Hello Peter, We do not have the mitochondrial sequences for low coverage genomes in an assembled, checked, and annotated location. However, you might find our test server useful:
http://genome-test.cse.ucsc.edu/cgi-bin/hgGateway?org=Mouse+lemur&db=micMur1 We have rudimentary browsers there for many of the low coverage genomes. Be aware, however, that there are a lot of errors, inconsistencies, and experimental data on the test server. Data on our test server has not necessarily been through our quality assurance process. I can confirm that the mouse lemur sequence on our test browser came from Broad. Specifically: ftp://ftp.broad.mit.edu/pub/assemblies/mammals/mouseLemur/ I hope this is helpful. If you have further questions, please feel free to contact us again at [email protected]. -- Brooke Rhead UCSC Genome Bioinformatics Group On 11/22/10 13:47, Waddell, Peter J wrote: > Hello, > > I have been looking for the mitochondrial genomes matching some of > the low coverage mammalian genomes in the 44 species collection. For example, the dwarf lemur micmur1 genome. The only place I can find any hint of it are alignments in the mitochondrial maf blocks of 44 species. They seem to indicate matches to micmur1.scaffold_11645, but I was unable to locate that scaffold. > > The mitochondria should have very high coverage in all these genomes trace archives. Is there somewhere these might be assembled, checked, and annotated? > Thanks, > > Peter. > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
