# Loading trees from '48-fsa-1/C1.trees'... # Loading trees from '48-fsa-2/C1.trees'... # Loading trees from '48-fsa-3/C1.trees'... # Loading trees from '48-fsa-4/C1.trees'... # Loading trees from '48-fsa-5/C1.trees'... # Loading trees from '48-fsa-6/C1.trees'... # Loading trees from '48-fsa-7/C1.trees'... # Loading trees from '48-fsa-8/C1.trees'... # [ seed = 16890982368689535391 pseudocount = 1 blocksize = 3848 ] Support for the different predicates: 1/49: Amoebidium Caenorhabditis Candida Cryptobranchus Cryptosporidium Dictyostelium Drosophila Euglena Gelidium Homo Nosema Physarum Saccharomyces Xenopus Zea | Agrobacterium Aquifex Archeoglobus Bacillus Campylobacter Chlamydia Desulfurococcus Escherichia Flavobacterium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus PP1-1 = 1.000 (1=200001 0=0) [0 !!!] PP1-2 = 1.000 (1=200001 0=0) [0 !!!] PP1-3 = 1.000 (1=200001 0=0) [0 !!!] PP1-4 = 1.000 (1=200001 0=0) [0 !!!] PP1-5 = 1.000 (1=192365 0=0) [0 !!!] PP1-6 = 1.000 (1=200001 0=0) [0 !!!] PP1-7 = 1.000 (1=199321 0=0) [0 !!!] PP1-8 = 1.000 (1=195534 0=0) [0 !!!] PP1 = 1.000 (1=1587225 0=0) [0 !!!] LOD1-1 = 5.301 LOD1-2 = 5.301 LOD1-3 = 5.301 LOD1-4 = 5.301 LOD1-5 = 5.284 LOD1-6 = 5.301 LOD1-7 = 5.300 LOD1-8 = 5.291 LOD1 = 5.298 RNe1 = -nan 2/49: Methanococcus Methanothermococcus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 1.000 (1=200001 0=0) [0 !!!] PP1-2 = 1.000 (1=200001 0=0) [0 !!!] PP1-3 = 1.000 (1=200001 0=0) [0 !!!] PP1-4 = 1.000 (1=200001 0=0) [0 !!!] PP1-5 = 1.000 (1=192365 0=0) [0 !!!] PP1-6 = 1.000 (1=200001 0=0) [0 !!!] PP1-7 = 1.000 (1=199321 0=0) [0 !!!] PP1-8 = 1.000 (1=195534 0=0) [0 !!!] PP1 = 1.000 (1=1587225 0=0) [0 !!!] LOD1-1 = 5.301 LOD1-2 = 5.301 LOD1-3 = 5.301 LOD1-4 = 5.301 LOD1-5 = 5.284 LOD1-6 = 5.301 LOD1-7 = 5.300 LOD1-8 = 5.291 LOD1 = 5.298 RNe1 = -nan 3/49: Candida Saccharomyces | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 1.000 (1=200001 0=0) [0 !!!] PP1-2 = 1.000 (1=200001 0=0) [0 !!!] PP1-3 = 1.000 (1=200001 0=0) [0 !!!] PP1-4 = 1.000 (1=200001 0=0) [0 !!!] PP1-5 = 1.000 (1=192365 0=0) [0 !!!] PP1-6 = 1.000 (1=200001 0=0) [0 !!!] PP1-7 = 1.000 (1=199321 0=0) [0 !!!] PP1-8 = 1.000 (1=195534 0=0) [0 !!!] PP1 = 1.000 (1=1587225 0=0) [0 !!!] LOD1-1 = 5.301 LOD1-2 = 5.301 LOD1-3 = 5.301 LOD1-4 = 5.301 LOD1-5 = 5.284 LOD1-6 = 5.301 LOD1-7 = 5.300 LOD1-8 = 5.291 LOD1 = 5.298 RNe1 = -nan 4/49: Desulfurococcus Sulfolobus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 1.000 (1=200000 0=1) [1 !!!] PP1-2 = 1.000 (1=200000 0=1) [1 !!!] PP1-3 = 1.000 (1=200000 0=1) [1 !!!] PP1-4 = 1.000 (1=200001 0=0) [0 !!!] PP1-5 = 1.000 (1=192364 0=1) [1 !!!] PP1-6 = 1.000 (1=200001 0=0) [0 !!!] PP1-7 = 1.000 (1=199320 0=1) [1 !!!] PP1-8 = 1.000 (1=195533 0=1) [1 !!!] PP1 = 1.000 (1=1587219 0=6) [6 !!] LOD1-1 = 5.000 LOD1-2 = 5.000 LOD1-3 = 5.000 LOD1-4 = 5.301 LOD1-5 = 4.983 LOD1-6 = 5.301 LOD1-7 = 4.999 LOD1-8 = 4.990 LOD1 = 5.055 RNe1 = inf 5/49: Amoebidium Archeoglobus Caenorhabditis Candida Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Euglena Gelidium Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Sulfolobus Thermococcus Thermoplasma Xenopus Zea | Agrobacterium Aquifex Bacillus Campylobacter Chlamydia Escherichia Flavobacterium Geobacillus Spirochaeta Streptomyces Thermotoga Thermus PP1-1 = 1.000 (1=200001 0=0) [0 !!!] PP1-2 = 1.000 (1=199971 0=30) [2 !!!] PP1-3 = 1.000 (1=200001 0=0) [0 !!!] PP1-4 = 1.000 (1=199996 0=5) [1 !!!] PP1-5 = 1.000 (1=192359 0=6) [1 !!!] PP1-6 = 1.000 (1=200000 0=1) [1 !!!] PP1-7 = 1.000 (1=199321 0=0) [0 !!!] PP1-8 = 1.000 (1=195515 0=19) [1 !!!] PP1 = 1.000 (1=1587164 0=61) [6 !!] LOD1-1 = 5.301 LOD1-2 = 3.810 LOD1-3 = 5.301 LOD1-4 = 4.523 LOD1-5 = 4.439 LOD1-6 = 5.000 LOD1-7 = 5.300 LOD1-8 = 3.990 LOD1 = 4.362 RNe1 = inf 6/49: Methanosarcina Methanosarcina.v | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.999 (1=199840 0=161) [121] PP1-2 = 0.999 (1=199754 0=247) [169] PP1-3 = 0.999 (1=199792 0=209) [166] PP1-4 = 0.999 (1=199836 0=165) [130] PP1-5 = 0.999 (1=192188 0=177) [133] PP1-6 = 0.999 (1=199789 0=212) [165] PP1-7 = 0.999 (1=199124 0=197) [143] PP1-8 = 0.999 (1=195357 0=177) [137] PP1 = 0.999 (1=1585680 0=1545) [1164] LOD1-1 = 3.091 ACT = 2.002 Ne = 99903.925 LOD1-2 = 2.906 ACT = 3.924 Ne = 50966.627 LOD1-3 = 2.978 ACT = 2.196 Ne = 91076.872 LOD1-4 = 3.081 ACT = 1.984 Ne = 100792.740 LOD1-5 = 3.033 ACT = 2.342 Ne = 82120.809 LOD1-6 = 2.972 ACT = 2.388 Ne = 83752.151 LOD1-7 = 3.002 ACT = 2.307 Ne = 86384.228 LOD1-8 = 3.040 ACT = 2.420 Ne = 80783.053 LOD1 = 3.009 ACT = 2.672 Ne = 594012.354 RNe1 = inf 7/49: Cryptobranchus Homo Xenopus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Zea PP1-1 = 0.995 (1=199091 0=910) [413] PP1-2 = 0.995 (1=198995 0=1006) [443] PP1-3 = 0.995 (1=198928 0=1073) [444] PP1-4 = 0.993 (1=198603 0=1398) [512] PP1-5 = 0.992 (1=190819 0=1546) [537] PP1-6 = 0.992 (1=198400 0=1601) [550] PP1-7 = 0.995 (1=198274 0=1047) [432] PP1-8 = 0.992 (1=194022 0=1512) [515] PP1 = 0.994 (1=1577132 0=10093) [3846] LOD1-1 = 2.340 ACT = 13.868 Ne = 14422.199 LOD1-2 = 2.296 ACT = 13.152 Ne = 15206.383 LOD1-3 = 2.268 ACT = 15.861 Ne = 12609.389 LOD1-4 = 2.152 ACT = 16.390 Ne = 12202.705 LOD1-5 = 2.091 ACT = 31.576 Ne = 6092.158 LOD1-6 = 2.093 ACT = 20.806 Ne = 9612.763 LOD1-7 = 2.277 ACT = 13.617 Ne = 14637.665 LOD1-8 = 2.108 ACT = 30.996 Ne = 6308.355 LOD1 = 2.194 ACT = 21.134 Ne = 75101.424 RNe1 = inf 8/49: Amoebidium Candida Saccharomyces | Agrobacterium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.992 (1=198320 0=1681) [1414] PP1-2 = 0.991 (1=198203 0=1798) [1493] PP1-3 = 0.991 (1=198257 0=1744) [1439] PP1-4 = 0.991 (1=198273 0=1728) [1428] PP1-5 = 0.991 (1=190672 0=1693) [1414] PP1-6 = 0.991 (1=198267 0=1734) [1443] PP1-7 = 0.991 (1=197503 0=1818) [1507] PP1-8 = 0.991 (1=193772 0=1762) [1441] PP1 = 0.991 (1=1573267 0=13958) [11579] LOD1-1 = 2.072 ACT = 1.849 Ne = 108169.313 LOD1-2 = 2.042 ACT = 2.206 Ne = 90651.674 LOD1-3 = 2.055 ACT = 2.100 Ne = 95228.347 LOD1-4 = 2.059 ACT = 2.222 Ne = 90017.371 LOD1-5 = 2.051 ACT = 1.989 Ne = 96709.465 LOD1-6 = 2.058 ACT = 1.859 Ne = 107558.725 LOD1-7 = 2.036 ACT = 2.491 Ne = 80031.636 LOD1-8 = 2.041 ACT = 2.423 Ne = 80706.622 LOD1 = 2.052 ACT = 2.305 Ne = 688530.683 RNe1 = inf 9/49: Bacillus Geobacillus | Agrobacterium Amoebidium Aquifex Archeoglobus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.989 (1=197850 0=2151) [1062] PP1-2 = 0.989 (1=197733 0=2268) [1110] PP1-3 = 0.987 (1=197397 0=2604) [1167] PP1-4 = 0.988 (1=197532 0=2469) [1100] PP1-5 = 0.988 (1=190086 0=2279) [1090] PP1-6 = 0.988 (1=197672 0=2329) [1084] PP1-7 = 0.990 (1=197231 0=2090) [1027] PP1-8 = 0.988 (1=193169 0=2365) [1072] PP1 = 0.988 (1=1568670 0=18555) [8712] LOD1-1 = 1.963 ACT = 7.164 Ne = 27919.381 LOD1-2 = 1.940 ACT = 9.066 Ne = 22061.614 LOD1-3 = 1.880 ACT = 10.843 Ne = 18444.560 LOD1-4 = 1.903 ACT = 9.189 Ne = 21765.644 LOD1-5 = 1.921 ACT = 6.578 Ne = 29242.581 LOD1-6 = 1.929 ACT = 8.047 Ne = 24854.535 LOD1-7 = 1.975 ACT = 7.130 Ne = 27954.364 LOD1-8 = 1.912 ACT = 8.720 Ne = 22423.339 LOD1 = 1.927 ACT = 8.750 Ne = 181392.219 RNe1 = inf 10/49: Desulfurococcus Pyrobaculum Sulfolobus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrococcus Saccharomyces Spirochaeta Streptomyces Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.987 (1=197336 0=2665) [564] PP1-2 = 0.985 (1=197080 0=2921) [554] PP1-3 = 0.987 (1=197389 0=2612) [481] PP1-4 = 0.985 (1=196950 0=3051) [555] PP1-5 = 0.980 (1=188554 0=3811) [529] PP1-6 = 0.983 (1=196567 0=3434) [572] PP1-7 = 0.989 (1=197075 0=2246) [506] PP1-8 = 0.982 (1=192093 0=3441) [554] PP1 = 0.985 (1=1563044 0=24181) [4315] LOD1-1 = 1.869 ACT = 35.155 Ne = 5689.135 LOD1-2 = 1.829 ACT = 35.745 Ne = 5595.269 LOD1-3 = 1.878 ACT = 62.358 Ne = 3207.295 LOD1-4 = 1.810 ACT = 38.248 Ne = 5229.026 LOD1-5 = 1.694 ACT = 81.167 Ne = 2369.981 LOD1-6 = 1.758 ACT = 49.889 Ne = 4008.908 LOD1-7 = 1.943 ACT = 31.038 Ne = 6421.762 LOD1-8 = 1.747 ACT = 69.226 Ne = 2824.589 LOD1 = 1.810 ACT = 52.353 Ne = 30317.956 RNe1 = inf 11/49: Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Xenopus Zea | Agrobacterium Escherichia Thermus PP1-1 = 0.959 (1=191749 0=8252) [1082] PP1-2 = 0.961 (1=192221 0=7780) [1142] PP1-3 = 0.965 (1=193015 0=6986) [1029] PP1-4 = 0.961 (1=192139 0=7862) [1115] PP1-5 = 0.964 (1=185472 0=6893) [1090] PP1-6 = 0.961 (1=192116 0=7885) [1171] PP1-7 = 0.964 (1=192210 0=7111) [1079] PP1-8 = 0.961 (1=187821 0=7713) [1059] PP1 = 0.962 (1=1526743 0=60482) [8767] LOD1-1 = 1.366 ACT = 53.489 Ne = 3739.088 LOD1-2 = 1.393 ACT = 47.571 Ne = 4204.241 LOD1-3 = 1.441 ACT = 46.118 Ne = 4336.729 LOD1-4 = 1.388 ACT = 68.791 Ne = 2907.389 LOD1-5 = 1.430 ACT = 31.372 Ne = 6131.649 LOD1-6 = 1.387 ACT = 45.151 Ne = 4429.639 LOD1-7 = 1.432 ACT = 36.756 Ne = 5422.755 LOD1-8 = 1.386 ACT = 53.568 Ne = 3650.201 LOD1 = 1.402 ACT = 49.562 Ne = 32025.066 RNe1 = inf 12/49: Cryptobranchus Homo | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.917 (1=183443 0=16558) [10566] PP1-2 = 0.916 (1=183152 0=16849) [10556] PP1-3 = 0.915 (1=183088 0=16913) [10560] PP1-4 = 0.915 (1=182977 0=17024) [10535] PP1-5 = 0.916 (1=176217 0=16148) [10124] PP1-6 = 0.911 (1=182151 0=17850) [10825] PP1-7 = 0.914 (1=182115 0=17206) [10578] PP1-8 = 0.914 (1=178752 0=16782) [10311] PP1 = 0.915 (1=1451895 0=135330) [84055] LOD1-1 = 1.044 ACT = 5.861 Ne = 34124.379 LOD1-2 = 1.036 ACT = 9.133 Ne = 21897.855 LOD1-3 = 1.034 ACT = 9.722 Ne = 20572.965 LOD1-4 = 1.031 ACT = 8.521 Ne = 23470.225 LOD1-5 = 1.038 ACT = 6.579 Ne = 29238.559 LOD1-6 = 1.009 ACT = 13.508 Ne = 14806.553 LOD1-7 = 1.025 ACT = 14.440 Ne = 13803.345 LOD1-8 = 1.027 ACT = 8.668 Ne = 22557.068 LOD1 = 1.031 ACT = 9.731 Ne = 163104.500 RNe1 = inf 13/49: Flavobacterium Spirochaeta | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.893 (1=178695 0=21306) [10116] PP1-2 = 0.895 (1=179063 0=20938) [10160] PP1-3 = 0.896 (1=179295 0=20706) [10108] PP1-4 = 0.897 (1=179477 0=20524) [9904] PP1-5 = 0.891 (1=171385 0=20980) [9902] PP1-6 = 0.899 (1=179754 0=20247) [9824] PP1-7 = 0.887 (1=176713 0=22608) [10668] PP1-8 = 0.896 (1=175208 0=20326) [9576] PP1 = 0.894 (1=1419590 0=167635) [80257] LOD1-1 = 0.924 ACT = 37.134 Ne = 5385.910 LOD1-2 = 0.932 ACT = 46.711 Ne = 4281.682 LOD1-3 = 0.937 ACT = 42.012 Ne = 4760.529 LOD1-4 = 0.942 ACT = 39.064 Ne = 5119.805 LOD1-5 = 0.912 ACT = 124.242 Ne = 1548.310 LOD1-6 = 0.948 ACT = 35.284 Ne = 5668.336 LOD1-7 = 0.893 ACT = 46.883 Ne = 4251.446 LOD1-8 = 0.935 ACT = 41.761 Ne = 4682.247 LOD1 = 0.928 ACT = 44.443 Ne = 35713.533 RNe1 = inf 14/49: Methanolobus Methanosarcina Methanosarcina.v | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.883 (1=176643 0=23358) [15096] PP1-2 = 0.879 (1=175718 0=24283) [15320] PP1-3 = 0.879 (1=175713 0=24288) [15486] PP1-4 = 0.878 (1=175527 0=24474) [15759] PP1-5 = 0.882 (1=169591 0=22774) [14411] PP1-6 = 0.882 (1=176402 0=23599) [14976] PP1-7 = 0.882 (1=175703 0=23618) [14935] PP1-8 = 0.881 (1=172231 0=23303) [14999] PP1 = 0.880 (1=1397528 0=189697) [120982] LOD1-1 = 0.879 ACT = 10.927 Ne = 18304.199 LOD1-2 = 0.859 ACT = 11.394 Ne = 17553.370 LOD1-3 = 0.859 ACT = 10.082 Ne = 19837.753 LOD1-4 = 0.856 ACT = 10.189 Ne = 19629.742 LOD1-5 = 0.872 ACT = 11.772 Ne = 16341.438 LOD1-6 = 0.874 ACT = 9.454 