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Essential information is encoded in the virus genome sequence with accurate and complete SARS-CoV-2 sequences essential for tracking the movement and evolution of the virus and for guiding efforts to develop vaccines and antiviral drugs. While there is unprecedented SARS-CoV-2 sequencing efforts globally, approximately 19 to 43 per cent of the genomes generated monthly are gapped, reducing their information content. The current study documents the genome gap frequencies and their positions in the currently available data and provides an alternative primer set and a sequencing scheme to help improve the quality and coverage of the genomes.<\/jats:p>","DOI":"10.1093\/ve\/veab006","type":"journal-article","created":{"date-parts":[[2021,1,28]],"date-time":"2021-01-28T12:53:12Z","timestamp":1611838392000},"source":"Crossref","is-referenced-by-count":26,"title":["Alternate primers for whole-genome SARS-CoV-2 sequencing"],"prefix":"10.1093","volume":"7","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3361-3351","authenticated-orcid":false,"given":"Matthew","family":"Cotten","sequence":"first","affiliation":[{"name":"MRC\/UVRI & London School of Hygiene and Tropical Medicine, 51-59 Nakiwoggo Road, Entebbe, Uganda"},{"name":"UK Medical Research Council\u2013University of Glasgow Centre for Virus Research, Glasgow, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dan","family":"Lule Bugembe","sequence":"additional","affiliation":[{"name":"MRC\/UVRI & London School of Hygiene and Tropical Medicine, 51-59 Nakiwoggo Road, Entebbe, Uganda"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pontiano","family":"Kaleebu","sequence":"additional","affiliation":[{"name":"MRC\/UVRI & London School of Hygiene and Tropical Medicine, 51-59 Nakiwoggo Road, Entebbe, Uganda"},{"name":"Uganda Virus Research Institute, Entebbe, Uganda"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6905-8513","authenticated-orcid":false,"given":"My","family":"V.T. 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