hub GCF_011100555.1 genome assembly
shortLabel white-tufted-ear marmoset (mCalJac1 2021)
longLabel white-tufted-ear marmoset (mCalJac1 2021)/Callithrix jacchus/GCF_011100555.1_mCalJa1.2.pat.X genome assembly
useOneFile on
email hclawson@ucsc.edu
descriptionUrl html/GCF_011100555.1_mCalJa1.2.pat.X.description.html

genome GCF_011100555.1
taxId 9483
groups groups.txt
description white-tufted-ear marmoset (mCalJac1 2021)
twoBitPath GCF_011100555.1.2bit
twoBitBptUrl GCF_011100555.1.2bit.bpt
chromSizes GCF_011100555.1.chrom.sizes.txt
chromAliasBb GCF_011100555.1.chromAlias.bb
chromAuthority ucsc
organism mCalJa1.2.pat.X Apr. 2021
defaultPos NC_071442.1:72325256-72335256
scientificName Callithrix jacchus
htmlPath html/GCF_011100555.1_mCalJa1.2.pat.X.description.html
blat dynablat-01.soe.ucsc.edu 4040 dynamic GCF/011/100/555/GCF_011100555.1
transBlat dynablat-01.soe.ucsc.edu 4040 dynamic GCF/011/100/555/GCF_011100555.1
isPcr dynablat-01.soe.ucsc.edu 4040 dynamic GCF/011/100/555/GCF_011100555.1
liftOver.GCA_028858775.2 liftOver/GCF_011100555.1ToGCA_028858775.2.over.chain.gz
liftOver.GCA_028878055.2 liftOver/GCF_011100555.1ToGCA_028878055.2.over.chain.gz
liftOver.GCA_028885625.2 liftOver/GCF_011100555.1ToGCA_028885625.2.over.chain.gz
liftOver.GCA_028885655.2 liftOver/GCF_011100555.1ToGCA_028885655.2.over.chain.gz
liftOver.GCA_029281585.2 liftOver/GCF_011100555.1ToGCA_029281585.2.over.chain.gz
liftOver.GCA_029289425.2 liftOver/GCF_011100555.1ToGCA_029289425.2.over.chain.gz
liftOver.GCF_020740605.2 liftOver/GCF_011100555.1ToGCF_020740605.2.over.chain.gz
liftOver.GCF_027406575.1 liftOver/GCF_011100555.1ToGCF_027406575.1.over.chain.gz
liftOver.hg38 liftOver/GCF_011100555.1ToHg38.over.chain.gz
liftOver.hs1 liftOver/GCF_011100555.1ToHs1.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/GCF_011100555.1_mCalJa1.2.pat.X.assembly.bb
type bigBed 6
html html/GCF_011100555.1_mCalJa1.2.pat.X.assembly
searchIndex name
searchTrix ixIxx/GCF_011100555.1_mCalJa1.2.pat.X.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/GCF_011100555.1_mCalJa1.2.pat.X.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/GCF_011100555.1_mCalJa1.2.pat.X.gc5Base.bw
html html/GCF_011100555.1_mCalJa1.2.pat.X.gc5Base

track tanDups
shortLabel Tandem Dups
longLabel Paired identical sequences
compositeTrack on
visibility hide
type bigBed 12
group map
html html/GCF_011100555.1_mCalJa1.2.pat.X.tanDups

    track gapOverlap
    parent tanDups on
    shortLabel Gap Overlaps
    longLabel Paired exactly identical sequence on each side of a gap
    bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.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/GCF_011100555.1_mCalJa1.2.pat.X.tandemDups.bb
    type bigBed 12

track repeatMasker
shortLabel RepeatMasker
longLabel RepeatMasker Repetitive Elements
type bigRmsk 9 +
visibility pack
group varRep
bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.rmsk.bb
xrefDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.rmsk.align.bb
maxWindowToDraw 5000000
html html/GCF_011100555.1_mCalJa1.2.pat.X.repeatMasker

track repeatModeler
shortLabel RepeatModeler
longLabel RepeatModeler Repetitive Elements
type bigRmsk 9 +
visibility pack
group varRep
bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.rModel.bb
xrefDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.rModel.align.bb
maxWindowToDraw 5000000
html html/GCF_011100555.1_mCalJa1.2.pat.X.repeatModeler

