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Table 5 Number of Genes Predicted By Each Method

From: Prodigal: prokaryotic gene recognition and translation initiation site identification

Organism Genbank EasyGene 1.2 Prodigal 1.20 GenemarkHMM 2.6 Glimmer 3.02 MED 2.0
Escherichia coli K12 4321 (1.00) 4099 (0.95) 4305 (1.00) 4378 (1.01) 4476 (1.04) 4811 (1.11)
Halobacterium salinarum 2110 (1.00) 2097 (0.99) 2101 (1.00) 2085 (0.99) 2141 (1.01) 2385 (1.13)
Natronomonas pharaonis 2661 (1.00) 2587 (0.97) 2678 (1.01) 2685 (1.01) 2720 (1.02) 3111 (1.17)
Bacillus subtilis 4177 (1.00) 4019 (0.96) 4224 (1.01) 4354 (1.04) 4429 (1.06) 4601 (1.10)
Aeropyrum pernix 1700 (1.00) 1686 (0.99) 1717 (1.01) 1738 (1.02) 1789 (1.05) 2419 (1.42)
Synechocystis PCC6803 3172 (1.00) 3089 (0.97) 3306 (1.04) 3462 (1.09) 3677 (1.16) 3778 (1.19)
Pseudomonas aeruginosa 5566 (1.00) 5910 (1.06) 5679 (1.02) 5712 (1.03) 5878 (1.06) 6709 (1.21)
  1. Table 5 shows the number of genes predicted by each method on seven Genbank files. The Genbank column indicates the number of genes in the Genbank file. The number in parentheses indicates the number of predicted genes divided by the number of genes in the Genbank file, e.g. 1.10 indicates 10% more genes predicted than the Genbank file.