Estimating the extent of horizontal gene transfer in metagenomic sequences

BMC Genomics

Table 1 Benchmarking of the taxonomic assignment method for 1000 random sequences taken from complete genomes.

Tax rank	ORFs	Predictions	Same	Different	Contigs	Predictions	Same	Different
class	3264	2281	2271	10	996	694	692	2
order	3264	2099	2072	27	996	638	629	9
family	3264	1833	1791	42	996	553	539	14

Assignments were done at three different taxonomic depths (class, order and family). The table shows the number of predictions carried out, and how many of these match the original taxon, both for ORFs and contigs. The homology searches for four contigs did not provide any hits and were, therefore, not considered

ISSN: 1471-2164