Table 1. Average and standard deviation of computation time of each component of a GHOSTZ calculation with 1 CPU thread.

	CPU Time (sec.)	Ratio (%)
Distance calculation	1340.7 ± 45.7	3.2 ± 0.0
Ungapped Extension	18554.8 ± 695.8	44.3 ± 0.1
Gapped Extension	17191.5 ± 672.7	41.1 ± 0.2
Others	4772.6 ± 116.5	11.4 ± 0.3
Total	41859.6 ± 1499.1	100.0 ± 0.0

This profile was obtained from the calculation involving 1,000,000 short DNA reads in metagenomic sequences of a soil microbiome (accession number SRR407548, read length 150 bp) as queries and KEGG GENES (as of May 2013) as the database. The reads were randomly selected from dataset SRR407548. The profile was obtained on a workstation with a single CPU core of 2.93 GHz (Intel Xeon 5670 processor) and 54 GB of memory. GHOSTZ was compiled by means of GCC (version 4.3.4) with the -O3 optimization option. To obtain a profile, the functions of distance calculation, ungapped extension, and gapped extension were not in-lined. This experiment was repeated 5 times.