AllControlCNVs_19584cases_hg18_July30_2012_imgOrd 10 _ 1646168959501 altSeqLiftOverPsl hide c chr1 c chr1 centerLabels 1 clade mammal cons100way hide cons44way hide cytoBand dense cytoBand_imgOrd 1 db hg18 dbSnp153Common_imgOrd 2 defaultsSet on defaultsSet on defaultsSet on dinkL 2.0 dinkR 2.0 enableHighlightingDialog 1 encodeCcreCombined hide encodeCcreCombined_imgOrd 5 exaptedRepeats_imgOrd 12 exonNumbers 1 expOrder_cons100way phyloP100way expOrder_cons44way phyloP44wayPlacMammal expOrder_hub_105_Bonobo_Mhudiblu_PPA_read_depth hub_105_Bonobo_Mhudiblu_PPA_read_depth expOrder_hub_105_Chimpanzee_Clint_PTR hub_105_Chimpanzee_Clint_PTR expOrder_hub_105_Gibbon_Asia_NLE hub_105_Gibbon_Asia_NLE expOrder_hub_105_Gorilla_Kamilah_GGO hub_105_Gorilla_Kamilah_GGO expOrder_hub_105_Macaque_indian_AG07107_MMU hub_105_Macaque_indian_AG07107_MMU expOrder_hub_105_Marmoset_CJ1700_CJA hub_105_Marmoset_CJ1700_CJA expOrder_hub_105_OWL_monkey_86718_ANA hub_105_OWL_monkey_86718_ANA expOrder_hub_105_Orangutan_Susie_PAB hub_105_Orangutan_Susie_PAB expOrder_hub_105_mouse_lemur_Inina_MMUR hub_105_mouse_lemur_Inina_MMUR expOrder_wgEncodeBuOrchid wgEncodeBuOrchidSignalRep1Gm12878 wgEncodeBuOrchidSignalRep2Gm12878 expOrder_wgEncodeReg wgEncodeRegMarkEnhH3k4me1 wgEncodeRegMarkPromoter fixSeqLiftOverPsl hide four_way hide gap dense gap_imgOrd 8 genomicSuperDups squish genomicSuperDups_imgOrd 6 goButton go gold_imgOrd 2 gtexGeneV8 hide guidelines 1 hgFind.matches hgHubConnect.hub.105 1 hgHubConnect.hub.106 1 hgHubConnect.hub.111 1 hgHubConnect.hub.113 1 hgHubConnect.hub.132 1 hgS_DataTableState %7B%22time%22%3A1631291158722%2C%22start%22%3A0%2C%22length%22%3A10%2C%22order%22%3A%5B2%2C%22desc%22%5D%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%2C%22columns%22%3A%5B%7B%22visible%22%3Atrue%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%7D%2C%7B%22visible%22%3Atrue%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%7D%2C%7B%22visible%22%3Atrue%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%7D%2C%7B%22visible%22%3Atrue%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%7D%2C%7B%22visible%22%3Atrue%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%7D%2C%7B%22visible%22%3Atrue%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%7D%2C%7B%22visible%22%3Atrue%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%7D%2C%7B%22visible%22%3Atrue%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%7D%2C%7B%22visible%22%3Atrue%2C%22search%22%3A%7B%22search%22%3A%22%22%2C%22smart%22%3Atrue%2C%22regex%22%3Afalse%2C%22caseInsensitive%22%3Atrue%7D%7D%5D%7D hgS_loadUrlName hgS_newSessionName hg18 hgS_newSessionShare 1 hgS_otherUserName dgordon hgS_otherUserSessionName t2t-chm13-v1.0b hgS_saveLocalFileCompress none hgS_saveLocalFileName hg18_setup.txt hgTracksConfigPage hgsid 1228_PTBhaqc9AlaDH5NnnzzB9KaDaDA7 hgt.labelWidth 20 hgt_configGroupTarget none hgta_compressType gzip hgta_group rep hgta_outFileName microsatellite_hg38.bed hgta_outputType primaryTable hgta_regionType genome hgta_table microsat hgta_track microsat hgtgroup_CCDG_close 0 hgtgroup_PUR_variation_close 0 hgtgroup_autism_noncoding_project_close 