Table 2 Summary of Illumina and PacBio output data quality and assembled sequences of libraries of neem
Sequencing Platform | Sample | Reads Number (M) | Clean Bases (G) | Q20 (%) | Q30 (%) | Total number of unigene | Total length of unigene (bp) | Mean length of unigene (bp) | N50 | GC (%) |
|---|---|---|---|---|---|---|---|---|---|---|
Ilumina HiSeq | Leaf | 41.14 | 6.17 | 96.95 | 92.30 | 50394 | 82508501 | 1380 | 2201 | 40.64 |
Flower | 41.35 | 6.20 | 97.29 | 93.06 | 62426 | 95564612 | 1530 | 2335 | 40.13 | |
Stem | 40.60 | 6.09 | 97.29 | 93.11 | 65762 | 98612970 | 1499 | 2372 | 40.39 | |
Fruit | 40.59 | 6.09 | 97.45 | 93.39 | 66668 | 81799852 | 1226 | 2077 | 41.93 | |
Root | 40.64 | 6.10 | 97.44 | 93.43 | 45459 | 57083335 | 1255 | 2100 | 41.10 | |
Hiseq summary | – | – | – | – | – | 113008 | 175268545 | 1550 | 2599 | 40.99 |
PacBio SMRT | Mixed tissue | 6.75 | 11.28 | – | – | 22884 | 82035635 | 3584 | 5068 | 43.55 |
Calibrated PacBio by Illumina |  | – | – | – | – | 20201 | 72872459 | 3607 | 5076 | 43.55 |