track simpleRepeat
shortLabel Simple Repeats
longLabel Simple Tandem Repeats by TRF
group varRep
visibility dense
type bigBed 4 +
bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.simpleRepeat.bb
html html/GCF_011100555.1_mCalJa1.2.pat.X.simpleRepeat

track refSeqComposite
compositeTrack on
shortLabel NCBI RefSeq
longLabel RefSeq gene predictions from NCBI
group genes
visibility pack
type bigBed
dragAndDrop subTracks
allButtonPair on
dataVersion NCBI RefSeq GCF_011100555.1-RS_2023_03 (2023-03-19)
html html/GCF_011100555.1_mCalJa1.2.pat.X.refSeqComposite
priority 2

        track ncbiRefSeq
        parent refSeqComposite on
        color 12,12,120
        altColor 120,12,12
        shortLabel RefSeq All
        type bigGenePred
        labelFields name,geneName,geneName2
        defaultLabelFields geneName2
        searchIndex name
        searchTrix ixIxx/GCF_011100555.1_mCalJa1.2.pat.X.ncbiRefSeq.ix
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.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

        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
        labelFields name,geneName,geneName2
        defaultLabelFields geneName2
        searchIndex name
        searchTrix ixIxx/GCF_011100555.1_mCalJa1.2.pat.X.ncbiRefSeqCurated.ix
        idXref ncbiRefSeqLink mrnaAcc name
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.ncbiRefSeqCurated.bb
        baseColorUseCds given
        baseColorDefault genomicCodons
        priority 2

        track ncbiRefSeqPredicted
        color 12,12,120
        parent refSeqComposite on
        shortLabel RefSeq Predicted
        longLabel NCBI RefSeq genes, predicted subset (XM_* or XR_*)
        type bigGenePred
        labelFields name,geneName,geneName2
        defaultLabelFields geneName2
        searchIndex name
        searchTrix ixIxx/GCF_011100555.1_mCalJa1.2.pat.X.ncbiRefSeqPredicted.ix
        idXref ncbiRefSeqLink mrnaAcc name
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.ncbiRefSeqPredicted.bb
        baseColorUseCds given
        baseColorDefault genomicCodons
        priority 3

        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_011100555.1_mCalJa1.2.pat.X.ncbiRefSeqOther.ix
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.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/$$" MGI="http://www.informatics.jax.org/marker/$$"

        track ncbiRefSeqPsl
        priority 5
        parent refSeqComposite off
        shortLabel RefSeq Alignments
        longLabel RefSeq Alignments of RNAs
        type bigPsl
        searchIndex name
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.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

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/GCF_011100555.1_mCalJa1.2.pat.X.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/GCF_011100555.1_mCalJa1.2.pat.X.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/GCF_011100555.1_mCalJa1.2.pat.X.cpgIslandExtUnmasked.bb

track windowMasker
shortLabel WM + SDust
longLabel Genomic Intervals Masked by WindowMasker + SDust
group varRep
visibility dense
type bigBed 3
bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.windowMasker.bb
html html/GCF_011100555.1_mCalJa1.2.pat.X.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/GCF_011100555.1_mCalJa1.2.pat.X.allGaps.bb
html html/GCF_011100555.1_mCalJa1.2.pat.X.allGaps

track augustus
shortLabel Augustus
longLabel Augustus Gene Predictions
group genes
visibility dense
color 180,0,0
type bigGenePred
bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.augustus.bb
html html/GCF_011100555.1_mCalJa1.2.pat.X.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/GCF_011100555.1_mCalJa1.2.pat.X.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_011100555.1_mCalJa1.2.pat.X.xenoRefGene.ix
html html/GCF_011100555.1_mCalJa1.2.pat.X.xenoRefGene

track GCF_011100555.1_mCalJa1.2.pat.XChainNet
compositeTrack on
shortLabel Chain/Net
longLabel Chain alignments to target sequence: GCF_011100555.1_mCalJa1.2.pat.X
subGroup1 view Views chain=Chains synten=Syntenic rbest=Reciprocal_best liftover=Lift_over align=Alignment
subGroup2 species Assembly s000=GCA_028885655.2 s001=GCA_028885625.2 s002=GCA_029281585.2 s003=GCA_029289425.2 s004=GCA_028858775.2 s005=hs1 s006=hg38 s007=GCA_028878055.2 s008=GCF_020740605.2 s009=GCF_027406575.1
subGroup3 chainType chain_type c00=chain c01=syntenic c02=reciprocal_best c03=lift_over c04=chain_align c05=syntenic_align c06=reciprocal_align c07=lift_over_align
dragAndDrop subTracks
visibility hide
group compGeno
color 0,0,0
altColor 255,255,0
type bed 3
chainLinearGap loose
chainMinScore 5000
dimensions dimensionX=chainType dimensionY=species
sortOrder species=+ view=+ chainType=+
configurable on
html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet

