Table 1 Distribution of Comparatively Predicted Secondary Structure Models Analyzed
| Â | 5S rRNA | 16S rRNA | 23S rRNA | tRNA | Total |
|---|---|---|---|---|---|
Structures | 90 | 496 | 256 | 569 | 1,411 |
Total AGCU Nucleotides1 | 10,777 | 724,475 | 712,575 | 42,283 | 1,490,110 |
Total Nucleotides2 | 10,819 | 736,412 | 714,723 | 43,189 | 1,505,143 |
Total Comparative Pairings3 | 3,107 | 191,994 | 178,958 | 11,796 | 385,854 |
Average Sequence Length | 120 | 1,485 | 2,792 | 76 | - |
Average Pairings/Structure3 | 35 | 387 | 699 | 21 | - |
Phylogenetic Distribution | Â | Â | Â | Â | Â |
   Archaea | 12 | 23 | 17 | 76 | 128 |
   Bacteria | 28 | 195 | 75 | 155 | 453 |
   Eucarya |  |  |  |  |  |
Nuclear | 45 | 133 | 52 | 207 | 437 |
Chloroplast | 4 | 33 | 31 | 131 | 199 |
Mitochondrion | 1 | 112 | 81 | - | 194 |
Pairwise Sequence Identity 4 | Archaea | Bacteria | Nuclear | Chloroplast | Mitochondrion |
   16S rRNA |  |  |  |  |  |
< 80% Identity | 380 / 75% | 32,456 / 86% | 16,574 / 94% | 746 / 71% | 12,332 / 99% |
< 50% Identity | 0 / 0% | 0 / 0% | 8,500 / 48% | 98 / 9% | 9,852 / 79% |
>= 95% Identity | 16 / 3% | 1,588 / 4% | 212 / 1% | 4 / 0.4% | 12 / 0.1% |
Total Pairs | 506 | 37,830 | 17,556 | 1,056 | 12,432 |
   23S rRNA |  |  |  |  |  |
< 80% Identity | 236 / 87% | 5,214 / 94% | 2,568 / 97% | 710 / 76% | 6,394 / 99% |
< 50% Identity | 0 / 0% | 0 / 0% | 1,960 / 74% | 62 / 7% | 5,830 / 90% |
>= 95% Identity | 6 / 2% | 42 / 1% | 8 / 0.30% | 18 / 2% | 8 / 0.1% |
Total Pairs | 272 | 5,550 | 2,652 | 930 | 6,480 |
tRNA Amino Acid Distribution 5 | Archaea | Bacteria | Nuclear | Chloroplast | Total |
   Alanine (Aln) | 13 | 14 | 6 | 5 | 38 |
   Arginine (Arg) | 4 | 9 | 17 | 12 | 42 |
   Asparagine (Asn) | 3 | 9 | 10 | 3 | 25 |
   Aspartic acid (Asp) | 4 | 4 | 12 | 6 | 26 |
   Cysteine (Cys) | 2 | 5 | 3 | 5 | 15 |
   Glutamine (Gln) | 3 | 6 | 13 | 4 | 26 |
   Glutamic acid (Glu) | 4 | 8 | 23 | 8 | 43 |
   Glycine (Gly) | 6 | 18 | 17 | 9 | 50 |
   Histidine (His) | 3 | 6 | 10 | 7 | 26 |
   Isoleucine (Ile) | 3 | 16 | 8 | 10 | 37 |
   Leucine (Leu) | - | - | - | - | - |
   Lysine (Lys) | 3 | 8 | 15 | 4 | 30 |
   Methionine (Met) | 4 | 7 | 7 | 9 | 27 |
   Phenylalanine (Phe) | 3 | 6 | 16 | 10 | 35 |
   Proline (Pro) | 5 | 10 | 12 | 8 | 35 |
   Serine (Ser) | - | - | - | - | - |
   Threonine (Thr) | 7 | 14 | 6 | 10 | 37 |
   Tryptophan (Trp) | 1 | 6 | 3 | 10 | 20 |
   Tyrosine (Tyr) | 2 | - | 6 | 3 | 11 |
   Valine (Val) | 6 | 9 | 23 | 8 | 46 |
Total | 76 | 155 | 207 | 131 | 569 |