Ne = 21154.415 LOD1-7 = 0.872 ACT = 9.557 Ne = 20855.506 LOD1-8 = 0.869 ACT = 7.893 Ne = 24772.965 LOD1 = 0.867 ACT = 10.478 Ne = 151475.629 RNe1 = inf 15/49: Methanothermobacter Methanothermus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermococcus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.880 (1=176036 0=23965) [13719] PP1-2 = 0.874 (1=174813 0=25188) [14314] PP1-3 = 0.881 (1=176105 0=23896) [13533] PP1-4 = 0.877 (1=175302 0=24699) [14073] PP1-5 = 0.884 (1=170140 0=22225) [12515] PP1-6 = 0.884 (1=176783 0=23218) [13219] PP1-7 = 0.880 (1=175379 0=23942) [13551] PP1-8 = 0.882 (1=172391 0=23143) [13289] PP1 = 0.880 (1=1396949 0=190276) [108213] LOD1-1 = 0.866 ACT = 18.288 Ne = 10935.905 LOD1-2 = 0.841 ACT = 21.690 Ne = 9221.013 LOD1-3 = 0.867 ACT = 23.629 Ne = 8464.063 LOD1-4 = 0.851 ACT = 21.473 Ne = 9313.940 LOD1-5 = 0.884 ACT = 27.552 Ne = 6981.814 LOD1-6 = 0.882 ACT = 22.471 Ne = 8900.428 LOD1-7 = 0.865 ACT = 24.011 Ne = 8301.304 LOD1-8 = 0.872 ACT = 21.195 Ne = 9225.442 LOD1 = 0.866 ACT = 22.609 Ne = 70204.771 RNe1 = inf 16/49: Nosema Zea | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus PP1-1 = 0.876 (1=175155 0=24846) [17686] PP1-2 = 0.873 (1=174674 0=25327) [17849] PP1-3 = 0.876 (1=175299 0=24702) [17389] PP1-4 = 0.880 (1=175914 0=24087) [17131] PP1-5 = 0.877 (1=168672 0=23693) [16698] PP1-6 = 0.877 (1=175335 0=24666) [17465] PP1-7 = 0.875 (1=174367 0=24954) [17587] PP1-8 = 0.880 (1=172041 0=23493) [16824] PP1 = 0.877 (1=1391457 0=195768) [138629] LOD1-1 = 0.848 ACT = 2.884 Ne = 69338.189 LOD1-2 = 0.839 ACT = 3.164 Ne = 63207.964 LOD1-3 = 0.851 ACT = 2.695 Ne = 74209.262 LOD1-4 = 0.864 ACT = 2.356 Ne = 84893.182 LOD1-5 = 0.852 ACT = 3.272 Ne = 58782.521 LOD1-6 = 0.852 ACT = 2.773 Ne = 72126.437 LOD1-7 = 0.844 ACT = 2.457 Ne = 81133.173 LOD1-8 = 0.865 ACT = 2.436 Ne = 80274.833 LOD1 = 0.852 ACT = 3.033 Ne = 523346.087 RNe1 = inf 17/49: Cryptosporidium Nosema Zea | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus PP1-1 = 0.847 (1=169471 0=30530) [11713] PP1-2 = 0.842 (1=168474 0=31527) [11874] PP1-3 = 0.850 (1=169972 0=30029) [11585] PP1-4 = 0.847 (1=169379 0=30622) [11887] PP1-5 = 0.847 (1=162859 0=29506) [11160] PP1-6 = 0.847 (1=169343 0=30658) [11888] PP1-7 = 0.842 (1=167883 0=31438) [11834] PP1-8 = 0.849 (1=166008 0=29526) [11316] PP1 = 0.846 (1=1343389 0=243836) [93256] LOD1-1 = 0.744 ACT = 11.895 Ne = 16813.977 LOD1-2 = 0.728 ACT = 12.017 Ne = 16642.835 LOD1-3 = 0.753 ACT = 13.544 Ne = 14766.612 LOD1-4 = 0.743 ACT = 11.593 Ne = 17251.217 LOD1-5 = 0.742 ACT = 10.565 Ne = 18208.480 LOD1-6 = 0.742 ACT = 10.300 Ne = 19418.458 LOD1-7 = 0.728 ACT = 11.030 Ne = 18071.557 LOD1-8 = 0.750 ACT = 12.937 Ne = 15113.846 LOD1 = 0.741 ACT = 11.900 Ne = 133377.190 RNe1 = inf 18/49: Caenorhabditis Cryptobranchus Drosophila Homo Xenopus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Campylobacter Candida Chlamydia Cryptosporidium Desulfurococcus Dictyostelium Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Zea PP1-1 = 0.821 (1=164209 0=35792) [4717] PP1-2 = 0.803 (1=160560 0=39441) [4786] PP1-3 = 0.809 (1=161834 0=38167) [4962] PP1-4 = 0.804 (1=160800 0=39201) [4822] PP1-5 = 0.805 (1=154843 0=37522) [4801] PP1-6 = 0.812 (1=162390 0=37611) [4892] PP1-7 = 0.807 (1=160828 0=38493) [4537] PP1-8 = 0.820 (1=160345 0=35189) [4756] PP1 = 0.810 (1=1285809 0=301416) [38273] LOD1-1 = 0.662 ACT = 44.343 Ne = 4510.291 LOD1-2 = 0.610 ACT = 45.542 Ne = 4391.543 LOD1-3 = 0.627 ACT = 51.678 Ne = 3870.134 LOD1-4 = 0.613 ACT = 49.546 Ne = 4036.666 LOD1-5 = 0.616 ACT = 45.728 Ne = 4206.723 LOD1-6 = 0.635 ACT = 41.618 Ne = 4805.587 LOD1-7 = 0.621 ACT = 52.429 Ne = 3801.719 LOD1-8 = 0.659 ACT = 43.620 Ne = 4482.662 LOD1 = 0.630 ACT = 45.743 Ne = 34699.034 RNe1 = inf 19/49: Amoebidium Candida Dictyostelium Physarum Saccharomyces | Agrobacterium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.817 (1=163470 0=36531) [7804] PP1-2 = 0.799 (1=159790 0=40211) [7881] PP1-3 = 0.809 (1=161834 0=38167) [7849] PP1-4 = 0.804 (1=160758 0=39243) [7722] PP1-5 = 0.808 (1=155432 0=36933) [7419] PP1-6 = 0.813 (1=162545 0=37456) [7932] PP1-7 = 0.802 (1=159831 0=39490) [7911] PP1-8 = 0.820 (1=160341 0=35193) [7756] PP1 = 0.809 (1=1284001 0=303224) [62274] LOD1-1 = 0.651 ACT = 41.064 Ne = 4870.508 LOD1-2 = 0.599 ACT = 41.659 Ne = 4800.915 LOD1-3 = 0.627 ACT = 47.185 Ne = 4238.674 LOD1-4 = 0.612 ACT = 44.392 Ne = 4505.334 LOD1-5 = 0.624 ACT = 42.632 Ne = 4512.263 LOD1-6 = 0.637 ACT = 36.768 Ne = 5439.558 LOD1-7 = 0.607 ACT = 45.051 Ne = 4424.338 LOD1-8 = 0.659 ACT = 38.296 Ne = 5105.925 LOD1 = 0.627 ACT = 41.553 Ne = 38197.258 RNe1 = inf 20/49: Amoebidium Caenorhabditis Candida Cryptobranchus Dictyostelium Drosophila Euglena Homo Physarum Saccharomyces Xenopus | Agrobacterium Aquifex Archeoglobus Bacillus Campylobacter Chlamydia Cryptosporidium Desulfurococcus Escherichia Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Zea PP1-1 = 0.774 (1=154852 0=45149) [20792] PP1-2 = 0.773 (1=154678 0=45323) [20442] PP1-3 = 0.771 (1=154143 0=45858) [20565] PP1-4 = 0.767 (1=153445 0=46556) [20914] PP1-5 = 0.771 (1=148222 0=44143) [19544] PP1-6 = 0.769 (1=153785 0=46216) [20601] PP1-7 = 0.779 (1=155224 0=44097) [20390] PP1-8 = 0.769 (1=150379 0=45155) [20094] PP1 = 0.772 (1=1224728 0=362497) [163342] LOD1-1 = 0.535 ACT = 11.451 Ne = 17465.776 LOD1-2 = 0.533 ACT = 11.590 Ne = 17256.067 LOD1-3 = 0.527 ACT = 14.651 Ne = 13650.849 LOD1-4 = 0.518 ACT = 12.157 Ne = 16451.525 LOD1-5 = 0.526 ACT = 15.996 Ne = 12025.631 LOD1-6 = 0.522 ACT = 14.083 Ne = 14201.778 LOD1-7 = 0.547 ACT = 12.110 Ne = 16459.009 LOD1-8 = 0.522 ACT = 15.903 Ne = 12295.700 