Conservation categories are defined: Categories A-E: a nucleotide exists in > 95% of the sequences studied. "Category A": the existing nucleotide is 98%-100% conserved. "Category B": the existing nucleotide is 90%-98% conserved. "Category C": the existing nucleotide is 80%-90% conserved. "Category D": the existing nucleotide is < 80% conserved. "Category E": sum of Categories A-D. "Category N": nucleotide exists in < 95% of the sequences studied. Other abbreviations used: IP: intron position. nt: nucleotide.
Information 16S rRNA 23S rRNA
3DOM ALL 3DOM ALL
General/Overall rRNA Nucleotide Conservation Category A 355 (23.0%) 178 (11.5%) 595 (20.5%) 150 (5.2%)
Category B 156 (10.1%) 175 (11.3%) 349 (12.0%) 203 (7.0%)
Category C 80 (5.2%) 116 (7.5%) 283 (9.7%) 168 (5.8%)
Category D 546 (35.4%) 395 (25.6%) 1204 (41.5%) 647 (22.3%)
Category E 1137 (73.7%) 864 (56.0%) 2431 (83.7%) 1168 (40.2%)
Category N 405 (26.3%) 678 (44.0%) 473 (16.3%) 1736 (59.8%)
TOTAL 1542 (100.0%) 1542 (100.0%) 2904 (100.0%) 2904 (100.0%)
(rRNA) Distance to Nearest "Category A" nt Site Position 355 (23.0%) 178 (11.5%) 595 (20.5%) 150 (5.2%)
1 Position 175 (11.3%) 96 (6.2%) 318 (11.0%) 90 (3.1%)
2 Positions 117 (7.6%) 77 (5.0%) 219 (7.5%) 68 (2.3%)
3 Positions 89 (5.8%) 66 (4.3%) 161 (5.5%) 51 (1.8%)
4 or More Positions 806 (52.3%) 1125 (73.0%) 1611 (55.5%) 2545 (87.6%)
(rRNA) Distance to Nearest "Category A" or "B" nt Site Position 511 (33.1%) 353 (22.9%) 944 (32.5%) 353 (12.2%)
1 Position 202 (13.1%) 152 (9.9%) 402 (13.8%) 179 (6.2%)
2 Positions 117 (7.6%) 99 (6.4%) 235 (8.1%) 110 (3.8%)
3 Positions 77 (5.0%) 72 (4.7%) 168 (5.8%) 79 (2.7%)
4 or More Positions 635 (41.2%) 866 (56.2%) 1155 (39.8%) 2183 (75.2%)
tRNA Binding Sites All tRNA Binding Sites 18 (100.0%) 18 (100.0%) 43 (100.0%) 43 (100.0%)
A-Site tRNA Binding 4 (100.0%) 4 (100.0%) 21 (100.0%) 21 (100.0%)
P-Site tRNA Binding 6 (100.0%) 6 (100.0%) 9 (100.0%) 9 (100.0%)
E-Site tRNA Binding 9 (100.0%) 9 (100.0%) 13 (100.0%) 13 (100.0%)
Information 16S rRNA 23S rRNA
3DOM ALL 3DOM ALL
All tRNA Binding Sites # of Binding Sites (All tRNA Binding Sites) Total 18 (100.0%) 18 (100.0%) 43 (100.0%) 43 (100.0%)
Conservation of nt at Binding Site Category A 9 (50.0%) 6 (33.3%) 23 (53.5%) 8 (18.6%)
Category B 2 (11.1%) 4 (22.2%) 6 (14.0%) 6 (14.0%)
Category C 2 (11.1%) 3 (16.7%) 3 (7.0%) 3 (7.0%)
Category D 5 (27.8%) 5 (27.8%) 10 (23.3%) 11 (25.6%)
Category N --0 (---%) --0 (---%) 1 (2.3%) 15 (34.9%)
Distance to Nearest "Category A" nt Site Position 9 (50.0%) 6 (33.3%) 23 (53.5%) 8 (18.6%)
1 Position 8 (44.4%) 7 (38.9%) 14 (32.6%) 5 (11.6%)
2 Positions 1 (5.6%) 2 (11.1%) 1 (2.3%) 4 (9.3%)
3 Positions --0 (---%) 1 (5.6%) --0 (---%) 3 (7.0%)
4 or More Positions --0 (---%) 2 (11.1%) 5 (11.6%) 23 (53.5%)
Site Adjacent to at least one "Category A" nt 17 (94.4%) 13 (72.2%) 37 (86.0%) 13 (30.2%)
Site within Two Positions of at least one "Category A" nt 18 (100.0%) 15 (83.3%) 38 (88.4%) 17 (39.5%)
Site within Three Positions of at least one "Category A" nt 18 (100.0%) 16 (88.9%) 38 (88.4%) 20 (46.5%)
