track gcPercent
longLabel GC Percent in 5-base Window
shortLabel GC Percent
type bigWig 0 100
group map
visibility dense
windowingFunction Mean
bigDataUrl rn6.gc.bw
priority 2
autoScale Off
maxHeightPixels 128:36:16
graphTypeDefault Bar
gridDefault OFF
color 0,0,0
altColor 128,128,128
viewLimits 30:70
html ../documentation/gcPercent

track alignability
longLabel Alignability
shortLabel Alignability
type bigWig 0 15
group map
visibility dense
windowingFunction Mean
bigDataUrl rn6.alignability.bw
priority 2
autoScale On
maxHeightPixels 128:36:16
graphTypeDefault Bar
gridDefault OFF
color 0,0,0
altColor 128,128,128
viewLimits 0:15
html ../documentation/alignability

track hubCentral
compositeTrack on
shortLabel VertebratesCompHub
longLabel Vertebrates Comparative Assembly Hub
group comphub
subGroup1 view Track_Type Snake=Alignments refseq=refseq 
subGroup2 orgs Organisms Anc0=Anc0 Anc1=Anc1 monDom5=monDom5 Anc2=Anc2 Anc3=Anc3 Anc5=Anc5 hg38=hg38 rheMac3=rheMac3 Anc6=Anc6 mm10=mm10 rn6=rn6 Anc4=Anc4 bosTau8=bosTau8 canFam3=canFam3 galGal4=galGal4
dragAndDrop subTracks
#allButtonPair on
dimensions dimensionX=view dimensionY=orgs
noInherit on
priority 0
centerLabelsDense on
visibility full
html ../documentation/hubCentral
type bigBed 3

	track hubCentralrefseq
	shortLabel refseq
	view refseq
	visibility dense
	subTrack hubCentral

		track refseqhg38
		longLabel hg38 Lifted-over refseq
		priority 8
		type bigBed 12 .
		group annotationrefseq
		searchIndex name
		itemRgb On
		visibility hide
		shortLabel hg38refseq
		bigDataUrl ../liftoverbed/refseq/hg38/rn6.bb
		parent hubCentralrefseq off
		subGroups view=refseq orgs=hg38

	track hubCentralAlignments
	shortLabel Alignments
	view Alignments
	visibility full
	subTrack hubCentral

		track snakeAnc0
		longLabel Anc0
		shortLabel Anc0
		otherSpecies Anc0
		visibility hide
		parent hubCentralAlignments off
		showSnpWidth 3121
		priority 2
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=Anc0

		track snakeAnc1
		longLabel Anc1
		shortLabel Anc1
		otherSpecies Anc1
		visibility hide
		parent hubCentralAlignments off
		showSnpWidth 3121
		priority 3
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=Anc1

		track snakemonDom5
		longLabel monDom5
		shortLabel monDom5
		otherSpecies monDom5
		visibility hide
		parent hubCentralAlignments off
		showSnpWidth 3121
		priority 4
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=monDom5

		track snakeAnc2
		longLabel Anc2
		shortLabel Anc2
		otherSpecies Anc2
		visibility hide
		parent hubCentralAlignments off
		showSnpWidth 3121
		priority 5
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=Anc2

		track snakeAnc3
		longLabel Anc3
		shortLabel Anc3
		otherSpecies Anc3
		visibility hide
		parent hubCentralAlignments off
		showSnpWidth 3121
		priority 6
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=Anc3

		track snakeAnc5
		longLabel Anc5
		shortLabel Anc5
		otherSpecies Anc5
		visibility hide
		parent hubCentralAlignments off
		showSnpWidth 3121
		priority 7
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=Anc5

		track snakehg38
		longLabel hg38
		shortLabel hg38
		otherSpecies hg38
		visibility full
		parent hubCentralAlignments
		showSnpWidth 3121
		priority 8
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=hg38

		track snakerheMac3
		longLabel rheMac3
		shortLabel rheMac3
		otherSpecies rheMac3
		visibility full
		parent hubCentralAlignments
		showSnpWidth 3121
		priority 9
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=rheMac3

		track snakeAnc6
		longLabel Anc6
		shortLabel Anc6
		otherSpecies Anc6
		visibility full
		parent hubCentralAlignments
		showSnpWidth 3121
		priority 10
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=Anc6

		track snakemm10
		longLabel mm10
		shortLabel mm10
		otherSpecies mm10
		visibility full
		parent hubCentralAlignments
		showSnpWidth 3121
		priority 11
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=mm10

		track snakeAnc4
		longLabel Anc4
		shortLabel Anc4
		otherSpecies Anc4
		visibility hide
		parent hubCentralAlignments off
		showSnpWidth 3121
		priority 13
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=Anc4

		track snakebosTau8
		longLabel bosTau8
		shortLabel bosTau8
		otherSpecies bosTau8
		visibility full
		parent hubCentralAlignments
		showSnpWidth 3121
		priority 14
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=bosTau8

		track snakecanFam3
		longLabel canFam3
		shortLabel canFam3
		otherSpecies canFam3
		visibility hide
		parent hubCentralAlignments off
		showSnpWidth 3121
		priority 15
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=canFam3

		track snakegalGal4
		longLabel galGal4
		shortLabel galGal4
		otherSpecies galGal4
		visibility hide
		parent hubCentralAlignments off
		showSnpWidth 3121
		priority 16
		bigDataUrl ../lod.txt
		type halSnake
		group snake
		subGroups view=Snake orgs=galGal4