LOD1 = 0.529 ACT = 13.830 Ne = 114770.457 RNe1 = inf 21/49: Bacillus Flavobacterium Geobacillus Spirochaeta | Agrobacterium Amoebidium Aquifex Archeoglobus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Gelidium Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.742 (1=148399 0=51602) [17710] PP1-2 = 0.740 (1=147955 0=52046) [17607] PP1-3 = 0.750 (1=150001 0=50000) [17433] PP1-4 = 0.737 (1=147322 0=52679) [17989] PP1-5 = 0.733 (1=140978 0=51387) [16829] PP1-6 = 0.748 (1=149510 0=50491) [17065] PP1-7 = 0.731 (1=145651 0=53670) [17900] PP1-8 = 0.749 (1=146376 0=49158) [16932] PP1 = 0.741 (1=1176192 0=411033) [139466] LOD1-1 = 0.459 ACT = 65.405 Ne = 3057.895 LOD1-2 = 0.454 ACT = 67.530 Ne = 2961.652 LOD1-3 = 0.477 ACT = 45.585 Ne = 4387.407 LOD1-4 = 0.447 ACT = 41.978 Ne = 4764.424 LOD1-5 = 0.438 ACT = 90.506 Ne = 2125.428 LOD1-6 = 0.471 ACT = 49.144 Ne = 4069.673 LOD1-7 = 0.434 ACT = 49.939 Ne = 3991.256 LOD1-8 = 0.474 ACT = 40.197 Ne = 4864.428 LOD1 = 0.457 ACT = 56.035 Ne = 28325.473 RNe1 = inf 22/49: Amoebidium Caenorhabditis Candida Cryptobranchus Cryptosporidium Dictyostelium Drosophila Euglena Homo Nosema Physarum Saccharomyces Xenopus Zea | Agrobacterium Aquifex Archeoglobus Bacillus Campylobacter Chlamydia Desulfurococcus Escherichia Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus PP1-1 = 0.737 (1=147393 0=52608) [10890] PP1-2 = 0.726 (1=145192 0=54809) [10969] PP1-3 = 0.730 (1=146048 0=53953) [10862] PP1-4 = 0.736 (1=147116 0=52885) [10674] PP1-5 = 0.726 (1=139753 0=52612) [10618] PP1-6 = 0.725 (1=144991 0=55010) [11251] PP1-7 = 0.731 (1=145650 0=53671) [10971] PP1-8 = 0.739 (1=144594 0=50940) [10275] PP1 = 0.731 (1=1160737 0=426488) [86509] LOD1-1 = 0.447 ACT = 21.582 Ne = 9267.017 LOD1-2 = 0.423 ACT = 19.569 Ne = 10220.509 LOD1-3 = 0.432 ACT = 22.489 Ne = 8893.374 LOD1-4 = 0.444 ACT = 23.081 Ne = 8665.296 LOD1-5 = 0.424 ACT = 21.484 Ne = 8954.015 LOD1-6 = 0.421 ACT = 20.673 Ne = 9674.528 LOD1-7 = 0.434 ACT = 18.421 Ne = 10820.205 LOD1-8 = 0.453 ACT = 23.719 Ne = 8243.817 LOD1 = 0.435 ACT = 21.479 Ne = 73896.701 RNe1 = inf 23/49: Aquifex Thermotoga | Agrobacterium Amoebidium Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermus Xenopus Zea PP1-1 = 0.699 (1=139721 0=60280) [26356] PP1-2 = 0.692 (1=138443 0=61558) [26090] PP1-3 = 0.697 (1=139446 0=60555) [26016] PP1-4 = 0.690 (1=137908 0=62093) [26679] PP1-5 = 0.696 (1=133822 0=58543) [25362] PP1-6 = 0.690 (1=138083 0=61918) [26473] PP1-7 = 0.688 (1=137152 0=62169) [26638] PP1-8 = 0.696 (1=136083 0=59451) [25628] PP1 = 0.693 (1=1100658 0=486567) [209242] LOD1-1 = 0.365 ACT = 13.198 Ne = 15153.413 LOD1-2 = 0.352 ACT = 13.970 Ne = 14315.997 LOD1-3 = 0.362 ACT = 13.123 Ne = 15240.551 LOD1-4 = 0.347 ACT = 12.129 Ne = 16488.834 LOD1-5 = 0.359 ACT = 12.648 Ne = 15209.615 LOD1-6 = 0.348 ACT = 12.357 Ne = 16185.433 LOD1-7 = 0.344 ACT = 12.804 Ne = 15566.933 LOD1-8 = 0.360 ACT = 10.767 Ne = 18159.668 LOD1 = 0.355 ACT = 12.901 Ne = 123034.215 RNe1 = inf 24/49: Pyrococcus Thermococcus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.648 (1=129687 0=70314) [8270] PP1-2 = 0.659 (1=131887 0=68114) [7972] PP1-3 = 0.647 (1=129329 0=70672) [8291] PP1-4 = 0.661 (1=132250 0=67751) [8292] PP1-5 = 0.648 (1=124698 0=67667) [8104] PP1-6 = 0.639 (1=127788 0=72213) [8184] PP1-7 = 0.653 (1=130226 0=69095) [7824] PP1-8 = 0.660 (1=129049 0=66485) [8142] PP1 = 0.652 (1=1034914 0=552311) [65078] LOD1-1 = 0.266 ACT = 115.999 Ne = 1724.164 LOD1-2 = 0.287 ACT = 153.526 Ne = 1302.719 LOD1-3 = 0.262 ACT = 109.380 Ne = 1828.500 LOD1-4 = 0.290 ACT = 99.679 Ne = 2006.446 LOD1-5 = 0.265 ACT = 159.147 Ne = 1208.722 LOD1-6 = 0.248 ACT = 188.900 Ne = 1058.766 LOD1-7 = 0.275 ACT = 122.242 Ne = 1630.545 LOD1-8 = 0.288 ACT = 103.571 Ne = 1887.918 LOD1 = 0.273 ACT = 133.634 Ne = 11877.445 RNe1 = inf 25/49: Amoebidium Candida Physarum Saccharomyces | Agrobacterium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.577 (1=115397 0=84604) [31753] PP1-2 = 0.588 (1=117662 0=82339) [30987] PP1-3 = 0.581 (1=116161 0=83840) [31156] PP1-4 = 0.579 (1=115789 0=84212) [31287] PP1-5 = 0.578 (1=111248 0=81117) [30149] PP1-6 = 0.582 (1=116401 0=83600) [31605] PP1-7 = 0.583 (1=116157 0=83164) [30953] PP1-8 = 0.577 (1=112875 0=82659) [31089] PP1 = 0.581 (1=921690 0=665535) [248980] LOD1-1 = 0.135 ACT = 9.686 Ne = 20647.884 LOD1-2 = 0.155 ACT = 10.505 Ne = 19038.909 LOD1-3 = 0.142 ACT = 11.450 Ne = 17467.072 LOD1-4 = 0.138 ACT = 10.774 Ne = 18563.062 LOD1-5 = 0.137 ACT = 11.388 Ne = 16892.143 LOD1-6 = 0.144 ACT = 9.097 Ne = 21985.445 LOD1-7 = 0.145 ACT = 11.216 Ne = 17771.343 LOD1-8 = 0.135 ACT = 9.170 Ne = 21322.616 LOD1 = 0.141 ACT = 10.440 Ne = 152031.827 RNe1 = inf 26/49: Archeoglobus Desulfurococcus Pyrobaculum Sulfolobus | Agrobacterium Amoebidium Aquifex Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrococcus Saccharomyces Spirochaeta Streptomyces Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.591 (1=118291 0=81710) [19720] PP1-2 = 0.585 (1=117001 0=83000) [19779] PP1-3 = 0.572 (1=114461 0=85540) [19835] PP1-4 = 0.577 (1=115456 0=84545) [19652] PP1-5 = 0.567 (1=109002 0=83363) [18884] PP1-6 = 0.564 (1=112894 0=87107) [20017] PP1-7 = 0.591 (1=117765 0=81556) [19609] PP1-8 = 0.566 (1=110631 0=84903) [18851] PP1 = 0.577 (1=915501 0=671724) [156345] LOD1-1 = 0.161 ACT = 48.872 Ne = 4092.383 LOD1-2 = 0.149 ACT = 44.450 Ne = 4499.455 LOD1-3 = 0.126 ACT = 45.505 Ne = 4395.125 LOD1-4 = 0.135 ACT = 36.464 Ne = 5484.827 LOD1-5 = 0.116 ACT = 47.291 Ne = 4067.715 LOD1-6 = 0.113 ACT = 48.411 Ne = 4131.349 LOD1-7 = 0.160 ACT = 49.886 Ne = 3995.550 LOD1-8 = 0.115 ACT = 42.631 Ne = 4586.634 