Mercurial > repos > iuc > hyphy_relax

comparison test-data/slac-out1.json @ 34:5eb9d7217640 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit e7a89841d59689e87db592e112f9c8fb5331d954
author iuc
date Thu, 02 Mar 2023 15:10:19 +0000
parents 7207313de5a8
children
comparison
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33:7207313de5a8 34:5eb9d7217640
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406 [0.7706672565854851, 2.229332743414515, 1, 3, 0.256889085528495, 1.297576861420836, 1.345694135997441, 0.03130299381820804, 0.7266041542393589, 0.6950598846240446, 1.537146090755571],
407 [0.918128613830821, 2.081871386169179, 0, 2, 0.3060428712769403, 0, 0.9606741383194523, 0.5568190449137107, 0.4815764965055533, 1, 1.725289655759397],
408 [0.5100975226897894, 2.436862688713398, 0, 4, 0.1730927756391077, 0, 1.64145481751042, 0.9514082531190525, 0.4675490133082674, 1, 1.725289655759397],
409 [0.8966968578847342, 1.637530241370116, 1, 4, 0.3538344523852633, 1.115204086204733, 2.442702979734417, 0.7694353751546591, 0.4210688108565674, 0.887353165393325, 1.725289655759397],
410 [0.5446996599261835, 2.444824668946187, 2, 6, 0.1822027854617396, 3.671748207573758, 2.454163718245787, -0.7057275775481558, 0.8347103828697555, 0.4433517293206097, 1.725289655759397],
411 [0.9393647524582979, 2.049986259102873, 2, 4, 0.314237019615746, 2.129098409074901, 1.95123259106649, -0.103093308079983, 0.7175136294201356, 0.6100548468646573, 1.725289655759397],
412 [0.9971754713302217, 1.65845388744669, 2, 6, 0.3754949718546135, 2.005665058459592, 3.61782745086596, 0.934429988045552, 0.368620599922005, 0.865576719285682, 1.725289655759397],
413 [0.4642011124998625, 2.535798887500138, 1, 1, 0.1547337041666208, 2.154238697565155, 0.3943530399549264, -1.020052286139514, 0.9760574807948768, 0.2855248891281182, 1.725289655759397],
414 [0.6749720260888831, 2.190994286795493, 0, 1, 0.235512895966169, 0, 0.4564137871224581, 0.2645432815289006, 0.764487104033831, 1, 1.725289655759397],
415 [0.4261493864669901, 2.217213369077633, 2, 0, 0.1612148713123518, 4.693189908311464, 0, -2.720233030230351, 1, 0.02599023473225814, 1.725289655759397],
416 [0.9324770623328013, 2.040339301342621, 2, 4, 0.3136678988068874, 2.144824876438837, 1.960458242101129, -0.106861264554767, 0.7186004203288798, 0.6088674213175868, 1.725289655759397],
417 [1, 2, 4, 0, 0.3333333333333333, 3.999999999999999, 0, -2.31845127375981, 1, 0.01234567901234551, 1.725289655759397],
418 [0.7715124115435588, 2.214818162086479, 2.5, 6.5, 0.2583479599868095, 3.24038857002737, 2.934778173336202, -0.1771357033707199, 0.6978100646995695, 0.570992193370048, 1.725289655759397],
419 [0.4161749436720388, 2.583825056327961, 0, 0, 0.1387249812240129, 0, 0, 0, 1, 1, 1.725289655759397],
420 [0.6547057169104188, 2.274215377615127, 2.5, 5.5, 0.2235313604501436, 3.818509500417371, 2.418416502735822, -0.8115118484642453, 0.8312930612311302, 0.4102750830236512, 1.725289655759397],
421 [1, 2, 0, 1, 0.3333333333333333, 0, 0.4999999999999999, 0.2898064092199763, 0.6666666666666667, 1, 1.725289655759397],
422 [0.459387925258634, 2.540612074741367, 1, 2, 0.1531293084195446, 2.176809500243183, 0.7872118769661437, -0.8054285949250646, 0.9368355759475114, 0.3926328355868177, 1.725289655759397],
423 [0.68260572574677, 2.182710391950512, 0, 5, 0.2382305119950771, 0, 2.290729919296304, 1.327736424808056, 0.2565180128752359, 1, 1.725289655759397],
424 [0.6209312921230391, 2.232793122341521, 1, 2, 0.2175862844273782, 1.610484143230854, 0.895739054365506, -0.414275415423359, 0.8785713457104332, 0.5210288393809832, 1.725289655759397],
425 [0.7613291257672525, 2.236290545804862, 1, 4, 0.2539778921880274, 1.31349237295003, 1.788676345076781, 0.2754227213618783, 0.6244221032510872, 0.7689220594531727, 1.725289655759397],
426 [0.5856189707051693, 2.386950798284423, 0, 6, 0.1970076453089366, 0, 2.513667229467984, 1.456953747492086, 0.2680824983759217, 1, 1.725289655759397],
427 [0.203181127576837, 2.790309709539656, 1, 6, 0.06787431084056803, 4.92171695238688, 2.150298936167153, -1.606349407456378, 0.9230321845151072, 0.3886057635842186, 1.725289655759397],
428 [0.7145233834068655, 2.170085079520931, 1, 3, 0.2477020339466259, 1.399534323470248, 1.382434277951112, -0.00991140557879772, 0.7421530662286838, 0.6796980736658558, 1.725289655759397],
429 [0.8025307113169092, 2.197469288683092, 1, 6, 0.2675102371056363, 1.246058232910557, 2.730413585709635, 0.860351389602304, 0.4023716041625731, 0.8868613698058293, 1.725289655759397],
430 [0.886960160336796, 2.113039839663204, 1, 3, 0.295653386778932, 1.127446355223306, 1.419755531196311, 0.1694261453415733, 0.6593591282402262, 0.7538806708089124, 1.725289655759397],
431 [0.584073471867688, 2.415926528132312, 1.5, 5.5, 0.1946911572892293, 2.568170054365694, 2.27655929762562, -0.1690213326015218, 0.726177064760956, 0.5944855849772498, 1.725289655759397],
432 [0.5268550139960962, 2.205618688973626, 0, 0, 0.1928124737023075, 0, 0, 0, 1, 1, 1.725289655759397],
433 [1, 1.954150177116668, 1, 3, 0.3385068260057204, 0.9999999999999998, 1.535194190871489, 0.3102054133837139, 0.5833958240116991, 0.8085296778030449, 1.725289655759397],
434 [0.7013114701420603, 2.186058834646365, 0, 2, 0.2428893408576666, 0, 0.9148884596802432, 0.5302810786734529, 0.5732165501869386, 1, 1.725289655759397],
435 [0.6103766338418385, 2.230395005807139, 1, 2, 0.2148629707938298, 1.638332702393587, 0.8967021513197104, -0.4298585739491048, 0.8813404805118064, 0.5160100083098675, 1.725289655759397],
436 [1, 2, 0, 0, 0.3333333333333333, 0, 0, 0, 1, 1, 1.725289655759397],
437 [1.416174943672039, 1.583825056327962, 0, 0, 0.4720583145573461, 0, 0, 0, 1, 1, 1.725289655759397],
438 [0.566048512190645, 2.433951487809356, 2, 3, 0.1886828373968816, 3.533266066295039, 1.232563596696871, -1.333516642795554, 0.9504034442939914, 0.2397204872545077, 1.725289655759397]
439 ]
440 }
441 }
442 },
443 "headers": [
444 ["ES", "Expected synonymous sites"],
445 ["EN", "Expected non-synonymous sites"],
446 ["S", "Inferred synonymous substitutions"],
447 ["N", "Inferred non-synonymous substitutions"],
448 ["P[S]", "Expected proportion of synonymous sites"],
449 ["dS", "Inferred synonymous susbsitution rate"],
450 ["dN", "Inferred non-synonymous susbsitution rate"],
451 ["dN-dS", "Scaled by the length of the tested branches"],
452 ["P [dN/dS > 1]", "Binomial probability that S is no greater than the observed value, with P<sub>s</sub> probability of success"],
453 ["P [dN/dS < 1]", "Binomial probability that S is no less than the observed value, with P<sub>s</sub> probability of success"],
454 ["Total branch length", "The total length of branches contributing to inference at this site, and used to scale dN-dS"]
455 ]
456 },
457 "analysis":{
458 "authors":"Sergei L Kosakovsky Pond and Simon DW Frost",
459 "citation":"Not So Different After All: A Comparison of Methods for Detecting Amino Acid Sites Under Selection (2005). _Mol Biol Evol_ 22 (5): 1208-1222",
460 "contact":"spond@temple.edu",
