% of reads from amplicon A | SD1 | SD2 | ||||
---|---|---|---|---|---|---|
Trimming pipeline | MiSeq pipeline | Trimming pipeline | MiSeq pipeline | |||
First step of variant calling | Second step of variant calling | First step of variant calling | Second step of variant calling | |||
36.75 | 1 | 2 | 1 | 1 | 1 | 1 |
100 | 2 | 2 | 2 | 2 | 2 | 2 |
90 | 2 | 2 | 2 | 2 | 2 | 2 |
80 | 2 | 2 | 2 | 2 | 2 | 2 |
70 | 2 | 2 | 2 | 2 | 2 | 2 |
60 | 2 | 2 | 2 | 2 | 2 | 2 |
50 | 1 | 2 | 2 | 1 | 2 | 2 |
40 | 1 | 2 | 1 | 1 | 2 | 2 |
30 | 1 | 2 | 1 | 1 | 2 | 2 |
20 | 1 | 2 | 1 | 1 | 2 | 1 |
10 | 1 | 2 | 1 | 1 | 2 | 1 |
0 | 0 | 0 | 0 | 0 | 0 | 0 |