Hi netters, I was wondering if there's way to show the mapping of RNAs to the genome as multiple alignments in a custom track. After large-scale sequencing, people always map tons of sequenced RNAs to the genome. Because lots of sequence variants can be mapped to the same genomic region, you actually get a lot of multiple alignments in segments of the genome. It's easy to show the mapping coordinates , but I don't see a way to actually show the alignments.
I noticed that UCSC has a MAF format by which you can show multiple genome alignment in a custom track. But my RNA mapping alignments are different in that RNAs are not coming from other genomes, and different blocks may have different number of aligned sequences. Is there some way to show these kind of alignment in a custom track? Thanks a lot! Sincerely Yours: Zhihua Li _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
