Hi Jake, The 15-way is the only alignment that we produced that included the 12 flies, so I believe the 15-way was used -- perhaps the non-fly lines were stripped from the MAF file (easy to do with grep -v) or just ignored. But Pouya et al. at Broad should be able to tell you more definitively.
Angie ----- "Jacob Biesinger" <[email protected]> wrote: > From: "Jacob Biesinger" <[email protected]> > To: [email protected], "Pouya Kheradpour" <[email protected]> > Sent: Friday, November 20, 2009 12:30:38 PM GMT -08:00 US/Canada Pacific > Subject: [Genome] 12 way alignment for Drosophila? > > Hi! > > In reading Reliable prediction of regulator targets using 12 Drosophila > genomes (Genome Research, 2007), the authors say that a 12-way alignment is > available for D. melanogaster. Yet all I've been able to find are the > 15-way (including red flour beetle, mosquito, and honey bee), and alignments > with 9 or fewer species. Is there really a 12-way alignment? Or did the > authors just use the 15-way? > > Thanks! > -- > Jake Biesinger > Graduate Student > UC Irvine > (949) 231-7587 > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