0 hgtgroup_autism_studies_close 0 hgtgroup_cenTelo_close 0 hgtgroup_clone_end_mappings_close 0 hgtgroup_compGeno_close 0 hgtgroup_cores_close 0 hgtgroup_covid_close 0 hgtgroup_denisova_close 1 hgtgroup_encodeChip_close 1 hgtgroup_encodeChrom_close 1 hgtgroup_encodeCompAndVar_close 1 hgtgroup_encodeGenes_close 1 hgtgroup_encodeTxLevels_close 1 hgtgroup_expression_close 0 hgtgroup_genes_close 0 hgtgroup_hub_104_close 0 hgtgroup_hub_105_close 0 hgtgroup_hub_106_close 0 hgtgroup_hub_111_close 0 hgtgroup_hub_113_close 0 hgtgroup_hub_132_close 0 hgtgroup_hub_145_close 0 hgtgroup_illumina_read_depth_close 0 hgtgroup_map_close 0 hgtgroup_morbidity_map_close 0 hgtgroup_neandertal_close 1 hgtgroup_other_close 0 hgtgroup_phenDis_close 0 hgtgroup_regulation_close 0 hgtgroup_rep_close 0 hgtgroup_rna_close 0 hgtgroup_simons_genome_project_close 0 hgtgroup_singleCell_close 0 hgtgroup_varRep_close 0 hgtgroup_x_close 1 highlight hg18#chr4#1496032#1496682#aaedff|hg18#chr8#2202724#2203469#aaedff|hg18#chr19#59492747#59496255#aaedff|hg18#chr8#2276638#2317669#aaedff|hg38#chr14#18606821#18609702#aaedff|hg38#chr1#12843225#13262444#aaedff|hg38#chr7#65255732#65257869#aaedff hub_104_consensus_CHM13_V4 hide hub_104_gencodeUnmappeds10k hide hub_104_gencodeUnmappeds10k_imgOrd 9 hub_104_gencodeUnmappeds50k hide hub_104_gencodeUnmappeds50k_imgOrd 10 hub_104_grch38Exclusions hide hub_104_grch38Exclusions_imgOrd 8 hub_104_grch38Synteny hide hub_104_rmsk squish hub_104_sedefSegDups dense hub_104_simpleRepeat dense hub_104_uwLiftoff dense hub_104_validation hide hub_105_Bonobo_Mhudiblu_PPA_read_depth hide hub_105_Chimpanzee_Clint_PTR hide hub_105_Gibbon_Asia_NLE hide hub_105_Gorilla_Kamilah_GGO hide hub_105_Macaque_indian_AG07107_MMU hide hub_105_Marmoset_CJ1700_CJA hide hub_105_OWL_monkey_86718_ANA hide hub_105_Orangutan_Susie_PAB hide hub_105_mouse_lemur_Inina_MMUR hide hub_106_bonobo_alignments hide hub_106_chimpanzee_alignments hide hub_106_gibbon_alignments hide hub_106_gorilla_alignments hide hub_106_macaque_chinese_alignments hide hub_106_macaque_indian_alignments hide hub_106_marmoset_alignments hide hub_106_orangutan_alignments hide hub_113_super_yafei_william_wssd_copy_number dense hub_132_Cases hide hub_132_Cases_imgOrd 13 hub_132_Controls hide hub_132_Controls_imgOrd 14 hub_145_finalcalls_14455_p1_manta_cnv full hub_145_finalcalls_14455_p1_manta_cnv_imgOrd 10 hub_145_finalcalls_14455_p1_smoove_cnv_imgOrd 11 hub_145_rawcalls_14455_p1_manta_cnv full hub_145_rawcalls_14455_p1_manta_cnv_imgOrd 9 hub_145_rawcalls_14455_p1_smoove_cnv_imgOrd 10 hub_145_rawcalls_14455_p1_sv_VAL_cnv full hub_145_rawcalls_14455_p1_sv_VAL_cnv_imgOrd 9 hub_145_validcalls_14455_p1_cnv full hub_145_validcalls_14455_p1_cnv_imgOrd 8 ideogram 1 individual_callers hide intronEst hide intronEst.Ft red intronEst.Lt and intronEst.acc intronEst.alwaysZero OFF intronEst.aut intronEst.autoScale auto-scale to data view intronEst.baseColorDrawOpt none intronEst.cel intronEst.des intronEst.doWiggle 0 intronEst.gen intronEst.heightPer 128 intronEst.horizGrid OFF intronEst.indelDoubleInsert 1 intronEst.indelPolyA 0 intronEst.indelQueryInsert 1 intronEst.key