Automatic annotation of eukaryotic genes, pseudogenes and promoters

Table 2 Exact prediction of all CDS in a gene

	All genes	mRNA supported	Protein supported	Ab initio
No. of nucleotides predicted (%)	787,505 (100%)	274,889 (34.91%)	417,202 (52.98%)	104,003 (13.21%)
No. of transcripts predicted (%)	820 (100%)	314 (38.29%)	298 (36.34%)	208 (25.37%)
No. of SoftBerry transcripts identical to HAVANA transcripts (%)*	346 of 820 (42%)	191 of 314 (61%)	154 of 298 (52%)	1 of 208 (0.48%)

*Transcripts identical means that their CDS parts (including protein coding exons and coding parts of 5' and 3' exons) are identical; the percentage of SoftBerry transcripts is relative to the number of Softberry transcripts predicted in the corresponding category: mRNA supported, protein supported or ab initio.

ISSN: 1474-760X