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Reference Genomes
| ▶ | Human, UCSC hg19 |
The human reference genome is PAR-Masked, which means that the Y chromosome sequence has the Pseudo Autosomal Regions (PAR) masked (set to N) to avoid mismapping of reads in the duplicate regions of sex chromosomes.
| ▶ | Cow, UMD3.1 |
| ▶ | Mouse, mm9 |
| ▶ | Rat, rn4 |
Note
When using a custom manifest file, specify a reference genome in the Build ID column. Reference genome names are case sensitive.