hub GCA_013030995.1 genome assembly
shortLabel swan goose (Tianfu 2020)
longLabel swan goose (Tianfu 2020)/Anser cygnoides/GCA_013030995.1_ASM1303099v1 genome assembly
useOneFile on
email hclawson@ucsc.edu
descriptionUrl html/GCA_013030995.1_ASM1303099v1.description.html

genome GCA_013030995.1
taxId 8845
groups groups.txt
description swan goose (Tianfu 2020)
twoBitPath GCA_013030995.1.2bit
twoBitBptUrl GCA_013030995.1.2bit.bpt
chromSizes GCA_013030995.1.chrom.sizes.txt
chromAliasBb GCA_013030995.1.chromAlias.bb
organism ASM1303099v1 May 2020
defaultPos WTSS01001740.1:23632246-23642246
scientificName Anser cygnoides
htmlPath html/GCA_013030995.1_ASM1303099v1.description.html
blat dynablat-01.soe.ucsc.edu 4040 dynamic GCA/013/030/995/GCA_013030995.1
transBlat dynablat-01.soe.ucsc.edu 4040 dynamic GCA/013/030/995/GCA_013030995.1
isPcr dynablat-01.soe.ucsc.edu 4040 dynamic GCA/013/030/995/GCA_013030995.1
liftOver.galGal6 liftOver/GCA_013030995.1ToGalGal6.over.chain.gz
liftOver.hg38 liftOver/GCA_013030995.1ToHg38.over.chain.gz
liftOver.mm39 liftOver/GCA_013030995.1ToMm39.over.chain.gz
liftOver.susScr11 liftOver/GCA_013030995.1ToSusScr11.over.chain.gz

track assembly
longLabel Assembly
shortLabel Assembly
visibility pack
colorByStrand 150,100,30 230,170,40
color 150,100,30
altColor 230,170,40
bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.assembly.bb
type bigBed 6
html html/GCA_013030995.1_ASM1303099v1.assembly
searchIndex name
searchTrix ixIxx/GCA_013030995.1_ASM1303099v1.assembly.ix
url https://www.ncbi.nlm.nih.gov/nuccore/$$
urlLabel NCBI Nucleotide database
group map

track cytoBandIdeo
shortLabel Chromosome Band (Ideogram)
longLabel Ideogram for Orientation
group map
visibility dense
type bigBed 4 +
bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.cytoBand.bb

track gc5Base
shortLabel GC Percent
longLabel GC Percent in 5-Base Windows
group map
visibility full
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/GCA_013030995.1_ASM1303099v1.gc5Base.bw
html html/GCA_013030995.1_ASM1303099v1.gc5Base

track tanDups
shortLabel Tandem Dups
longLabel Paired identical sequences
compositeTrack on
visibility hide
type bigBed 12
group map
html html/GCA_013030995.1_ASM1303099v1.tanDups

    track gapOverlap
    parent tanDups on
    shortLabel Gap Overlaps
    longLabel Paired exactly identical sequence on each side of a gap
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.gapOverlap.bb
    type bigBed 12

    track tandemDups
    parent tanDups on
    shortLabel Tandem Dups
    longLabel Paired exactly identical sequence survey over entire genome assembly
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.tandemDups.bb
    type bigBed 12

track repeatMasker
compositeTrack on
shortLabel RepeatMasker
longLabel Repeating Elements by RepeatMasker
group varRep
visibility dense
type bigBed 6 +
colorByStrand 50,50,150 150,50,50
maxWindowToDraw 10000000
spectrum on
html html/GCA_013030995.1_ASM1303099v1.repeatMasker

    track repeatMaskerSINE
    parent repeatMasker
    shortLabel SINE
    longLabel SINE Repeating Elements by RepeatMasker
    type bigBed 6 +
    priority 1
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.rmsk.SINE.bb

    track repeatMaskerLINE
    parent repeatMasker
    shortLabel LINE
    longLabel LINE Repeating Elements by RepeatMasker
    type bigBed 6 +
    priority 2
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.rmsk.LINE.bb

    track repeatMaskerLTR
    parent repeatMasker
    shortLabel LTR
    longLabel LTR Repeating Elements by RepeatMasker
    type bigBed 6 +
    priority 3
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.rmsk.LTR.bb

    track repeatMaskerDNA
    parent repeatMasker
    shortLabel DNA
    longLabel DNA Repeating Elements by RepeatMasker
    type bigBed 6 +
    priority 4
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.rmsk.DNA.bb

