Minimal overlapping F and R 16s reads

[jvkuehl]

Hello -- I would very much like to be able to use your program to assemble 16s reads with minimal (~50-100bp) overlap, F and R reads each ~800, yielding a final contig of 1500bp. Using the defaults parameters, the assemble settings seem to force a full overlap for the length of both reads. I explored the documentation, but it is not clear to me if adjusting the parameters setting in the 'SangerAlignment' tool will allow for the minimal true overlap of my reads. For example, the 'minReadsNum' option looked promising, but the minimum is 2 reads. Any input or advice is appreciated.