Hi,
My assembly resulted in a single contig, which is linear. How do I check where is the complimentary sequences on the ends so that I could circularize the plasmid? Is there a tool that can do that easily?
The thing is I have ran several assemblies and got several one-contigs, but they differ slightly in size, so I expect the difference to be in tails. I have aligned the contigs in Mauve and see that 95% of contigs overlap, but I still cannot figure out where to trim the tails so that I could circularize the plasmid.
I would appreciate any help and pointers.
Thanks!
My assembly resulted in a single contig, which is linear. How do I check where is the complimentary sequences on the ends so that I could circularize the plasmid? Is there a tool that can do that easily?
The thing is I have ran several assemblies and got several one-contigs, but they differ slightly in size, so I expect the difference to be in tails. I have aligned the contigs in Mauve and see that 95% of contigs overlap, but I still cannot figure out where to trim the tails so that I could circularize the plasmid.
I would appreciate any help and pointers.
Thanks!
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