I have amplicon sequencing data for clones whose genome has been edited. On each alleles, there might be one or two indels. I would like report the sequences of the alleles and their frequency. I have some complexe cases where some clones are mixed clones. May I ask if there is an obvious tool to work out what are the amplicon sequences from a variant caller result or do I have to look at all the reads and work out which variants are combined in one sequence?