intronEst.lib intronEst.lineBar bar intronEst.negateValues 0 intronEst.pro intronEst.smoothingWindow OFF intronEst.tis intronEst.transformFunc NONE intronEst.windowingFunction maximum intronEst.yLineMark 0 intronEst.yLineOnOff OFF intronEst_imgOrd 10 jsh_pageVertPos 0 knownGene hide knownGene.alwaysZero OFF knownGene.autoScale auto-scale to data view knownGene.baseColorDrawOpt genomicCodons knownGene.codonNumbering 1 knownGene.doWiggle 0 knownGene.heightPer 128 knownGene.horizGrid OFF knownGene.label.gene 1 knownGene.lineBar bar knownGene.negateValues 0 knownGene.show.noncoding 1 knownGene.show.pseudo 0 knownGene.show.set basic knownGene.show.spliceVariants 1 knownGene.smoothingWindow OFF knownGene.transformFunc NONE knownGene.windowingFunction maximum knownGene.yLineMark 0 knownGene.yLineOnOff OFF knownGene_imgOrd 1 l 12920790 lastPosition chr1:12920791-13002867 lastVirtModeExtra lastVirtModeExtraState lastVirtModeType default leftLabels 1 microsat_imgOrd 4 morbidityMap_19584Controls_AllCNVs_hg38 hide morbidityMap_19584Controls_AllCNVs_hg38_imgOrd 10 morbidityMap_29085Cases_RareUniqueCNVs_hg38 hide morbidityMap_29085Cases_RareUniqueCNVs_hg38_imgOrd 8 morbidityMap_29085Cases_RareUniqueCalls_lifted_to_hg19 full morbidityMap_29085Cases_RareUniqueCalls_lifted_to_hg19_imgOrd 14 mrna hide mrna_imgOrd 9 multiz44way_imgOrd 21 ncbiRefSeqCurated_imgOrd 1 ncbiRefSeqCurated_sel 0 nextExonArrows 1 nextItemArrows 0 oldPosition chr1:12920791-13002867 org Human per_sample_calls hide phyloP44wayPlacMammal_imgOrd 20 pix 1891 position chr1:12920791-13002867 position.hg18 lastVirtModeType=default&lastVirtModeExtraState=&virtModeType=default&virtMode=0&nonVirtPosition=&position=chr1%3A12920791%2D13002867 position.hg19 lastVirtModeType=default&lastVirtModeExtraState=&virtModeType=default&virtMode=0&nonVirtPosition=&position=chr4%3A1495243%2D1497474 position.hg38 lastVirtModeType=default&lastVirtModeExtraState=&virtModeType=default&virtMode=0&nonVirtPosition=&position=chr8%3A5274497%2D7148466 position.hub_104_t2t-chm13-v1.0 lastVirtModeType=default&lastVirtModeExtraState=&virtModeType=default&virtMode=0&nonVirtPosition=&position=chr3%3A90755737%2D90789938 position.hub_104_t2t-chm13-v1.1 lastVirtModeType=default&lastVirtModeExtraState=&virtModeType=default&virtMode=0&nonVirtPosition=&position=chr3%3A70755737%2D71789938 position.hub_104_t2t-chm13-v2.0 lastVirtModeType=default&lastVirtModeExtraState=&virtModeType=default&virtMode=0&nonVirtPosition=&position=chr3%3A90755737%2D90789938 pubsBlat_imgOrd 10 pubsMarkerSnp_imgOrd 11 r 13002867 refGene.alwaysZero OFF refGene.autoScale auto-scale to data view refGene.baseColorDrawOpt none refGene.codonNumbering 0 refGene.doWiggle 0 refGene.heightPer 128 refGene.hideNoncoding 0 refGene.horizGrid OFF refGene.label.acc 0 refGene.label.gene 1 refGene.label.omimhg18 0 refGene.lineBar bar refGene.negateValues 0 refGene.smoothingWindow OFF refGene.transformFunc NONE refGene.windowingFunction maximum refGene.yLineMark 0 refGene.yLineOnOff OFF refGene_imgOrd 2 refSeqComposite full rmsk_imgOrd 4 ruler dense sendToGalaxy 0 sendToGreat 0 sessionTable_length 10 simOrder_cons100way phyloP100way