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Each pool was sequenced separately using a next-generation sequencer and the read data were mapped onto the reference genome.
The sample pool was sequenced by Eurofins MWG on a GS Junior 454 Sequencer (Roche Diagnostics).
Each pool was sequenced on one flowcell lane on the HiSeq2000 sequencer (Illumina) in a 101 cycle paired end run.
Each pool was sequenced with 454 Titanium and GS FLX paired end chemistries, and assembled.
Each pool was sequenced and assembled to create contigs and scaffolds.
Each pool was sequenced individually for the Titanium single-end read data, but three pools were combined for the paired-end read data.
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PCR amplicons of the target sequences from both untransfected wild-type (WT) control cells and edited cells were then subcloned, and 15 single bacterial clones from each pool were sequenced (Fig. 1C).
cDNA amplicons were pooled separately for each gene, cloned and 13 – 28 clones per pool were sequenced.
The aptamer pools were then cloned, and twenty clones from each selection pool were sequenced (Table S3, Supporting Information).
Twenty-five randomly selected amplicons from the sample pool were sequenced to assess specificity and possible cross-reactivity to other pathogens.
The + and –TEX cDNA pool were sequenced on a Illumina HiSeq 2000 machine (read length: 100 bp).
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