Hi Laura, We have not rebuilt any of our tracks with the RCRS chrM for hg19. This includes the calculations of the phylop scores. All tracks use the old version (NC_001807).
There is a note about it on our hg19 gateway page (http://genome.ucsc.edu/cgi-bin/hgGateway?db=hg19): Note on chrM Since the release of the UCSC hg19 assembly, the Homo sapiens mitochondrion sequence (represented as "chrM" in the Genome Browser) has been replaced in GenBank with the record NC_012920. We have not replaced the original sequence, NC_001807, in the hg19 Genome Browser. We plan to use the Revised Cambridge Reference Sequence (rCRS) in the next human assembly release. If you have further questions, please contact us again at [email protected]. -- Brooke Rhead UCSC Genome Bioinformatics Group On 6/15/12 1:15 PM, Laura Smith wrote: > Hi, > > I have downloaded the placental pylop scores from UCSC GENOME BROWSER > website from here: > > http://hgdownload.cse.ucsc.edu/goldenpath/hg19/phyloP46way/placentalMammals/ > > > > http://hgdownload.cse.ucsc.edu/goldenpath/hg19/phyloP46way/ > > > > Could you please confirm the version of chromosome M used when > calculating the phylop scores? Was it the new RCRS CHRM version? or > was it the old chrM? > > Thank you, Laura _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
