Table 2. The genome-wide SNPs of four SARS-CoV-2 virus samples from Yogyakarta and Central Java (positions referred to the reference sequence: NC_045512.2).
| No | Virus ID | 5′ UTR | NSP3-ORF1ab | NSP5-ORF1ab | NSP12-ORF1ab | NSP13-ORF1ab | NSP14-ORF1ab | Spike-S | NS3-ORF3a | Matrix-M | NS7a-ORF7a | NP-N | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 26 | 241 | 3037 | 3529 | 4754 | 5184 | 10201 | 10507 | 14055 | 14292 | 14408 | 14694 | 15406 | 17964 | 18744 | 18877 | 23403 | 25553 | 25563 | 25687 | 26735 | 26867 | 27610 | 28735 | 28752 | ||
| 1 | hCoV-19/Wuhan/Hu-1/2019 (NC_045512.2) | A | C | C | T | C | C | G | C | G | C | C | C | G | G | C | C | A | C | G | G | C | A | C | T | A |
| 2 | hCoV19/Indonesia/YO-UGM-781481/2020 (EPI_ISL_516829) | A | T | T | C | T | C | G | C | G | T | T | T | T | T | C | T | G | T | T | T | T | A | C | C | G |
| 3 | hCoV19/Indonesia/YO-UGM-202449/2020 (EPI_ISL_516800) | A | T | T | T | C | T | G | T | G | C | T | C | G | G | T | T | G | C | T | G | T | G | C | T | A |
| 4 | hCov19/Indonesia/JT-UGM-202538/2020 (EPI_ISL_525492) | G | T | T | T | C | T | G | T | T | C | T | C | G | G | T | T | G | C | T | G | T | G | T | T | A |
| 5 | hCoV19/Indonesia/YO-UGM-200927/2020 (EPI_ISL_516806) | A | C | C | T | C | C | T | C | G | C | C | C | G | G | C | C | A | C | G | G | C | A | C | T | A |
Notes:
Name of SARS-CoV-2 proteins (bold) are followed by related genes (italic) and nucleotide variations are colour-shaded.
SNPs are shown according to nucleotide positions starting from 5′-UTR (untranslated region) of SARS-CoV-2 genome.