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Old 03-14-2016, 06:48 AM   #1
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Location: Sweden

Join Date: Feb 2016
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Default Cluster complete plasmid sequences

Hey all,
I have complete nucleotide sequences for 119 plasmids, with sizes ranging from 500 to 170000 base pairs. Is there a way to cluster those sequences such that I can sort out sequence redundancy? (for example, if a small sequence is covered to 100% in one of the bigger sequences, I want to recognize that in the cluster)

I have tried doing it in uclust, but I think it cannot manage the length of the sequences.
Can anyone recommend a good tool to do this?

Thank you!
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Old 03-14-2016, 06:59 AM   #2
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For reference cross-posted:
GenoMax is offline   Reply With Quote

alignment, clustering, plasmid

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