Accessions Non-Canonical Base-pairs1 Comparative Base-pairs % Non-Canonical Base-pairs2 Canonical Base-pair Accuracy3
Archaea
Archaeoglobus fulgidus M64487 25 842 3% 66%
Desulfurococcus mobilis X05480 29 903 3% 58%
Haloarcula marismortui X13738 36 852 4% 47%
Haloarcula marismortui rrnA AF034619 39 855 5% 55%
Haloarcula marismortui rrnB AF034620 37 855 4% 55%
Halobacterium salinarum X03407 27 821 3% 57%
Halococcus morrhuae X05481 40 838 5% 58%
Haloferax volcanii Thesis, Achenbach-Richter L. 37 815 5% 55%
Methanococcus jannaschii U67517 L77117 21 900 2% 68%
Methanococcus vannielii X02729 28 851 3% 60%
Methanospirillum hungatei M81323 43 828 5% 40%
Methanothermobacter thermautotrophicus X05482 30 872 3% 40%
Sulfolobus acidocaldarius M67495 28 889 3% 51%
Thermococcus celer M67497 19 879 2% 65%
Thermofilum pendens X14835 35 902 4% 58%
Thermoplasma acidophilum M32298 43 841 5% 61%
Thermoproteus tenax PUBMED 22 889 2% 60%
Bacteria
Acinetobacter calcoaceticus X87280 51 871 6% 42%
Aeromonas hydrophila X87281 50 868 6% 50%
Aquifex aeolicus AE000709 AE000751 25 876 3% 54%
Bacillus anthracis X64645 54 862 6% 48%
Bacillus sp. X60981 33 836 4% 53%
Bacillus subtilis K00637 AF008220 Z99119 36 871 4% 53%
Bartonella bacilliformis L39095 34 836 4% 53%
Bordetella bronchiseptica X70371 43 847 5% 41%
Bordetella pertussis X68323 46 843 5% 42%
Borrelia burgdorferi M88330 37 879 4% 38%
Bradyrhizobium japonicum Z35330 26 813 3% 59%
Bradyrhizobium japonicum X71840 34 826 4% 60%
Burkholderia cepacia X16368 41 858 5% 53%
Burkholderia mallei Y17183 42 863 5% 51%
Burkholderia pseudomallei Y17184 41 862 5% 50%
Campylobacter coli U09611 57 894 6% 54%
Campylobacter jejuni Z29326 52 872 6% 48%
Chlamydia suis U68420 38 831 5% 46%
Chlamydia trachomatis U68443 48 867 6% 39%
Chlamydophila pneumoniae U76711 AE001668 43 834 5% 47%
Chlamydophila psittaci U68447 54 885 6% 42%
Chlorobium limicola M62805 106 828 13% 58%
Citrobacter freundii U77928 47 868 5% 42%
Clostridium botulinum A X65602 45 853 5% 53%
Clostridium botulinum B M94178 37 863 4% 55%
Clostridium botulinum B M94259 40 863 5% 50%
Clostridium botulinum E M94261 42 861 5% 49%
Coxiella burnetii X79704 99 872 11% 35%
Deinococcus radiodurans AE002087 52 861 6% 41%
Deinococcus radiodurans AE001886 51 861 6% 48%
Enterococcus faecalis X79341 44 868 5% 56%
Erysipelothrix rhusiopathiae AB019250 41 858 5% 45%
Escherichia coli J01695 39 869 4% 55%
Flexibacter flexilis M62806 79 820 10% 33%
Frankia sp. M55343 41 916 4% 51%
Geobacillus stearothermophilus K02663 32 849 4% 58%
Haemophilus influenzae (operons A-F) U32742 U32745 U32755 U32847 U32697 U32707 46 866 5% 44%
Helicobacter pylori U27270 37 822 5% 43%
Heliobacterium chlorum NPA4 55 874 6% 50%
Klebsiella pneumoniae X87284 40 868 5% 55%
Lactobacillus delbrueckii X68426 31 854 4% 53%
Lactococcus lactis X68434 35 863 4% 38%
Leptospira interrogans X14249 52 883 6% 43%
Listeria monocytogenes X64533 41 868 5% 45%
Listeria monocytogenes X68420 34 872 4% 53%
Micrococcus luteus X06484 40 894 4% 41%
Mycobacterium leprae X56657 44 906 5% 55%