461 "info":"SLAC (Single Likelihood Ancestor Counting)\n uses a maximum likelihood ancestral state reconstruction\n and minimum path substitution counting to estimate site - level\n dS and dN,\n and applies a simple binomial - based test to test\n if dS differs drom dN.\n The estimates aggregate information over all branches,\n so the signal is derived from\n pervasive diversification or conservation. A subset of branches can be selected\n for testing as well.\n Multiple partitions within a NEXUS file are also supported\n for recombination - aware analysis.\n ",
462 "requirements":"in-frame codon alignment and a phylogenetic tree",
463 "version":"2.00"
464 },
465 "branch attributes":{
466 "0":{
467 "Baboon":{
468 "Global MG94xREV":0.001710698008755675,
469 "Nucleotide GTR":0.001679501710016974,
470 "amino-acid": [
471 ["K", "E", "I", "R", "N", "A", "L", "E", "T", "W", "G", "A", "L", "G", "Q", "D", "I", "D", "L", "D", "I", "P", "S", "F", "Q", "M", "S", "D", "D", "I", "D", "D", "I", "K", "W", "E", "K", "T", "S", "D", "K", "K", "K", "I", "A", "Q", "F", "R", "K", "E", "K", "E", "T", "F", "E", "E", "K", "D", "A", "Y", "K", "L", "F", "K", "N", "G", "T", "L", "K", "I", "K", "H", "-", "L", "K", "I", "H", "D", "Q", "D", "S", "Y", "K", "V", "S", "I", "Y", "D", "T", "K", "G", "K", "N", "V", "L", "E", "K", "T", "F", "D", "L", "K", "I", "Q", "E", "R", "V", "S", "E", "P", "K", "I", "S", "W", "T", "C", "I", "N", "T", "T", "L", "T", "C", "E", "V", "M", "N", "G", "T", "D", "P", "E", "L", "N", "L", "Y", "Q", "D", "G", "K", "H", "L", "K", "-", "L", "S", "Q", "R", "V", "I", "T", "H", "K", "W", "T", "T", "S", "L", "S", "A", "K", "F", "K", "C", "T", "A", "G", "N", "K", "V", "S", "K", "E", "S", "R", "M", "E", "T", "V", "S", "C", "P", "E", "K", "G", "L", "D"]
472 ],
473 "codon": [
474 ["AAA", "GAG", "ATT", "AGG", "AAT", "GCT", "TTG", "GAA", "ACC", "TGG", "GGA", "GCG", "CTG", "GGT", "CAG", "GAC", "ATC", "GAC", "TTG", "GAC", "ATT", "CCT", "AGT", "TTT", "CAA", "ATG", "AGT", "GAT", "GAT", "ATT", "GAT", "GAT", "ATA", "AAA", "TGG", "GAG", "AAA", "ACT", "TCA", "GAC", "AAG", "AAA", "AAG", "ATT", "GCA", "CAA", "TTC", "AGA", "AAA", "GAG", "AAG", "GAG", "ACT", "TTC", "GAG", "GAA", "AAA", "GAT", "GCA", "TAT", "AAG", "CTA", "TTT", "AAA", "AAC", "GGA", "ACT", "CTG", "AAA", "ATT", "AAG", "CAT", "---", "CTG", "AAG", "ATC", "CAT", "GAT", "CAG", "GAT", "AGC", "TAC", "AAG", "GTA", "TCA", "ATA", "TAC", "GAT", "ACA", "AAA", "GGA", "AAA", "AAT", "GTG", "TTG", "GAA", "AAA", "ACA", "TTT", "GAT", "TTG", "AAG", "ATT", "CAA", "GAG", "AGG", "GTC", "TCA", "GAA", "CCA", "AAG", "ATC", "TCC", "TGG", "ACT", "TGT", "ATC", "AAC", "ACA", "ACC", "CTG", "ACC", "TGT", "GAA", "GTA", "ATG", "AAT", "GGA", "ACT", "GAC", "CCC", "GAA", "TTA", "AAC", "CTG", "TAT", "CAA", "GAT", "GGG", "AAA", "CAT", "CTA", "AAA", "---", "CTT", "TCT", "CAG", "AGG", "GTC", "ATC", "ACA", "CAC", "AAG", "TGG", "ACC", "ACC", "AGC", "CTG", "AGT", "GCG", "AAA", "TTC", "AAG", "TGC", "ACA", "GCA", "GGG", "AAC", "AAA", "GTC", "AGC", "AAG", "GAA", "TCC", "AGG", "ATG", "GAG", "ACT", "GTC", "AGC", "TGT", "CCA", "GAG", "AAA", "GGT", "CTG", "GAC"]
475 ],
476 "nonsynonymous substitution count": [
477 [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
478 ],
479 "original name":"Baboon",
480 "synonymous substitution count": [
481 [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
482 ]
483 },
484 "Cat":{
485 "Global MG94xREV":0.270986057489719,
486 "Nucleotide GTR":0.2660443541848668,
487 "amino-acid": [
488 ["-", "-", "-", "A", "N", "D", "D", "I", "V", "W", "G", "T", "L", "G", "Q", "D", "I", "N", "L", "D", "I", "P", "D", "S", "Q", "-", "G", "I", "N", "I", "D", "D", "I", "H", "W", "E", "K", "-", "-", "G", "K", "K", "K", "V", "A", "R", "F", "Q", "I", "S", "N", "K", "P", "K", "N", "P", "D", "E", "K", "Y", "N", "V", "S", "M", "N", "G", "T", "L", "K", "I", "K", "H", "-", "L", "M", "L", "E", "D", "C", "D", "T", "Y", "K", "V", "V", "I", "Y", "D", "K", "D", "G", "K", "N", "V", "L", "D", "K", "T", "F", "Q", "L", "K", "I", "Q", "E", "K", "V", "S", "T", "P", "N", "I", "D", "W", "N", "C", "I", "N", "K", "T", "L", "V", "C", "K", "V", "S", "N", "G", "T", "D", "P", "E", "L", "K", "L", "Y", "V", "N", "G", "T", "S", "I", "K", "P", "V", "S", "S", "K", "F", "S", "T", "Y", "R", "F", "I", "N", "K", "Q", "K", "I", "L", "V", "N", "C", "T", "A", "E", "N", "K", "V", "S", "K", "E", "S", "D", "V", "K", "M", "I", "T", "C", "S", "E", "K", "G", "L", "D"]
489 ],
490 "codon": [
491 ["---", "---", "---", "GCA", "AAT", "GAT", "GAT", "ATC", "GTC", "TGG", "GGT", "ACC", "CTG", "GGT", "CAG", "GAC", "ATC", "AAC", "CTG", "GAC", "ATT", "CCT", "GAT", "TCT", "CAA", "---", "GGG", "ATT", "AAT", "ATA", "GAT", "GAT", "ATA", "CAC", "TGG", "GAA", "AAA", "---", "---", "GGC", "AAG", "AAG", "AAG", "GTG", "GCG", "AGG", "TTC", "CAA", "ATT", "AGC", "AAC", "AAG", "CCT", "AAG", "AAT", "CCA", "GAT", "GAA", "AAA", "TAT", "AAT", "GTG", "TCA", "ATG", "AAT", "GGA", "ACT", "CTG", "AAA", "ATT", "AAA", "CAT", "---", "CTG", "ATG", "CTA", "GAA", "GAC", "TGC", "GAT", "ACC", "TAC", "AAG", "GTT", "GTT", "ATA", "TAC", "GAT", "AAG", "GAT", "GGA", "AAG", "AAT", "GTG", "TTG", "GAT", "AAA", "ACA", "TTT", "CAG", "CTG", "AAG", "ATT", "CAA", "GAG", "AAG", "GTC", "TCA", "ACG", "CCT", "AAC", "ATC", "GAC", "TGG", "AAT", "TGT", "ATC", "AAC", "AAA", "ACC", "CTG", "GTC", "TGT", "AAG", "GTA", "TCA", "AAT", "GGA", "ACA", "GAC", "CCT", "GAA", "TTA", "AAA", "CTG", "TAC", "GTA", "AAT", "GGG", "ACC", "AGT", "ATC", "AAG", "CCC", "GTT", "TCT", "TCG", "AAG", "TTC", "AGC", "ACA", "TAC", "AGG", "TTT", "ATA", "AAC", "AAG", "CAG", "AAG", "ATA", "TTA", "GTC", "AAC", "TGC", "ACG", "GCA", "GAA", "AAC", "AAA", "GTC", "AGC", "AAG", "GAA", "AGC", "GAC", "GTG", "AAG", "ATG", "ATC", "ACT", "TGT", "TCA", "GAG", "AAG", "GGT", "CTG", "GAC"]
492 ],
493 "nonsynonymous substitution count": [
494 [0, 0, 0, 1, 0, 1, 1.5, 2, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1.5, 2, 0, 1, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 1.5, 0, 1.5, 0, 1, 1.5, 2, 1, 0, 0, 3, 1, 2, 2, 0, 1, 0, 1, 0, 1, 1.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1.5, 1, 0, 1.5, 1, 0, 0, 0, 0, 1, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 2, 0, 0, 0, 1, 0, 1, 0, 0, 1, 0, 1, 0, 2, 0, 1, 0, 1, 0, 1, 0, 0, 2, 0, 1, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1.5, 1, 1, 2, 0, 1, 1, 0, 0, 1, 2, 1, 1, 1, 1, 2, 2, 1, 1, 1, 0, 0, 0, 1.5, 0, 0, 0, 0, 0, 0, 0, 2, 1, 1, 1, 0, 1, 0, 1, 0, 0, 0, 0, 0]
495 ],
496 "original name":"Cat",
497 "synonymous substitution count": [
498 [0, 0, 0, 0, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0.5, 1, 1.5, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.5, 0, 1, 0.5, 0, 0, 0, 0, 1, 0, 0, 1, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 1, 0, 0, 1, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0]
499 ]
500 },
501 "Chimp":{
502 "Global MG94xREV":0.001852173963769908,
503 "Nucleotide GTR":0.001818397708700883,
504 "amino-acid": [
