Table 1.
Summary of clinical samples used for whole-genome sequencing and analysis.
| S. No. | Sample nomenclaturea | Collection year | Number of reads | Assembly coverage | Accession number |
|---|---|---|---|---|---|
| 1. | IND/2010/MUM/02 | 2010 | 24,157,872 | 4,104.28X | MW581870 |
| 2. | IND/2010/MUM/40 | 2010 | 26,684,617 | 992.48X | MW581884 |
| 3. | IND/2010/DEL/01 | 2010 | 39,784,164 | 890.20X | MH124570 |
| 4. | IND/2010/DEL/03 | 2010 | 37,069,923 | 52.09X | MH124571 |
| 5. | IND/2010/DEL/04 | 2010 | 35,792,022 | 84.19X | Omitted from analysis |
| 6. | IND/2010/DEL/05 | 2010 | 39,497,274 | 78.40X | MH124572 |
| 7. | IND/2010/DEL/06 | 2010 | 46,996,466 | 28.46X | MH124573 |
| 8. | IND/2010/DEL/07 | 2010 | 33,558,891 | 4.29X | MW581865 |
| 9. | IND/2010/DEL/10 | 2010 | 29,227,869 | 8.66X | MH124574 |
| 10 | IND/2010/DEL/11 | 2010 | 37,350,131 | 372.40X | MH124578 |
| 11. | IND/2010/DEL/12 | 2010 | 32,601,265 | 40.92X | MH124579 |
| 12. | IND/2010/DEL/13 | 2010 | 28,341,978 | 24.13X | MH124575 |
| 13. | IND/2010/DEL/14 | 2010 | 25,845,213 | 15.13X | MH124576 |
| 14. | IND/2010/DEL/20 | 2010 | 22,916,619 | 10.16X | MH124577 |
| 15. | IND/2010/DEL/48 | 2010 | 80,522,715 | 5.73X | MW581866 |
| 16. | IND/2010/DEL/88 | 2010 | 40,664,171 | 10.98X | MW581863 |
| 17. | IND/2010/DEL/108 | 2010 | 41,490,431 | 2,746.96X | MW581868 |
| 18. | IND/2011/MUM/02 | 2011 | 28,163,124 | 8,201.95X | MW581871 |
| 19. | IND/2011/MUM/320 | 2011 | 26,636,982 | 6,571.79X | MW581885 |
| 20. | IND/2011/DEL/01 | 2011 | 34,284,491 | 29.23X | MW581864 |
| 21. | IND/2011/DEL/11 | 2011 | 89,587,490 | 5,720.75X | MW581872 |
| 22. | IND/2011/DEL/12 | 2011 | 77,059,273 | 41.74X | Omitted from analysis |
| 23. | IND/2012/DEL/01 | 2012 | 28,364,398 | 5.30X | Under process |
| 24. | IND/2012/DEL/02 | 2012 | 33,493,890 | 0.13X | Omitted from analysis |
| 25. | IND/2012/DEL/08 | 2012 | 27,465,973 | 14.41X | MW581873 |
| 26. | IND/2012/DEL/09 | 2012 | 30,563,321 | 52.49X | MW581874 |
| 27. | IND/2012/DEL/15 | 2012 | 32,245,250 | 20.19X | MW581881 |
| 28. | IND/2012/MUM/32 | 2012 | 23,947,739 | 6,869.40X | MW581883 |
| 29. | IND/2012/MUM/33 | 2012 | 24,457,761 | 3,690.93X | Under process |
| 30. | IND/2012/MUM/39 | 2012 | 17,792,875 | 7,709.12X | MW581876 |
| 31. | IND/2012/MUM/48 | 2012 | 31,808,240 | 1,667.08X | MW581867 |
| 32. | IND/2012/MUM/53 | 2012 | 30,679,791 | 4978.09X | MW581875 |
| 33. | IND/2012/MUM/54 | 2012 | 22,469,392 | 16.74X | Under process |
| 34. | IND/2013/DEL/59 | 2013 | 67,863,917 | 135.60X | MW581862 |
| 35. | IND/2013/MUM/103 | 2013 | 27,068,500 | 5,762.31X | MW581880 |
| 36. | IND/2013/MUM/133 | 2013 | 30,149,059 | 5,377.81X | MW581882 |
| 37. | IND/2013/MUM/135 | 2013 | 36,773,329 | 4,729.80X | MW581869 |
| 38. | IND/2013/MUM/136 | 2013 | 25,455,983 | 5,524.58X | MW581878 |
| 39. | IND/2013/MUM/174 | 2013 | 25,069,560 | 4,599.55X | MW581877 |
| 40. | IND/2016/DEL/01 | 2016 | 41,946,797 | 44.89X | MH124580 |
| 41. | IND/2016/DEL/02 | 2016 | 35,696,953 | 17.48X | MH124581 |
| 42. | IND/2016/DEL/03 | 2016 | 40,181,704 | 48.10X | MH124582 |
| 43. | IND/2016/DEL/04 | 2016 | 34,345,555 | 0.34X | Omitted from analysis |
| 44. | IND/2016/DEL/05 | 2016 | 34,470,436 | 1.26X | Omitted from analysis |
| 45. | IND/2016/DEL/06 | 2016 | 42,592,594 | 0.70X | Omitted from analysis |
| 46. | IND/2016/DEL/07 | 2016 | 40,524,008 | 1.77X | Omitted from analysis |
| 47. | IND/2016/DEL/08 | 2016 | 33,072,469 | 0.08X | Omitted from analysis |
| 48. | IND/2016/DEL/09 | 2016 | 40,603,013 | 3.19X | Omitted from analysis |
| 49. | IND/2016/DEL/10 | 2016 | 35,368,129 | 1.97X | Omitted from analysis |
| 50. | IND/2016/DEL/11 | 2016 | 28,328,222 | 8.31X | MH124583 |
a
Nomenclature of sample ID: IND refers to the country of the sample, i.e. India. The four-digit number after slash refers to the year of collection. DEL and MUM refer to the regions of collection, i.e. MUM is Mumbai and DEL is Delhi. The two-digit number after slash refers to the sample number in the order of collection for that specific year and location.