Distance to Nearest "Category B" nt Site Position 11 (61.1%) 10 (55.6%) 29 (67.4%) 14 (32.6%)
1 Position 6 (33.3%) 7 (38.9%) 12 (27.9%) 11 (25.6%)
2 Positions 1 (5.6%) 1 (5.6%) 2 (4.7%) 3 (7.0%)
3 Positions --0 (---%) --0 (---%) --0 (---%) --0 (---%)
4 or More Positions --0 (---%) --0 (---%) --0 (---%) 15 (34.9%)
Site Adjacent to at least one "Category A" or "B" nt 17 (94.4%) 17 (94.4%) 41 (95.3%) 25 (58.1%)
Site within Two Positions of at least one "Category A" or "B" nt 18 (100.0%) 18 (100.0%) 43 (100.0%) 28 (65.1%)
Site within Three Positions of at least one "Category A" or "B" nt 18 (100.0%) 18 (100.0%) 43 (100.0%) 28 (65.1%)
Site is a "Category E" nt 18 (100.0%) 18 (100.0%) 42 (97.7%) 28 (65.1%)
Information 16S rRNA 23S rRNA
3DOM ALL 3DOM ALL
A-Site tRNA Binding # of Binding Sites (A-Site tRNA Binding) Total 4 (100.0%) 4 (100.0%) 21 (100.0%) 21 (100.0%)
Conservation of nt at Binding Site Category A 3 (75.0%) 2 (50.0%) 12 (57.1%) 4 (19.0%)
Category B --0 (---%) 1 (25.0%) 3 (14.3%) 3 (14.3%)
Category C --0 (---%) --0 (---%) 2 (9.5%) 3 (14.3%)
Category D 1 (25.0%) 1 (25.0%) 3 (14.3%) 5 (23.8%)
Category N --0 (---%) --0 (---%) 1 (4.8%) 6 (28.6%)
Distance to Nearest "Category A" nt Site Position 3 (75.0%) 2 (50.0%) 12 (57.1%) 4 (19.0%)
1 Position 1 (25.0%) 1 (25.0%) 4 (19.0%) 3 (14.3%)
2 Positions --0 (---%) --0 (---%) --0 (---%) 3 (14.3%)
3 Positions --0 (---%) 1 (25.0%) --0 (---%) 1 (4.8%)
4 or More Positions --0 (---%) --0 (---%) 5 (23.8%) 10 (47.6%)
Site Adjacent to at least one "Category A" nt 4 (100.0%) 3 (75.0%) 16 (76.2%) 7 (33.3%)
Site within Two Positions of at least one "Category A" nt 4 (100.0%) 3 (75.0%) 16 (76.2%) 10 (47.6%)
Site within Three Positions of at least one "Category A" nt 4 (100.0%) 4 (100.0%) 16 (76.2%) 11 (52.4%)
Distance to Nearest "Category B" nt Site Position 3 (75.0%) 3 (75.0%) 15 (71.4%) 7 (33.3%)
1 Position 1 (25.0%) 1 (25.0%) 4 (19.0%) 6 (28.6%)
2 Positions --0 (---%) --0 (---%) 2 (9.5%) 3 (14.3%)
3 Positions --0 (---%) --0 (---%) --0 (---%) --0 (---%)
4 or More Positions --0 (---%) --0 (---%) --0 (---%) 5 (23.8%)
Site Adjacent to at least one "Category A" or "B" nt 4 (100.0%) 4 (100.0%) 19 (90.5%) 13 (61.9%)
Site within Two Positions of at least one "Category A" or "B" nt 4 (100.0%) 4 (100.0%) 21 (100.0%) 16 (76.2%)
Site within Three Positions of at least one "Category A" or "B" nt 4 (100.0%) 4 (100.0%) 21 (100.0%) 16 (76.2%)
Site is a "Category E" nt 4 (100.0%) 4 (100.0%) 20 (95.2%) 15 (71.4%)
Information 16S rRNA 23S rRNA
3DOM ALL 3DOM ALL
P-Site tRNA Binding # of Binding Sites (P-Site tRNA Binding) Total 6 (100.0%) 6 (100.0%) 9 (100.0%) 9 (100.0%)
Conservation of nt at Binding Site Category A 3 (50.0%) 3 (50.0%) 6 (66.7%) 3 (33.3%)
Category B 1 (16.7%) 1 (16.7%) --0 (---%) 2 (22.2%)
Category C --0 (---%) --0 (---%) --0 (---%) --0 (---%)
Category D 2 (33.3%) 2 (33.3%) 3 (33.3%) 4 (44.4%)
Category N --0 (---%) --0 (---%) --0 (---%) --0 (---%)