505 ["E", "E", "I", "T", "N", "A", "L", "E", "T", "W", "G", "A", "L", "G", "Q", "D", "I", "N", "L", "D", "I", "P", "S", "F", "Q", "M", "S", "D", "D", "I", "D", "D", "I", "K", "W", "E", "K", "T", "S", "D", "K", "K", "K", "I", "A", "Q", "F", "R", "K", "E", "K", "E", "T", "F", "K", "E", "K", "D", "T", "Y", "K", "L", "F", "K", "N", "G", "T", "L", "K", "I", "K", "H", "-", "L", "K", "T", "D", "D", "Q", "D", "I", "Y", "K", "V", "S", "I", "Y", "D", "T", "K", "G", "K", "N", "V", "L", "E", "K", "I", "F", "D", "L", "K", "I", "Q", "E", "R", "V", "S", "K", "P", "K", "I", "S", "W", "T", "C", "I", "N", "T", "T", "L", "T", "C", "E", "V", "M", "N", "G", "T", "D", "P", "E", "L", "N", "L", "Y", "Q", "D", "G", "K", "H", "L", "K", "-", "L", "S", "Q", "R", "V", "I", "T", "H", "K", "W", "T", "T", "S", "L", "S", "A", "K", "F", "K", "C", "T", "A", "G", "N", "K", "V", "S", "K", "E", "S", "S", "V", "E", "P", "V", "S", "C", "P", "E", "K", "G", "L", "D"]
506 ],
507 "codon": [
508 ["GAA", "GAG", "ATT", "ACG", "AAT", "GCC", "TTG", "GAA", "ACC", "TGG", "GGT", "GCC", "TTG", "GGT", "CAG", "GAC", "ATC", "AAC", "TTG", "GAC", "ATT", "CCT", "AGT", "TTT", "CAA", "ATG", "AGT", "GAT", "GAT", "ATT", "GAC", "GAT", "ATA", "AAA", "TGG", "GAA", "AAA", "ACT", "TCA", "GAC", "AAG", "AAA", "AAG", "ATT", "GCA", "CAA", "TTC", "AGA", "AAA", "GAG", "AAA", "GAG", "ACT", "TTC", "AAG", "GAA", "AAA", "GAT", "ACA", "TAT", "AAG", "CTA", "TTT", "AAA", "AAT", "GGA", "ACT", "CTG", "AAA", "ATT", "AAG", "CAT", "---", "CTG", "AAG", "ACC", "GAT", "GAT", "CAG", "GAT", "ATC", "TAC", "AAG", "GTA", "TCA", "ATA", "TAT", "GAT", "ACA", "AAA", "GGA", "AAA", "AAT", "GTG", "TTG", "GAA", "AAA", "ATA", "TTT", "GAT", "TTG", "AAG", "ATT", "CAA", "GAG", "AGG", "GTC", "TCA", "AAA", "CCA", "AAG", "ATC", "TCC", "TGG", "ACT", "TGT", "ATC", "AAC", "ACA", "ACC", "CTG", "ACC", "TGT", "GAG", "GTA", "ATG", "AAT", "GGA", "ACT", "GAC", "CCC", "GAA", "TTA", "AAC", "CTG", "TAT", "CAA", "GAT", "GGG", "AAA", "CAT", "CTA", "AAA", "---", "CTT", "TCT", "CAG", "AGG", "GTC", "ATC", "ACA", "CAC", "AAG", "TGG", "ACC", "ACC", "AGC", "CTG", "AGT", "GCA", "AAA", "TTC", "AAG", "TGC", "ACA", "GCA", "GGG", "AAC", "AAA", "GTC", "AGC", "AAG", "GAA", "TCC", "AGT", "GTC", "GAG", "CCT", "GTC", "AGC", "TGT", "CCA", "GAG", "AAA", "GGT", "CTG", "GAC"]
509 ],
510 "nonsynonymous substitution count": [
511 [1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
512 ],
513 "original name":"Chimp",
514 "synonymous substitution count": [
515 [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
516 ]
517 },
518 "Cow":{
519 "Global MG94xREV":0.2526189686412594,
520 "Nucleotide GTR":0.2480122076744146,
521 "amino-acid": [
522 ["-", "-", "-", "-", "E", "S", "I", "V", "V", "W", "G", "A", "L", "D", "H", "D", "L", "N", "L", "D", "I", "P", "G", "F", "P", "R", "S", "D", "I", "V", "A", "D", "I", "K", "W", "N", "R", "-", "-", "N", "K", "N", "K", "I", "A", "R", "I", "K", "K", "D", "M", "P", "L", "H", "N", "E", "M", "D", "K", "Y", "D", "M", "F", "T", "N", "G", "T", "L", "K", "I", "K", "T", "-", "L", "M", "R", "N", "D", "S", "G", "L", "Y", "E", "V", "E", "V", "Y", "D", "S", "N", "G", "V", "N", "L", "L", "S", "K", "K", "F", "D", "L", "K", "I", "Q", "E", "M", "L", "S", "G", "P", "E", "I", "N", "W", "I", "C", "T", "N", "R", "T", "V", "S", "C", "K", "V", "E", "N", "G", "S", "N", "P", "K", "L", "Q", "L", "F", "L", "N", "T", "T", "R", "V", "K", "Q", "D", "H", "G", "K", "L", "I", "T", "Y", "T", "W", "N", "T", "R", "W", "N", "K", "T", "F", "K", "C", "V", "A", "S", "N", "H", "V", "D", "S", "K", "V", "S", "I", "E", "I", "A", "V", "C", "P", "D", "E", "G", "L", "D"]
523 ],
524 "codon": [
525 ["---", "---", "---", "---", "GAA", "AGC", "ATT", "GTC", "GTC", "TGG", "GGT", "GCC", "CTG", "GAT", "CAT", "GAC", "CTC", "AAC", "CTG", "GAC", "ATT", "CCT", "GGT", "TTT", "CCA", "AGA", "AGT", "GAT", "ATA", "GTG", "GCA", "GAT", "ATA", "AAA", "TGG", "AAC", "AGA", "---", "---", "AAC", "AAA", "AAC", "AAG", "ATT", "GCA", "CGA", "ATA", "AAG", "AAA", "GAT", "ATG", "CCA", "CTT", "CAC", "AAT", "GAA", "ATG", "GAC", "AAA", "TAT", "GAT", "ATG", "TTT", "ACA", "AAT", "GGA", "ACT", "CTG", "AAA", "ATT", "AAA", "ACT", "---", "CTG", "ATG", "AGA", "AAC", "GAT", "AGT", "GGT", "CTC", "TAT", "GAG", "GTA", "GAG", "GTT", "TAT", "GAT", "TCA", "AAT", "GGA", "GTA", "AAC", "CTA", "CTG", "AGC", "AAA", "AAA", "TTT", "GAT", "TTG", "AAG", "ATT", "CAA", "GAG", "ATG", "CTC", "TCA", "GGA", "CCT", "GAA", "ATT", "AAC", "TGG", "ATC", "TGT", "ACC", "AAC", "AGA", "ACT", "GTG", "AGC", "TGC", "AAG", "GTA", "GAA", "AAT", "GGA", "AGT", "AAT", "CCT", "AAA", "TTA", "CAA", "CTG", "TTT", "TTA", "AAT", "ACG", "ACC", "CGT", "GTC", "AAA", "CAA", "GAT", "CAT", "GGG", "AAG", "CTC", "ATC", "ACC", "TAC", "ACG", "TGG", "AAC", "ACC", "AGA", "TGG", "AAT", "AAA", "ACA", "TTC", "AAG", "TGC", "GTG", "GCG", "AGT", "AAC", "CAT", "GTC", "GAT", "AGC", "AAA", "GTC", "AGC", "ATA", "GAG", "ATC", "GCC", "GTG", "TGT", "CCA", "GAT", "GAA", "GGT", "CTG", "GAT"]
526 ],
527 "nonsynonymous substitution count": [
528 [0, 0, 0, 0, 2, 1, 1.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 1.5, 0, 1.5, 0, 0, 1, 0, 2, 1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1.5, 0, 0, 0, 1, 2, 1, 0, 0, 0, 1.5, 0, 1, 0, 2, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 2, 0, 0, 1, 0, 1, 0, 1.5, 0, 1, 0, 1, 0, 1.5, 0, 0, 0, 1, 1, 0, 2, 0, 1, 0, 2.833333333333333, 0, 0, 0, 0, 0, 0, 0, 1, 0, 1, 1, 0, 2, 0, 0, 0, 2, 0, 1, 0, 0, 0, 1, 0, 0, 1, 0, 1, 0, 1, 0, 0, 0, 1, 0, 0, 0, 1, 0, 1, 0, 0, 1, 0, 1, 0, 0, 0, 1, 1, 2, 0, 1, 0, 0, 0, 1, 0, 0, 0, 1, 0, 1, 1, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 2, 2, 1, 1, 0, 1, 0, 0, 2, 2.5, 0, 0, 1, 1, 0, 0, 0]
529 ],
530 "original name":"Cow",
531 "synonymous substitution count": [
532 [0, 0, 0, 0, 0, 1, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.5, 1, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.5, 1, 0, 1, 0, 0, 0, 0, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0.5, 0, 0, 1, 0, 0, 0.5, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0.1666666666666667, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0]
533 ]
534 },
535 "Horse":{
536 "Global MG94xREV":0.2128981270938909,
537 "Nucleotide GTR":0.209015715622236,
538 "amino-acid": [
539 ["-", "-", "-", "-", "K", "N", "I", "T", "I", "L", "G", "A", "L", "E", "R", "D", "I", "N", "L", "D", "I", "P", "A", "F", "Q", "M", "S", "E", "H", "V", "E", "D", "I", "Q", "W", "S", "K", "-", "-", "G", "K", "T", "K", "I", "A", "K", "F", "K", "N", "G", "S", "M", "T", "F", "Q", "K", "D", "K", "T", "Y", "E", "V", "L", "K", "N", "G", "T", "L", "K", "I", "K", "H", "-", "L", "E", "R", "I", "H", "E", "G", "T", "Y", "K", "V", "D", "A", "Y", "D", "S", "D", "G", "K", "N", "V", "L", "E", "E", "T", "F", "H", "L", "S", "L", "L", "E", "M", "V", "S", "K", "P", "N", "I", "S", "W", "S", "C", "T", "N", "T", "T", "L", "T", "C", "E", "V", "T", "K", "G", "T", "D", "F", "E", "L", "K", "L", "Y", "L", "N", "G", "R", "M", "I", "Q", "K", "S", "P", "R", "K", "V", "I", "V", "Y", "K", "R", "A", "S", "N", "Q", "I", "A", "S", "F", "K", "C", "T", "A", "N", "N", "T", "V", "S", "E", "E", "S", "S", "S", "V", "V", "I", "R", "C", "T", "E", "K", "G", "L", "D"]
540 ],
541 "codon": [
