Archaea   Paired Unpaired Ratio1 A2 G C U
C M C M C M PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM
Haloarcula marismortui AF034620 76 68 46 54 62%/38% 56%/44% 6 17 6 17 30 9 28 11 28 14 27 15 12 6 7 11
Haloferax mediterranei X14441 82 80 41 43 67%/33% 65%/35% 9 15 9 15 28 8 31 5 26 12 28 10 19 6 12 13
Methanocaldococcus jannaschii U67518 L77117 80 74 42 48 66%/34% 61%/39% 8 17 4 21 33 6 33 6 30 14 30 14 9 5 7 7
Methanolobus tindarius M34910 86 78 42 50 67%/33% 61%/39% 16 16 14 18 27 7 25 9 22 11 22 11 21 8 17 12
Methanothermococcus thermolithotrophicus M34911 80 72 40 48 67%/33% 60%/40% 16 14 10 20 25 6 26 5 20 13 22 11 19 7 14 12
Methanothermus fervidus M26976 84 90 40 34 68%/32% 73%/27% 11 13 9 15 31 9 36 4 29 10 32 7 13 8 13 8
Pyrococcus woesei X15329 84 82 40 42 68%/32% 66%/34% 5 16 2 19 38 7 39 6 34 9 35 8 7 8 6 9
Pyrodictium occultum M21086 92 96 38 34 71%/29% 74%/26% 5 15 6 14 40 9 42 7 39 8 40 7 8 6 8 6
Sulfolobus acidocaldarius V01286 86 90 39 35 69%/31% 72%/28% 11 15 11 15 31 8 34 5 29 8 30 7 15 8 15 8
Sulfolobus solfataricus X01588 Y08257 86 90 40 36 68%/32% 71%/29% 11 15 11 15 31 8 34 5 29 9 30 8 15 8 15 8
Thermococcus celer X07692 84 86 43 41 66%/34% 68%/32% 5 13 3 15 38 10 40 8 34 9 35 8 7 11 8 10
Thermoplasma acidophilum M32297 X02709 82 80 41 43 67%/33% 65%/35% 17 13 13 17 25 10 27 8 22 10 22 10 18 8 18 8
Bacteria   Paired Unpaired Ratio1 A2 G C U
C M C M C M PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM
Acidithiobacillus ferrooxidans M11542 U18089 81 70 40 50 67%/33% 58%/42% 12 14 8 18 29 4 27 5 27 14 24 17 13 8 11 10
Agrobacterium tumefaciens X02627 77 74 42 46 65%/35% 62%/38% 9 11 7 13 31 6 30 8 26 14 23 17 11 11 14 8
Arthrobacter globiformis M16173 78 74 44 48 64%/36% 61%/39% 7 19 8 18 35 8 29 14 27 9 26 10 9 8 11 6
Arthrobacter globiformis X08002 78 68 43 53 64%/36% 56%/44% 8 19 7 20 34 8 27 15 27 9 25 11 9 7 9 7
Arthrobacter oxydans X08000 78 68 43 53 64%/36% 56%/44% 8 19 7 20 34 8 27 15 27 9 25 11 9 7 9 7
Bacillus subtilis D11460 75 64 40 51 65%/35% 56%/44% 10 15 8 17 29 7 24 12 22 10 21 11 14 8 11 11
Campylobacter jejuni AL139076 76 54 42 64 64%/36% 46%/54% 15 17 8 24 25 7 19 13 19 9 17 11 17 9 10 16
Deinococcus radiodurans AE002087 80 66 44 58 65%/35% 53%/47% 12 17 6 23 29 6 27 8 29 14 25 18 10 7 8 9
Delftia acidovorans AJ131594 75 64 40 51 65%/35% 56%/44% 14 13 10 17 26 5 22 9 18 13 18 13 17 9 14 12
Escherichia coli V00336 80 76 40 44 67%/33% 63%/37% 9 14 9 14 34 7 29 12 24 12 23 13 13 7 15 5
Geobacillus stearothermophilus M10816 76 72 41 45 65%/35% 62%/38% 10 18 11 17 29 6 25 10 22 12 22 12 15 5 14 6
