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Table 6 Effect of filter threshold on best match lineages for T. acidophilum

From: DarkHorse: a method for genome-wide prediction of horizontal gene transfer

 

Filter threshold setting

 

0%

2%

5%

10%

20%

40%

Picrophilus

604

658

760

852

919

976

Sulfolobus

106

104

81

76

50

40

Other Archaea

483

437

373

302

267

236

Bacteria

97

92

78

62

54

37

Eukaryotes

4

3

3

3

5

6

Total matches

1,294

1,294

1,295

1,295

1,295

1,295

  1. As in Table 1 for E. coli, a zero percent filter threshold setting retains only candidates with bit scores equal to the top non-self blast match. A setting of 100% retains all matches as candidates for subsequent LPI calculations. Some columns have slightly lower total numbers due to matches with uncultured organisms, which contain no lineage information but were not filtered out in this experiment.