542 ["---", "---", "---", "---", "AAG", "AAT", "ATC", "ACC", "ATC", "TTG", "GGT", "GCC", "CTG", "GAA", "CGT", "GAT", "ATC", "AAC", "CTG", "GAC", "ATT", "CCT", "GCT", "TTT", "CAA", "ATG", "AGT", "GAG", "CAT", "GTA", "GAA", "GAT", "ATA", "CAA", "TGG", "AGC", "AAA", "---", "---", "GGA", "AAA", "ACC", "AAG", "ATT", "GCA", "AAA", "TTC", "AAA", "AAT", "GGC", "AGT", "ATG", "ACT", "TTC", "CAG", "AAA", "GAT", "AAA", "ACA", "TAC", "GAG", "GTA", "TTA", "AAA", "AAT", "GGA", "ACT", "CTG", "AAA", "ATT", "AAA", "CAT", "---", "CTG", "GAG", "AGA", "ATT", "CAT", "GAA", "GGT", "ACC", "TAC", "AAG", "GTA", "GAC", "GCA", "TAT", "GAT", "AGT", "GAT", "GGA", "AAA", "AAT", "GTG", "TTG", "GAG", "GAA", "ACA", "TTT", "CAT", "TTG", "AGC", "CTT", "CTA", "GAG", "ATG", "GTC", "TCA", "AAA", "CCT", "AAT", "ATC", "TCC", "TGG", "AGC", "TGC", "ACC", "AAC", "ACC", "ACC", "CTG", "ACC", "TGC", "GAG", "GTG", "ACA", "AAA", "GGA", "ACT", "GAC", "TTT", "GAG", "TTA", "AAA", "CTC", "TAT", "CTA", "AAT", "GGG", "AGA", "ATG", "ATC", "CAA", "AAA", "AGT", "CCT", "CGC", "AAA", "GTC", "ATC", "GTA", "TAC", "AAG", "CGG", "GCC", "AGC", "AAC", "CAA", "ATT", "GCG", "TCC", "TTC", "AAG", "TGC", "ACA", "GCC", "AAT", "AAC", "ACA", "GTC", "AGC", "GAG", "GAA", "AGC", "AGC", "TCT", "GTG", "GTC", "ATC", "AGG", "TGT", "ACA", "GAG", "AAA", "GGT", "CTG", "GAT"]
543 ],
544 "nonsynonymous substitution count": [
545 [0, 0, 0, 0, 1, 0, 1.5, 1, 1, 1, 0, 0, 0, 1.5, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1, 1, 0, 1, 0, 0, 0, 0, 2.833333333333333, 0, 0, 0, 0, 0, 1, 0, 0, 0, 1, 0, 0, 1, 1, 2, 1, 1, 0, 1, 1, 2, 1, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 2, 1, 1, 0, 0, 0, 0, 0, 1, 1, 0, 0, 1.5, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 2, 1, 0, 0, 1, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 2, 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 0, 1, 1, 1, 0, 1.5, 0, 0, 0, 2, 0, 0, 1, 1, 1, 0, 1, 1, 0, 0, 0, 0, 0, 0, 0, 2, 0, 1, 0, 0, 1, 0, 0, 0, 2.5, 1, 1, 0, 1, 0, 1, 0, 0, 0, 0, 0]
546 ],
547 "original name":"Horse",
548 "synonymous substitution count": [
549 [0, 0, 0, 0, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0.5, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.1666666666666667, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 1, 0, 1, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.5, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 1, 1, 0, 0, 0, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1]
550 ]
551 },
552 "Human":{
553 "Global MG94xREV":0,
554 "Nucleotide GTR":0,
555 "amino-acid": [
556 ["K", "E", "I", "T", "N", "A", "L", "E", "T", "W", "G", "A", "L", "G", "Q", "D", "I", "N", "L", "D", "I", "P", "S", "F", "Q", "M", "S", "D", "D", "I", "D", "D", "I", "K", "W", "E", "K", "T", "S", "D", "K", "K", "K", "I", "A", "Q", "F", "R", "K", "E", "K", "E", "T", "F", "K", "E", "K", "D", "T", "Y", "K", "L", "F", "K", "N", "G", "T", "L", "K", "I", "K", "H", "-", "L", "K", "T", "D", "D", "Q", "D", "I", "Y", "K", "V", "S", "I", "Y", "D", "T", "K", "G", "K", "N", "V", "L", "E", "K", "I", "F", "D", "L", "K", "I", "Q", "E", "R", "V", "S", "K", "P", "K", "I", "S", "W", "T", "C", "I", "N", "T", "T", "L", "T", "C", "E", "V", "M", "N", "G", "T", "D", "P", "E", "L", "N", "L", "Y", "Q", "D", "G", "K", "H", "L", "K", "-", "L", "S", "Q", "R", "V", "I", "T", "H", "K", "W", "T", "T", "S", "L", "S", "A", "K", "F", "K", "C", "T", "A", "G", "N", "K", "V", "S", "K", "E", "S", "S", "V", "E", "P", "V", "S", "C", "P", "E", "K", "G", "L", "D"]
557 ],
558 "codon": [
559 ["AAA", "GAG", "ATT", "ACG", "AAT", "GCC", "TTG", "GAA", "ACC", "TGG", "GGT", "GCC", "TTG", "GGT", "CAG", "GAC", "ATC", "AAC", "TTG", "GAC", "ATT", "CCT", "AGT", "TTT", "CAA", "ATG", "AGT", "GAT", "GAT", "ATT", "GAC", "GAT", "ATA", "AAA", "TGG", "GAA", "AAA", "ACT", "TCA", "GAC", "AAG", "AAA", "AAG", "ATT", "GCA", "CAA", "TTC", "AGA", "AAA", "GAG", "AAA", "GAG", "ACT", "TTC", "AAG", "GAA", "AAA", "GAT", "ACA", "TAT", "AAG", "CTA", "TTT", "AAA", "AAT", "GGA", "ACT", "CTG", "AAA", "ATT", "AAG", "CAT", "---", "CTG", "AAG", "ACC", "GAT", "GAT", "CAG", "GAT", "ATC", "TAC", "AAG", "GTA", "TCA", "ATA", "TAT", "GAT", "ACA", "AAA", "GGA", "AAA", "AAT", "GTG", "TTG", "GAA", "AAA", "ATA", "TTT", "GAT", "TTG", "AAG", "ATT", "CAA", "GAG", "AGG", "GTC", "TCA", "AAA", "CCA", "AAG", "ATC", "TCC", "TGG", "ACT", "TGT", "ATC", "AAC", "ACA", "ACC", "CTG", "ACC", "TGT", "GAG", "GTA", "ATG", "AAT", "GGA", "ACT", "GAC", "CCC", "GAA", "TTA", "AAC", "CTG", "TAT", "CAA", "GAT", "GGG", "AAA", "CAT", "CTA", "AAA", "---", "CTT", "TCT", "CAG", "AGG", "GTC", "ATC", "ACA", "CAC", "AAG", "TGG", "ACC", "ACC", "AGC", "CTG", "AGT", "GCA", "AAA", "TTC", "AAG", "TGC", "ACA", "GCA", "GGG", "AAC", "AAA", "GTC", "AGC", "AAG", "GAA", "TCC", "AGT", "GTC", "GAG", "CCT", "GTC", "AGC", "TGT", "CCA", "GAG", "AAA", "GGT", "CTG", "GAC"]
560 ],
561 "nonsynonymous substitution count": [
562 [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
563 ],
564 "original name":"Human",
565 "synonymous substitution count": [
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567 ]
568 },
569 "Mouse":{
570 "Global MG94xREV":0.1202934609265267,
571 "Nucleotide GTR":0.1180997886803625,
572 "amino-acid": [
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575 "codon": [
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577 ],
578 "nonsynonymous substitution count": [
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580 ],
581 "original name":"Mouse",
582 "synonymous substitution count": [
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584 ]
585 },
586 "Node1":{
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588 "Nucleotide GTR":0.2768482204901319,
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591 ],
592 "codon": [
593 ["AAA", "GAG", "ATT", "ACA", "AAT", "AAT", "GTG", "GCC", "GTC", "TGG", "GGT", "GCC", "CTG", "GGT", "CAT", "GAC", "ATC", "AAC", "CTG", "GAC", "ATT", "CCT", "AAT", "TTT", "CAA", "ATG", "AGT", "GAT", "GAT", "ATT", "GAT", "GAT", "ATA", "CAA", "TGG", "GAA", "AAA", "ACT", "TCA", "GGC", "AAA", "AAC", "AAG", "ATT", "GCA", "CAA", "TTC", "AAA", "AAA", "GAG", "AAG", "AAG", "CCT", "TTC", "AAG", "GAA", "AAA", "GAA", "ACA", "TAT", "AAG", "GTA", "TTA", "ACA", "AAT", "GGA", "ACT", "CTG", "AAA", "ATT", "AAG", "CAT", "---", "CTG", "AAG", "AGA", "GAT", "GAT", "GGG", "GGT", "ACC", "TAC", "AAG", "GTA", "GCA", "GTA", "TAT", "GAT", "ACA", "AAT", "GGA", "AAA", "AAT", "GTG", "TTG", "GAG", "AAA", "ACA", "TTT", "GAT", "TTG", "AAG", "ATT", "CTA", "GAG", "AGG", "GTC", "TCA", "AAA", "CCA", "AAG", "ATC", "TCC", "TGG", "AGC", "TGT", "ACC", "AAC", "ACA", "ACC", "CTG", "ACC", "TGT", "GAG", "GTA", "ATG", "AAT", "GGA", "ACT", "GAC", "CCT", "GAA", "TTA", "AAA", "CTG", "TAT", "CAA", "GAT", "GGG", "ACA", "CAT", "CTC", "AAA", "CAA", "CTT", "CCT", "CAG", "AAG", "GTC", "ATC", "ACA", "TAC", "AAG", "TGG", "ACC", "ACC", "AAC", "CTG", "AGT", "GCA", "TCA", "TTC", "AAG", "TGC", "ACG", "GCA", "GGG", "AAC", "AAA", "GTC", "AGC", "AAG", "GAA", "TCC", "AGG", "ATG", "GAG", "ATT", "GTC", "AGC", "TGT", "CCA", "GAG", "AAA", "GGT", "CTG", "GAC"]
594 ],
595 "nonsynonymous substitution count": [
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597 ],
598 "synonymous substitution count": [