Geobacillus stearothermophilus AJ251080 76 68 41 49 65%/35% 58%/42% 8 17 8 17 31 7 26 12 24 11 23 12 13 6 11 8
Geobacillus stearothermophilus M24839 76 76 43 43 64%/36% 64%/36% 12 17 12 17 28 7 26 9 22 13 22 13 14 6 16 4
Geobacillus stearothermophilus M25591 76 70 41 47 65%/35% 60%/40% 8 17 8 17 31 7 27 11 24 12 24 12 13 5 11 7
Haemophilus influenzae U32688 76 68 39 47 66%/34% 59%/41% 9 17 7 19 32 7 27 12 20 9 22 7 15 6 12 9
Micrococcus luteus K02682 78 64 41 55 66%/34% 54%/46% 7 17 4 20 34 9 28 15 26 10 26 10 11 5 6 10
Mycoplasma genitalium U39694 72 70 46 48 61%/39% 59%/41% 17 23 16 24 21 7 19 9 16 7 15 8 18 9 20 7
Planctomyces brasiliensis M35168 72 54 38 56 65%/35% 49%/51% 14 14 11 17 22 7 16 13 17 9 14 12 19 8 13 14
Pseudomonas aeruginosa K02353 80 72 40 48 67%/33% 60%/40% 13 15 12 16 29 4 24 9 20 12 20 12 18 9 16 11
Pseudomonas stutzeri M34776 77 80 41 38 65%/35% 68%/32% 11 12 11 12 29 6 29 6 22 13 24 11 15 10 16 9
Rhodobacter capsulatus X04585 76 72 42 46 64%/36% 61%/39% 11 16 12 15 28 5 24 9 23 13 20 16 14 8 16 6
Spiroplasma melliferum X06098 64 50 43 57 60%/40% 47%/53% 13 16 7 22 21 8 18 11 17 11 13 15 13 8 12 9
Sporosarcina pasteurii X02024 76 64 41 53 65%/35% 55%/45% 9 17 7 19 30 7 25 12 19 10 19 10 18 7 13 12
Staphylococcus aureus L36472 74 70 42 46 64%/36% 60%/40% 14 16 13 17 24 6 22 8 18 11 18 11 18 9 17 10
Synechococcus sp. PCC 6301 X00757 X00343 78 68 42 52 65%/35% 57%/43% 15 12 10 17 24 7 24 7 25 12 23 14 14 11 11 14
Thermus aquaticus X01590 80 70 43 53 65%/35% 57%/43% 7 17 7 17 36 7 28 15 26 11 26 11 11 8 9 10
Thermus sp. M16532 77 72 43 48 64%/36% 60%/40% 9 17 6 20 31 7 30 8 28 13 26 15 9 6 10 5
Thermus thermophilus V01415 78 68 42 52 65%/35% 57%/43% 6 19 6 19 36 6 28 14 26 11 27 10 10 6 7 9
Eukaryotic Chloroplast   Paired Unpaired Ratio1 A2 G C U
C M C M C M PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM
Chlamydomonas reinhardtii BK000554 76 78 45 43 63%/37% 64%/36% 12 14 15 11 25 8 24 9 18 11 19 10 21 12 20 13
Euglena gracilis K02483 X70810 78 52 40 66 66%/34% 44%/56% 22 15 14 23 17 6 12 11 13 5 9 9 26 14 17 23
Marchantia polymorpha X00666 X04465 78 66 41 53 66%/34% 55%/45% 18 15 12 21 23 8 21 10 18 9 17 10 19 9 16 12
Zea mays M19943 M36716 Z00028 X86563 80 72 41 49 66%/34% 60%/40% 18 13 12 19 24 9 24 9 18 10 18 10 20 9 18 11
Eukaryotic Mitochondrion   Paired Unpaired Ratio1 A2 G C U
C M C M C M PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM
Reclinomonas americana U59762 74 72 40 42 65%/35% 63%/37% 19 16 20 15 17 5 16 6 11 8 13 6 27 11 23 15
Eukaryotic Nuclear   Paired Unpaired Ratio1 A2 G C U