simOrder_cons44way phyloP44wayPlacMammal simOrder_hub_105_Bonobo_Mhudiblu_PPA_read_depth hub_105_Bonobo_Mhudiblu_PPA_read_depth simOrder_hub_105_Chimpanzee_Clint_PTR hub_105_Chimpanzee_Clint_PTR simOrder_hub_105_Gibbon_Asia_NLE hub_105_Gibbon_Asia_NLE simOrder_hub_105_Gorilla_Kamilah_GGO hub_105_Gorilla_Kamilah_GGO simOrder_hub_105_Macaque_indian_AG07107_MMU hub_105_Macaque_indian_AG07107_MMU simOrder_hub_105_Marmoset_CJ1700_CJA hub_105_Marmoset_CJ1700_CJA simOrder_hub_105_OWL_monkey_86718_ANA hub_105_OWL_monkey_86718_ANA simOrder_hub_105_Orangutan_Susie_PAB hub_105_Orangutan_Susie_PAB simOrder_hub_105_mouse_lemur_Inina_MMUR hub_105_mouse_lemur_Inina_MMUR simOrder_wgEncodeBuOrchid wgEncodeBuOrchidSignalRep1Gm12878 wgEncodeBuOrchidSignalRep2Gm12878 simOrder_wgEncodeReg wgEncodeRegMarkEnhH3k4me1 wgEncodeRegMarkPromoter simpleRepeat dense simpleRepeat_imgOrd 5 snp130_imgOrd 3 textFont Bitmap textSize 8 textStyle Normal topSubmit submit trackControlsOnMain 1 trackHubs 132 113 111 106 105 udcTimeout 1 virtMode 0 virtModeType default wgEncodeBuOrchidSignalRep1Gm12878_imgOrd 13 wgEncodeBuOrchidSignalRep2Gm12878_imgOrd 14 wgEncodeBuOrchidV1_imgOrd 8 wgEncodeBuOrchidV2_imgOrd 9 wgEncodeRegDnaseClustered hide wgEncodeRegDnaseClustered_imgOrd 7 wgEncodeRegDnaseClustered_sel 0 wgEncodeRegMarkEnhH3k4me1 hide wgEncodeRegMarkEnhH3k4me1_imgOrd 7 wgEncodeRegMarkH3k27ac hide wgEncodeRegMarkPromoter hide wgEncodeRegMarkPromoter_imgOrd 8 wgEncodeRegTfbsClustered hide wgEncodeRegTfbsClusteredV3_imgOrd 13 wgEncodeRegTfbsClustered_imgOrd 9 xenoRefGene_imgOrd 8 cpgIslandExt pack rmsk dense wgEncodeReg full refGene dense snp130 dense encodeGencodeGeneMar07 dense encodeEgaspFull dense encodeEgaspUpdate dense encodeAffyRnaSignal dense encodeAffyRnaTransfrags dense encodeYaleMASPlacRNATransMap dense encodeYaleMASPlacRNATars dense encodeYaleAffyRNATransMap dense encodeYaleAffyRNATars dense encodeAffyEcSites dense encodeAffyEcSignal dense encodeAffyChIpHl60Pval dense encodeAffyChIpHl60Sites dense encodeAffyChIpHl60PvalStrict dense encodeAffyChIpHl60SignalStrict dense encodeAffyChIpHl60SitesStrict dense encodeLIChIP dense encodeLIChIPgIF dense encodeUcsdNgGif dense encodeSangerChip dense encodeSangerChipHits dense encodeStanfordChip dense encodeStanfordChipSmoothed dense encodeUCDavisChip dense encodeUcDavisChipHits dense encodeUtexChip dense encodeUtexStage dense encodeUppsalaChip dense encodeUppsalaChipBut dense encodeUvaDnaRep dense encodeUvaDnaRepSeg dense encodeUvaDnaRepOrigins dense encodeUvaDnaRepTr50 dense encodeYaleChIPSTAT1Pval dense encodeYaleChIPSTAT1Sig dense encodeYaleChIPSTAT1Sites dense encodeYaleChipPval dense encodeYaleChipSig dense encodeYaleChipSites dense encodeYaleChipRfbr dense encodeUWRegulomeBase dense encodeRegulomeDnaseArray dense affyAllExonProbes dense affyExonTissues dense affyTxnPhase3FragsL dense affyTxnPhase3L dense affyTxnPhase3FragsS dense affyTxnPhase3S dense cytoBandIdeo dense laminB1 dense laminB1Lads dense uppsalaChipSignal dense uppsalaChipSites dense wgEncodeUcsdNgTaf1Signal dense wgEncodeUcsdNgTaf1Sites dense uwNucOccA375 full uwNucOccDennis full uwNucOccMec full defaultsSet on