599 [0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.5, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 1, 1, 0, 1, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1, 0, 1, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0.5, 1, 0, 1, 0, 0, 1, 0, 0, 1, 0, 0, 1, 0, 0, 0, 1, 0, 1, 0, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 0, 0, 0, 0, 0.1666666666666667, 1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 1, 1, 0, 0, 1, 1, 0, 0, 0, 0.5, 0, 0, 0, 0, 1, 0.3333333333333333, 1, 0, 0, 0, 0, 0, 0.5, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1, 1, 0, 1, 0, 0, 0, 1, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
600 ]
601 },
602 "Node12":{
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604 "Nucleotide GTR":0.01783829915118819,
605 "amino-acid": [
606 ["K", "E", "I", "T", "N", "A", "L", "E", "T", "W", "G", "A", "L", "G", "Q", "D", "I", "N", "L", "D", "I", "P", "S", "F", "Q", "M", "S", "D", "D", "I", "D", "D", "I", "K", "W", "E", "K", "T", "S", "D", "K", "K", "K", "I", "A", "Q", "F", "R", "K", "E", "K", "E", "T", "F", "K", "E", "K", "D", "T", "Y", "K", "L", "F", "K", "N", "G", "T", "L", "K", "I", "K", "H", "-", "L", "K", "T", "D", "D", "Q", "D", "I", "Y", "K", "V", "S", "I", "Y", "D", "T", "K", "G", "K", "N", "V", "L", "E", "K", "I", "F", "D", "L", "K", "I", "Q", "E", "R", "V", "S", "K", "P", "K", "I", "S", "W", "T", "C", "I", "N", "T", "T", "L", "T", "C", "E", "V", "M", "N", "G", "T", "D", "P", "E", "L", "N", "L", "Y", "Q", "D", "G", "K", "H", "L", "K", "-", "L", "S", "Q", "R", "V", "I", "T", "H", "K", "W", "T", "T", "S", "L", "S", "A", "K", "F", "K", "C", "T", "A", "G", "N", "K", "V", "S", "K", "E", "S", "S", "V", "E", "P", "V", "S", "C", "P", "E", "K", "G", "L", "D"]
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608 "codon": [
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610 ],
611 "nonsynonymous substitution count": [
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613 ],
614 "synonymous substitution count": [
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616 ]
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618 "Node16":{
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622 "codon": [
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625 "nonsynonymous substitution count": [
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662 ]
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678 ]
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685 ],
686 "codon": [
687 ["AAA", "GAG", "ATT", "AGG", "AAT", "GCT", "TTG", "GAA", "ACC", "TGG", "GGA", "GCG", "CTG", "GGT", "CAG", "GAC", "ATC", "GAC", "TTG", "GAC", "ATT", "CCT", "AGT", "TTT", "CAA", "ATG", "AGT", "GAT", "GAT", "ATT", "GAT", "GAT", "ATA", "AAA", "TGG", "GAA", "AAA", "ACT", "TCA", "GAC", "AAG", "AAA", "AAG", "ATT", "GCA", "CAA", "TTC", "AGA", "AAA", "GAG", "AAG", "GAG", "ACT", "TTC", "GAG", "GAA", "AAA", "GAT", "GCA", "TAT", "AAG", "CTA", "TTT", "AAA", "AAC", "GGA", "ACT", "CTG", "AAA", "ATT", "AAG", "CAT", "---", "CTG", "AAG", "ATC", "CAT", "GAT", "CAG", "GAT", "AGC", "TAC", "AAG", "GTA", "TCA", "ATA", "TAC", "GAT", "ACA", "AAA", "GGA", "AAA", "AAT", "GTG", "TTG", "GAA", "AAA", "ACA", "TTT", "GAT", "TTG", "AAG", "ATT", "CAA", "GAG", "AGG", "GTC", "TCA", "GAA", "CCA", "AAG", "ATC", "TCC", "TGG", "ACT", "TGT", "ATC", "AAC", "ACA", "ACC", "CTG", "ACC", "TGT", "GAA", "GTA", "ATG", "AAT", "GGA", "ACT", "GAC", "CCC", "GAA", "TTA", "AAC", "CTG", "TAT", "CAA", "GAT", "GGG", "AAA", "CAT", "CTA", "AAA", "---", "CTT", "TCT", "CAG", "AGG", "GTC", "ATC", "ACA", "CAC", "AAG", "TGG", "ACC", "ACC", "AGC", "CTG", "AGT", "GCG", "AAA", "TTC", "AAG", "TGC", "ACA", "GCA", "GGG", "AAC", "AAA", "GTC", "AGC", "AAG", "GAA", "TCC", "AGG", "ATG", "GAG", "ACT", "GTC", "AGC", "TGT", "CCA", "GAG", "AAA", "GGT", "CTG", "GAC"]
688 ],
689 "nonsynonymous substitution count": [
690 [0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
691 ],
692 "synonymous substitution count": [
693 [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
694 ]
695 },
696 "Pig":{
697 "Global MG94xREV":0.190671339253091,
698 "Nucleotide GTR":0.1871942556124935,
699 "amino-acid": [
700 ["-", "-", "-", "-", "-", "T", "E", "V", "V", "W", "G", "I", "V", "D", "Q", "D", "I", "N", "L", "D", "I", "P", "E", "L", "S", "K", "H", "D", "N", "V", "D", "H", "I", "R", "W", "Q", "K", "-", "-", "N", "E", "N", "K", "I", "A", "E", "F", "K", "K", "N", "K", "E", "T", "H", "P", "V", "K", "D", "T", "Y", "M", "M", "L", "P", "N", "G", "T", "L", "R", "I", "K", "D", "-", "L", "K", "R", "D", "D", "E", "G", "I", "Y", "K", "V", "T", "V", "Y", "A", "T", "D", "G", "K", "H", "M", "L", "E", "R", "K", "F", "D", "L", "P", "I", "L", "D", "G", "V", "S", "K", "P", "V", "I", "S", "W", "S", "C", "A", "D", "K", "T", "V", "T", "C", "E", "V", "A", "E", "G", "S", "D", "P", "K", "L", "K", "L", "Y", "V", "N", "K", "S", "T", "A", "R", "E", "G", "R", "Q", "K", "V", "I", "L", "W", "K", "W", "N", "T", "K", "W", "S", "T", "L", "F", "K", "C", "V", "A", "S", "N", "N", "A", "S", "E", "Q", "I", "S", "M", "V", "T", "I", "S", "C", "T", "G", "Q", "G", "L", "D"]
701 ],
702 "codon": [
703 ["---", "---", "---", "---", "---", "ACT", "GAG", "GTT", "GTC", "TGG", "GGC", "ATC", "GTG", "GAT", "CAA", "GAC", "ATC", "AAC", "CTG", "GAC", "ATT", "CCT", "GAA", "CTT", "TCA", "AAA", "CAT", "GAT", "AAC", "GTA", "GAT", "CAT", "ATA", "CGA", "TGG", "CAG", "AAG", "---", "---", "AAT", "GAA", "AAC", "AAG", "ATC", "GCA", "GAA", "TTT", "AAA", "AAA", "AAC", "AAA", "GAA", "ACT", "CAC", "CCT", "GTG", "AAA", "GAC", "ACA", "TAC", "ATG", "ATG", "TTA", "CCA", "AAT", "GGA", "ACT", "CTG", "AGA", "ATT", "AAA", "GAT", "---", "CTG", "AAG", "AGA", "GAT", "GAT", "GAG", "GGT", "ATC", "TAC", "AAG", "GTA", "ACT", "GTC", "TAT", "GCT", "ACG", "GAT", "GGA", "AAA", "CAC", "ATG", "CTG", "GAG", "AGA", "AAA", "TTT", "GAT", "TTG", "CCG", "ATT", "CTA", "GAT", "GGG", "GTC", "TCA", "AAA", "CCT", "GTA", "ATC", "TCC", "TGG", "AGC", "TGT", "GCC", "GAC", "AAA", "ACG", "GTG", "ACC", "TGT", "GAG", "GTA", "GCA", "GAA", "GGA", "AGT", "GAC", "CCT", "AAG", "TTA", "AAA", "CTG", "TAT", "GTA", "AAT", "AAG", "TCC", "ACT", "GCC", "AGA", "GAA", "GGT", "CGT", "CAG", "AAG", "GTC", "ATC", "CTG", "TGG", "AAG", "TGG", "AAC", "ACC", "AAA", "TGG", "AGC", "ACA", "TTA", "TTC", "AAG", "TGT", "GTG", "GCC", "AGT", "AAC", "AAC", "GCC", "AGT", "GAG", "CAA", "ATC", "AGC", "ATG", "GTG", "ACC", "ATC", "AGT", "TGT", "ACG", "GGG", "CAA", "GGT", "CTG", "GAT"]
704 ],
705 "nonsynonymous substitution count": [
706 [0, 0, 0, 0, 0, 1, 1, 0, 0, 0, 0, 2, 1, 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 0, 2, 0, 0, 0, 0, 1, 0, 1, 0, 1, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1, 0, 0, 0, 1, 0, 1, 1, 0, 2, 1, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 1, 1, 0, 0, 1, 0, 0, 0, 0, 2, 0, 0, 1, 1, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 2, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 1, 1, 1, 1, 1, 1, 0, 1, 0, 0, 0, 0, 2.166666666666667, 2, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 1, 1, 0, 0, 0, 1, 1, 0, 0, 0, 1, 1, 1, 0, 0, 0]
707 ],
708 "original name":"Pig",
709 "synonymous substitution count": [
710 [0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1, 1, 0, 0, 1, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 1, 0, 0, 0, 0, 1, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.8333333333333334, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0]