Mycobacterium tuberculosis Z73902 26 897 3% 32%
Mycoplasma genitalium U39694 35 867 4% 40%
Mycoplasma pneumoniae X68422 U00089 37 866 4% 48%
Myroides odoratus M62807 120 821 15% 30%
Neisseria gonorrhoeae X67293 46 865 5% 45%
Neisseria meningitidis X67300 45 865 5% 42%
Parachlamydia acanthamoebae Y07555 53 855 6% 48%
Pirellula marina X07408 55 845 7% 54%
Plesiomonas shigelloides X65487 95 857 11% 38%
Pseudomonas aeruginosa Y00432 43 867 5% 49%
Rhodobacter capsulatus X06485 41 827 5% 49%
Rhodobacter sphaeroides X53853 38 826 5% 57%
Rhodococcus erythropolis AF001265 40 908 4% 52%
Rhodopseudomonas palustris X71839 39 815 5% 57%
Rickettsia prowazekii AJ235270 31 819 4% 56%
Rickettsia rickettsii U11022 73 815 9% 58%
Ruminobacter amylophilus X06765 51 856 6% 39%
Simkania negevensis U68460 41 837 5% 43%
Staphylococcus aureus X68425 38 874 4% 48%
Staphylococcus carnosus X68419 39 876 4% 47%
Streptomyces ambofaciens M27245 38 905 4% 55%
Streptomyces griseus X61478 47 914 5% 43%
Synechococcus sp. PCC 6301 X00512 43 832 5% 42%
Thermotoga maritima M67498 27 901 3% 60%
Thermus aquaticus NPA 31 851 4% 53%
Thermus thermophilus X12612 27 832 3% 56%
Treponema pallidum (rRNA A) AE001204 44 884 5% 26%
Tropheryma whipplei AF190687 33 861 4% 41%
Eukaryotic Chloroplast
Alnus incana M75719 M75722 53 825 6% 46%
Astasia longa X14386 41 867 5% 22%
Chlamydomonas eugametos Z17234 40 861 5% 27%
Chlamydomonas frankii L43352 X68905 X68906 X68907 X68908 X68909 Z17230 41 811 5% 33%
Chlamydomonas geitleri L43353 X68891 X68892 Z15153 35 820 4% 35%
Chlamydomonas gelatinosa Z15151 35 810 4% 41%
Chlamydomonas humicola L42989 X68921 X68922 Z17235 39 812 5% 35%
Chlamydomonas indica X68893 X68894 X68895 X68896 X68897 X68898 Z17228 40 858 5% 28%
Chlamydomonas iyengarii L43354 X68885 X68886 Z15148 40 815 5% 43%
Chlamydomonas komma L43502 X68927 X68928 X68929 Z17237 39 814 5% 42%
Chlamydomonas mexicana L49148 X68910 X68911 X68912 Z17231 38 820 5% 38%
Chlamydomonas pallidostigmatica L43503 X68899 X68900 X68901 X68902 X68903 X68904 Z17229 49 865 6% 48%
Chlamydomonas peterfii L43538 X68887 X68888 Z15149 37 816 5% 40%
Chlamydomonas pitschmannii Z15152 41 823 5% 44%
Chlamydomonas reinhardtii X15727 X16686 X16687 42 847 5% 39%
Chlamydomonas sp. SAG 66.72 L43539 X68923 X68924 X68925 X68926 Z17236 40 849 5% 41%
Chlamydomonas starrii L43504 X68889 X68890 Z15150 42 819 5% 40%
Chlamydomonas zebra L43356 Z17233 41 815 5% 41%
Chlorella ellipsoidea M36158 67 839 8% 43%
Conopholis americana X59768 X58863 64 810 8% 23%
Epifagus virginiana X62099 58 815 7% 29%
Euglena gracilis X12890 X13310 38 843 5% 36%
Marchantia polymorpha X04465 49 823 6% 41%
Nicotiana tabacum Z00044 47 829 6% 37%
Odontella sinensis Z67753 53 830 6% 37%
Oryza sativa X15901 56 850 7% 27%
Palmaria palmata Z18289 44 823 5% 43%
Pisum sativum X55033 M37430 53 829 6% 30%
Plasmodium falciparum (plastid-like) X61660 X95275 39 782 5% 21%
Toxoplasma gondii (plastid-like) U18086 46 739 6% 44%
Zea mays Z00028 64 878 7% 38%
Eukaryotic Mitochondrion
