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Table 2 Severity and genetic data associated with SARS-CoV-2 viruses collected from seventeen COVID-19 patients in Yogyakarta and Central Java provinces, Indonesia from June–September 2020

From: Molecular epidemiology of SARS-CoV-2 isolated from COVID-19 family clusters

Patient no. Sex Age (yo) COVID-19 severity CT value Virus name (GISAID Accession ID) Average coverage Collection date Lineage (GISAID clade) Spike mutations
1 Male 30 Mild 27.9 hCoV19/Indonesia/YO-UGM-200927/2020 (EPI_ISL_516806) 102x 16/05/2020 L -
2 Female 49 Asymptomatic 22.31 hCoV-19/Indonesia/YO-UGM-00061/2020 (EPI_ISL_575331) 4655x 16/06/2020 GH D614G
3 Male 77 Moderate 19.7 hCoV19/Indonesia/YO-UGM-202449/2020 (EPI_ISL_516800) 22088x 22/06/2020 GH D614G
4 Female 55 Moderate 24.7 hCov19/Indonesia/JT-UGM-202538/2020 (EPI_ISL_525492) 347x 26/06/2020 GH D614G
5 Male 28 Asymptomatic 21.05 hCoV-19/Indonesia/YO-UGM-107727/2020 (EPI_ISL_576145) 104x 30/07/2020 GR D614G
6 Female 83 Moderate 16.9 hCoV19/Indonesia/YO-UGM-781481/2020 (EPI_ISL_516829) 3748x 10/08/2020 GH D614G
7 Male 28 Critical 20 hCoV-19/Indonesia/YO-UGM-10002/2020 (EPI_ISL_576114)* 13x 13/08/2020 GH V213A, D614G
8 Male 58 Critical (Died) 23 hCoV-19/Indonesia/YO-UGM-10003/2020 (EPI_ISL_576115)* 505x 16/08/2020 GH V213A, D614G
9 Male 88 Critical (Died) 18.1 hCoV-19/Indonesia/YO-UGM-10001/2020 (EPI_ISL_576113)* 42888x 18/08/2020 GH V213A, D614G
10 Male 8 Moderate 19.5 hCoV-19/Indonesia/YO-UGM-10006/2020 (EPI_ISL_576130)** 26x 18/08/2020 GH L5F, D614G
11 Male 35 Mild 32 hCoV-19/Indonesia/YO-UGM-10004/2020 (EPI_ISL_576116)** 45x 20/08/2020 GH D614G
12 Female 33 Mild 22 hCoV-19/Indonesia/YO-UGM-10005/2020 (EPI_ISL_576128)** 106x 21/08/2020 GH L5F, D614G
13 Female 52 Asymptomatic 18 hCoV-19/Indonesia/YO-UGM-10007/2020 (EPI_ISL_632936) 2207x 22/08/2020 GH D614G, N811I
14 Male 48 Moderate 19.64 hCoV-19/Indonesia/JT-UGM-47964/2020 (EPI_ISL_610162) 6291x 31/08/2020 O W258R, D614G
15 Male 36 Mild 17.53 hCoV-19/Indonesia/JT-UGM-47906/2020 (EPI_ISL_576383) 653x 01/09/2020 GR D614G
16 Female 64 Moderate 19.44 hCoV-19/Indonesia/JT-UGM-48660/2020 (EPI_ISL_610161) 22x 01/09/2020 GH V213A, D614G
17 Male 41 Mild 21.24 hCoV-19/Indonesia/YO-UGM-48651/2020 (EPI_ISL_632937) 2867x 09/09/2020 GH V83L, D614G, Q677H
  1. Virus samples collected from family cluster-1 *) and from family cluster-2 **)
  2. CT, cycle threshold; Ref. sequence: hCoV-19/Wuhan/Hu-1/2019 (NC_045512.2)