Table 1.

Phylogenetic information statistics for individual ribosomal proteins and translation factors. The statistics were calculated from the multialignments generated as described in Materials and methods for the concatenation of the blocks within each protein common to all phylodomains considered. Five subsets of representative species were considered: AEB (Archaea, Eukarya, Bacteria), AE (Archaea, Eukarya), AB (Archaea, Bacteria), EC (Eukarya, Crenarchaea) and EY (Eukarya, Euryarchaea). For each subset, the table reports the percentage of informative (Inform.) and absolutely conserved (Abs. cons.) positions in the concatenated universal blocks (ccblk) of each protein separately. An informative position is defined as a position in the alignment where at least two different amino acids are observed, each in at least two different species. Phylogenetic tree reconstructions performed on each individual protein show resolution among the three phylodomains (B-A-E), resolution between the two archaeal divisions (C-Y) and clustering of the Eukarya with the Crenarachaea (E + C).

	Length	AEB (%)		AE (%)		AB (%)		EC (%)	EY (%)	Tree resolution
	ccblk	Inform.	Abs. cons.	Inform.	Abs. cons.	Inform.	Abs. cons.	Abs. cons.	Abs. cons.	B-A-E	C-Y	E + C
S2	197	93.9	3.0	85.3	7.1	87.3	5.1	10.7	8.6	yes	yes	no
S3	158	91.8	2.5	83.5	5.7	89.9	3.2	12.0	6.3	yes	yes	no
S4	104	95.2	1.9	78.8	11.5	91.3	5.8	19.2	17.3	yes	no	no
S5	149	90.6	6.0	79.9	12.8	85.9	6.7	22.1	13.4	yes	yes	yes
S7	133	91.0	4.5	71.4	16.5	88.7	5.3	30.8	17.3	yes	partial	no
S8	97	91.8	6.2	79.4	7.2	88.7	7.2	15.5	9.3	yes	partial	no
S9	138	84.8	7.2	77.5	13.0	84.1	8.0	18.1	13.8	yes	yes	no
S10	94	92.6	5.3	88.3	5.3	87.2	7.4	9.6	5.3	yes	partial	no
S11	125	81.6	7.2	60.0	20.0	79.2	8.8	39.2	21.6	yes	yes	no
S12	121	86.0	7.4	57.9	22.3	81.8	11.6	32.2	26.4	yes	yes	no
S13	123	89.4	7.3	79.7	11.4	87.8	8.9	17.9	12.2	yes	yes	no
S14	49	89.8	8.2	67.3	12.2	87.8	12.2	16.3	12.2	B-A-E	partial	no
S15	59	94.9	3.4	84.7	8.5	93.2	3.4	15.3	8.5	yes	no	no
S17	85	89.4	1.2	80.0	7.1	85.9	2.4	15.3	14.1	yes	yes	no
S19	29	93.1	0.0	82.8	10.3	89.7	0.0	13.8	10.3	yes	no	no
TOTAL	1661	90.1	4.9	77.1	11.6	86.8	6.6	19.7	13.3
L1	198	95.5	2.0	92.9	4.5	91.9	4.0	6.6	5.6	yes	no	no
L2	168	88.1	8.3	78.0	13.1	85.1	10.1	22.6	14.9	yes	yes	yes
L3	157	90.4	5.1	80.9	11.5	87.9	6.4	16.6	13.4	yes	partial	no
L4	202	99.0	0.5	87.6	6.4	99.0	0.5	7.9	7.4	yes	no	no
L5	147	93.9	4.8	81.0	9.5	90.5	6.1	19.7	9.5	yes	no	no
L6	191	95.8	1.6	90.1	5.2	91.6	1.6	10.5	6.3	yes	yes	no
L10	102	98.0	1.0	95.1	1.0	97.1	2.9	2.9	1.0	no	no	no
L11	143	97.2	1.4	93.7	2.1	90.9	1.4	4.2	8.4	yes	partial	no
L12	82	98.8	0.0	96.3	1.2	91.5	1.2	1.2	3.7	yes	partial	no
L13	109	92.7	3.7	89.0	4.6	90.8	6.4	7.3	8.3	yes	partial	no
L14	124	83.9	8.1	71.8	14.5	79.8	9.7	23.4	15.3	yes	yes	no
L15	137	96.4	1.5	84.7	7.3	92.7	2.2	15.3	8.0	yes	yes	no
L18	115	93.0	3.5	80.9	13.9	92.2	3.5	19.1	13.9	yes	partial	no
L22	112	96.4	0.9	85.7	6.3	96.4	1.8	8.0	7.1	yes	partial	no
L23	79	97.5	0.0	83.5	5.1	92.4	0.0	10.1	6.3	yes	no	no
L24	84	94.0	2.4	85.7	3.6	90.5	3.6	6.0	3.6	yes	no	no
L29	63	96.8	1.6	92.1	3.2	95.2	1.6	9.5	3.2	no	no	no
L30	57	98.2	0.0	94.7	3.5	91.2	0.0	8.8	3.5	yes	yes	yes
TOTAL	2270	94.5	2.8	86.4	7.0	91.4	3.8	11.7	8.3
EF1	334	79.3	16.5	64.4	27.5	77.25	17.66	34.13	31.44	yes	yes	yes
EFG	548	87.4	9.3	78.6	15.7	78.83	12.77	20.44	17.52	yes	yes	yes
IF2	260	87.7	7.7	79.6	10.0	80.00	12.69	12.69	11.54	yes	yes	yes