    track repeatMaskerSimple
    parent repeatMasker
    shortLabel Simple
    longLabel Simple Repeating Elements by RepeatMasker
    type bigBed 6 +
    priority 5
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.rmsk.Simple.bb

    track repeatMaskerLowComplexity
    parent repeatMasker
    shortLabel Low Complexity
    longLabel Low Complexity Repeating Elements by RepeatMasker
    type bigBed 6 +
    priority 6
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.rmsk.Low_complexity.bb

    track repeatMaskerSatellite
    parent repeatMasker
    shortLabel Satellite
    longLabel Satellite Repeating Elements by RepeatMasker
    type bigBed 6 +
    priority 7
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.rmsk.Satellite.bb

    track repeatMaskerRNA
    parent repeatMasker
    shortLabel RNA
    longLabel RNA Repeating Elements by RepeatMasker
    type bigBed 6 +
    priority 8
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.rmsk.RNA.bb

    track repeatMaskerOther
    parent repeatMasker
    shortLabel Other
    longLabel Other Repeating Elements by RepeatMasker
    type bigBed 6 +
    priority 9
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.rmsk.Other.bb

track simpleRepeat
shortLabel Simple Repeats
longLabel Simple Tandem Repeats by TRF
group varRep
visibility dense
type bigBed 4 +
bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.simpleRepeat.bb
html html/GCA_013030995.1_ASM1303099v1.simpleRepeat

track cpgIslands
compositeTrack on
shortLabel CpG Islands
longLabel CpG Islands (Islands < 300 Bases are Light Green)
group regulation
visibility pack
type bigBed 4 +
html html/GCA_013030995.1_ASM1303099v1.cpgIslands

    track cpgIslandExt
    parent cpgIslands off
    shortLabel CpG Islands
    longLabel CpG Islands (Islands < 300 Bases are Light Green)
    type bigBed 4 +
    priority 1
    bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.cpgIslandExt.bb

    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/GCA_013030995.1_ASM1303099v1.cpgIslandExtUnmasked.bb

track windowMasker
shortLabel WM + SDust
longLabel Genomic Intervals Masked by WindowMasker + SDust
group varRep
visibility dense
type bigBed 3
bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.windowMasker.bb
html html/GCA_013030995.1_ASM1303099v1.windowMasker

track allGaps
shortLabel All Gaps
longLabel All gaps of unknown nucleotides (N's), including AGP annotated gaps
group map
visibility dense
type bigBed 3
bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.allGaps.bb
html html/GCA_013030995.1_ASM1303099v1.allGaps

track augustus
shortLabel Augustus
longLabel Augustus Gene Predictions
group genes
visibility pack
color 180,0,0
type bigGenePred
bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.augustus.bb
html html/GCA_013030995.1_ASM1303099v1.augustus

track xenoRefGene
shortLabel RefSeq mRNAs
longLabel RefSeq mRNAs mapped to this assembly
group rna
visibility pack
color 180,0,0
type bigGenePred
bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.xenoRefGene.bb
labelFields name,geneName,geneName2
defaultLabelFields geneName
searchIndex name
searchTrix ixIxx/GCA_013030995.1_ASM1303099v1.xenoRefGene.ix
html html/GCA_013030995.1_ASM1303099v1.xenoRefGene

track GCA_013030995.1_ASM1303099v1ChainNet
compositeTrack on
shortLabel Chain/Net
longLabel Chain and Net alignments to target sequence: GCA_013030995.1_ASM1303099v1
subGroup1 view Views chain=Chains net=Nets
subGroup2 species Species s000=galGal6 s001=hg38 s002=mm39 s003=susScr11
subGroup3 clade Clade c00=human
dragAndDrop subTracks
visibility hide
group compGeno
color 0,0,0
altColor 255,255,0
type bed 3
chainLinearGap loose
chainMinScore 5000
dimensions dimensionX=clade dimensionY=species
sortOrder species=+ view=+ clade=+
configurable on
html html/GCA_013030995.1_ASM1303099v1.chainNet

    track GCA_013030995.1_ASM1303099v1ChainNetViewchain
    shortLabel  Chains
    view chain
    visibility pack
    subTrack GCA_013030995.1_ASM1303099v1ChainNet
    spectrum on

