Table 2.

Time required to use the phylotype-OTU heuristic when splitting sequences or distance matrices at various taxonomic depths for full-length, V13, and V35 16S rRNA gene sequences

RegionInputNo. of processorsWall time (min) for calculation of distance to levela:
PhylumClassOrderFamilyGenus
Full lengthDistances126.829.203.431.401.25
820.387.383.471.351.22
Sequences150.4316.485.971.721.13
817.384.501.770.730.80
V13Distances111.775.302.230.950.85
88.933.882.070.870.75
Sequences115.825.732.230.700.52
86.831.750.950.420.57
V35Distances124.725.372.521.431.20
819.654.782.251.281.12
Sequences124.435.301.800.600.52
813.352.200.800.430.57
  • a All times represent the wall time in minutes required for each analysis using the computer system described in Materials and Methods. Using 8 processors, the full-length, V13, and V35 unique sequences sets required 15.07, 4.50, and 2.67 min, respectively, to calculate the sparse distance matrix.