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 |
| 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 |
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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 |
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| ClinVar Variants |
| ClinVar Variants 20220313 (lifted) |
| GWAS Variants |
| GWAS Variants 2022-03-08 (lifted) |
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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) |
| 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) |
| RepeatMasker |
| RepeatMasker Repetitive Elements |
| SEDEF Segmental Dups |
| SEDEF Segmental Duplications |
| Simple Repeats |
| Simple Tandem Repeats by TRF |
| WM + SDust |
| Genomic Intervals Masked by WindowMasker + SDust |
| SGDP copy number |
| SGDP copy number estimates |
| SGDP copy number subset |
| SGDP copy number estimates subset |
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