C M C M C M PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM PC UPC PM UPM
Acanthamoeba castellanii V00003 76 80 43 39 64%/36% 67%/33% 11 15 10 16 27 9 30 6 27 10 26 11 11 9 14 6
Acheta domesticus M16074 74 80 46 40 62%/38% 67%/33% 7 17 9 15 28 9 31 6 26 9 26 9 13 11 14 10
Amoebidium parasiticum M36306 74 82 45 37 62%/38% 69%/31% 10 17 12 15 26 10 29 7 24 6 24 6 14 12 17 9
Ascobolus immersus X99087 74 72 45 47 62%/38% 61%/39% 13 15 15 13 22 9 21 10 21 9 19 11 18 12 17 13
Asterias vulgaris X00992 74 70 46 50 62%/38% 58%/42% 11 19 11 19 23 8 24 7 25 7 22 10 15 12 13 14
Aurelia aurita X00991 72 78 46 40 61%/39% 66%/34% 8 18 11 15 26 9 28 7 25 8 25 8 13 11 14 10
Blastocladiella simplex X01543 74 78 44 40 63%/37% 66%/34% 10 17 12 15 26 9 27 8 23 9 22 10 15 9 17 7
Blepharisma japonicum J01851 74 78 46 42 62%/38% 65%/35% 10 18 13 15 25 11 26 10 23 9 21 11 16 8 18 6
Bos taurus X57170 74 76 46 44 62%/38% 63%/37% 5 17 7 15 30 9 31 8 26 7 25 8 13 13 13 13
Branchiostoma belcheri X13034 74 78 46 42 62%/38% 65%/35% 8 19 11 16 27 9 28 8 23 8 23 8 16 10 16 10
Candida albicans X00868 74 74 47 47 61%/39% 61%/39% 16 17 16 17 19 12 21 10 19 10 16 13 20 8 21 7
Chlamydomonas reinhardtii X02706 74 72 48 50 61%/39% 59%/41% 15 15 14 16 21 12 22 11 22 12 21 13 16 9 15 10
Christiansenia pallida M58383 74 82 46 38 62%/38% 68%/32% 11 14 12 13 25 11 29 7 25 10 25 10 13 11 16 8
Crithidia fasciculata V00149 74 74 46 46 62%/38% 62%/38% 16 16 16 16 20 9 21 8 20 11 16 15 18 10 21 7
Crypthecodinium cohnii M25115 74 78 48 44 61%/39% 64%/36% 5 17 6 16 31 11 33 9 28 6 26 8 10 14 13 11
Cryptococcus neoformans var. neoformans L14753 74 60 44 58 63%/37% 51%/49% 9 15 5 19 24 12 25 11 27 9 22 14 14 8 8 14
Cyanophora paradoxa M33029 74 78 45 41 62%/38% 66%/34% 11 14 9 16 25 12 30 7 27 8 25 10 11 11 14 8
Diatoma tenue D00058 74 76 44 42 63%/37% 64%/36% 11 13 12 12 24 10 26 8 23 11 21 13 16 10 17 9
Drosophila melanogaster M25016 74 78 46 42 62%/38% 65%/35% 9 17 11 15 26 9 28 7 24 9 23 10 15 11 16 10
Dugesia japonica X01551 74 68 46 52 62%/38% 57%/43% 10 14 10 14 25 9 24 10 22 7 19 10 17 16 15 18
Emplectonema gracile X00021 73 75 46 44 61%/39% 63%/37% 11 18 13 16 23 8 24 7 23 7 21 9 16 13 17 12
Enchytraeus albidus X03911 74 78 46 42 62%/38% 65%/35% 8 17 10 15 27 9 29 7 25 7 24 8 14 13 15 12
Equisetum arvense X00377 74 72 46 48 62%/38% 60%/40% 6 18 7 17 28 9 29 8 29 9 25 13 11 10 11 10
Euglena gracilis X01484 74 80 47 41 61%/39% 66%/34% 10 17 12 15 26 10 28 8 23 8 22 9 15 12 18 9
Exobasidium vaccinii X00069 74 66 44 52 63%/37% 56%/44% 9 17 7 19 26 10 26 10 24 9 22 11 15 8 11 12
