hub GCA_963242275.1 genome assembly shortLabel Daubenton's bat (alternate hap 2023) longLabel Daubenton's bat (alternate hap 2023)/Myotis daubentonii/GCA_963242275.1_mMyoDau2.1_alternate_haplotype genome assembly useOneFile on email hclawson@ucsc.edu descriptionUrl html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.description.html genome GCA_963242275.1 taxId 98922 groups groups.txt description Daubenton's bat (alternate hap 2023) twoBitPath GCA_963242275.1.2bit twoBitBptUrl GCA_963242275.1.2bit.bpt chromSizes GCA_963242275.1.chrom.sizes.txt chromAliasBb GCA_963242275.1.chromAlias.bb organism mMyoDau2.1_alternate_haplotype Aug. 2023 defaultPos CAUJLF010004882.1:1933781-1943781 scientificName Myotis daubentonii htmlPath html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.description.html blat dynablat-01.soe.ucsc.edu 4040 dynamic GCA/963/242/275/GCA_963242275.1 transBlat dynablat-01.soe.ucsc.edu 4040 dynamic GCA/963/242/275/GCA_963242275.1 isPcr dynablat-01.soe.ucsc.edu 4040 dynamic GCA/963/242/275/GCA_963242275.1 liftOver.GCF_963259705.1 liftOver/GCA_963242275.1ToGCF_963259705.1.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_963242275.1_mMyoDau2.1_alternate_haplotype.assembly.bb type bigBed 6 html html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.assembly searchIndex name searchTrix ixIxx/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.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_963242275.1_mMyoDau2.1_alternate_haplotype.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_963242275.1_mMyoDau2.1_alternate_haplotype.gc5Base.bw html html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.gc5Base track tanDups shortLabel Tandem Dups longLabel Paired identical sequences compositeTrack on visibility hide type bigBed 12 group map html html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.tanDups track tandemDups parent tanDups on shortLabel Tandem Dups longLabel Paired exactly identical sequence survey over entire genome assembly bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.tandemDups.bb type bigBed 12 track repeatMasker shortLabel RepeatMasker longLabel RepeatMasker Repetitive Elements type bigRmsk 9 + visibility pack group varRep bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.rmsk.bb xrefDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.rmsk.align.bb maxWindowToDraw 5000000 html html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.repeatMasker track simpleRepeat shortLabel Simple Repeats longLabel Simple Tandem Repeats by TRF group varRep visibility dense type bigBed 4 + bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.simpleRepeat.bb html html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.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_963242275.1_mMyoDau2.1_alternate_haplotype.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_963242275.1_mMyoDau2.1_alternate_haplotype.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_963242275.1_mMyoDau2.1_alternate_haplotype.cpgIslandExtUnmasked.bb track windowMasker shortLabel WM + SDust longLabel Genomic Intervals Masked by WindowMasker + SDust group varRep visibility dense type bigBed 3 bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.windowMasker.bb html html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.windowMasker track augustus shortLabel Augustus longLabel Augustus Gene Predictions group genes visibility pack color 180,0,0 type bigGenePred bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.augustus.bb html html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.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_963242275.1_mMyoDau2.1_alternate_haplotype.xenoRefGene.bb url https://www.ncbi.nlm.nih.gov/nuccore/$$ urlLabel NCBI Nucleotide database: labelFields name,geneName,geneName2 defaultLabelFields geneName searchIndex name searchTrix ixIxx/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.xenoRefGene.ix html html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.xenoRefGene ############################################################################## # GCF_963259705.1 - Daubenton's bat - Myotis daubentonii - taxId: 98922 ############################################################################## track chainNetGCF_963259705.1 compositeTrack on shortLabel Daubenton's bat Chain/Net longLabel Daubenton's bat (2023-08-20), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno priority 100.1 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ otherDb GCF_963259705.1 html html/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.chainNet track chainNetGCF_963259705.1Viewchain shortLabel Chain view chain visibility pack parent chainNetGCF_963259705.1 spectrum on track chainGCF_963259705.1 parent chainNetGCF_963259705.1Viewchain subGroups view=chain shortLabel Daubenton's bat Chain longLabel Daubenton's bat (2023-08-20) Chained Alignments type bigChain GCF_963259705.1 bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.chainGCF_963259705.1.bb linkDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.chainGCF_963259705.1Link.bb priority 1 track chainSynGCF_963259705.1 parent chainNetGCF_963259705.1Viewchain subGroups view=chain shortLabel Daubenton's bat synChain longLabel Daubenton's bat (2023-08-20) Syntenic Chained Alignments type bigChain GCF_963259705.1 bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.chainSynGCF_963259705.1.bb linkDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.chainSynGCF_963259705.1Link.bb priority 2 track chainRBestGCF_963259705.1 parent chainNetGCF_963259705.1Viewchain subGroups view=chain shortLabel Daubenton's bat rbChain longLabel Daubenton's bat (2023-08-20) Reciprocal Best Chained Alignments type bigChain GCF_963259705.1 bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.chainRBestGCF_963259705.1.bb linkDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.chainRBestGCF_963259705.1Link.bb priority 3 track chainLiftOverGCF_963259705.1 parent chainNetGCF_963259705.1Viewchain subGroups view=chain shortLabel Daubenton's bat loChain longLabel Daubenton's bat (2023-08-20) Lift Over Chained Alignments type bigChain GCF_963259705.1 bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.chainLiftOverGCF_963259705.1.bb linkDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.chainLiftOverGCF_963259705.1Link.bb priority 4 track mafNetGCF_963259705.1Viewnet shortLabel Net view net visibility full parent chainNetGCF_963259705.1 track netGCF_963259705.1 parent mafNetGCF_963259705.1Viewnet subGroups view=net shortLabel Daubenton's bat net longLabel Daubenton's bat (2023-08-20) Net Alignment type bigMaf bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.GCF_963259705.1.net.bb summary bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.GCF_963259705.1.net.summary.bb speciesOrder GCF_963259705.1 priority 5 track synNetGCF_963259705.1 parent mafNetGCF_963259705.1Viewnet subGroups view=net shortLabel Daubenton's bat synNet longLabel Daubenton's bat (2023-08-20) Syntenic Net Alignment type bigMaf bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.GCF_963259705.1.synNet.bb summary bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.GCF_963259705.1.synNet.summary.bb speciesOrder GCF_963259705.1 priority 6 track rbestNetGCF_963259705.1 parent mafNetGCF_963259705.1Viewnet subGroups view=net shortLabel Daubenton's bat rbestNet longLabel Daubenton's bat (2023-08-20) Reciprocal Best Net Alignment type bigMaf bigDataUrl bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.GCF_963259705.1.rbestNet.bb summary bbi/GCA_963242275.1_mMyoDau2.1_alternate_haplotype.GCF_963259705.1.rbestNet.summary.bb speciesOrder GCF_963259705.1 priority 7