Mus musculus domesticus (western European house mouse) (Photo courtesy of The Jackson Laboratory) |
Common name: Mus musculus domesticus (western European house mouse)
Taxonomic name: Mus musculus domesticus (western European house mouse), taxonomy ID: 10092
Sequencing/Assembly provider ID: Wellcome Trust Sanger Institute
Assembly date: 26 Apr 2016
Assembly type: haploid
Assembly level: Chromosome
Biosample: SAMN04489831
Assembly accession ID: GCA_001624835.1
Assembly FTP location: GCA_001624835.1_WSB_EiJ_v1
Total assembly nucleotides: 2,689,657,557
Assembly contig count: 2,239
N50 size: 133,184,209
Download files for this assembly hub:
To use the data from this assembly for a local hub instance at your
institution, download these data as indicated by these instructions.
See also: track hub help documentation.
To download these data, issue this wget command:
wget --timestamping -m -nH -x --cut-dirs=5 -e robots=off -np -k \ --reject "index.html*" -P "GCA_001624835.1_WSB_EiJ_v1" \ http://hgdownload.cse.ucsc.edu/hubs/mouseStrains/GCA_001624835.1_WSB_EiJ_v1/to download the files for this assembly,
hub myLocalHub shortLabel myLocalHub longLabel genomes from RefSeq assemblies genomesFile GCA_001624835.1_WSB_EiJ_v1.genomes.txt email yourEmail@yourdomain.edu descriptionUrl html/GCA_001624835.1_WSB_EiJ_v1.description.htmlThe html/GCA_001624835.1_WSB_EiJ_v1.description.html page is information for your users to describe this assembly. This WEB page with these instructions is an instance of html/GCA_001624835.1_WSB_EiJ_v1.description.html file.
To operate a blat server on this assembly, in the directory where you have the GCA_001624835.1_WSB_EiJ_v1.2bit file:
gfServer -log=GCA_001624835.1_WSB_EiJ_v1.gfServer.trans.log -ipLog -canStop start \ yourserver.domain.edu 76543 -trans -mask GCA_001624835.1_WSB_EiJ_v1.2bit & gfServer -log=GCA_001624835.1_WSB_EiJ_v1.gfServer.log -ipLog -canStop start \ yourserver.domain.edu 76542 -stepSize=5 GCA_001624835.1_WSB_EiJ_v1.2bit &Adjust the port numbers 76543 76542 and the yourserver.domain.edu for your local circumstances.
transBlat yourserver.domain.edu 76543 blat yourserver.domain.edu 76542See also: Blat for an Assembly Hub
Search the assembly: