Table 2.
Non-synonymous mutations of SARS-CoV-2 from all the lineages showing the ORFs, amino acid mutation, reference codon, and the mutated codon
| Sl. No | ORF | Mutation | RefCodon | MutCodon |
|---|---|---|---|---|
| Non-Synonymous | ||||
| 1 | S | L5F | Ctt | Ttt |
| 2 | ORF1ab/nsp5A-B | L89F | Ctt | Ttt |
| 3 | ORF1ab/nsp6 | L37F | ttG | ttT |
| 4 | S | V1176F | Gtt | Ttt |
| 5 | ORF3a | G172V | gGt | gTt |
| 6 | ORF1ab/nsp14A2-B | N129D | Aat | Gat |
| 7 | N | P67S | Cct | Tct |
| 8 | S | P26S | Cct | Tct |
| 9 | ORF1ab/nsp13 | E341D | gaG | gaT |
| 10 | S | T1027I | aCt | aTt |
| 11 | ORF1ab/nsp2 | K81N | aaG | aaT |
| 12 | S | D138Y | Gat | Tat |
| 13 | S | H655Y | Cat | Tat |
| 14 | ORF1ab/nsp12 | F694Y | tTt | tAt |
| 15 | ORF1ab/nsp3 | S370L | tCa | tTa |
| 16 | ORF1ab/nsp6 | I162V | Att | Gtt |
| 17 | ORF1ab/nsp5A-B | K90R | aAg | aGg |
| 18 | ORF1ab/nsp6 | T77A | Act | Gct |
| 19 | ORF1ab/nsp14A2-B | A394V | gCt | gTt |
| 20 | ORF1ab/nsp4 | V167L | Gta | Tta |
| 21 | ORF1ab/nsp3 | P1228L | cCa | cTa |
| 22 | N | G215C | Ggt | Tgt |
| 23 | ORF1ab/nsp3 | A488S | Gct | Tct |
| 24 | ORF7b | T40I | aCt | aTt |
| 25 | ORF1ab/nsp3 | P1469S | Cct | Tct |
| 26 | S | G142D | gGt | gAt |
| 27 | N | R203K | aGG | aAA |
| 28 | N | G204R | Gga | Cga |
| 29 | S | N501Y | Aat | Tat |
| 30 | S | P681H | cCt | cAt |
| 31 | ORF1ab/nsp3 | T183I | aCt | aTt |
| 32 | S | T716I | aCa | aTa |
| 33 | S | A570D | gCt | gAt |
| 34 | S | D1118H | Gac | Cac |
| 35 | ORF1ab/nsp3 | A890D | gCt | gAt |
| 36 | ORF8 | Q27X | Caa | Taa |
| 37 | ORF8 | Y73C | tAc | tGc |
| 38 | N | S235F | tCt | tTt |
| 39 | ORF8 | R52I | aGa | aTa |
| 40 | S | S982A | Tca | Gca |
| 41 | N | D3L | GAT | CTA |
| 42 | ORF1ab/nsp3 | I1412T | aTa | aCa |
| 43 | S | T95I | aCt | aTt |
| 44 | ORF1ab/nsp3 | A1711V | gCt | gTt |
| 45 | ORF3a | Q57H | caG | caT |
| 46 | S | A222V | gCt | gTt |
| 47 | ORF8 | K68X | Aaa | Taa |
| 48 | ORF1ab/nsp2 | T85I | aCc | aTc |
| 49 | ORF1ab/nsp4 | A446V | gCt | gTt |
| 50 | ORF1ab/nsp3 | P822L | cCt | cTt |
| 51 | ORF1ab/nsp6 | V149A | gTt | gCt |
| 52 | ORF1ab/nsp13 | K460R | aAg | aGg |
| 53 | ORF1ab/nsp6 | T181I | aCt | aTt |
| 54 | S | E484K | Gaa | Aaa |
| 55 | S | L18F | Ctt | Ttt |
| 56 | ORF10 | V30L | Gta | Tta |
| 57 | N | A220V | gCt | gTt |
| 58 | ORF1ab/nsp13 | I334V | Ata | Gta |
| 59 | ORF1ab/nsp12 | P227L | cCa | cTa |
| 60 | N | P199L | cCa | cTa |
| 61 | ORF3a | E239Q | Gag | Cag |
| 62 | N | T205I | aCt | aTt |
| 63 | ORF1ab/nsp12 | F192V | Ttc | Gtc |
| 64 | ORF1ab/nsp12 | L838I | Cta | Ata |
| 65 | N | Q9L | cAg | cTg |
| 66 | ORF1ab/nsp3 | A1736V | gCa | gTa |
| 67 | ORF8 | S24L | tCa | tTa |
| 68 | S | D614G | gAt | gGt |
| 69 | ORF1ab/nsp12 | P323L | cCt | cTt |
| 70 | S | L452R | cTg | cGg |
| 71 | M | I82T | aTc | aCc |
| 72 | S | P681R | cCt | cGt |
| 73 | ORF3a | S26L | tCa | tTa |
| 74 | N | D377Y | Gat | Tat |
| 75 | ORF1ab/nsp13 | P77L | cCa | cTa |
| 76 | N | R203M | aGg | aTg |
| 77 | S | T19R | aCa | aGa |
| 78 | ORF1ab/nsp12 | G671S | Ggt | Agt |
| 79 | S | T478K | aCa | aAa |
| 80 | N | D63G | gAc | gGc |
| 81 | S | D950N | Gat | Aat |
| 82 | ORF7a | T120I | aCa | aTa |
| 83 | ORF7a | V82A | gTt | gCt |
| 84 | S | R158G | Aga | Gga |
| 85 | ORF1ab/nsp4 | T492I | aCc | aTc |
| 86 | ORF8 | E92K | Gaa | Aaa |
| 87 | ORF1ab/nsp16 | R216C | Cgc | Tgc |
| 88 | ORF1ab/nsp3 | K977Q | Aaa | Caa |
| 89 | ORF3a | S253P | Tcc | Ccc |
| 90 | N | P80R | cCa | cGa |
| 91 | S | T20N | aCc | aAc |
| 92 | S | K417T | aAg | aCg |
| 93 | S | R190S | agG | agT |
| 94 | N | S194L | tCa | tTa |
| 95 | ORF1ab/nsp2 | P129L | cCa | cTa |
| 96 | ORF1ab/nsp13 | H164Y | Cat | Tat |
| 97 | ORF1ab/nsp16 | K160R | aAg | aGg |
| 98 | ORF1ab/nsp2 | L550F | Ctc | Ttc |
| 99 | N | G204P | GGa | CCa |
| 100 | ORF1ab/nsp6 | C197F | tGc | tTc |
| 101 | ORF1ab/nsp13 | E261D | gaG | gaT |
| 102 | S | A701V | gCa | gTa |
| 103 | ORF7a | L116F | Ctc | Ttc |
| 104 | ORF3a | S171L | tCa | tTa |
| 105 | ORF8 | T11I | aCa | aTa |
| 106 | ORF7a | V71I | Gta | Ata |
| 107 | S | Y145H | Tac | Cac |
| 108 | ORF1ab/nsp2 | G339S | Ggt | Agt |
| 109 | ORF1ab/nsp3 | M1788I | atG | atA |
| 110 | ORF7a | P45L | cCa | cTa |
| 111 | ORF1ab/nsp8 | Q24R | cAg | cGg |
| 112 | ORF8 | L60F | ttG | ttT |
| 113 | ORF1ab/nsp3 | V932A | gTg | gCg |
| 114 | ORF1ab/nsp4 | L438P | cTt | cCt |
| 115 | ORF1ab/nsp13 | D260Y | Gat | Tat |
| 116 | ORF3a | W131C | tgG | tgT |
| 117 | ORF3a | P42L | cCt | cTt |
| 118 | S | S13I | aGt | aTt |
| 119 | S | V1264L | Gtg | Ttg |
| 120 | ORF1ab/nsp13 | A296S | Gct | Tct |
| 121 | S | W152C | tgG | tgT |
| 122 | ORF1ab/nsp14A2-B | P46L | cCt | cTt |
| 123 | S | W1214G | Tgg | Ggg |
| 124 | ORF1ab/nsp16 | Q238H | caG | caT |
| 125 | N | S327L | tCg | tTg |
| 126 | ORF1ab/nsp3 | H1307Y | Cat | Tat |
| 127 | N | M234I | atG | atT |
| 128 | ORF1ab/nsp4 | V94A | gTc | gCc |
| 129 | S | S477N | aGc | aAc |
| 130 | ORF1ab/nsp3 | M1441I | atG | atT |
| 131 | ORF1ab/nsp3 | D410G | gAt | gGt |