    track GCF_011100555.1_mCalJa1.2.pat.XChainNetViewchain
    shortLabel Chains
    view chain
    visibility dense
    parent GCF_011100555.1_mCalJa1.2.pat.XChainNet
    spectrum on

    track GCF_011100555.1_mCalJa1.2.pat.XChainNetViewSynTen
    shortLabel Syntenic
    view synten
    visibility hide
    parent GCF_011100555.1_mCalJa1.2.pat.XChainNet
    spectrum on

    track GCF_011100555.1_mCalJa1.2.pat.XChainNetViewRBest
    shortLabel Reciprocal best
    view rbest
    visibility hide
    parent GCF_011100555.1_mCalJa1.2.pat.XChainNet
    spectrum on

    track GCF_011100555.1_mCalJa1.2.pat.XChainNetViewLiftOver
    shortLabel Lift over
    view liftover
    visibility hide
    parent GCF_011100555.1_mCalJa1.2.pat.XChainNet
    spectrum on

        track chainGCA_028885655.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewchain on
        subGroups view=chain species=s000 chainType=c00
        shortLabel Sumatran orangutan Chain
        longLabel Sumatran orangutan/GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri (2024-01-05) Chained Alignments
        type bigChain GCA_028885655.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCA_028885655.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCA_028885655.2Link.bb
        otherDb GCA_028885655.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.366

        track chainSynGCA_028885655.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewSynTen off
        subGroups view=synten species=s000 chainType=c01
        shortLabel Sumatran orangutan synChain
        longLabel Sumatran orangutan/GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri (2024-01-05) Chained Alignments
        type bigChain GCA_028885655.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_028885655.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_028885655.2Link.bb
        otherDb GCA_028885655.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.366

        track chainRBestGCA_028885655.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewRBest off
        subGroups view=rbest species=s000 chainType=c02
        shortLabel Sumatran orangutan rbChain
        longLabel Sumatran orangutan/GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri (2024-01-05) Chained Alignments
        type bigChain GCA_028885655.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_028885655.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_028885655.2Link.bb
        otherDb GCA_028885655.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.366

        track chainLiftOverGCA_028885655.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewLiftOver off
        subGroups view=liftover species=s000 chainType=c03
        shortLabel Sumatran orangutan loChain
        longLabel Sumatran orangutan/GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri (2024-01-05) Chained Alignments
        type bigChain GCA_028885655.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_028885655.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_028885655.2Link.bb
        otherDb GCA_028885655.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.366

        track chainGCA_028885625.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewchain off
        subGroups view=chain species=s001 chainType=c00
        shortLabel Bornean orangutan Chain
        longLabel Bornean orangutan/GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri (2024-01-08) Chained Alignments
        type bigChain GCA_028885625.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCA_028885625.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCA_028885625.2Link.bb
        otherDb GCA_028885625.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.370

        track chainSynGCA_028885625.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewSynTen off
        subGroups view=synten species=s001 chainType=c01
        shortLabel Bornean orangutan synChain
        longLabel Bornean orangutan/GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri (2024-01-08) Chained Alignments
        type bigChain GCA_028885625.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_028885625.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_028885625.2Link.bb
        otherDb GCA_028885625.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.370

        track chainRBestGCA_028885625.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewRBest off
        subGroups view=rbest species=s001 chainType=c02
        shortLabel Bornean orangutan rbChain
        longLabel Bornean orangutan/GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri (2024-01-08) Chained Alignments
        type bigChain GCA_028885625.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_028885625.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_028885625.2Link.bb
        otherDb GCA_028885625.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.370

        track chainLiftOverGCA_028885625.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewLiftOver off
        subGroups view=liftover species=s001 chainType=c03
        shortLabel Bornean orangutan loChain
        longLabel Bornean orangutan/GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri (2024-01-08) Chained Alignments
        type bigChain GCA_028885625.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_028885625.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_028885625.2Link.bb
        otherDb GCA_028885625.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.370

