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==Discussion== So index34 (~130bp product) and index 36 (~100bp) product have similar content. For both, the R1 reads contain (~80% and ~70% respectively) the Illumina P7 and LinkerL regions, which are both part of the AmpR6.3 sequencing primer. The R2 reads contain (~50%) the Illumina P5 and LinkerR, which are the components of AmpF6.4Sol. This means that a good number of the reads are probably AmpF6.4 and AmpR6.3 dimers. I think the difference might be between primer dimers and off-target binding to primer 2. [[Image:Miseq20160912-BlastCountsHistogram.png|800px]] [[Category:ComboLock]] [[Category:20160829]]
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