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Finished Archaea Finished Bacteria In Progress... N.P.: Not Published

"Prematrices" means that models were computed only using Coding Sequences (i.e. Native Non Coding Sequences were replaced by "shuffled" Coding Sequences).


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Status Organism Domain Division Size (Mb) CDSs Number of gene Classes CDSs analyzed Class 1 Class 2 Class 3 Class 4 Prematrices Codon Usage Tables
Aeropyrum pernix Archaea - 1.67 1841 2 1841 1655 186 x x no
Methanocaldococcus jannaschii Archaea - 1.66 1729 1 1729 1729 x x x no
Methanothermobacter thermautotrophicus Archaea - 1.75 1873 1 1873 1873 x x x no
Pyrococcus abyssi Archaea - 1.77 1769 1 1769 1769 x x x no
New! Pyrococcus furiosus DSM 3638 Archaea - 1.91 2125 1 2120 2120 x x x no
New! Pyrococcus horikoshii OT3 Archaea - 1.74 1956 1 1956 1952 x x x no
New! Thermoplasma volcanium GSS1 Archaea - 1.59 1499 1 1498 1498 x x x no
Sulfolobus solfataricus Archaea - 2.99 2977 1 2977 2977 x x x no
Acinetobacter sp. ADP1 Bacteria Proteobacteria 3.59 3325 3 3418 2283 927 208 x no
Agrobacterium tumefaciens C58 (cereon) Bacteria Proteobacteria 2.84 2721 2 2721 2459 262 x x no
Bacillus anthracis Ames Bacteria Firmicutes 5.09 5311 3 5311 3688 624 999 x no
Bacillus anthracis Ames str. 0581 Bacteria Firmicutes 5.23 5505 3 5259 3460 622 1177 x no
Bacillus cereus ATCC10987 Bacteria Firmicutes 5.22 5603 3 5603 4629 378 594 x no
Bacillus cereus ATCC14579 Bacteria Firmicutes 5.41 5234 3 5234 3471 1183 580 x no
Bacillus halodurans Bacteria Firmicutes 4.20 4066 3 3840 2246 938 656 x no
Bacillus licheniformis ATCC_14580 Bacteria Firmicutes 4.22 4161 4 4161 1993 135 527 1506 no
Bacillus subtilis Bacteria Firmicutes 4.21 4106 3 3922 2326 845 751 x no
Bacillus thuringiensis Bacteria Firmicutes 5.23 5119 3 5119 3452 633 1032 x no
New! Bdellovibrio bacteriovorus HD100 Bacteria Proteobacteria 3.78 3624 3 3587 1846 1126 615 x no
Bordetella bronchiseptica RB50 Bacteria Proteobacteria 5.34 5006 2 4993 4592 401 x x no
Bordetella parapertussis 12822 Bacteria Proteobacteria 4.78 4402 2 4164 2516 1641 x x no
Bordetella pertussis Tohama I Bacteria Proteobacteria 4.09 3806 2 3417 2141 1276 x x no
Borrelia burgdorferi Bacteria Spirochaete 0.91 851 2 851 569 282 x x no
Borrelia garinii PBi Bacteria Spirochaete 0.91 832 2 832 555 277 x x no
Bradyrhizobium japonicum USDA 110 Bacteria Proteobacteria 9.10 8372 3 7818 3375 2235 2208 x no
Buchnera aphidicola str APS Bacteria Proteobacteria 0.64 564 1 563 563 x x x no
Buchnera aphidicola str Bp Bacteria Proteobacteria 0.62 504 1 504 504 x x x no
Buchnera aphidicola str Sg Bacteria Proteobacteria 0.65 546 1 545 545 x x x no
Burkholderia mallei ATCC 23344 Bacteria Proteobacteria 3.51 N.P. 1 2995 2995 x x x no
Burkholderia pseudomallei K96243 Bacteria Proteobacteria 4.08 N.P. 2 3343 2936 260 x x no
Campylobacter jejuni subsp. jejuni NCTC 11168 Bacteria Proteobacteria 1.64 1654 3 1630 936 366 328 x no
Chlamydia trachomatis Bacteria Other 1.04 895 2 896 468 428 x x no
Chlamydophila pneumoniae J138 Bacteria Other 1.23 1069 2 1069 672 397 x x no
Clostridium acetobutylicum Bacteria Firmicutes 3.94 3841 3 3733 3138 295 300 x no
Corynebacterium efficiens YS-314 Bacteria Actinobacteria 3.15 2950 3 2950 1981 540 429 x no
Corynebacterium glutamicum ATCC 13032 Bacteria Actinobacteria 3.31 2993 3 2991 1187 665 1139 x no
Desulfotalea_psychrophila_LSv54 Bacteria Proteobacteria 3.53 N.P. 2 3108 1676 1432 x x no
New! Erwinia carotovora atroseptica SCRI1043 Bacteria Proteobacteria 5.07 N.P. 3 4433 3208 864 359 x no
Escherichia coli CFT073 Bacteria Proteobacteria 5.24 5379 3 5373 3762 918 693 x no
Escherichia coli K12 Bacteria Proteobacteria 4.64 4183 3 4188 2504 1096 588 x no
Escherichia coli O157:H7 Bacteria Proteobacteria 5.50 5361 3 5222 3767 610 845 x no
Escherichia coli O157:H7/EDL933 Bacteria Proteobacteria 5.53 5324 3 5135 3585 890 660 x no
Frankia alni Bacteria
Haemophilus influenzae Rd KW20 Bacteria Proteobacteria 1.83 1657 3 1616 1047 237 332 x no
New! Helicobacter hepaticus ATCC 51449 Bacteria Proteobacteria 1.79 1875 2 1875 1395 480 x x no
Helicobacter pylori 26695 Bacteria Proteobacteria 1.64 1576 3 1696 1042 362 292 x no
Kuenenia stuttgartensis Bacteria Other 4.28 N.P. 4 3028 1284 535 692 517 no
Lactococcus lactis Bacteria Firmicutes 2.37 2321 3 2267 1454 196 617 x no
Leptospira interrogans serovar Copenhageni str Fiocruz l1 130 Bacteria Spirochaetes 4.28 N.P. 2 3302 1982 1320 x x no
Leptospira interrogans serovar Lai str 56601 Bacteria Spirochaetes 4.34 4360 2 4359 2467 1892 x x no
Mesorhizobium loti MAFF303099 Bacteria Proteobacteria 7.03 6800 3 6306 3144 1329 1833 x no
Mycobacterium tuberculosis CDC1551 Bacteria Other 4.40 4187 4 4099 2099 652 809 539 no
Mycobacterium tuberculosis H37Rv Bacteria Other 4.41 3995 4 3931 1843 715 618 755 no
Mycoplasma genitalium Bacteria Firmicutes 0.58 484 2 482 289 193 x x no
Mycoplasma pneumoniae Bacteria Firmicutes 0.82 689 3 663 418 144 99 x no
Neisseria gonorrhoeae FA 1090 Bacteria Proteobacteria 2.15 2000 3 2000 941 871 188 x no
Neisseria meningitidis FAM18 Bacteria Proteobacteria 2.19 2139 3 2093 943 882 268 x no
Neisseria meningitidis MC58 Bacteria Proteobacteria 2.27 2079 3 2066 1072 712 282 x no
Neisseria meningitidis Z2491 Bacteria Proteobacteria 2.18 2121 3 2076 1017 899 160 x no
Oceanobacillus iheyensis HTE831 Bacteria Firmicutes 3.63 3500 1 3500 3500 x x x no
Photorhabdus luminescens TT01 Bacteria Proteobacteria 5.69 4905 4 4653 1552 1350 1150 601 no
Soon Available! Pirellula sp. Bacteria Other






