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Old 05-24-2017, 02:16 AM   #1
Junior Member
Location: Bristol

Join Date: May 2017
Posts: 2
Default Failed index reads with homegrown adapters


I'm hoping someone can help. I am trying to sequence amplicons on the MiSeq with adapters and barcodes we have designed in the lab. The same sequences have been used successfully with other targets. My sequences are ending up in undetermined reads due to an index failure but the read 1 and 2 sequences look fine. I have been pooling one or two of my libraries with Illumina kit-generated libraries on the run and the other libraries have worked. I have also Sanger sequenced the amplicons to check that the barcodes are correct.

Any suggestions?!

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