This tar file includes the bowtie2 index for the mouse genome build GRCm38. We use the UCSC mm10 version of the genome, corresponsing to GRCm38/GCA_000001635.2, including the 22 assembled chromosomes (1-19, X, Y, M), the 22 unplaced contigs, and the 22 unlocalized contigs, but excluding any alternative sequences. This is the same reference as used by the ENCODE Consortium for data processing: .

   November 27th, 2018 at 8:04pm


File Type 
Genome Index
General Classification 
Ancillary File
File Size 
3.51 GB

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