Acanthamoeba castellanii U03732 40 761 5% 31%
Aedes albopictus X01078 19 326 6% 22%
Albinaria caerulea X83390 26 268 10% 38%
Albinaria turrita X71393 X71394 26 265 10% 16%
Allomyces macrogynus U41288 45 780 6% 40%
Antilocapra americana M55540 28 363 8% 34%
Apis mellifera L06178 14 312 4% 23%
Artemia salina X12965 35 293 12% 15%
Ascaris suum X54253 27 221 12% 16%
Aspergillus nidulans J01390 X06961 59 729 8% 46%
Balaenoptera musculus X72204 28 357 8% 34%
Bos taurus J01394 30 362 8% 21%
Cacozeliana lacertina AF101007 23 328 7% 30%
Caenorhabditis elegans X54252 18 219 8% 26%
Cafeteria roenbergensis AF193903 32 717 4% 47%
Capra hircus M55541 28 326 9% 43%
Cepaea nemoralis U23045 23 237 10% 24%
Cervus unicolor M35875 29 325 9% 35%
Chlamydomonas eugametos AF008237 25 483 5% 32%
Chlamydomonas reinhardtii X54860 U03843 38 476 8% 42%
Chondrus crispus Z46224 Z47547 42 703 6% 42%
Crithidia fasciculata X02548 24 168 14% 1%
Crithidia oncopelti X51736 26 159 16% 0%
Crossostoma lacustre M91245 38 370 10% 37%
Damaliscus pygargus M86499 24 360 7% 39%
Dictyostelium discoideum D16466 53 726 7% 27%
Didelphis virginiana Z29573 24 361 7% 30%
Drosophila melanogaster X53506 13 316 4% 21%
Drosophila yakuba X03240 14 296 5% 21%
Equus caballus X79547 23 362 6% 36%
Euhadra herklotsi Z71693 36 260 14% 23%
Gallus gallus X52392 35 356 10% 27%
Homo sapiens D38112 34 355 10% 33%
Hydropotes inermis M35876 31 328 9% 47%
Katharina tunicata U09810 19 300 6% 16%
Leishmania tarentolae X02354 23 165 14% 5%
Leptomonas sp. J03814 26 160 16% 0%
Locusta migratoria X80245 23 309 7% 21%
Loligo bleekeri AB009838 14 303 5% 18%
Lumbricus terrestris U24570 21 275 8% 39%
Marchantia polymorpha M68929 46 751 6% 38%
Meloidogyne javanica L76261 40 179 22% 4%
Muntiacus reevesi M35877 33 402 8% 18%
Mus musculus J01420 29 364 8% 28%
Mytilus edulis M83756 26 314 8% 18%
Neurospora crassa X55443 66 744 9% 44%
Ochromonas danica AF287134 32 724 4% 41%
Odocoileus virginianus M35874 29 332 9% 32%
Oenothera berteriana X02559 54 722 7% 34%
Pan troglodytes D38113 38 355 11% 31%
Paracentrotus lividus J04815 29 355 8% 30%
Paracrostoma paludiformis AF101008 34 330 10% 23%
Paramecium primaurelia K00634 68 666 10% 29%
Paramecium tetraurelia K01749 41 677 6% 48%
Pecten maximus X92688 23 317 7% 14%
Penicillium chrysogenum D13859 S56867 53 723 7% 32%
Phoca vitulina X63726 32 360 9% 35%
Physarum polycephalum AF080601 47 693 7% 29%
Pichia canadensis D31785 34 706 5% 35%
Podospora anserina X14735 X55026 65 749 9% 37%
Porphyra purpurea AF114794 45 708 6% 32%
Prototheca wickerhamii X68722 45 761 6% 56%
Pylaiella littoralis Z48620 46 714 6% 27%
Pyura stolonifera X74513 18 224 8% 16%
Rana catesbeiana X12841 25 318 8% 46%
Rattus norvegicus J01438 40 314 13% 18%
Reclinomonas americana AF007261 36 778 5% 42%
Rhizopus stolonifer NPA 33 709 5% 47%
Rhodomonas salina AF288090 43 740 6% 33%
Saccharomyces cerevisiae J01527 45 704 6% 20%
Sceloporus undulatus L28075 41 348 12% 28%
Schizosaccharomyces pombe X06597 39 719 5% 42%
Strongylocentrotus purpuratus X12631 56 302 19% 27%