711 ]
712 },
713 "Rat":{
714 "Global MG94xREV":0.06785010407729926,
715 "Nucleotide GTR":0.06661278918863184,
716 "amino-acid": [
717 ["-", "-", "-", "R", "D", "S", "G", "T", "V", "W", "G", "A", "L", "G", "H", "G", "I", "N", "L", "N", "I", "P", "N", "F", "Q", "M", "T", "D", "D", "I", "D", "E", "V", "R", "W", "E", "R", "-", "-", "G", "S", "T", "L", "V", "A", "E", "F", "K", "R", "K", "M", "K", "P", "F", "L", "K", "S", "G", "A", "F", "E", "I", "L", "A", "N", "G", "D", "L", "K", "I", "K", "N", "-", "L", "T", "R", "D", "D", "S", "G", "T", "Y", "N", "V", "T", "V", "Y", "S", "T", "N", "G", "T", "R", "I", "L", "D", "K", "A", "L", "D", "L", "R", "I", "L", "E", "M", "V", "S", "K", "P", "M", "I", "Y", "W", "E", "C", "S", "N", "A", "T", "L", "T", "C", "E", "V", "L", "E", "G", "T", "D", "V", "E", "L", "K", "L", "Y", "Q", "G", "K", "E", "H", "L", "R", "S", "L", "R", "Q", "K", "T", "M", "S", "Y", "Q", "W", "-", "T", "N", "L", "R", "A", "P", "F", "K", "C", "K", "A", "V", "N", "R", "V", "S", "Q", "E", "S", "E", "M", "E", "V", "V", "N", "C", "P", "E", "K", "G", "L", "P"]
718 ],
719 "codon": [
720 ["---", "---", "---", "AGA", "GAC", "AGT", "GGG", "ACC", "GTC", "TGG", "GGT", "GCC", "CTG", "GGT", "CAT", "GGC", "ATC", "AAC", "CTG", "AAC", "ATC", "CCT", "AAC", "TTT", "CAA", "ATG", "ACT", "GAT", "GAT", "ATT", "GAT", "GAG", "GTG", "CGA", "TGG", "GAG", "AGG", "---", "---", "GGG", "AGC", "ACC", "CTG", "GTT", "GCC", "GAG", "TTT", "AAA", "AGG", "AAG", "ATG", "AAG", "CCT", "TTT", "TTG", "AAA", "TCG", "GGA", "GCA", "TTT", "GAG", "ATC", "TTA", "GCA", "AAT", "GGA", "GAC", "TTG", "AAG", "ATA", "AAG", "AAT", "---", "CTG", "ACA", "AGA", "GAT", "GAC", "AGT", "GGC", "ACC", "TAT", "AAT", "GTA", "ACG", "GTA", "TAC", "AGC", "ACA", "AAT", "GGG", "ACA", "CGT", "ATC", "CTG", "GAC", "AAG", "GCA", "CTG", "GAC", "TTG", "AGG", "ATT", "CTA", "GAG", "ATG", "GTC", "TCA", "AAG", "CCG", "ATG", "ATC", "TAC", "TGG", "GAG", "TGC", "AGC", "AAC", "GCA", "ACC", "CTG", "ACC", "TGT", "GAG", "GTC", "TTG", "GAA", "GGA", "ACA", "GAT", "GTT", "GAA", "CTA", "AAG", "CTG", "TAC", "CAA", "GGA", "AAG", "GAG", "CAT", "CTC", "AGG", "AGC", "CTC", "CGT", "CAG", "AAG", "ACC", "ATG", "AGT", "TAC", "CAG", "TGG", "---", "ACC", "AAC", "CTG", "AGA", "GCA", "CCG", "TTT", "AAG", "TGC", "AAG", "GCG", "GTA", "AAC", "AGG", "GTC", "AGC", "CAG", "GAG", "TCT", "GAG", "ATG", "GAA", "GTT", "GTC", "AAC", "TGT", "CCA", "GAG", "AAA", "GGT", "CTG", "CCC"]
721 ],
722 "nonsynonymous substitution count": [
723 [0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1, 1, 1, 0, 1, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1, 1, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 2, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
724 ],
725 "original name":"Rat",
726 "synonymous substitution count": [
727 [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
728 ]
729 },
730 "RhMonkey":{
731 "Global MG94xREV":0.003845100000905624,
732 "Nucleotide GTR":0.003774980735147155,
733 "amino-acid": [
734 ["K", "E", "I", "R", "N", "A", "L", "E", "T", "W", "G", "A", "L", "G", "Q", "D", "I", "D", "L", "D", "I", "P", "S", "F", "Q", "M", "S", "D", "D", "I", "D", "D", "I", "R", "W", "E", "K", "T", "S", "D", "K", "K", "K", "I", "A", "Q", "F", "R", "K", "E", "K", "E", "T", "F", "E", "E", "K", "D", "A", "Y", "K", "L", "F", "K", "N", "G", "T", "L", "K", "TI", "K", "H", "-", "L", "K", "I", "H", "D", "Q", "D", "S", "Y", "K", "V", "S", "I", "Y", "D", "T", "K", "G", "K", "N", "V", "L", "E", "K", "T", "F", "D", "L", "K", "I", "Q", "E", "R", "V", "S", "E", "P", "K", "I", "S", "W", "T", "C", "I", "N", "T", "T", "L", "T", "C", "E", "V", "M", "N", "G", "T", "DG", "P", "E", "L", "N", "L", "Y", "Q", "D", "G", "K", "H", "V", "K", "-", "L", "S", "Q", "R", "V", "I", "T", "H", "K", "W", "T", "T", "S", "L", "S", "A", "K", "F", "K", "C", "T", "A", "G", "N", "K", "V", "S", "K", "E", "S", "R", "M", "E", "T", "V", "S", "C", "P", "E", "K", "G", "L", "D"]
735 ],
736 "codon": [
737 ["AAA", "GAG", "ATT", "AGG", "AAT", "GCT", "TTG", "GAA", "ACC", "TGG", "GGA", "GCG", "CTG", "GGT", "CAG", "GAC", "ATC", "GAC", "TTG", "GAC", "ATT", "CCT", "AGT", "TTT", "CAA", "ATG", "AGT", "GAT", "GAT", "ATT", "GAT", "GAT", "ATA", "AGA", "TGG", "GAA", "AAA", "ACT", "TCA", "GAC", "AAG", "AAA", "AAG", "ATT", "GCA", "CAA", "TTC", "AGA", "AAA", "GAG", "AAG", "GAG", "ACT", "TTC", "GAG", "GAA", "AAA", "GAT", "GCA", "TAT", "AAG", "CTA", "TTT", "AAA", "AAC", "GGA", "ACT", "CTG", "AAA", "AYT", "AAG", "CAT", "---", "CTG", "AAG", "ATC", "CAT", "GAT", "CAG", "GAT", "AGC", "TAC", "AAG", "GTA", "TCA", "ATA", "TAC", "GAT", "ACA", "AAA", "GGA", "AAA", "AAT", "GTG", "TTG", "GAA", "AAA", "ACA", "TTT", "GAT", "TTG", "AAG", "ATT", "CAA", "GAG", "AGG", "GTC", "TCA", "GAA", "CCA", "AAG", "ATC", "TCC", "TGG", "ACT", "TGT", "ATC", "AAC", "ACA", "ACC", "CTG", "ACC", "TGT", "GAA", "GTA", "ATG", "AAT", "GGA", "ACT", "GRC", "CCC", "GAA", "TTA", "AAC", "CTG", "TAT", "CAA", "GAT", "GGG", "AAA", "CAT", "GTA", "AAA", "---", "CTT", "TCT", "CAG", "AGG", "GTC", "ATC", "ACA", "CAC", "AAG", "TGG", "ACC", "ACC", "AGC", "CTG", "AGT", "GCG", "AAA", "TTC", "AAG", "TGC", "ACA", "GCA", "GGG", "AAC", "AAA", "GTC", "AGC", "AAG", "GAA", "TCC", "AGG", "ATG", "GAG", "ACT", "GTC", "AGC", "TGT", "CCA", "GAG", "AAA", "GGT", "CTG", "GAC"]
738 ],
739 "nonsynonymous substitution count": [
740 [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
741 ],
742 "original name":"RhMonkey",
743 "synonymous substitution count": [
744 [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
745 ]
746 }
747 },
748 "attributes":{
749 "Global MG94xREV":{
750 "attribute type":"branch length",
751 "display order":1
752 },
753 "Nucleotide GTR":{
754 "attribute type":"branch length",
755 "display order":0
756 },
757 "amino-acid":{
758 "attribute type":"node label",
759 "display order":1
760 },
761 "codon":{
762 "attribute type":"node label",
763 "display order":0
764 },
765 "nonsynonymous substitution count":{
766 "attribute type":"branch label",
767 "display order":1
768 },
769 "original name":{
770 "attribute type":"node label",
771 "display order":-1
772 },
773 "synonymous substitution count":{
774 "attribute type":"branch label",
775 "display order":0
776 }
777 }
778 },
779 "data partitions":{
780 "0":{
781 "coverage": [
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784 "name":"slac.filter.default"
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854 "Rate Distributions":{
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1019 [1, 2, 2, 0, 0.3333333333333333, 2, 0, -1.830610484906184, 1, 0.03312757201646083, 1.725289655759397],
1020 [0.8112355814440122, 1.748070252653649, 0.5, 5, 0.2805100722877121, 0.5820866973957644, 2.65525881154491, -0.1010914553863033, 0.1525740577443282, 0.5926657206691528, 1.725289655759397],
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1035 [0.5904755044240052, 2.094554445581775, 0.4736111111111111, 7.5, 0.1973400765624612, 0.7066228329448535, 3.144803494146275, 0.9754067439168977, 0.1645524168946175, 0.803927835632814, 1.725289655759397],
