Table 1.
Processing steps | Root | Leaf | Flower | Seed | Total |
---|---|---|---|---|---|
Input | |||||
Unique reads | 6,755,739 | 6,901,052 | 8,538,019 | 5,798,159 | 22,829,317 |
Total reads | 23,852,494 | 24,059,282 | 23,741,532 | 25,494,472 | 97,147,780 |
After removing adaptors and poly-A/T/C/G/N | |||||
Unique reads | 5,787,223 | 5,802,483 | 7,347,504 | 4,856,499 | 19,207,362 |
Total reads | 20,618,934 | 20,514,477 | 20,496,815 | 22,312,078 | 83,942,304 |
After filtering out reads with low counts | |||||
Unique reads | 1,193,873 | 1,161,516 | 1,231,736 | 1,079,437 | 1,697,668 |
Total reads | 15,463,951 | 15,293,812 | 13,668,993 | 18,097,032 | 62,523,788 |
After removal of virus/chloroplast sequences (reads entered into the annotation pipeline) | |||||
Unique reads | 1,164,475 | 1,117,720 | 1,206,840 | 1,047,951 | 1,649,996 |
Total reads | 15,117,306 | 13,507,134 | 13,408,510 | 17,354,424 | 59,387,374 |