        track chainGalGal6
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s000 clade=c00
        shortLabel galGal6 Chain
        longLabel galGal6 (Mar. 2018) Chained Alignments
        type bigChain galGal6
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainGalGal6.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainGalGal6Link.bb
        otherDb galGal6
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 1

        track chainSynGalGal6
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s000 clade=c00
        shortLabel galGal6 synChain
        longLabel galGal6 (Mar. 2018) Syntenic Chained Alignments
        type bigChain galGal6
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSynGalGal6.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSynGalGal6Link.bb
        otherDb galGal6
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 2

        track chainRBestGalGal6
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s000 clade=c00
        shortLabel galGal6 rbChain
        longLabel galGal6 (Mar. 2018) Reciprocal Best Chained Alignments
        type bigChain galGal6
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainRBestGalGal6.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainRBestGalGal6Link.bb
        otherDb galGal6
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 3

        track chainLiftOverGalGal6
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s000 clade=c00
        shortLabel galGal6 loChain
        longLabel galGal6 (Mar. 2018) Lift Over Chained Alignments
        type bigChain galGal6
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainLiftOverGalGal6.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainLiftOverGalGal6Link.bb
        otherDb galGal6
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 4

        track chainHg38
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s001 clade=c00
        shortLabel hg38 Chain
        longLabel hg38 (Dec. 2013) Chained Alignments
        type bigChain hg38
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainHg38.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainHg38Link.bb
        otherDb hg38
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 5

        track chainSynHg38
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s001 clade=c00
        shortLabel hg38 synChain
        longLabel hg38 (Dec. 2013) Syntenic Chained Alignments
        type bigChain hg38
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSynHg38.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSynHg38Link.bb
        otherDb hg38
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 6

        track chainRBestHg38
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s001 clade=c00
        shortLabel hg38 rbChain
        longLabel hg38 (Dec. 2013) Reciprocal Best Chained Alignments
        type bigChain hg38
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainRBestHg38.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainRBestHg38Link.bb
        otherDb hg38
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 7

        track chainLiftOverHg38
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s001 clade=c00
        shortLabel hg38 loChain
        longLabel hg38 (Dec. 2013) Lift Over Chained Alignments
        type bigChain hg38
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainLiftOverHg38.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainLiftOverHg38Link.bb
        otherDb hg38
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 8

        track chainMm39
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s002 clade=c00
        shortLabel mm39 Chain
        longLabel mm39 (Jun. 2020) Chained Alignments
        type bigChain mm39
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainMm39.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainMm39Link.bb
        otherDb mm39
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 9

        track chainSynMm39
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s002 clade=c00
        shortLabel mm39 synChain
        longLabel mm39 (Jun. 2020) Syntenic Chained Alignments
        type bigChain mm39
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSynMm39.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSynMm39Link.bb
        otherDb mm39
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 10

        track chainRBestMm39
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s002 clade=c00
        shortLabel mm39 rbChain
        longLabel mm39 (Jun. 2020) Reciprocal Best Chained Alignments
        type bigChain mm39
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainRBestMm39.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainRBestMm39Link.bb
        otherDb mm39
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 11

        track chainLiftOverMm39
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s002 clade=c00
        shortLabel mm39 loChain
        longLabel mm39 (Jun. 2020) Lift Over Chained Alignments
        type bigChain mm39
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainLiftOverMm39.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainLiftOverMm39Link.bb
        otherDb mm39
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 12

        track chainSusScr11
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s003 clade=c00
        shortLabel susScr11 Chain
        longLabel susScr11 (Feb. 2017) Chained Alignments
        type bigChain susScr11
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSusScr11.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSusScr11Link.bb
        otherDb susScr11
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 13

        track chainSynSusScr11
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s003 clade=c00
        shortLabel susScr11 synChain
        longLabel susScr11 (Feb. 2017) Syntenic Chained Alignments
        type bigChain susScr11
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSynSusScr11.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainSynSusScr11Link.bb
        otherDb susScr11
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 14

        track chainRBestSusScr11
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s003 clade=c00
        shortLabel susScr11 rbChain
        longLabel susScr11 (Feb. 2017) Reciprocal Best Chained Alignments
        type bigChain susScr11
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainRBestSusScr11.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainRBestSusScr11Link.bb
        otherDb susScr11
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 15

