The ability of the SOP to sequence and identify unknown samples.

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The ability of the SOP to sequence and identify unknown samples. The ability of the SOP to sequence and identify unknown samples. (A) High-titer viral stocks were subjected to the SOP, anonymized, and shipped to JCVI for sequencing and data analysis. Samples were pooled and sequenced by Illumina MiSeq. Data from each corresponding sample were put into de novo assembly, and large contigs (>500 bp) were used to identify the best full-length viral genome references by nucleotide BLAST search against the NT database. Raw data were then mapped onto the best available reference genome. (B) Mapping coverage of an unknown sample against the selected genome for St. Louis encephalitis virus (SLEV). (C) Mapping coverage of an unknown sample against the selected genome for Western equine encephalitis virus (WEEV). (D) Mapping coverage of an unknown against the selected genome for Chikungunya virus (CHIKV). In panels B to D, nucleotide coverage depth is indicated on the y axis, and genomic position, with the length of each genome indicated as well as the best available reference genome, is indicated on the x axis. Lindsey A. Moser et al. mSystems 2016; doi:10.1128/mSystems.00039-15