Table 1 Observed variations within the four SARS-CoV-2 isolates reported in this study
Genomic position: Variation | Variation Type | Associated genomic region | Protein: amino acid change | Frequency in the four isolates used in this study | Frequency in the other Bangladeshi isolates | Frequency in the isolates from rest of the world |
|---|---|---|---|---|---|---|
1: ATTAAAGGTTTA>- | Intergenic variant | 5′UTR | – | 1 | – | – |
1: ATTAAAGGTTTATA>- | Intergenic variant | 5′UTR | – | 1 | – | – |
2: T>TA | Intergenic variant | 5′UTR | – | 1 | 0 | 0 |
2: T>TTTCAAAGATCAAGTCA | Intergenic variant | 5′UTR | – | 1 | 0 | 0 |
4: A>T | Intergenic variant | 5′UTR | – | 1 | 0 | 58 |
7: G>C | Intergenic variant | 5′UTR | – | 1 | 0 | 16 |
9: T>TTTTCGC | Intergenic variant | 5′UTR | – | 1 | 0 | 0 |
12: A>T | Intergenic variant | 5′UTR | – | 1 | 0 | 22 |
13: T>C | Intergenic variant | 5′UTR | – | 1 | 0 | 36 |
280: C>T | Synonymous variant | orf1ab | 5Â V | 1 | 0 | 5 |
601: C>T | Synonymous variant | orf1ab | 112G | 1 | 1 | 6 |
8782: C>T | Synonymous variant | orf1ab | 2839S | 4 | 1 | 3012 |
10,323: A>G | Missense variant | orf1ab | 3353Â K>R | 1 | 5 | 154 |
10,329: A>G | Missense variant | orf1ab | 3355D>G | 3 | 1 | 1 |
10,870: G>T | Synonymous variant | orf1ab | 3535L | 1 | 0 | 27 |
12,119: C>T | Missense variant | orf1ab | 3952P>S | 1 | 0 | 8 |
15,324: C>T | Synonymous variant | orf1ab | 5020Â N | 3 | 5 | 818 |
19,414: G>A | Missense variant | orf1ab | 6384Â V>I | 1 | 0 | 0 |
22,468: G>T | Synonymous variant | S | 302Â T | 4 | 1 | 99 |
23,320: C>T | Synonymous variant | S | 586D | 1 | 0 | 2 |
25,505: A>T | Missense variant | ORF3a | 38Q>L | 1 | 0 | 2 |
28,087: C>T | Missense variant | ORF8 | 65A>V | 1 | 0 | 23 |
28,144: T>C | Missense variant | ORF8 | 84L>S | 4 | 1 | 3050 |
28,878: G>A | Missense variant | N | 202S>N | 4 | 1 | 253 |
29,392: G>T | Missense variant | N | 373Â K>N | 2 | 2 | 6 |
29,742: G>A | Downstream gene variant | 3′UTR | – | 4 | 1 | 21 |
29,856: T>A | Intergenic variant | 3′UTR | – | 1 | 0 | 6 |
29,858: T>A | Intergenic variant | 3′UTR | – | 1 | 0 | 5 |
29,864: GAATGACAAAAAAAAAAAAAAAAAAAAA>G | Intergenic variant | 3′UTR | – | 1 | 0 | 0 |
29,864: GAATGACAAAAAAAAAAAAAAAAAAAAAAA>T | Intergenic variant | 3′UTR | – | 1 | 0 | 0 |
29,870: CAAAAAAAAAAAAAAAAAAAAAAAAAAA>C | Intergenic variant | 3′UTR | – | 1 | 1 | – |
29,870: C>G | Intergenic variant | 3′UTR | – | 1 | 0 | 3 |
29,872: A>T | Intergenic variant | 3′UTR | – | 1 | 0 | 12 |
29,873: A>C | Intergenic variant | 3′UTR | – | 1 | 0 | 3 |
29,874: A>G | Intergenic variant | 3′UTR | – | 1 | 0 | 12 |
29,875: A>G | Intergenic variant | 3′UTR | – | 1 | 1 | 5 |
29,878: A>T | Intergenic variant | 3′UTR | – | 1 | 0 | 3 |
29,880: A>G | Intergenic variant | 3′UTR | – | 1 | 2 | 5 |
29,882: A>G | Intergenic variant | 3′UTR | – | 1 | 0 | 13 |
29,883: A>T | Intergenic variant | 3′UTR | – | 1 | 0 | 8 |
29,884: A>C | Intergenic variant | 3′UTR | – | 1 | 0 | 10 |
29,885: A>G | Intergenic variant | 3′UTR | – | 1 | 1 | 11 |
29,886: A>T | Intergenic variant | 3′UTR | – | 1 | 1 | 5 |
29,887: A>G | Intergenic variant | 3′UTR | – | 1 | 0 | 11 |
29,888: A>T | Intergenic variant | 3′UTR | – | 1 | 1 | 4 |
29,890: A>G | Intergenic variant | 3′UTR | – | 1 | 1 | 6 |
29,891: A>G | Intergenic variant | 3′UTR | – | 1 | 0 | 15 |
29,892: A>G | Intergenic variant | 3′UTR | – | 1 | 0 | 13 |
29,893: A>G | Intergenic variant | 3′UTR | – | 1 | 0 | 15 |
29,895: A>T | Intergenic variant | 3′UTR | – | 2 | 0 | 6 |
29,896: A>G | Intergenic variant | 3′UTR | – | 1 | 0 | 7 |
29,896: A>C | Intergenic variant | 3′UTR | – | 1 | 0 | 3 |
29,897: A>G | Intergenic variant | 3′UTR | – | 2 | 0 | 4 |
29,898: A>G | Intergenic variant | 3′UTR | – | 2 | 0 | 6 |
29,898: A>T | Intergenic variant | 3′UTR | – | 1 | 0 | 5 |
29,900: A>G | Intergenic variant | 3′UTR | – | 1 | 0 | 10 |
29,901: AAA>A | Intergenic variant | 3′UTR | – | 1 | 0 | – |
29,901: A>G | Intergenic variant | 3′UTR | – | 2 | 0 | 5 |
29,903: A>GCCGTCGT | Intergenic variant | 3′UTR | – | 1 | 0 | – |
29,903: A>GCGTCGTGT | Intergenic variant | 3′UTR | – | 1 | 0 | – |