Globodera pallida L28955 74 78 46 42 62%/38% 65%/35% 8 17 11 14 26 9 28 7 24 8 22 10 16 12 17 11
Gracilaria compressa X00999 74 74 47 47 61%/39% 61%/39% 14 18 13 19 22 8 24 6 19 11 19 11 19 10 18 11
Homo sapiens Z75742 74 64 45 55 62%/38% 54%/46% 12 17 10 19 25 9 22 12 20 6 15 11 17 13 17 13
Hyphodontia paradoxa X73890 74 78 44 40 63%/37% 66%/34% 10 16 11 15 25 10 28 7 26 9 25 9 13 9 14 9
Mesocricetus auratus J00063 74 76 47 45 61%/39% 63%/37% 5 17 7 15 30 9 31 8 26 7 25 8 13 14 13 14
Mortierella formosensis M36312 74 78 46 42 62%/38% 65%/35% 14 17 16 15 22 10 23 9 21 9 20 10 17 10 19 8
Octopus vulgaris X06835 74 80 46 40 62%/38% 67%/33% 13 18 14 17 23 8 26 5 20 9 20 9 18 11 20 9
Oryza sativa M18171 74 78 45 41 62%/38% 66%/34% 10 19 11 18 24 10 28 6 23 7 21 9 17 9 18 8
Phaseolus vulgaris X06843 74 76 46 44 62%/38% 63%/37% 10 17 12 15 24 10 26 8 25 9 22 12 15 10 16 9
Physarum polycephalum X02036 74 80 46 40 62%/38% 67%/33% 11 15 12 14 25 11 28 8 22 9 21 10 16 11 19 8
Plagiomnium trichomanes X01619 74 74 45 45 62%/38% 62%/38% 8 20 9 19 26 8 28 6 26 7 23 10 14 10 14 10
Plasmodium falciparum AF239766 73 72 46 47 61%/39% 61%/39% 13 19 13 19 23 9 23 9 19 10 18 11 18 8 18 8
Pneumocystis carinii M28193 74 80 46 40 62%/38% 67%/33% 13 17 15 15 23 9 25 7 19 7 19 7 19 13 21 11
Pseudocentrotus depressus X04307 D00075 74 72 46 48 62%/38% 60%/40% 8 19 9 18 27 8 27 8 25 6 23 8 14 13 13 14
Saccharomyces cerevisiae X67579 74 82 44 36 63%/37% 69%/31% 14 14 16 12 21 11 25 7 20 10 20 10 19 9 21 7
Schizochytrium aggregatum X06104 74 76 45 43 62%/38% 64%/36% 9 16 10 15 27 11 28 10 23 9 23 9 15 9 15 9
Schizosaccharomyces pombe K00570 74 80 45 39 62%/38% 67%/33% 10 17 13 14 26 9 27 8 21 9 21 9 17 10 19 8
Spirogyra sp. M10438 74 76 46 44 62%/38% 63%/37% 11 18 13 16 25 10 25 10 21 8 21 8 17 10 17 10
Tetrahymena thermophila X00475 74 78 46 42 62%/38% 65%/35% 10 19 12 17 26 10 27 9 23 7 22 8 15 10 17 8
Xenopus laevis X05089 74 76 46 44 62%/38% 63%/37% 7 18 9 16 29 8 29 8 26 7 25 8 12 13 13 12

† We count the number of A,G,C and U nucleotides paired or unpaired, regardless of the type of base-pair they appear in (i.e. canonical or non-canonical).
1 Paired and Unpaired percentages are calculated by dividing the number of paired or unpaired nucleotides in a given category by the total number of nucelotides for all sequences in that category.
2 C, Comparative; M, Mfold 3.1; PC, Comparative, Paired Nucleotides; UPC, Comparative, Unpaired Nucleotides; PM, Nucleotides Predicted to be Paired by MFold; UPM, Nucleotides Predicted to be Unpaired by MFold;