Wierd base calling on MiniSeq run
We recently ran some libraries on the MiniSeq (2 x 150 bp Mid Output kit) and got some weird traces for the %base graph (see image attached). The other metrics on SAV look pretty good.
We prepped libraries from 3 bacterial genomes (C. diff, E. coli and B. per - i.e. low to high GC content) in triplicate using the SureSelect QXT library prep kit.
We didn't perform the capture step of the protocol and amped on the indexes post-ligation.
The kit uses transposase-based fragmentation and requires unique sequencing primers, which we added to the MiniSeq reagent kit. We used both the Illumina primers and the QXT because we included a 1% phiX spike-in.
Has anyone seen similar results?
We prepped libraries from 3 bacterial genomes (C. diff, E. coli and B. per - i.e. low to high GC content) in triplicate using the SureSelect QXT library prep kit.
We didn't perform the capture step of the protocol and amped on the indexes post-ligation.
The kit uses transposase-based fragmentation and requires unique sequencing primers, which we added to the MiniSeq reagent kit. We used both the Illumina primers and the QXT because we included a 1% phiX spike-in.
Has anyone seen similar results?