Suillus sinuspaulianus L47585 50 739 7% 28%
Tetrahymena pyriformis M58010 48 715 7% 47%
Tetrahymena pyriformis M58011 46 703 7% 46%
Tragulus napu M55539 28 331 8% 41%
Triticum aestivum Z11889 Z14078 56 724 8% 39%
Trypanosoma brucei X02547 26 163 16% 9%
Xenopus laevis M10217 32 373 9% 33%
Zea mays K01868 65 742 9% 27%
Eukaryotic Nuclear
Aedes albopictus L22060 68 992 7% 44%
Arabidopsis thaliana X52320 68 998 7% 45%
Babesia bigemina NPA 68 873 8% 29%
Brassica napus D10840 87 1014 9% 38%
Caenorhabditis elegans X03680 70 1042 7% 53%
Candida albicans L28817 62 1019 6% 36%
Chlorella ellipsoidea D17810 D13340 67 1012 7% 52%
Crithidia fasciculata Y00055 53 912 6% 39%
Dictyostelium discoideum X00601 V00189 165 973 17% 55%
Didymium iridis X60210 63 1013 6% 38%
Drosophila melanogaster M21017 X15707 60 1019 6% 44%
Encephalitozoon cuniculi AJ005581 68 677 10% 37%
Entamoeba histolytica X65163 59 921 6% 47%
Euglena gracilis X53361 89 1049 8% 19%
Filobasidiella neoformans var. bacillispora L14067 64 1036 6% 50%
Fragaria x ananassa X15589 X58118 86 997 9% 29%
Giardia ardeae X58290 46 796 6% 31%
Giardia intestinalis X52949 39 813 5% 33%
Giardia muris X65063 45 784 6% 36%
Herdmania momus X53538 62 954 6% 33%
Hexamita inflata NPA 53 776 7% 45%
Homo sapiens J01866 M11167 61 1015 6% 30%
Lycopersicon esculentum X13557 X52265 67 1011 7% 40%
Microsporidium 57864 U90885 43 660 7% 33%
Mucor racemosus M26190 121 1012 12% 45%
Mus musculus J01871 X00525 59 1021 6% 32%
Naegleria gruberi Thesis, Mullican J. 52 943 6% 51%
Nosema apis U76706 41 652 6% 43%
Nosema apis U97150 54 669 8% 29%
Oryza sativa M11585 M16845 M35384 M82048 M19228 71 1012 7% 35%
Physarum polycephalum V01159 V01160 59 1006 6% 30%
Phytophthora megasperma X75631 X75632 63 1025 6% 54%
Plasmodium falciparum (A gene) U21939 60 1058 6% 50%
Plasmodium falciparum (S gene) U48228 76 1146 7% 39%
Plasmodium vivax (A gene) NPA 62 1072 6% 42%
Plasmodium vivax (O gene) NPA 64 982 7% 42%
Plasmodium vivax (S gene) NPA 56 886 6% 27%
Pneumocystis carinii M86760 61 1027 6% 53%
Prorocentrum micans M14649 M19230 X15973 61 931 7% 36%
Rattus norvegicus J01881 V01270 J01438 63 779 8% 35%
Saccharomyces cerevisiae U53879 60 1065 6% 48%
Schizosaccharomyces japonicus Z32848 77 1045 7% 43%
Schizosaccharomyces pombe J01359 Z19136 X51920 65 1058 6% 42%
Sinapis alba X15915 X57137 75 1015 7% 40%
Tetrahymena thermophila X54512 43 982 4% 51%
Theileria parva L28036 L28998 L26332 L26331 105 946 11% 47%
Toxoplasma gondii (P) X75453 64 969 7% 51%
Trepomonas agilis AF015455 163 784 21% 38%
Trypanosoma brucei X05682 X14553 X04986 53 906 6% 24%
Vairimorpha necatrix NPA 51 686 7% 41%
Xenopus laevis X59734 66 1024 6% 32%
Zea mays NPA 71 756 9% 34%
  1. NC, Non-Canonical, any base-pair other than G-C, C-G, A-U, U-A, G-U, U-G.
  2. Calculated as the percentage of the total comparative base-pairs predicted.
  3. Accuracy of Mfold 3.1 for predicting comparative, canonical base-pairs.
  4. NPA, Not Publically Available - The sequence used for analysis has not been deposited in Genbank.