        track chainGCA_029281585.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewchain off
        subGroups view=chain species=s002 chainType=c00
        shortLabel western lowland gorilla Chain
        longLabel western lowland gorilla/GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri (2024-01-08) Chained Alignments
        type bigChain GCA_029281585.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCA_029281585.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCA_029281585.2Link.bb
        otherDb GCA_029281585.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.598

        track chainSynGCA_029281585.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewSynTen off
        subGroups view=synten species=s002 chainType=c01
        shortLabel western lowland gorilla synChain
        longLabel western lowland gorilla/GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri (2024-01-08) Chained Alignments
        type bigChain GCA_029281585.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_029281585.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_029281585.2Link.bb
        otherDb GCA_029281585.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.598

        track chainRBestGCA_029281585.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewRBest off
        subGroups view=rbest species=s002 chainType=c02
        shortLabel western lowland gorilla rbChain
        longLabel western lowland gorilla/GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri (2024-01-08) Chained Alignments
        type bigChain GCA_029281585.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_029281585.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_029281585.2Link.bb
        otherDb GCA_029281585.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.598

        track chainLiftOverGCA_029281585.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewLiftOver off
        subGroups view=liftover species=s002 chainType=c03
        shortLabel western lowland gorilla loChain
        longLabel western lowland gorilla/GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri (2024-01-08) Chained Alignments
        type bigChain GCA_029281585.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_029281585.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_029281585.2Link.bb
        otherDb GCA_029281585.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.598

        track chainGCA_029289425.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewchain off
        subGroups view=chain species=s003 chainType=c00
        shortLabel pygmy chimpanzee Chain
        longLabel pygmy chimpanzee/GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri (2024-01-08) Chained Alignments
        type bigChain GCA_029289425.2
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCA_029289425.2Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.648

        track chainSynGCA_029289425.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewSynTen off
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_029289425.2Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.648

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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_029289425.2Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.648

        track chainLiftOverGCA_029289425.2
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_029289425.2Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.648

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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCA_028858775.2Link.bb
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        track chainSynGCA_028858775.2
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_028858775.2Link.bb
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        track chainRBestGCA_028858775.2
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_028858775.2Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
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        track chainLiftOverGCA_028858775.2
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_028858775.2Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
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        track chainHs1
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        shortLabel Human/hs1 Chain
        longLabel Human/hs1/hs1 (Jan. 2022) Chained Alignments
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainHs1Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.769

        track chainSynHs1
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        shortLabel Human/hs1 synChain
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynHs1Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
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        track chainRBestHs1
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        shortLabel Human/hs1 rbChain
        longLabel Human/hs1/hs1 (Jan. 2022) Chained Alignments
        type bigChain hs1
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestHs1Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
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        track chainLiftOverHs1
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        shortLabel Human/hs1 loChain
        longLabel Human/hs1/hs1 (Jan. 2022) Chained Alignments
        type bigChain hs1
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverHs1Link.bb
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        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.769

        track chainHg38
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        shortLabel Human/hg38 Chain
        longLabel Human/hg38/hg38 (Dec. 2013) Chained Alignments
        type bigChain hg38
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainHg38Link.bb
        otherDb hg38
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.784

        track chainSynHg38
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        shortLabel Human/hg38 synChain
        longLabel Human/hg38/hg38 (Dec. 2013) Chained Alignments
        type bigChain hg38
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynHg38Link.bb
        otherDb hg38
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.784

        track chainRBestHg38
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        shortLabel Human/hg38 rbChain
        longLabel Human/hg38/hg38 (Dec. 2013) Chained Alignments
        type bigChain hg38
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestHg38Link.bb
        otherDb hg38
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.784

        track chainLiftOverHg38
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewLiftOver off
        subGroups view=liftover species=s006 chainType=c03
        shortLabel Human/hg38 loChain
        longLabel Human/hg38/hg38 (Dec. 2013) Chained Alignments
        type bigChain hg38
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverHg38.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverHg38Link.bb
        otherDb hg38
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.784

        track chainGCA_028878055.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewchain off
        subGroups view=chain species=s007 chainType=c00
        shortLabel siamang Chain
        longLabel siamang/GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri (2024-01-05) Chained Alignments
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCA_028878055.2Link.bb
        otherDb GCA_028878055.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 29.306