LOD1 = 0.134 ACT = 46.529 Ne = 34112.785 RNe1 = inf 27/49: Methanococcus Methanothermobacter Methanothermococcus Methanothermus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.551 (1=110170 0=89831) [11484] PP1-2 = 0.571 (1=114168 0=85833) [11251] PP1-3 = 0.554 (1=110795 0=89206) [10788] PP1-4 = 0.545 (1=109006 0=90995) [11358] PP1-5 = 0.545 (1=104930 0=87435) [10622] PP1-6 = 0.550 (1=109914 0=90087) [10872] PP1-7 = 0.564 (1=112430 0=86891) [11709] PP1-8 = 0.549 (1=107404 0=88130) [10717] PP1 = 0.554 (1=878817 0=708408) [88801] LOD1-1 = 0.089 ACT = 54.647 Ne = 3659.894 LOD1-2 = 0.124 ACT = 56.350 Ne = 3549.245 LOD1-3 = 0.094 ACT = 55.339 Ne = 3614.104 LOD1-4 = 0.078 ACT = 47.335 Ne = 4225.221 LOD1-5 = 0.079 ACT = 68.994 Ne = 2788.134 LOD1-6 = 0.086 ACT = 68.987 Ne = 2899.100 LOD1-7 = 0.112 ACT = 59.241 Ne = 3364.600 LOD1-8 = 0.086 ACT = 47.853 Ne = 4086.149 LOD1 = 0.094 ACT = 58.556 Ne = 27106.302 RNe1 = inf 28/49: Haloarcula Halobacterium Haloferax Halorubrum Natrinema | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.529 (1=105770 0=94231) [5167] PP1-2 = 0.527 (1=105438 0=94563) [5426] PP1-3 = 0.544 (1=108703 0=91298) [5203] PP1-4 = 0.572 (1=114429 0=85572) [5306] PP1-5 = 0.524 (1=100710 0=91655) [5145] PP1-6 = 0.532 (1=106357 0=93644) [5221] PP1-7 = 0.507 (1=101112 0=98209) [5322] PP1-8 = 0.575 (1=112460 0=83074) [5357] PP1 = 0.539 (1=854979 0=732246) [42147] LOD1-1 = 0.050 ACT = 108.325 Ne = 1846.303 LOD1-2 = 0.047 ACT = 139.661 Ne = 1432.047 LOD1-3 = 0.076 ACT = 128.163 Ne = 1560.523 LOD1-4 = 0.126 ACT = 80.632 Ne = 2480.426 LOD1-5 = 0.041 ACT = 191.524 Ne = 1004.391 LOD1-6 = 0.055 ACT = 152.439 Ne = 1312.011 LOD1-7 = 0.013 ACT = 117.348 Ne = 1698.547 LOD1-8 = 0.132 ACT = 89.597 Ne = 2182.384 LOD1 = 0.067 ACT = 144.302 Ne = 10999.325 RNe1 = inf 29/49: Haloarcula Halobacterium Haloferax Halorubrum Methanolobus Methanosarcina Methanosarcina.v Natrinema | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Homo Methanococcus Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.500 (1=99968 0=100033) [17152] PP1-2 = 0.500 (1=100007 0=99994) [17716] PP1-3 = 0.511 (1=102180 0=97821) [17510] PP1-4 = 0.531 (1=106288 0=93713) [17724] PP1-5 = 0.502 (1=96655 0=95710) [17035] PP1-6 = 0.506 (1=101211 0=98790) [17081] PP1-7 = 0.492 (1=98131 0=101190) [16880] PP1-8 = 0.535 (1=104622 0=90912) [17436] PP1 = 0.510 (1=809062 0=778163) [138535] LOD1-1 = -0.000 ACT = 77.581 Ne = 2577.966 LOD1-2 = 0.000 ACT = 90.492 Ne = 2210.150 LOD1-3 = 0.019 ACT = 81.326 Ne = 2459.264 LOD1-4 = 0.055 ACT = 63.186 Ne = 3165.264 LOD1-5 = 0.004 ACT = 92.516 Ne = 2079.252 LOD1-6 = 0.011 ACT = 81.584 Ne = 2451.466 LOD1-7 = -0.013 ACT = 94.505 Ne = 2109.111 LOD1-8 = 0.061 ACT = 66.326 Ne = 2948.064 LOD1 = 0.017 ACT = 88.355 Ne = 17964.200 RNe1 = inf 30/49: Amoebidium Caenorhabditis Candida Cryptobranchus Cryptosporidium Dictyostelium Drosophila Euglena Gelidium Haloarcula Halobacterium Haloferax Halorubrum Homo Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Natrinema Nosema Physarum Saccharomyces Xenopus Zea | Agrobacterium Aquifex Archeoglobus Bacillus Campylobacter Chlamydia Desulfurococcus Escherichia Flavobacterium Geobacillus Methanococcus Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus PP1-1 = 0.532 (1=106420 0=93581) [10616] PP1-2 = 0.515 (1=102903 0=97098) [10600] PP1-3 = 0.504 (1=100843 0=99158) [10364] PP1-4 = 0.491 (1=98125 0=101876) [10740] PP1-5 = 0.501 (1=96336 0=96029) [9872] PP1-6 = 0.506 (1=101139 0=98862) [10775] PP1-7 = 0.523 (1=104254 0=95067) [10957] PP1-8 = 0.490 (1=95898 0=99636) [10154] PP1 = 0.508 (1=805918 0=781307) [84078] LOD1-1 = 0.056 ACT = 81.578 Ne = 2451.653 LOD1-2 = 0.025 ACT = 72.743 Ne = 2749.427 LOD1-3 = 0.007 ACT = 77.196 Ne = 2590.816 LOD1-4 = -0.016 ACT = 59.782 Ne = 3345.521 LOD1-5 = 0.001 ACT = 78.974 Ne = 2435.791 LOD1-6 = 0.010 ACT = 85.209 Ne = 2347.186 LOD1-7 = 0.040 ACT = 82.227 Ne = 2424.048 LOD1-8 = -0.017 ACT = 70.287 Ne = 2781.945 LOD1 = 0.013 ACT = 77.211 Ne = 20556.937 RNe1 = inf 31/49: Bacillus Chlamydia Flavobacterium Geobacillus Spirochaeta | Agrobacterium Amoebidium Aquifex Archeoglobus Caenorhabditis Campylobacter Candida Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Gelidium Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.489 (1=97892 0=102109) [5465] PP1-2 = 0.496 (1=99265 0=100736) [5579] PP1-3 = 0.489 (1=97769 0=102232) [5252] PP1-4 = 0.503 (1=100626 0=99375) [5368] PP1-5 = 0.478 (1=91900 0=100465) [5374] PP1-6 = 0.470 (1=93963 0=106038) [5416] PP1-7 = 0.519 (1=103540 0=95781) [5624] PP1-8 = 0.493 (1=96367 0=99167) [5140] PP1 = 0.492 (1=781322 0=805903) [43218] LOD1-1 = -0.018 ACT = 60.007 Ne = 3332.955 LOD1-2 = -0.006 ACT = 93.024 Ne = 2149.997 LOD1-3 = -0.019 ACT = 63.339 Ne = 3157.637 LOD1-4 = 0.005 ACT = 70.310 Ne = 2844.568 LOD1-5 = -0.039 ACT = 67.240 Ne = 2860.884 LOD1-6 = -0.053 ACT = 68.615 Ne = 2914.824 LOD1-7 = 0.034 ACT = 64.110 Ne = 3109.042 LOD1-8 = -0.012 ACT = 83.586 Ne = 2339.326 LOD1 = -0.013 ACT = 74.955 Ne = 21175.736 RNe1 = inf 32/49: Campylobacter Streptomyces | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.485 (1=96934 0=103067) [6850] PP1-2 = 0.489 (1=97825 0=102176) [7076] PP1-3 = 0.472 (1=94305 0=105696) [7173] PP1-4 = 0.492 (1=98344 0=101657) [7081] PP1-5 = 0.486 (1=93552 0=98813) [6621] PP1-6 = 0.466 (1=93182 0=106819) [6542] PP1-7 = 0.515 (1=102668 0=96653) [7389] PP1-8 = 0.479 (1=93580 0=101954) [6753] PP1 = 0.485 (1=770390 0=816835) [55485] LOD1-1 = -0.027 ACT = 52.524 Ne = 3807.805 LOD1-2 = -0.019 ACT = 69.577 Ne = 2874.532 LOD1-3 = -0.050 ACT = 54.119 Ne = 3695.549 LOD1-4 = -0.014 ACT = 57.044 Ne = 3506.098 LOD1-5 = -0.024 ACT = 80.306 Ne = 2395.414 LOD1-6 = -0.059 ACT = 65.826 Ne = 3038.328 LOD1-7 = 0.026 ACT = 59.232 Ne = 3365.068 LOD1-8 = -0.037 ACT = 67.934 Ne = 2878.299 LOD1 = -0.025 ACT = 62.330 Ne = 25464.999 RNe1 = inf 33/49: Haloarcula Halobacterium Haloferax Halorubrum Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Natrinema | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Homo Methanococcus Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.393 (1=78562 0=121439) [11586] PP1-2 = 0.409 (1=81823 0=118178) [11822] PP1-3 = 0.418 (1=83611 0=116390) [11790] PP1-4 = 0.423 (1=84581 0=115420) [11713] PP1-5 = 0.425 (1=81688 0=110677) [11314] PP1-6 = 0.423 (1=84543 0=115458) [12281] PP1-7 = 0.397 (1=79077 0=120244) [11661] PP1-8 = 0.432 (1=84482 0=111052) [11520] PP1 = 0.415 (1=658367 0=928858) [93687] LOD1-1 = -0.189 ACT = 78.387 Ne = 2551.459 LOD1-2 = -0.160 ACT = 66.734 Ne = 2997.000 LOD1-3 = -0.144 ACT = 75.968 Ne = 2632.687 LOD1-4 = -0.135 ACT = 60.629 Ne = 3298.783 LOD1-5 = -0.132 ACT = 73.545 Ne = 2615.617 LOD1-6 = -0.135 ACT = 75.919 Ne = 2634.392 LOD1-7 = -0.182 ACT = 80.078 Ne = 2489.088 LOD1-8 = -0.119 ACT = 70.494 Ne = 2773.766 LOD1 = -0.149 ACT = 72.784 Ne = 21807.242 RNe1 = inf 34/49: Campylobacter Chlamydia | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Candida Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.408 (1=81575 0=118426) [2212] PP1-2 = 0.400 (1=79918 0=120083) [2279] PP1-3 = 0.418 (1=83583 0=116418) [2338] PP1-4 = 0.398 (1=79509 0=120492) [2249] PP1-5 = 0.405 (1=77814 0=114551) [2130] PP1-6 = 0.427 (1=85435 0=114566) [2257] PP1-7 = 0.372 (1=74100 0=125221) [2163] PP1-8 = 0.411 (1=80446 0=115088) [2190] PP1 = 0.405 (1=642380 0=944845) [17819] LOD1-1 = -0.162 ACT = 70.398 Ne = 2841.019 LOD1-2 = -0.177 ACT = 96.830 Ne = 2065.497 LOD1-3 = -0.144 ACT = 71.808 Ne = 2785.218 LOD1-4 = -0.181 ACT = 77.274 Ne = 2588.189 LOD1-5 = -0.168 ACT = 75.647 Ne = 2542.936 LOD1-6 = -0.127 ACT = 85.292 Ne = 2344.887 LOD1-7 = -0.228 ACT = 81.364 Ne = 2449.759 LOD1-8 = -0.156 ACT = 89.457 Ne = 2185.790 LOD1 = -0.168 ACT = 83.075 Ne = 19105.820 RNe1 = inf 35/49: Cryptobranchus Drosophila Homo Xenopus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptosporidium Desulfurococcus Dictyostelium Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Zea PP1-1 = 0.404 (1=80848 0=119153) [45876] PP1-2 = 0.408 (1=81514 0=118487) [46062] PP1-3 = 0.405 (1=80931 0=119070) [46171] PP1-4 = 0.405 (1=80936 0=119065) [45983] PP1-5 = 0.403 (1=77441 0=114924) [44086] PP1-6 = 0.400 (1=80036 0=119965) [45823] PP1-7 = 0.406 (1=80908 0=118413) [45930] PP1-8 = 0.402 (1=78654 0=116880) [44729] PP1 = 0.404 (1=641268 0=945957) [364661] LOD1-1 = -0.168 ACT = 2.261 Ne = 88438.552 LOD1-2 = -0.162 ACT = 2.970 Ne = 67330.619 LOD1-3 = -0.168 ACT = 2.922 Ne = 68456.300 LOD1-4 = -0.168 ACT = 2.515 Ne = 79527.288 LOD1-5 = -0.171 ACT = 2.660 Ne = 72318.155 LOD1-6 = -0.176 ACT = 2.662 Ne = 75120.130 LOD1-7 = -0.165 ACT = 2.568 Ne = 77615.963 LOD1-8 = -0.172 ACT = 3.117 Ne = 62721.694 LOD1 = -0.169 ACT = 2.955 Ne = 537141.554 RNe1 = inf 36/49: Haloarcula Haloferax Natrinema | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Halobacterium Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.394 (1=78715 0=121286) [4807] PP1-2 = 0.418 (1=83542 0=116459) [5002] PP1-3 = 0.395 (1=79046 0=120955) [4762] PP1-4 = 0.397 (1=79398 0=120603) [4795] PP1-5 = 0.388 (1=74639 0=117726) [5165] PP1-6 = 0.428 (1=85616 0=114385) [4916] PP1-7 = 0.396 (1=79001 0=120320) [5224] PP1-8 = 0.393 (1=76801 0=118733) [4776] PP1 = 0.401 (1=636758 0=950467) [39447] LOD1-1 = -0.188 ACT = 106.076 Ne = 1885.447 LOD1-2 = -0.144 ACT = 124.692 Ne = 1603.960 LOD1-3 = -0.185 ACT = 141.297 Ne = 1415.467 LOD1-4 = -0.182 ACT = 127.551 Ne = 1568.009 LOD1-5 = -0.198 ACT = 107.894 Ne = 1782.907 LOD1-6 = -0.126 ACT = 164.777 Ne = 1213.769 LOD1-7 = -0.183 ACT = 130.386 Ne = 1528.697 LOD1-8 = -0.189 ACT = 98.769 Ne = 1979.702 LOD1 = -0.174 ACT = 118.913 Ne = 13347.807 RNe1 = inf 37/49: Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea | Agrobacterium Escherichia PP1-1 = 0.374 (1=74712 0=125289) [42901] PP1-2 = 0.374 (1=74753 0=125248) [43091] PP1-3 = 0.376 (1=75104 0=124897) [43369] PP1-4 = 0.372 (1=74480 0=125521) [43048] PP1-5 = 0.377 (1=72452 0=119913) [41567] PP1-6 = 0.372 (1=74397 0=125604) [42994] PP1-7 = 0.373 (1=74390 0=124931) [43109] PP1-8 = 0.375 (1=73348 0=122186) [42312] PP1 = 0.374 (1=593636 0=993589) [342392] LOD1-1 = -0.225 ACT = 2.330 Ne = 85820.260 LOD1-2 = -0.224 ACT = 2.221 Ne = 90040.208 LOD1-3 = -0.221 ACT = 1.874 Ne = 106742.855 LOD1-4 = -0.227 ACT = 2.487 Ne = 80407.949 LOD1-5 = -0.219 ACT = 2.006 Ne = 95879.228 LOD1-6 = -0.227 ACT = 2.120 Ne = 94320.084 LOD1-7 = -0.225 ACT = 1.869 Ne = 106625.608 LOD1-8 = -0.222 ACT = 2.186 Ne = 89432.693 LOD1 = -0.224 ACT = 2.278 Ne = 696799.797 RNe1 = inf 38/49: Haloarcula Halobacterium Haloferax Natrinema | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.349 (1=69734 0=130267) [11751] PP1-2 = 0.371 (1=74158 0=125843) [11821] PP1-3 = 0.349 (1=69712 0=130289) [11557] PP1-4 = 0.339 (1=67744 0=132257) [12023] PP1-5 = 0.349 (1=67122 0=125243) [11114] PP1-6 = 0.373 (1=74539 0=125462) [12028] PP1-7 = 0.358 (1=71337 0=127984) [11141] PP1-8 = 0.339 (1=66306 0=129228) [11483] PP1 = 0.353 (1=560652 0=1026573) [92919] LOD1-1 = -0.271 ACT = 81.500 Ne = 2453.996 LOD1-2 = -0.230 ACT = 114.445 Ne = 1747.570 LOD1-3 = -0.272 ACT = 108.757 Ne = 1838.975 LOD1-4 = -0.291 ACT = 95.401 Ne = 2096.431 LOD1-5 = -0.271 ACT = 150.392 Ne = 1279.091 LOD1-6 = -0.226 ACT = 116.033 Ne = 1723.659 LOD1-7 = -0.254 ACT = 115.461 Ne = 1726.310 LOD1-8 = -0.290 ACT = 70.891 Ne = 2758.243 LOD1 = -0.263 ACT = 111.175 Ne = 14276.771 RNe1 = inf 39/49: Amoebidium Candida Dictyostelium Saccharomyces | Agrobacterium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.356 (1=71268 0=128733) [29926] PP1-2 = 0.345 (1=69009 0=130992) [28989] PP1-3 = 0.352 (1=70338 0=129663) [29130] PP1-4 = 0.354 (1=70812 0=129189) [29369] PP1-5 = 0.353 (1=68000 0=124365) [28365] PP1-6 = 0.351 (1=70258 0=129743) [29593] PP1-7 = 0.350 (1=69843 0=129478) [29112] PP1-8 = 0.355 (1=69359 0=126175) [29064] PP1 = 0.352 (1=558887 0=1028338) [233549] LOD1-1 = -0.257 ACT = 9.812 Ne = 20384.278 LOD1-2 = -0.278 ACT = 10.532 Ne = 18990.602 LOD1-3 = -0.266 ACT = 11.687 Ne = 17113.659 LOD1-4 = -0.261 ACT = 10.836 Ne = 18456.976 LOD1-5 = -0.262 ACT = 11.289 Ne = 17039.675 LOD1-6 = -0.266 ACT = 8.970 Ne = 22296.837 LOD1-7 = -0.268 ACT = 11.601 Ne = 17181.773 LOD1-8 = -0.260 ACT = 9.842 Ne = 19867.722 LOD1 = -0.265 ACT = 11.057 Ne = 143543.136 RNe1 = inf 40/49: Escherichia Thermus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Xenopus Zea PP1-1 = 0.350 (1=70028 0=129973) [42616] PP1-2 = 0.353 (1=70511 0=129490) [42675] PP1-3 = 0.350 (1=69942 0=130059) [42880] PP1-4 = 0.352 (1=70344 0=129657) [42729] PP1-5 = 0.349 (1=67134 0=125231) [41006] PP1-6 = 0.352 (1=70450 0=129551) [42632] PP1-7 = 0.349 (1=69551 0=129770) [42570] PP1-8 = 0.351 (1=68647 0=126887) [41656] PP1 = 0.351 (1=556607 0=1030618) [338764] LOD1-1 = -0.269 ACT = 2.330 Ne = 85833.295 LOD1-2 = -0.264 ACT = 2.357 Ne = 84855.273 LOD1-3 = -0.269 ACT = 2.026 Ne = 98699.188 LOD1-4 = -0.266 ACT = 2.604 Ne = 76816.767 LOD1-5 = -0.271 ACT = 1.995 Ne = 96412.370 LOD1-6 = -0.265 ACT = 2.020 Ne = 99020.475 LOD1-7 = -0.271 ACT = 1.897 Ne = 105051.273 LOD1-8 = -0.267 ACT = 2.111 Ne = 92630.108 LOD1 = -0.268 ACT = 2.293 Ne = 692109.800 RNe1 = inf 41/49: Haloferax Natrinema | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.334 (1=66834 0=133167) [15230] PP1-2 = 0.356 (1=71232 0=128769) [16008] PP1-3 = 0.331 (1=66184 0=133817) [15280] PP1-4 = 0.330 (1=65958 0=134043) [15615] PP1-5 = 0.330 (1=63500 0=128865) [14538] PP1-6 = 0.360 (1=72031 0=127970) [16518] PP1-7 = 0.341 (1=67938 0=131383) [15248] PP1-8 = 0.329 (1=64324 0=131210) [15042] PP1 = 0.339 (1=538001 0=1049224) [123479] LOD1-1 = -0.299 ACT = 83.591 Ne = 2392.609 LOD1-2 = -0.257 ACT = 103.368 Ne = 1934.836 LOD1-3 = -0.306 ACT = 109.559 Ne = 1825.502 LOD1-4 = -0.308 ACT = 93.653 Ne = 2135.560 LOD1-5 = -0.307 ACT = 135.255 Ne = 1422.241 LOD1-6 = -0.250 ACT = 130.489 Ne = 1532.707 LOD1-7 = -0.286 ACT = 120.866 Ne = 1649.103 LOD1-8 = -0.310 ACT = 72.541 Ne = 2695.491 LOD1 = -0.290 ACT = 107.356 Ne = 14784.738 RNe1 = inf 42/49: Caenorhabditis Cryptobranchus Drosophila Euglena Homo Xenopus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Campylobacter Candida Chlamydia Cryptosporidium Desulfurococcus Dictyostelium Escherichia Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Zea PP1-1 = 0.335 (1=66958 0=133043) [36422] PP1-2 = 0.324 (1=64772 0=135229) [35541] PP1-3 = 0.328 (1=65625 0=134376) [35712] PP1-4 = 0.319 (1=63771 0=136230) [35585] PP1-5 = 0.325 (1=62433 0=129932) [34313] PP1-6 = 0.324 (1=64842 0=135159) [35996] PP1-7 = 0.326 (1=65018 0=134303) [35892] PP1-8 = 0.329 (1=64359 0=131175) [35471] PP1 = 0.326 (1=517778 0=1069447) [284932] LOD1-1 = -0.298 ACT = 10.424 Ne = 19186.255 LOD1-2 = -0.320 ACT = 10.698 Ne = 18694.514 LOD1-3 = -0.311 ACT = 14.243 Ne = 14042.037 LOD1-4 = -0.330 ACT = 9.633 Ne = 20761.106 LOD1-5 = -0.318 ACT = 10.813 Ne = 17790.307 LOD1-6 = -0.319 ACT = 10.518 Ne = 19015.765 LOD1-7 = -0.315 ACT = 11.403 Ne = 17480.051 LOD1-8 = -0.309 ACT = 9.791 Ne = 19969.770 LOD1 = -0.315 ACT = 11.320 Ne = 140218.879 RNe1 = inf 43/49: Amoebidium Aquifex Archeoglobus Caenorhabditis Campylobacter Candida Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Euglena Gelidium Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Xenopus Zea | Agrobacterium Bacillus Chlamydia Escherichia Flavobacterium Geobacillus Spirochaeta Thermus PP1-1 = 0.301 (1=60205 0=139796) [14152] PP1-2 = 0.313 (1=62561 0=137440) [14094] PP1-3 = 0.309 (1=61804 0=138197) [13680] PP1-4 = 0.313 (1=62592 0=137409) [14636] PP1-5 = 0.299 (1=57463 0=134902) [13259] PP1-6 = 0.288 (1=57551 0=142450) [13821] PP1-7 = 0.316 (1=62992 0=136329) [14603] PP1-8 = 0.308 (1=60248 0=135286) [13730] PP1 = 0.306 (1=485416 0=1101809) [111975] LOD1-1 = -0.366 ACT = 77.978 Ne = 2564.845 LOD1-2 = -0.342 ACT = 113.412 Ne = 1763.497 LOD1-3 = -0.349 ACT = 79.371 Ne = 2519.812 LOD1-4 = -0.341 ACT = 76.226 Ne = 2623.791 LOD1-5 = -0.371 ACT = 89.526 Ne = 2148.697 LOD1-6 = -0.394 ACT = 64.280 Ne = 3111.391 LOD1-7 = -0.335 ACT = 89.045 Ne = 2238.421 LOD1-8 = -0.351 ACT = 82.772 Ne = 2362.311 LOD1 = -0.356 ACT = 87.723 Ne = 18093.557 RNe1 = inf 44/49: Halorubrum Natrinema | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.294 (1=58797 0=141204) [3719] PP1-2 = 0.287 (1=57349 0=142652) [3653] PP1-3 = 0.307 (1=61489 0=138512) [3951] PP1-4 = 0.314 (1=62797 0=137204) [3903] PP1-5 = 0.299 (1=57538 0=134827) [3763] PP1-6 = 0.290 (1=57981 0=142020) [3730] PP1-7 = 0.280 (1=55865 0=143456) [3719] PP1-8 = 0.319 (1=62296 0=133238) [4035] PP1 = 0.299 (1=474112 0=1113113) [30473] LOD1-1 = -0.380 ACT = 92.438 Ne = 2163.614 LOD1-2 = -0.396 ACT = 103.308 Ne = 1935.969 LOD1-3 = -0.353 ACT = 104.418 Ne = 1915.386 LOD1-4 = -0.339 ACT = 115.723 Ne = 1728.281 LOD1-5 = -0.370 ACT = 132.577 Ne = 1450.966 LOD1-6 = -0.389 ACT = 122.869 Ne = 1627.758 LOD1-7 = -0.410 ACT = 115.937 Ne = 1719.219 LOD1-8 = -0.330 ACT = 88.155 Ne = 2218.062 LOD1 = -0.371 ACT = 110.304 Ne = 14389.510 RNe1 = inf 45/49: Caenorhabditis Drosophila | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.293 (1=58503 0=141498) [38473] PP1-2 = 0.288 (1=57677 0=142324) [37750] PP1-3 = 0.292 (1=58368 0=141633) [38178] PP1-4 = 0.288 (1=57653 0=142348) [37947] PP1-5 = 0.291 (1=55983 0=136382) [36725] PP1-6 = 0.292 (1=58421 0=141580) [38273] PP1-7 = 0.288 (1=57403 0=141918) [37696] PP1-8 = 0.293 (1=57376 0=138158) [37761] PP1 = 0.291 (1=461384 0=1125841) [302804] LOD1-1 = -0.384 ACT = 4.476 Ne = 44681.495 LOD1-2 = -0.392 ACT = 5.286 Ne = 37837.918 LOD1-3 = -0.385 ACT = 5.397 Ne = 37057.686 LOD1-4 = -0.393 ACT = 5.340 Ne = 37450.742 LOD1-5 = -0.387 ACT = 4.827 Ne = 39848.696 LOD1-6 = -0.384 ACT = 4.557 Ne = 43891.888 LOD1-7 = -0.393 ACT = 5.368 Ne = 37130.127 LOD1-8 = -0.382 ACT = 4.818 Ne = 40582.802 LOD1 = -0.387 ACT = 5.127 Ne = 309575.471 RNe1 = inf 46/49: Methanococcus Methanothermococcus Pyrococcus Thermococcus | Agrobacterium Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermoplasma Thermotoga Thermus Xenopus Zea PP1-1 = 0.283 (1=56583 0=143418) [5153] PP1-2 = 0.269 (1=53748 0=146253) [5006] PP1-3 = 0.295 (1=59080 0=140921) [5213] PP1-4 = 0.291 (1=58275 0=141726) [5307] PP1-5 = 0.291 (1=55902 0=136463) [5395] PP1-6 = 0.294 (1=58856 0=141145) [5270] PP1-7 = 0.268 (1=53462 0=145859) [4950] PP1-8 = 0.296 (1=57805 0=137729) [5295] PP1 = 0.286 (1=453711 0=1133514) [41589] LOD1-1 = -0.404 ACT = 73.852 Ne = 2708.131 LOD1-2 = -0.435 ACT = 79.802 Ne = 2506.206 LOD1-3 = -0.378 ACT = 76.508 Ne = 2614.121 LOD1-4 = -0.386 ACT = 70.375 Ne = 2841.929 LOD1-5 = -0.388 ACT = 81.949 Ne = 2347.361 LOD1-6 = -0.380 ACT = 86.185 Ne = 2320.602 LOD1-7 = -0.436 ACT = 76.504 Ne = 2605.366 LOD1-8 = -0.377 ACT = 77.895 Ne = 2510.226 LOD1 = -0.398 ACT = 77.694 Ne = 20429.173 RNe1 = inf 47/49: Amoebidium Caenorhabditis Candida Cryptobranchus Cryptosporidium Dictyostelium Drosophila Euglena Gelidium Halorubrum Homo Nosema Physarum Saccharomyces Xenopus Zea | Agrobacterium Aquifex Archeoglobus Bacillus Campylobacter Chlamydia Desulfurococcus Escherichia Flavobacterium Geobacillus Haloarcula Halobacterium Haloferax Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus PP1-1 = 0.290 (1=58014 0=141987) [3898] PP1-2 = 0.281 (1=56282 0=143719) [4210] PP1-3 = 0.273 (1=54691 0=145310) [3803] PP1-4 = 0.262 (1=52353 0=147648) [3236] PP1-5 = 0.274 (1=52762 0=139603) [3922] PP1-6 = 0.275 (1=54965 0=145036) [4290] PP1-7 = 0.293 (1=58483 0=140838) [4235] PP1-8 = 0.251 (1=49047 0=146487) [3398] PP1 = 0.275 (1=436597 0=1150628) [30992] LOD1-1 = -0.389 ACT = 133.053 Ne = 1503.163 LOD1-2 = -0.407 ACT = 125.509 Ne = 1593.517 LOD1-3 = -0.424 ACT = 126.300 Ne = 1583.535 LOD1-4 = -0.450 ACT = 105.230 Ne = 1900.605 LOD1-5 = -0.423 ACT = 115.879 Ne = 1660.055 LOD1-6 = -0.421 ACT = 112.302 Ne = 1780.921 LOD1-7 = -0.382 ACT = 108.566 Ne = 1835.935 LOD1-8 = -0.475 ACT = 108.731 Ne = 1798.322 LOD1 = -0.421 ACT = 115.757 Ne = 13711.745 RNe1 = inf 48/49: Amoebidium Aquifex Archeoglobus Bacillus Caenorhabditis Campylobacter Candida Chlamydia Cryptobranchus Cryptosporidium Desulfurococcus Dictyostelium Drosophila Escherichia Euglena Flavobacterium Gelidium Geobacillus Haloarcula Halobacterium Haloferax Halorubrum Homo Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Natrinema Nosema Physarum Pyrobaculum Pyrococcus Saccharomyces Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Xenopus Zea | Agrobacterium Thermus PP1-1 = 0.265 (1=53064 0=146937) [36549] PP1-2 = 0.263 (1=52606 0=147395) [36274] PP1-3 = 0.265 (1=53031 0=146970) [36771] PP1-4 = 0.264 (1=52855 0=147146) [36528] PP1-5 = 0.264 (1=50832 0=141533) [35116] PP1-6 = 0.265 (1=52998 0=147003) [36513] PP1-7 = 0.268 (1=53332 0=145989) [36711] PP1-8 = 0.263 (1=51353 0=144181) [35571] PP1 = 0.265 (1=420071 0=1167154) [290033] LOD1-1 = -0.442 ACT = 1.872 Ne = 106829.234 LOD1-2 = -0.447 ACT = 2.113 Ne = 94638.947 LOD1-3 = -0.443 ACT = 1.938 Ne = 103224.688 LOD1-4 = -0.445 ACT = 1.940 Ne = 103119.036 LOD1-5 = -0.445 ACT = 1.707 Ne = 112667.063 LOD1-6 = -0.443 ACT = 1.995 Ne = 100227.402 LOD1-7 = -0.437 ACT = 1.764 Ne = 112982.685 LOD1-8 = -0.448 ACT = 2.088 Ne = 93668.930 LOD1 = -0.444 ACT = 2.078 Ne = 763985.803 RNe1 = inf 49/49: Amoebidium Caenorhabditis Candida Cryptobranchus Cryptosporidium Dictyostelium Drosophila Euglena Gelidium Haloarcula Halobacterium Haloferax Halorubrum Homo Natrinema Nosema Physarum Saccharomyces Xenopus Zea | Agrobacterium Aquifex Archeoglobus Bacillus Campylobacter Chlamydia Desulfurococcus Escherichia Flavobacterium Geobacillus Methanococcus Methanolobus Methanosarcina Methanosarcina.v Methanospirillum Methanothermobacter Methanothermococcus Methanothermus Nanoarchaeum Pyrobaculum Pyrococcus Spirochaeta Streptomyces Sulfolobus Thermococcus Thermoplasma Thermotoga Thermus PP1-1 = 0.264 (1=52755 0=147246) [2506] PP1-2 = 0.253 (1=50598 0=149403) [2565] PP1-3 = 0.250 (1=49913 0=150088) [2455] PP1-4 = 0.246 (1=49214 0=150787) [2516] PP1-5 = 0.246 (1=47389 0=144976) [2327] PP1-6 = 0.243 (1=48612 0=151389) [2520] PP1-7 = 0.266 (1=53082 0=146239) [2583] PP1-8 = 0.236 (1=46080 0=149454) [2329] PP1 = 0.251 (1=397643 0=1189582) [19801] LOD1-1 = -0.446 ACT = 145.478 Ne = 1374.786 LOD1-2 = -0.470 ACT = 131.462 Ne = 1521.358 LOD1-3 = -0.478 ACT = 134.881 Ne = 1482.793 LOD1-4 = -0.486 ACT = 101.676 Ne = 1967.038 LOD1-5 = -0.486 ACT = 120.291 Ne = 1599.163 LOD1-6 = -0.493 ACT = 120.495 Ne = 1659.830 LOD1-7 = -0.440 ACT = 120.945 Ne = 1648.030 LOD1-8 = -0.511 ACT = 112.109 Ne = 1744.147 LOD1 = -0.476 ACT = 130.620 Ne = 12151.438 RNe1 = inf ASDSF[min=0.100] = 0.007 MSDSF = 0.024 min Ne = 10999.325 (partition = 28)