Figure 3. Amplicon sequencing combining the xGen SARS-CoV-2 Midnight Amplicon Panel and the xGen Lotus DNA Library Prep provided >99.5% coverage at >5X of the SARS-CoV-2 genome for Ct values <32. Data was generated from two replicates per Ct value with the mean values shown here. Inactivated SARS-CoV-2 viral material in a negative background matrix of a negative nasopharyngeal (NP) swab was collected from healthy donors with three different Ct values and tested: 29.3, 31.4, and 33.2. Libraries were generated in duplicate following the xGen DNA Library Prep Kit recommendations. The resulting libraries was sequenced with MiSeqTM 300 cycle kit (2x151 reads) (Illumina). For Ct 29.3, there were on average 1,714,799 total reads, and 1,710,462 reads that mapped to the human or viral genome reference sequence (99.7%). For Ct 31.4, there were on average 1,105,540 total reads and 1,102,467 reads that mapped to the human or viral genome (99.7%). For Ct value of 33.2, there were on average 1,033,016 total reads and 1,028,369 reads that mapped to the human or viral genome (99.6%). The percentage of reads greater than 5X, 15X, and 30X are shown for each of the libraries. For Ct values less than 32, high coverage of the SARS-CoV-2 genome is evident.