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Table 4 Comparison of results of INDUS with other binning methods for Sargasso sea sample 1* metagenomic data set.

From: INDUS - a composition-based approach for rapid and accurate taxonomic classification of metagenomic sequences

Binning method Total number of sequences Time taken for analysis (minutes) Total number of sequences assigned Cumulative number of sequences assigned at different taxonomic levels
     Phylum Class Order
INDUS 10000 13 8167 5793 4416 3748
TACOA 10000 180 8870 3518 2739 2545
SOrt-ITEMS 10000 347 8528 8173 6921 5506
MEGAN 10000 321 8866 8417 7559 7461
SPHINX 10000 23 9116 5346 3702 2726
Taxonomic level Taxon name Percentage** of sequences assigned
   INDUS TACOA SOrt-ITEMS MEGAN SPHINX
Order Burkholderiales 22.79 16.75 25.6 28.63 20.31
  Alteromonadales 12.81 5.57 17.24 18.65 5.57
  Rickettsiales - - 5.58 12.78 -
  Prochlorales 1.88 - 3.01 2.94 -
  Enterobacteriales - 1.75 - - -
Class Betaproteobacteria 24.31 16.76 28.2 28.89 20.31
  Gammaproteobacteria 19.85 9.48 22.91 24.6 16.71
  Alphaproteobacteria - - 15.55 18.41 -
  Flavobacteria - - - 2.12 -
Phylum Proteobacteria 52.54 32.1 73.6 75.71 47.78
  Cyanobacteria 3.73 0.53 4.84 4.83 -
  Firmicutes 1.66 1.25 0.27 0.25 4.17
  Bacteroidetes - 0.01 1.97 2.19 -
  Tenericutes - 0.47 - - 1.51
  1. The cumulative percentage of sequences assigned by INDUS, TACOA, SOrt-ITEMS, MEGAN and SPHINX at order, class and phylum levels
  2. * Sample 1 refers to the subset of 10000 reads from the Sargasso sea data set [18] earlier analysed using MEGAN [2] and SOrt-ITEMS [4]
  3. ** Percentages shown are with respect to the total number of sequences (i.e 10000) in the Sample 1 data set. Only those taxa are shown for which at least one of the methods assigned a minimum of 1.5% of the sequences in the data set.