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1039 [0.7819138773761725, 2.05832985682885, 1, 5, 0.2606379591253908, 1.061942982106685, 2.344207744196998, 0.275089663259147, 0.2259627832180024, 0.7187206625262328, 1.725289655759397],
1040 [0.8907738645626225, 2.034639226515701, 1, 5, 0.2969246215208741, 1.035882156668409, 2.370537665921336, 0.1698261010922268, 0.2070580563277219, 0.6650613162314321, 1.725289655759397],
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1043 [0.8452722151256524, 2.071920269691051, 0, 5, 0.281757405041884, 0, 2.323747980331379, 1.346874116224018, 0.08272425434591307, 1, 1.725289655759397],
1044 [0.6038215671871429, 2.396178432812857, 0, 2, 0.2012738557290476, 0, 0.8346623826557915, 0.4837810160569296, 0.6379634535419422, 1, 1.725289655759397],
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1046 [0.3931780417870044, 2.029330170444659, 0, 3, 0.1598516088212998, 0, 1.478320306716108, 0.420218225907564, 0.4732669688731034, 0.8742604164004752, 1.725289655759397],
1047 [0.7389643787939167, 2.049234392126126, 0, 3, 0.2615831274091435, 0, 1.438155567180762, 0.8335734016487505, 0.1838568486678878, 1, 1.725289655759397],
1048 [0.1576624310073349, 1.666259984674887, 0, 3, 0.0864414131060299, 0, 1.800439323750157, 1.043557710868951, 0.7624462139510615, 1, 1.725289655759397],
1049 [0.64912976560304, 2.126033302624698, 1, 3, 0.2166376894084332, 1.144208358285506, 1.345694135997441, -0.81284374618555, 0.3870160556934933, 0.3817167351045124, 1.537146090755571],
1050 [0.8078180149155605, 2.08187138616918, 0, 2, 0.2692726716385201, 0, 0.960674138319452, 0.5568190449137106, 0.353884410450268, 1, 1.725289655759397],
1051 [0.474508870036368, 2.314559154579725, 0, 4, 0.1597732060856528, 0, 1.64145481751042, -0.08617076795145127, 0.2538955899173587, 0.6444073362233977, 1.725289655759397],
1052 [0.692872910640827, 1.636054228621117, 1, 3, 0.2855366812640014, 0.8993214556492417, 1.771466985380568, 0.2914429729746759, 0.2274784865378683, 0.7407438047290076, 1.725289655759397],
1053 [0.5163933105011591, 2.347059501850894, 1, 6, 0.1729212192215242, 1.662501507014636, 2.429272326019715, -1.960509786208551, 0.3806249400834549, 0.1931975567321684, 1.725289655759397],
1054 [0.9161697916684987, 2.049986259102873, 2, 4, 0.3068343028709352, 2.129098409074901, 1.936322793671551, -1.099403099760442, 0.6146749113964507, 0.2903303077228784, 1.725289655759397],
1055 [0.9429621341573623, 1.65845388744669, 1.5, 6, 0.3516713599507197, 1.485712068790656, 3.463391473487181, 0.188525168752788, 0.1867122221617029, 0.6743317834296225, 1.725289655759397],
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1082 ],
1083 "RESOLVED": [
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1271 ]
1272 }
1273 },
1274 "sample-97.5":{
1275 "0":{
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1464 ],
1465 "RESOLVED": [
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1824 [1, 2, 4, 0, 0.3333333333333333, 3.999999999999999, 0, -2.31845127375981, 1, 0.01234567901234551, 1.725289655759397],
1825 [0.7091213139350294, 2.274638964597825, 1.833333333333333, 7.75, 0.238208072130221, 2.345533252336273, 3.410881111431381, 0.558113953217533, 0.5094497004116185, 0.7608688179374264, 1.725289655759397],
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1829 [0.459387925258634, 2.540612074741366, 1, 2, 0.1531293084195447, 2.176809500243183, 0.7872118769661439, -0.8054285949250646, 0.9368355759475115, 0.3926328355868177, 1.725289655759397],
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1839 [0.5268550139960962, 2.205618688973626, 0, 0, 0.1928124737023075, 0, 0, 0, 1, 1, 1.725289655759397],
1840 [1, 1.954150177116668, 1, 3, 0.3385068260057204, 0.9999999999999998, 1.535194190871489, 0.3102054133837139, 0.5833958240116991, 0.8085296778030449, 1.725289655759397],
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1843 [1, 2, 0, 0, 0.3333333333333333, 0, 0, 0, 1, 1, 1.725289655759397],
1844 [1.416174943672039, 1.583825056327961, 0, 0, 0.4720583145573463, 0, 0, 0, 1, 1, 1.725289655759397],
1845 [0.566048512190645, 2.41804757094315, 2, 3, 0.1896884337572, 3.533266066295039, 1.240670380537576, -1.333516642795554, 0.9504034442939914, 0.2397204872545077, 1.725289655759397]
1846 ],
1847 "RESOLVED": [
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1869 [1, 2, 1, 0, 0.3333333333333333, 0.9999999999999998, 0, -0.5796128184399526, 1, 0.3333333333333333, 1.725289655759397],
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1882 [0, 1.605943134986746, 0, 0, 0, null, 0, null, 1, 1, 1.725289655759397],
1883 [0.6113934627063623, 2.263216438048971, 3.166666666666667, 6.833333333333333, 0.2127354943475553, 5.17942513262943, 3.085335514929818, -1.23085494358484, 0.8679711245561856, 0.3325752229152308, 1.725289655759397],
1884 [0.6925330497341877, 2.185796915147384, 2, 2, 0.2406023833902872, 2.887948814526112, 0.9149980888618575, -1.143547530745408, 0.9543401716979136, 0.2459637997293737, 1.725289655759397],
1885 [0.9934932136669119, 2.006506786333089, 0, 1, 0.3311644045556372, 0, 0.4881596224926108, 0.1382977073704094, 0.7652359896220933, 1, 0.6099715982776109],
1886 [1, 1.464708068243191, 0, 1, 0.405792537042018, 0, 0.610054385863668, 0, 0.8564401220354213, 1, 0.6099715982776109],
1887 [0.7958059922644639, 2.196220496996529, 3, 5, 0.2659755838127695, 3.743060498032979, 2.282538747360513, -0.846537128300122, 0.8599860880811103, 0.3664298562105163, 1.725289655759397],
1888 [0.6201802793776477, 2.266970997758711, 2, 4, 0.2148069913374189, 3.291046400660695, 1.76446897818926, -0.8464664256095336, 0.8820943530979122, 0.3809892490432158, 1.725289655759397],
1889 [0.5970873863112924, 2.382569364539268, 0, 4, 0.2003879762797679, 0, 1.678859830707806, 0.9730886782421734, 0.4088060024104566, 1, 1.725289655759397],
1890 [0.7956443736323255, 2.079273367166981, 0, 2, 0.2767537875400617, 0, 0.961874485376114, 0.5575147814543285, 0.5230850838376463, 1, 1.725289655759397],
1891 [0.8282564466014788, 2.171743553398522, 2.5, 2.5, 0.2760854822004928, 3.018388821793128, 1.151148806721583, -1.082276247839478, 0.9222252406749, 0.2774994315843134, 1.725289655759397],
1892 [1, 2, 2, 0, 0.3333333333333333, 2, 0, -1.159225636879905, 1, 0.1111111111111109, 1.725289655759397],
1893 [0.7038925584902598, 2.083160732129531, 2.5, 6, 0.2558537846019214, 3.491442117631887, 2.804077311139588, -0.3301187577957048, 0.7188663635690523, 0.5265946959165444, 1.725289655759397],
1894 [0.4688049009926512, 2.519648690168783, 2.5, 1.5, 0.1568720700161365, 5.332708755191084, 0.5953210881551587, -2.745850617733365, 0.9928847139831071, 0.06610565771781596, 1.725289655759397],
1895 [0.6253022407932253, 2.20798039870471, 1, 2, 0.2206988572463884, 1.599226637556029, 0.9058051426422445, -0.4019159870338239, 0.8753756367473269, 0.526722411728036, 1.725289655759397],
1896 [0.6668580322089505, 2.235677503027648, 1.5, 3.5, 0.2297501698474785, 2.249354326634243, 1.565520964119446, -0.3963585825904714, 0.7960711260535791, 0.5267095855275994, 1.725289655759397],
1897 [0.5836308843188339, 2.363556549103549, 1, 6, 0.1980297817845607, 1.797460619405205, 2.538547259330725, 0.4782591329105789, 0.5821464169002271, 0.7866426124258208, 1.725289655759397],
