Table 3 Summary of gene annotations for ten Manihot assemblies.
From: Chromosome-level genome assemblies of Thai cassava ecotypes (Manihot esculenta & Manihot glaziovii)
Hanatee | HighlandSmooth | HighlandRough | Rayong9 | Rayong72 | Rayong90 | Kasetsart50 | WildType | WhiteRoot | YellowRoot | |
|---|---|---|---|---|---|---|---|---|---|---|
Protein-coding genes | ||||||||||
Total gene number | 29,284 | 30,481 | 30,254 | 29,876 | 29,654 | 32,817 | 29,953 | 50,203 | 30,044 | 31,276 |
Total mRNA number | 30,286 | 30,481 | 30,254 | 30,634 | 30,902 | 32,817 | 30,796 | 51,770 | 30,044 | 31,276 |
Mean gene length (bp) | 4598 | 4511 | 4491 | 4590 | 4632 | 4511 | 4602 | 4648 | 4489 | 4491 |
Mean CDS length (bp) | 1327 | 1294 | 1297 | 1331 | 1329 | 1295 | 1311 | 1321 | 1289 | 1294 |
Mean exon number | 6.2 | 6.1 | 6.1 | 6.2 | 6.2 | 6.1 | 5.7 | 6.1 | 6.1 | 6.1 |
Mean intron number | 5.2 | 5.1 | 5.1 | 5.2 | 5.2 | 5.1 | 5.1 | 5.1 | 5.1 | 5.1 |
Complete protein BUSCOs (%) | 96.6 | 94.3 | 93.6 | 94.5 | 95.0 | 94.6 | 95.2 | 97.5 | 93.0 | 94.7 |
Single Omark HOGs (%) | 55.96 | 54.06 | 55.2 | 54.39 | 55.54 | 51.53 | 54.65 | 27.93 | 54.82 | 54.55 |
Duplicated Omark HOGs (%) | 39.85 | 41.86 | 41.14 | 41.67 | 40.39 | 45.11 | 42.41 | 70.38 | 40.71 | 42.09 |
Missing Omark HOGs (%) | 4.18 | 4.09 | 3.65 | 3.94 | 4.07 | 3.37 | 2.95 | 1.69 | 4.47 | 3.37 |
Consistent Omark HOGs (%) | 96.28 | 96.34 | 96.43 | 96.4 | 95.94 | 96.23 | 96.33 | 96.21 | 96.39 | 96.1 |
Inconsistent Omark HOGs (%) | 0.76 | 0.76 | 0.77 | 0.84 | 0.75 | 0.78 | 0.76 | 0.78 | 0.78 | 0.89 |
Likely Contamination Omark HOGs (%) | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
Unknown Omark HOGs (%) | 2.96 | 2.91 | 2.8 | 2.76 | 3.31 | 2.99 | 2.91 | 3.01 | 2.83 | 3.01 |
Mercator4 proteins annotated (%) | 96.37 | 96.31 | 96.52 | 96.04 | 96.22 | 96.33 | 95.87 | 96.02 | 96.44 | 96.09 |
Mercator4 proteins classified (%) | 63.57 | 62.33 | 62.61 | 62.91 | 62.98 | 62.18 | 62.66 | 63.02 | 62.5 | 62.19 |
Mercator4 BINs occupied (%) | 94.73 | 94.46 | 94.95 | 94.8 | 94.7 | 94.74 | 94.85 | 96.43 | 93.79 | 95.38 |
PSAURON score | 97.2 | 97.1 | 97.2 | 97.2 | 97.0 | 97.3 | 97.1 | 97.1 | 97.1 | 97.0 |
