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Table 1 Parsimony scores on the clustering of the three mammalian groups (hindgut-fermenting herbivores, foregut-fermenting herbivores and simple-gut) obtained by sequence signature methods using different dissimilarity measures based on the metagenomic data

From: Comparison of metagenomic samples using sequence signatures

k

2

3

4

5

6

7

8

9

10

d 2

7

5

5

5

5

5

6

6

5

d2S|M0

5

3

3

2

4

4

4

4

6

d2S|M1

9

4

3

4

4

4

4

5

7

d2S|M2

NA

4

3

5

4

4

4

4

6

d2S|M3

NA

NA

3

4

4

5

4

4

7

d2*|M0

7

7

6

4

5

4

4

6

7

d2*|M1

8

5

4

4

5

5

5

6

7

d2*|M2

NA

4

5

5

5

5

6

6

7

d2*|M3

NA

NA

4

4

5

5

5

5

6

Ma

7

5

5

5

5

5

5

4

6

Eu

7

5

5

5

5

5

5

7

5

Ch

7

6

5

5

5

4

5

6

7

Hao

NA

5

4

4

6

6

8

9

11

Willner

11

10

8

      
  1. The “Mi” indicates that the expected counts are calculated based on i-th order Markov model for the background sequences. Monte Carlo p-values were estimated by comparing observed parsimony score to the scores in 1000 randomly-joined trees: parsimony score = 2--7, p < 0.001; score = 8, p = 0.002. Boldfaced are the two lowest parsimony scores.