title: Read pairs  of Monkeypox virus from clinical specimen URMC-2207A101 (human reads removed)
design: Lesion specimen positive for monkeypox virus nucleic acid using a laboratory-developed test based on the Center for Disease Control and Preventions Monkeypox virus and Non-variola Orthopoxvirus Generic Real-Time PCR tests. Genomic DNA was extracted from patient samples using the EZ1 DSP Virus Kit (Qiagen). DNA libraries (4 nM) were prepared with MiSeq Reagent Kit v3 (Illumina) and quantified with QuantiFluor One dsDNA system (Promega). Paired-end sequencing (2  75bp) was performed on an Illumina MiSeq instrument (Illumina). Isolate URMC_2207A101 was sequenced using a single flow cell while isolate URMC_2207A102 was multiplexed on a single flow cell. Raw reads were processed in Galxy on fastp and mapped to the human monkeypox virus genome MT903340.1 as a reference.