        track chainSynGCA_028878055.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewSynTen off
        subGroups view=synten species=s007 chainType=c01
        shortLabel siamang synChain
        longLabel siamang/GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri (2024-01-05) Chained Alignments
        type bigChain GCA_028878055.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_028878055.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCA_028878055.2Link.bb
        otherDb GCA_028878055.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 29.306

        track chainRBestGCA_028878055.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewRBest off
        subGroups view=rbest species=s007 chainType=c02
        shortLabel siamang rbChain
        longLabel siamang/GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri (2024-01-05) Chained Alignments
        type bigChain GCA_028878055.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_028878055.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCA_028878055.2Link.bb
        otherDb GCA_028878055.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 29.306

        track chainLiftOverGCA_028878055.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewLiftOver off
        subGroups view=liftover species=s007 chainType=c03
        shortLabel siamang loChain
        longLabel siamang/GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri (2024-01-05) Chained Alignments
        type bigChain GCA_028878055.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_028878055.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCA_028878055.2Link.bb
        otherDb GCA_028878055.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 29.306

        track chainGCF_020740605.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewchain off
        subGroups view=chain species=s008 chainType=c00
        shortLabel ring-tailed lemur Chain
        longLabel ring-tailed lemur/GCF_020740605.2_mLemCat1.pri (2021-11-04) Chained Alignments
        type bigChain GCF_020740605.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCF_020740605.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCF_020740605.2Link.bb
        otherDb GCF_020740605.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 74.174

        track chainSynGCF_020740605.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewSynTen off
        subGroups view=synten species=s008 chainType=c01
        shortLabel ring-tailed lemur synChain
        longLabel ring-tailed lemur/GCF_020740605.2_mLemCat1.pri (2021-11-04) Chained Alignments
        type bigChain GCF_020740605.2
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCF_020740605.2.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCF_020740605.2Link.bb
        otherDb GCF_020740605.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 74.174

        track chainRBestGCF_020740605.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewRBest off
        subGroups view=rbest species=s008 chainType=c02
        shortLabel ring-tailed lemur rbChain
        longLabel ring-tailed lemur/GCF_020740605.2_mLemCat1.pri (2021-11-04) Chained Alignments
        type bigChain GCF_020740605.2
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCF_020740605.2Link.bb
        otherDb GCF_020740605.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 74.174

        track chainLiftOverGCF_020740605.2
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewLiftOver off
        subGroups view=liftover species=s008 chainType=c03
        shortLabel ring-tailed lemur loChain
        longLabel ring-tailed lemur/GCF_020740605.2_mLemCat1.pri (2021-11-04) Chained Alignments
        type bigChain GCF_020740605.2
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCF_020740605.2Link.bb
        otherDb GCF_020740605.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 74.174

        track chainGCF_027406575.1
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewchain off
        subGroups view=chain species=s009 chainType=c00
        shortLabel slow loris Chain
        longLabel slow loris/GCF_027406575.1_mNycCou1.pri (2022-12-28) Chained Alignments
        type bigChain GCF_027406575.1
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCF_027406575.1.bb
        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainGCF_027406575.1Link.bb
        otherDb GCF_027406575.1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 87.710

        track chainSynGCF_027406575.1
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewSynTen off
        subGroups view=synten species=s009 chainType=c01
        shortLabel slow loris synChain
        longLabel slow loris/GCF_027406575.1_mNycCou1.pri (2022-12-28) Chained Alignments
        type bigChain GCF_027406575.1
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainSynGCF_027406575.1Link.bb
        otherDb GCF_027406575.1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 87.710

        track chainRBestGCF_027406575.1
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewRBest off
        subGroups view=rbest species=s009 chainType=c02
        shortLabel slow loris rbChain
        longLabel slow loris/GCF_027406575.1_mNycCou1.pri (2022-12-28) Chained Alignments
        type bigChain GCF_027406575.1
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainRBestGCF_027406575.1Link.bb
        otherDb GCF_027406575.1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 87.710

        track chainLiftOverGCF_027406575.1
        parent GCF_011100555.1_mCalJa1.2.pat.XChainNetViewLiftOver off
        subGroups view=liftover species=s009 chainType=c03
        shortLabel slow loris loChain
        longLabel slow loris/GCF_027406575.1_mNycCou1.pri (2022-12-28) Chained Alignments
        type bigChain GCF_027406575.1
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        linkDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.chainLiftOverGCF_027406575.1Link.bb
        otherDb GCF_027406575.1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 87.710