        track chainLiftOverSusScr11
        subTrack GCA_013030995.1_ASM1303099v1ChainNetViewchain off
        subGroups view=chain species=s003 clade=c00
        shortLabel susScr11 loChain
        longLabel susScr11 (Feb. 2017) Lift Over Chained Alignments
        type bigChain susScr11
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainLiftOverSusScr11.bb
        linkDataUrl bbi/GCA_013030995.1_ASM1303099v1.chainLiftOverSusScr11Link.bb
        otherDb susScr11
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 16

    track GCA_013030995.1_ASM1303099v1MafNetViewnet
    shortLabel Nets
    view net
    visibility dense
    subTrack GCA_013030995.1_ASM1303099v1ChainNet

        track synNetGalGal6
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s000 clade=c00
        shortLabel galGal6 synNet
        longLabel galGal6 (some date) Syntenic Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.galGal6.synNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.galGal6.synNet.summary.bb
        speciesOrder galGal6
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 1

        track rbestNetGalGal6
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s000 clade=c00
        shortLabel galGal6 rbestNet
        longLabel galGal6 (some date) Reciprocal Best Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.galGal6.rbestNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.galGal6.rbestNet.summary.bb
        speciesOrder galGal6
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 2

        track liftOverNetGalGal6
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s000 clade=c00
        shortLabel galGal6 liftOverNet
        longLabel galGal6 (some date) Lift Over Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.galGal6.liftOverNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.galGal6.liftOverNet.summary.bb
        speciesOrder galGal6
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 3

        track synNetHg38
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s001 clade=c00
        shortLabel hg38 synNet
        longLabel hg38 (some date) Syntenic Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.hg38.synNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.hg38.synNet.summary.bb
        speciesOrder hg38
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 4

        track rbestNetHg38
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s001 clade=c00
        shortLabel hg38 rbestNet
        longLabel hg38 (some date) Reciprocal Best Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.hg38.rbestNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.hg38.rbestNet.summary.bb
        speciesOrder hg38
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 5

        track liftOverNetHg38
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s001 clade=c00
        shortLabel hg38 liftOverNet
        longLabel hg38 (some date) Lift Over Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.hg38.liftOverNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.hg38.liftOverNet.summary.bb
        speciesOrder hg38
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 6

        track synNetMm39
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s002 clade=c00
        shortLabel mm39 synNet
        longLabel mm39 (some date) Syntenic Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.mm39.synNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.mm39.synNet.summary.bb
        speciesOrder mm39
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 7

        track rbestNetMm39
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s002 clade=c00
        shortLabel mm39 rbestNet
        longLabel mm39 (some date) Reciprocal Best Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.mm39.rbestNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.mm39.rbestNet.summary.bb
        speciesOrder mm39
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 8

        track liftOverNetMm39
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s002 clade=c00
        shortLabel mm39 liftOverNet
        longLabel mm39 (some date) Lift Over Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.mm39.liftOverNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.mm39.liftOverNet.summary.bb
        speciesOrder mm39
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 9

        track synNetSusScr11
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s003 clade=c00
        shortLabel susScr11 synNet
        longLabel susScr11 (some date) Syntenic Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.susScr11.synNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.susScr11.synNet.summary.bb
        speciesOrder susScr11
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 10

        track rbestNetSusScr11
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s003 clade=c00
        shortLabel susScr11 rbestNet
        longLabel susScr11 (some date) Reciprocal Best Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.susScr11.rbestNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.susScr11.rbestNet.summary.bb
        speciesOrder susScr11
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 11

        track liftOverNetSusScr11
        parent GCA_013030995.1_ASM1303099v1MafNetViewnet
        subGroups view=net species=s003 clade=c00
        shortLabel susScr11 liftOverNet
        longLabel susScr11 (some date) Lift Over Net Alignment
        type bigMaf
        bigDataUrl bbi/GCA_013030995.1_ASM1303099v1.susScr11.liftOverNet.bb
        summary bbi/GCA_013030995.1_ASM1303099v1.susScr11.liftOverNet.summary.bb
        speciesOrder susScr11
        html html/GCA_013030995.1_ASM1303099v1.chainNet
        priority 12

track HLTOGAannotvGalGal6v1
bigDataUrl bbi/HLTOGAannotVsGalGal6v1.bb
shortLabel TOGA vs. galGal6
longLabel TOGA annotations using chicken/galGal6 as reference
group genes
visibility pack
itemRgb on
type bigBed 12
searchIndex name
searchTrix  ixIxx/HLTOGAannotVsGalGal6v1.ix
html html/TOGAannotation