Table S2.
Alternative workflow | USR1 | USR2 |
Ion P1 Final ISPs (–min-read-length 30) | 55,460,151 | 54,469,446 |
Ion P1 Total Bases (–min-read-length 30) | 6.5 G | 6.6 G |
post-cutadapt Quality, Barcode, and Adapter Filtering | 40,320,121 | 45,333,921 |
Mapped Reads to rCRS | 13,206,569 | 7,563,075 |
Mapped Reads of 30–120bp, MAPQ ≥ 70 | 5,895,852 | 3,668,765 |
Mapped Reads post-Picard Tools Mark Duplicates | 21,140 | 22,951 |
% relative to Final ISPs | 0.04% | 0.04% |