    track GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet
    shortLabel Nets
    view align
    visibility hide
    parent GCF_011100555.1_mCalJa1.2.pat.XChainNet

        track netGCA_028885655.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s000 chainType=c04
        shortLabel Sumatran orangutan mafNet
        longLabel Sumatran orangutan/GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri (2024-01-05) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885655.2.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885655.2.net.summary.bb
        speciesOrder GCA_028885655.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.366

        track synNetGCA_028885655.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s000 chainType=c05
        shortLabel Sumatran orangutan synNet
        longLabel Sumatran orangutan/GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri (2024-01-05) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885655.2.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885655.2.synNet.summary.bb
        speciesOrder GCA_028885655.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.366

        track rbestNetGCA_028885655.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s000 chainType=c06
        shortLabel Sumatran orangutan rbestNet
        longLabel Sumatran orangutan/GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri (2024-01-05) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885655.2.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885655.2.rbestNet.summary.bb
        speciesOrder GCA_028885655.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.366

        track netGCA_028885625.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s001 chainType=c04
        shortLabel Bornean orangutan mafNet
        longLabel Bornean orangutan/GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885625.2.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885625.2.net.summary.bb
        speciesOrder GCA_028885625.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.370

        track synNetGCA_028885625.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s001 chainType=c05
        shortLabel Bornean orangutan synNet
        longLabel Bornean orangutan/GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885625.2.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885625.2.synNet.summary.bb
        speciesOrder GCA_028885625.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.370

        track rbestNetGCA_028885625.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s001 chainType=c06
        shortLabel Bornean orangutan rbestNet
        longLabel Bornean orangutan/GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885625.2.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028885625.2.rbestNet.summary.bb
        speciesOrder GCA_028885625.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.370

        track netGCA_029281585.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s002 chainType=c04
        shortLabel western lowland gorilla mafNet
        longLabel western lowland gorilla/GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029281585.2.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029281585.2.net.summary.bb
        speciesOrder GCA_029281585.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.598

        track synNetGCA_029281585.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s002 chainType=c05
        shortLabel western lowland gorilla synNet
        longLabel western lowland gorilla/GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029281585.2.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029281585.2.synNet.summary.bb
        speciesOrder GCA_029281585.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.598

        track rbestNetGCA_029281585.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s002 chainType=c06
        shortLabel western lowland gorilla rbestNet
        longLabel western lowland gorilla/GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029281585.2.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029281585.2.rbestNet.summary.bb
        speciesOrder GCA_029281585.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.598

        track netGCA_029289425.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s003 chainType=c04
        shortLabel pygmy chimpanzee mafNet
        longLabel pygmy chimpanzee/GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029289425.2.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029289425.2.net.summary.bb
        speciesOrder GCA_029289425.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.648

        track synNetGCA_029289425.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s003 chainType=c05
        shortLabel pygmy chimpanzee synNet
        longLabel pygmy chimpanzee/GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029289425.2.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029289425.2.synNet.summary.bb
        speciesOrder GCA_029289425.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.648

        track rbestNetGCA_029289425.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s003 chainType=c06
        shortLabel pygmy chimpanzee rbestNet
        longLabel pygmy chimpanzee/GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029289425.2.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_029289425.2.rbestNet.summary.bb
        speciesOrder GCA_029289425.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.648

        track netGCA_028858775.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s004 chainType=c04
        shortLabel chimpanzee mafNet
        longLabel chimpanzee/GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028858775.2.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028858775.2.net.summary.bb
        speciesOrder GCA_028858775.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.655

        track synNetGCA_028858775.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s004 chainType=c05
        shortLabel chimpanzee synNet
        longLabel chimpanzee/GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028858775.2.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028858775.2.synNet.summary.bb
        speciesOrder GCA_028858775.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.655

        track rbestNetGCA_028858775.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s004 chainType=c06
        shortLabel chimpanzee rbestNet
        longLabel chimpanzee/GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri (2024-01-08) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028858775.2.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028858775.2.rbestNet.summary.bb
        speciesOrder GCA_028858775.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.655

        track netHs1
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s005 chainType=c04
        shortLabel Human/hs1 mafNet
        longLabel Human/hs1/hs1 (Jan. 2022) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.hs1.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.hs1.net.summary.bb
        speciesOrder hs1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.769

