Table 2 Statistical summary of protein-coding gene prediction in the Clarias fuscus genome
Method | Software | Gene Number | Average gene length(bp) | Average CDS length(bp) | Average exon num per gene | Average exon length(bp) | Average intron length(bp) |
|---|---|---|---|---|---|---|---|
De novo | AUGUSTUS | 25,743 | 15,772.79 | 1,358.48 | 7.45 | 182.24 | 2,233.27 |
Genscan | 28,141 | 22,919.11 | 1,415.87 | 7.6 | 186.33 | 3,258.74 | |
Homolog | C.magur | 53,835 | 8,570.34 | 829.55 | 4.47 | 185.52 | 2,229.84 |
P.hypophthalmus | 38,935 | 11,969.30 | 1,086.77 | 6.13 | 177.27 | 2,121.17 | |
 S.meridionalis | 47,573 | 12,630.62 | 996.49 | 5.32 | 187.29 | 2,692.70 | |
P.fulvidraco | 45,884 | 11,990.36 | 1,029.57 | 5.39 | 190.9 | 2,494.95 | |
I.punctatus | 42,103 | 12,146.44 | 1,074.25 | 5.77 | 186.03 | 2,318.95 | |
RNA-seq | - | 14,265 | 17,907.57 | 1,443.98 | 9.26 | 310.59 | 1,819.36 |
Integration | MAKER | 23,611 | 18,444.91 | 1,601.94 | 9.43 | 210.99 | 1,951.79 |
PASA | 23,345 | 19,425.94 | 1,601.47 | 9.44 | 248.83 | 2,024.33 |