Hi colleagues,
I found a strange effect when sequencing several samples on Miseq. The reads from each sample contain about ~0.1% of reads from other samples run on the same flowcell. This does not seem to be caused by improper recognition of barcodes - we did demultiplexing without allowing mismatches, and the indices are very different one from another (e.g. TAGCTT and AGTTCC).
And this is certainly not contamination during library preparation - because I had one of the samples sequenced twice, with different "neighbors" and the contaminating reads were different.
Have you ever seen something like that? What can be done to minimize this?
I found a strange effect when sequencing several samples on Miseq. The reads from each sample contain about ~0.1% of reads from other samples run on the same flowcell. This does not seem to be caused by improper recognition of barcodes - we did demultiplexing without allowing mismatches, and the indices are very different one from another (e.g. TAGCTT and AGTTCC).
And this is certainly not contamination during library preparation - because I had one of the samples sequenced twice, with different "neighbors" and the contaminating reads were different.
Have you ever seen something like that? What can be done to minimize this?
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