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Table 1 Indels in the 12 subunits of RNA polymerase

From: Archaeal phylogeny based on proteins of the transcription and translation machineries: tackling the Methanopyrus kandleri paradox

 

Total number of indels

Number of specific indels

Percentage of specific indels

Aeropyrum pernix

38

4

10.53

Pyrobaculum aerophilum

33

5

15.15

Sulfolobus solfataricus

28

1

3.57

Sulfolobus tokodaii

30

3

10

Archaeoglobus fulgidus

17

2

11.76

Halobacterium sp.

23

2

13.04

Haloarcula marismortui

24

3

12.50

Methanocaldococcus jannaschii

24

7

29.17

Methanococcus maripaludis

22

6

27.27

Methanopyrus kandleri

57

27

47.37

Methanosarcinales

10

2

20

Methanothermobacter thermautotrophicus

17

2

11.76

Thermococcales

19

2

10.53

Thermoplasmatales

36

8

22.22

  1. For each species, regions containing insertions/deletions (indels) have been counted for the 12 RNA polymerase subunits (A', A", B, D, E', E", F, H, K, L, N, P), TFS, NusA and NusG. We use 'indel region' terms because if two species exhibit indels in the same region, even if they are different sizes, we count this region as a shared indel region. For each species, the number and percentage of specific regions containing indels (that is, the indel region is exclusive to that species and is not shared by any other species) are indicated. As they share exactly the same indels, the three Pyrococcus species, the three Methanosarcina species and the two Thermoplasma species plus Ferroplasma are grouped in Thermococcales, Methanosarcinales and Thermoplasmatales respectively. Consequently, the specific indels are those specific to the group.