Table 2.
Gene annotation statistics from MAKER2 and CAZymes for Phytophthora betacei P8084 and P. infestans assemblies
| Assembly | P. betacei P8084 | P. infestans RC1-10 | P. infestans T30-4 |
|---|---|---|---|
| MAKER 2 annotation | |||
| Total genes | 23 457 | 15 893 | 17 475 |
| Genes annotated via InterPro, GO, Pfam, and SUPERFAMILY terms. | 13 659 | 8771 | 9545 |
| Genes annotated uniquely via BLAST against UniRef90 | 1270 | 909 | 961 |
| Genes matching uncharacterized proteins in UniRef90 | 8001 | 5789 | 6553 |
| Genes without assigned functional annotation | 527 | 424 | 416 |
| Cummulative gene coverage (bp) | 34 360 829 | 22 155 935 | 25 324 938 |
| Percentage of the genome covered by genes | 12.68 % | 10.89 % | 11.08 % |
| Proteins with CAZymes functional annotation | |||
| Glycoside Hydrolase Family | 327 | 220 | 217 |
| Glycosyltransferase Family | 187 | 115 | 124 |
| Polysaccharide Lyase Family | 54 | 30 | 36 |
| Carbohydrate Esterases | 67 | 38 | 32 |
| Carbohydrate-Binding Module Family | 77 | 41 | 51 |
| Auxiliary Activities | 48 | 34 | 32 |
Genes without assigned functional annotation: Those without matches to either Uniref90 or InterPro databases. Genes annotated via InterPro, GO, Pfam, and SUPERFAMILY terms: Counted as the number of gene elements in the GFF file with entries in the Dbxref field. Genes annotated uniquely via BLAST against UniRef90: Genes with functional terms derived from BLAST matches but without domain-related information from InterPro. Genes matching uncharacterized proteins in UniRef90: Genes with BLAST match to proteins labeled as uncharacterized that do not have associated functional domains. Cummulative gene coverage (bp): Cummulative number of bases from gene elements in the GFF file
[This table should appear in the same page than the Results section named Gene prediction and functional annotation]