Pseudoalteromonas haloplanctis Bacteria Proteobacteria 3.18 N.P. 3 3550 2211 966 373 x no
Pseudomonas aeruginosa PAO1 Bacteria Proteobacteria 6.26 5567 2 5566 5158 408 x x no
Updated! Pseudomonas fluorescens Pf-5 Bacteria Proteobacteria 7.07 6137 3 6136 2839 2164 1133 x no
Updated! Pseudomonas putida KT2440 Bacteria Proteobacteria 6.18 5350 2 5350 3633 1717 x x no
Updated! Pseudomonas syringae pv. tomato str. DC3000 Bacteria Proteobacteria 6.40 5471 2 5469 3676 1793 x x no
Ralstonia solanacearum Bacteria Proteobacteria 3.72 3442 3 3437 2032 1324 81 x no
New! Rhodopseudomonas palustris CGA009 Bacteria Proteobacteria 5.45 4831 3 4811 2335 1589 887 x no
Rickettsia prowazekii Bacteria Proteobacteria 1.11 835





Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67 Bacteria Proteobacteria 4.75 4699 3 4444 2011 1325 1108 x no
Salmonella enterica subsp. enterica serovar Typhi CT18 Bacteria Proteobacteria 4.81 4600 3 4400 3199 632 567 x no
Salmonella typhimurium LT2 Bacteria Proteobacteria 4.86 4451 3 4467 1893 1577 997 x no
Shewanella oneidensis MR-1 Bacteria Proteobacteria 4.97 4324 4 4435 1655 547 797 1436 no
Shigella flexneri 2a str. 2457T Bacteria Proteobacteria 4.60 4073 3 4070 2914 659 497 x no
New! Shigella sonnei Ss046 Bacteria Proteobacteria 4.82 4553 4 4221 2432 338 947 504 no
Sinorhizobium meliloti 1021 Bacteria Proteobacteria 3.65 3409 3 3331 1515 1179 637 x no
Staphylococcus aureus subsp. aureus Mu50 Bacteria Firmicutes 2.88 2714 4 2714 2309 158 247 x no
Streptococcus pneumoniae TIGR4 Bacteria Firmicutes 2.16 2094 3 2094 1292 281 521 x no
Soon Available! Streptomyces coelicolor A3(2) Bacteria Other 8.66 7825
Synechocystis PCC6803 Bacteria Other 3.57 3167 3 3166 2432 663 71 x no
Thermotoga maritima Bacteria Other 1.86 1858 4 1858 777 432 138 511 no
Treponema denticola ATCC 35405 Bacteria Spirochaetes 2.85 2839 1 2761 2761 x x x no
Treponema pallidum subsp. pallidum str. Nichols Bacteria Spirochaetes 1.14 1036 2 1034 645 389 x x no
Vibrio cholerae Bacteria Proteobacteria 2.96 2742 3 2736 2242 245 249 x no
Vibrio vulnificus CMCP6 Bacteria Proteobacteria 3.28 2972 2 2952 2548 404 x x no
Wigglesworthia brevipalpis Bacteria Proteobacteria 0.7 611 1 604 604 x x x no
New! Wolinella succinogenes DSM 1740 Bacteria Proteobacteria 2.11 2043 1 2044 1498 546 x x no
Xylella fastidiosa 9a5c Bacteria Proteobacteria 2.68 2766 4 2767 1035 511 472 749 no
Yersinia pestis CO92 Bacteria Proteobacteria 4.65 4008 3 3754 2921 406 427 x no
Yersinia pestis KIM Bacteria Proteobacteria 4.60 4090 3 4109 3315 352 442 x no
Yersinia pseudotuberculosis Bacteria Proteobacteria 4.74 3977 3 3867 2287 1069 511 x no

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Last updated: 10/08/2004