Table 1 Sensitivity of calling simulated variants for different values of u
From: Edge effects in calling variants from targeted amplicon sequencing
u(minimum distance of the Uracil base from 3’ end of primer) | Median value of d(actual distance of the Uracil base from the 3’ end of the primer) | No. of simulated variants | Recovered variants | % of variants recovered | No. of false-negatives |
|---|---|---|---|---|---|
1 | 2 | 15,871 | 13,041 | 82.17 | 2,830 |
2 | 3 | 15,871 | 15,474 | 97.50 | 397 |
3 | 5 | 15,871 | 15,834 | 99.77 | 37 |
4 | 6 | 15,871 | 15,858 | 99.92 | 13 |
5 | 7 | 15,871 | 15,866 | 99.97 | 5 |
6 | 8 | 15,871 | 15,869 | 99.99 | 2 |
7 | 9 | 15,871 | 15,870 | 99.99 | 1 |
8 | 10 | 15,871 | 15,871 | 100.00 | 0 |