Control track and group visibility more selectively below.
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| Base Position |
| Chromosome position in bases. (Clicks here zoom in 3x) |
| CenSat Annotation |
| Centromeric Satellite Annotation |
| CHM13 unique |
| CHM13 unique in comparison to GRCh38/hg38 and GRCh37/hg19 |
| rDNA models |
| Consensus rDNA models |
| Assembly |
| Assembly from NCBI Genbank Sequences |
| Cytobands (Ideogram) |
| Cytobands Mapped from hg38/GRCh38 |
| GC Percent |
| GC Percent in 5-Base Windows |
| Human liftOver |
| LiftOver alignments from CHM13 to hg19/hg38 and HG002 with two different pipelines |
| Mappability |
| Single-read and multi-read mappability by Umap |
| Microsatellites |
| Microsatellite repeats |
| Problematic Regions |
| Difficult regions from GIAB via NCBI |
| Restr Enzymes |
| Restriction Enzymes from REBASE |
| Short Match |
| Perfect Matches to Short Sequence () |
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| CAT/Liftoff Genes |
| CAT + Liftoff Gene Annotations |
| NCBI RefSeq |
| RefSeq gene predictions from NCBI |
| CRISPR Targets |
| CRISPR/Cas9 -NGG Targets, whole genome |
| UniProt |
| UniProt SwissProt/TrEMBL Protein Annotations |
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| ClinVar Variants |
| ClinVar Variants 20220313 (lifted) |
| GWAS Variants |
| GWAS Variants 2022-03-08 (lifted) |
| UniProt Variants |
| UniProt/SwissProt Amino Acid Substitutions |
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| CHM13 PROseq |
| CHM13 PROseq stranded with unique genome-wide kmer filtering |
| CHM13 RNA-Seq |
| CHM13 RNA-Seq (paired-end) unique genome-wide kmer filtering (unstranded) |
| ProCapNet |
| ProCapNet predicted PRO-cap |
| MCF10A Predicted |
| MCF10A (ENCSR860TYZ) ProCapNet predicted PRO-cap |
| K562 Predicted |
| K562 (ENCSR740IPL) ProCapNet predicted PRO-cap |
| HUVEC Predicted |
| HUVEC (ENCSR801ECP) ProCapNet predicted PRO-cap |
| Calu3 Predicted |
| Calu3 (ENCSR797DEF) ProCapNet predicted PRO-cap |
| Caco-2 Predicted |
| Caco-2 (ENCSR182QNJ) ProCapNet predicted PRO-cap |
| A673 Predicted |
| A673 (ENCSR072YCM) ProCapNet predicted PRO-cap |
| RefSeq mRNAs |
| RefSeq mRNAs mapped to this assembly |
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| CpG Islands |
| CpG Islands (Islands < 300 Bases are Light Green) |
| T2T Encode |
| T2T Encode Reanalysis |
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| Cactus Alignment |
| Cactus Alignment |
| Primate Chain/Net |
| Primate chain alignments to target sequence: hs1 |
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| dbSNP 155 |
| dbSNP 155 (lifted) |
| new
Long-read SVs |
| Structural Variants from Long-read Sequencing |
| Arab APR 53 SVs |
| Structural Variants from 53 Arab Pangenome Reference samples (UAE-resident; HiFi + ONT) |
| CPC 58 SVs |
| Structural Variants from 58 Chinese Pangenome Consortium samples (CPC-only; HiFi) |
| HGSVC3 65 SVs |
| Structural Variants from 65 HGSVC3 assemblies (diverse ancestry; HiFi + ONT) |
| HPRC v2.1 233 SVs |
| Structural Variants from 233 HPRC v2.1 assemblies (minigraph-cactus pangenome graph) |
| 1KG Vienna ONT SVs |
| Structural Variants from 1,019 1000 Genomes samples (Vienna ONT; Schloissnig et al. 2025) |
| 1KG Lin 1218 SVs |
| Structural Variants from 1,218 1000 Genomes samples (long-read merge; Lin et al.) |
| CoLoRSdb 1427 SVs |
| Structural Variants from 1,427 CoLoRSdb samples (Consortium of Long-Read Sequencing, PacBio HiFi) |
| RepeatMasker |
| RepeatMasker Repetitive Elements |
| SEDEF Segmental Dups |
| SEDEF Segmental Duplications |
| Simple Repeats |
| Simple Tandem Repeats by TRF |
| Tandem Repeat Variation |
| Tandem Repeat Variation |
| STRchive |
| STRchive Disease-Associated Short Tandem Repeat Loci |
| WM + SDust |
| Genomic Intervals Masked by WindowMasker + SDust |
| SGDP Copy Number |
| SGDP copy number estimates |
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