Distance to Nearest "Category A" nt Site Position 3 (50.0%) 3 (50.0%) 6 (66.7%) 3 (33.3%)
1 Position 2 (33.3%) 1 (16.7%) 3 (33.3%) 1 (11.1%)
2 Positions 1 (16.7%) 1 (16.7%) --0 (---%) 1 (11.1%)
3 Positions --0 (---%) --0 (---%) --0 (---%) 2 (22.2%)
4 or More Positions --0 (---%) 1 (16.7%) --0 (---%) 2 (22.2%)
Site Adjacent to at least one "Category A" nt 5 (83.3%) 4 (66.7%) 9 (100.0%) 4 (44.4%)
Site within Two Positions of at least one "Category A" nt 6 (100.0%) 5 (83.3%) 9 (100.0%) 5 (55.6%)
Site within Three Positions of at least one "Category A" nt 6 (100.0%) 5 (83.3%) 9 (100.0%) 7 (77.8%)
Distance to Nearest "Category B" nt Site Position 4 (66.7%) 4 (66.7%) 6 (66.7%) 5 (55.6%)
1 Position 1 (16.7%) 1 (16.7%) 3 (33.3%) 4 (44.4%)
2 Positions 1 (16.7%) 1 (16.7%) --0 (---%) --0 (---%)
3 Positions --0 (---%) --0 (---%) --0 (---%) --0 (---%)
4 or More Positions --0 (---%) --0 (---%) --0 (---%) --0 (---%)
Site Adjacent to at least one "Category A" or "B" nt 5 (83.3%) 5 (83.3%) 9 (100.0%) 9 (100.0%)
Site within Two Positions of at least one "Category A" or "B" nt 6 (100.0%) 6 (100.0%) 9 (100.0%) 9 (100.0%)
Site within Three Positions of at least one "Category A" or "B" nt 6 (100.0%) 6 (100.0%) 9 (100.0%) 9 (100.0%)
Site is a "Category E" nt 6 (100.0%) 6 (100.0%) 9 (100.0%) 9 (100.0%)
Information 16S rRNA 23S rRNA
3DOM ALL 3DOM ALL
E-Site tRNA Binding # of Binding Sites (E-Site tRNA Binding) Total 9 (100.0%) 9 (100.0%) 13 (100.0%) 13 (100.0%)
Conservation of nt at Binding Site Category A 4 (44.4%) 2 (22.2%) 5 (38.5%) 1 (7.7%)
Category B 1 (11.1%) 2 (22.2%) 3 (23.1%) 1 (7.7%)
Category C 2 (22.2%) 3 (33.3%) 1 (7.7%) --0 (---%)
Category D 2 (22.2%) 2 (22.2%) 4 (30.8%) 2 (15.4%)
Category N --0 (---%) --0 (---%) --0 (---%) 9 (69.2%)
Distance to Nearest "Category A" nt Site Position 4 (44.4%) 2 (22.2%) 5 (38.5%) 1 (7.7%)
1 Position 5 (55.6%) 5 (55.6%) 7 (53.8%) 1 (7.7%)
2 Positions --0 (---%) 1 (11.1%) 1 (7.7%) --0 (---%)
3 Positions --0 (---%) --0 (---%) --0 (---%) --0 (---%)
4 or More Positions --0 (---%) 1 (11.1%) --0 (---%) 11 (84.6%)
Site Adjacent to at least one "Category A" nt 9 (100.0%) 7 (77.8%) 12 (92.3%) 2 (15.4%)
Site within Two Positions of at least one "Category A" nt 9 (100.0%) 8 (88.9%) 13 (100.0%) 2 (15.4%)
Site within Three Positions of at least one "Category A" nt 9 (100.0%) 8 (88.9%) 13 (100.0%) 2 (15.4%)
Distance to Nearest "Category B" nt Site Position 5 (55.6%) 4 (44.4%) 8 (61.5%) 2 (15.4%)
1 Position 4 (44.4%) 5 (55.6%) 5 (38.5%) 1 (7.7%)
2 Positions --0 (---%) --0 (---%) --0 (---%) --0 (---%)
3 Positions --0 (---%) --0 (---%) --0 (---%) --0 (---%)
4 or More Positions --0 (---%) --0 (---%) --0 (---%) 10 (76.9%)
Site Adjacent to at least one "Category A" or "B" nt 9 (100.0%) 9 (100.0%) 13 (100.0%) 3 (23.1%)
Site within Two Positions of at least one "Category A" or "B" nt 9 (100.0%) 9 (100.0%) 13 (100.0%) 3 (23.1%)
Site within Three Positions of at least one "Category A" or "B" nt 9 (100.0%) 9 (100.0%) 13 (100.0%) 3 (23.1%)
Site is a "Category E" nt 9 (100.0%) 9 (100.0%) 13 (100.0%) 4 (30.8%)