        track synNetHs1
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s005 chainType=c05
        shortLabel Human/hs1 synNet
        longLabel Human/hs1/hs1 (Jan. 2022) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.hs1.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.hs1.synNet.summary.bb
        speciesOrder hs1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.769

        track rbestNetHs1
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s005 chainType=c06
        shortLabel Human/hs1 rbestNet
        longLabel Human/hs1/hs1 (Jan. 2022) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.hs1.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.hs1.rbestNet.summary.bb
        speciesOrder hs1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.769

        track netHg38
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s006 chainType=c04
        shortLabel Human/hg38 mafNet
        longLabel Human/hg38/hg38 (Dec. 2013) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.hg38.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.hg38.net.summary.bb
        speciesOrder hg38
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.784

        track synNetHg38
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s006 chainType=c05
        shortLabel Human/hg38 synNet
        longLabel Human/hg38/hg38 (Dec. 2013) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.hg38.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.hg38.synNet.summary.bb
        speciesOrder hg38
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.784

        track rbestNetHg38
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s006 chainType=c06
        shortLabel Human/hg38 rbestNet
        longLabel Human/hg38/hg38 (Dec. 2013) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.hg38.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.hg38.rbestNet.summary.bb
        speciesOrder hg38
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 27.784

        track netGCA_028878055.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s007 chainType=c04
        shortLabel siamang mafNet
        longLabel siamang/GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri (2024-01-05) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028878055.2.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028878055.2.net.summary.bb
        speciesOrder GCA_028878055.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 29.306

        track synNetGCA_028878055.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s007 chainType=c05
        shortLabel siamang synNet
        longLabel siamang/GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri (2024-01-05) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028878055.2.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028878055.2.synNet.summary.bb
        speciesOrder GCA_028878055.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 29.306

        track rbestNetGCA_028878055.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s007 chainType=c06
        shortLabel siamang rbestNet
        longLabel siamang/GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri (2024-01-05) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028878055.2.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCA_028878055.2.rbestNet.summary.bb
        speciesOrder GCA_028878055.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 29.306

        track netGCF_020740605.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s008 chainType=c04
        shortLabel ring-tailed lemur mafNet
        longLabel ring-tailed lemur/GCF_020740605.2_mLemCat1.pri (2021-11-04) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_020740605.2.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_020740605.2.net.summary.bb
        speciesOrder GCF_020740605.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 74.174

        track synNetGCF_020740605.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s008 chainType=c05
        shortLabel ring-tailed lemur synNet
        longLabel ring-tailed lemur/GCF_020740605.2_mLemCat1.pri (2021-11-04) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_020740605.2.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_020740605.2.synNet.summary.bb
        speciesOrder GCF_020740605.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 74.174

        track rbestNetGCF_020740605.2
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s008 chainType=c06
        shortLabel ring-tailed lemur rbestNet
        longLabel ring-tailed lemur/GCF_020740605.2_mLemCat1.pri (2021-11-04) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_020740605.2.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_020740605.2.rbestNet.summary.bb
        speciesOrder GCF_020740605.2
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 74.174

        track netGCF_027406575.1
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s009 chainType=c04
        shortLabel slow loris mafNet
        longLabel slow loris/GCF_027406575.1_mNycCou1.pri (2022-12-28) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_027406575.1.net.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_027406575.1.net.summary.bb
        speciesOrder GCF_027406575.1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 87.710

        track synNetGCF_027406575.1
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s009 chainType=c05
        shortLabel slow loris synNet
        longLabel slow loris/GCF_027406575.1_mNycCou1.pri (2022-12-28) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_027406575.1.synNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_027406575.1.synNet.summary.bb
        speciesOrder GCF_027406575.1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 87.710

        track rbestNetGCF_027406575.1
        parent GCF_011100555.1_mCalJa1.2.pat.XMafNetViewnet off
        subGroups view=align species=s009 chainType=c06
        shortLabel slow loris rbestNet
        longLabel slow loris/GCF_027406575.1_mNycCou1.pri (2022-12-28) Chained Alignments
        type bigMaf
        bigDataUrl bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_027406575.1.rbestNet.bb
        summary bbi/GCF_011100555.1_mCalJa1.2.pat.X.GCF_027406575.1.rbestNet.summary.bb
        speciesOrder GCF_027406575.1
        html html/GCF_011100555.1_mCalJa1.2.pat.X.chainNet
        priority 87.710


include GCF_011100555.1.userTrackDb.txt