  "configuration": {
    "hierarchical": {
      "sort": {
        "trackNames": true,
        "categories": true
      },
      "defaultCollapsed": {
        "topLevelCategories": true,
        "subCategories": true
      }
    }
  }
}