1898 [0.5949620685537677, 2.296479519381244, 2, 5.5, 0.2057665875168771, 3.967080289196653, 2.323230390639773, -0.8158677954294089, 0.8479408503631304, 0.4230484447666902, 1.725289655759397],
1899 [0.6821999177051834, 2.192203590737173, 2, 8, 0.2384009349946053, 3.004572466333601, 3.649296093575797, 0.09794752080910825, 0.6515071334038678, 0.6538756668310549, 1.725289655759397],
1900 [1, 2, 0, 4, 0.3333333333333333, 0, 2, 1.159225636879905, 0.1975308641975309, 1, 1.725289655759397],
1901 [0.4609284877913157, 2.480677584841122, 1, 5, 0.1560021658094785, 2.169533943956937, 2.044686052713315, -0.09722003382992461, 0.7623059424837599, 0.6350898105063837, 1.725289655759397],
1902 [0.7637850976387406, 2.11897944339673, 1, 8, 0.2649488874361076, 1.271522014868499, 3.960460056222179, 1.558542956759413, 0.2335191649796239, 0.9481538838495591, 1.725289655759397],
1903 [0.6506589931002379, 2.23086217735155, 1, 6, 0.2258039953939406, 1.536903371204068, 2.689543110692351, 0.6680847680506966, 0.5070654298169817, 0.8332919851142321, 1.725289655759397],
1904 [0.6467060070324961, 2.185265604782246, 1.5, 7.5, 0.2284456627787054, 2.372215057938744, 3.440093215357065, 0.6458741841217251, 0.5079939396954358, 0.7740052120025984, 1.725289655759397],
1905 [0.5526791829881409, 2.361987283459348, 0, 5, 0.1896200437855821, 0, 2.029262062165958, 0.9815680592336744, 0.4312754757339795, 1, 1.725289655759397],
1906 [0.9397563194205588, 2.038171451008669, 1, 4, 0.3155739130922929, 1.064105640296824, 1.962543434714701, 0.5207460622155208, 0.4964272103469453, 0.8498128515358062, 1.725289655759397],
1907 [0.5139102030286109, 2.009303636765239, 2, 1, 0.203672869466584, 3.891730477841192, 0.4976848604175582, -1.967232346228682, 0.9915511121350397, 0.1075501375403352, 1.725289655759397],
1908 [0.6326893804441466, 2.256455863989615, 0, 6, 0.218988429765893, 0, 2.659037163435346, 1.541212024635338, 0.2269576398122166, 1, 1.725289655759397],
1909 [0.7351187226569947, 2.264881277343006, 2.5, 5, 0.2450395742189982, 3.373658037662139, 2.152322807603702, -0.808582863141815, 0.8411416665025613, 0.3987639935550348, 1.725289655759397],
1910 [1.038526037218927, 1.543291277431698, 0, 3, 0.402246135435598, 0, 1.943897463732521, 1.126707887712282, 0.2135832436214326, 1, 1.725289655759397],
1911 [0.8830180417595852, 2.099087368043815, 0.5, 5.5, 0.2961055765690723, 0.5662398460213256, 2.620186317030515, 1.190493702986431, 0.2751302130367403, 0.8783687563724019, 1.725289655759397],
1912 [0.5218019815957397, 2.478198018404261, 2, 0, 0.1739339938652465, 3.832871607508532, 0, -2.221581515146493, 0.9999999999999999, 0.03025303422191572, 1.725289655759397],
1913 [1, 1.870768091895612, 0, 0, 0.3483388305809421, 0, 0, 0, 1, 1, 1.725289655759397],
1914 [0.9885200172902704, 2.01147998270973, 1, 3, 0.3295066724300901, 1.011613303230013, 1.491439152160293, 0.2781132126588224, 0.5993953205258979, 0.7978946354601484, 1.725289655759397],
1915 [1.412393840002704, 1.582345684738455, 1, 0, 0.4716249371052663, 0.7080178146331237, 0, -0.4103762010452009, 1, 0.4716249371052663, 1.725289655759397],
1916 [0.634831467487735, 2.219711604264699, 1, 1, 0.2223933748871427, 1.575221222031373, 0.450508975165384, -0.6518976353399278, 0.9505411868063067, 0.3953279365805923, 1.725289655759397],
1917 [0.7185732480807258, 2.281426751919275, 1, 0, 0.2395244160269085, 1.391646575587042, 0, -0.8066161939483142, 1, 0.2395244160269085, 1.725289655759397],
1918 [0.6391688408743817, 2.215374230878052, 1, 0, 0.2239128381699245, 1.56453183580101, 0, -0.9068227068876566, 1, 0.2239128381699245, 1.725289655759397],
1919 [0.5674267949098347, 2.427502312426945, 0, 5, 0.1894625129923076, 0, 2.059730272718525, 1.193846068596477, 0.349836829074206, 1, 1.725289655759397],
1920 [1, 2, 0, 1, 0.3333333333333333, 0, 0.5713308814380595, 0.6547578221929578, 0.6906428046512929, 1, 0.7228570872307064],
1921 [1.366804513413256, 1.633195486586745, 0, 1, 0.4556015044710853, 0, 0.612296573320763, 0.3548949425835726, 0.5443984955289147, 1, 1.725289655759397],
1922 [0.6141954965845893, 2.291170146169528, 1, 5, 0.2114004129278433, 1.62814609608958, 2.182291004602694, 0.3211894922474355, 0.6273609090587337, 0.7594866031815561, 1.725289655759397],
1923 [0.887326960067052, 1.981992778144394, 1, 4, 0.3092464559631671, 1.126980295881502, 2.018170824893182, 0.5165454542874521, 0.5092789421646026, 0.84274096400054, 1.725289655759397],
1924 [0.5416078322192071, 2.448243134207741, 2, 6, 0.1811487723973282, 3.692708784887978, 2.450736986112949, -0.7198627747109325, 0.8368551269634213, 0.4401315299225426, 1.725289655759397],
1925 [0.4970481403182887, 2.502951859681712, 2, 1, 0.1656827134394295, 4.023755121021646, 0.3995282594556833, -2.100648345898033, 0.9954518833432916, 0.07325605128453927, 1.725289655759397],
1926 [0.6752072759351671, 2.190029642840702, 1.916666666666667, 9.541666666666666, 0.2415881444096116, 2.838634497846708, 4.261289305901132, 1.069105346574073, 0.4059463783084185, 0.8338419230508338, 1.725289655759397],
1927 [0.9338271029778398, 2.06617289702216, 1, 2, 0.3112757009926133, 1.070862043745726, 0.9679732044121133, -0.05963569015217066, 0.7696429142474193, 0.6733097170588852, 1.725289655759397],
1928 [0.9361759887329923, 2.063824011267008, 0, 4, 0.3120586629109974, 0, 1.938149754127703, 1.123376441548659, 0.2239781352969946, 1, 1.725289655759397],
1929 [0.4453926783961033, 2, 2, 0, 0.1821354428394828, 4.490419571336846, 0, -2.602704743720474, 1, 0.03317331953833458, 1.725289655759397],
1930 [0.6645639208989566, 2.218916264242379, 0, 2, 0.2304728585698197, 0, 0.9013409078250524, 0.5224287439597043, 0.5921720213977048, 1, 1.725289655759397],
1931 [1, 2, 1, 0, 0.3333333333333333, 0.9999999999999998, 0, -0.5796128184399526, 1, 0.3333333333333333, 1.725289655759397],
1932 [0.9050593513243821, 2.055311272449802, 4, 7.5, 0.3053514989862943, 4.42326646586183, 3.673501812598206, -0.1828094636493581, 0.6664720536265332, 0.5530921973602283, 1.725289655759397],
1933 [0.9156670752064466, 2.084332924793554, 3, 3, 0.3052223584021489, 3.276299957955373, 1.439309413728683, -1.064743266786774, 0.9253069220966311, 0.2654219889734886, 1.725289655759397],
1934 [0.5147920510038089, 2, 3, 0, 0.2047056140480178, 5.82759581106625, 0, -3.377749232780972, 1, 0.008578063563390859, 1.725289655759397],
1935 [0.6287682854486834, 2.371231714551317, 1, 3, 0.2095894284828944, 1.5904110037713, 1.265165264782087, -0.1885165994611231, 0.8042989929476259, 0.6096888474770128, 1.725289655759397],
1936 [0.9512915842725097, 1.991551466750624, 2.5, 3.5, 0.3232559697472741, 2.628006009232016, 1.757423826817055, -0.5046005924331403, 0.8048238513128398, 0.4642492042068314, 1.725289655759397],
1937 [0.5315240173512165, 2.459555974631287, 0, 3, 0.1777030433074174, 0, 1.219732354515628, 0.7069725077432029, 0.5560144121437613, 1, 1.725289655759397],
1938 [1, 1.895422064398825, 1, 0, 0.3453727911711655, 0.9999999999999998, 0, -0.5796128184399526, 1, 0.3453727911711655, 1.725289655759397],
1939 [0.670216920600697, 2.223120357380745, 1.5, 4.5, 0.2316414770241645, 2.238081364247849, 2.024181904978752, -0.1239788684497432, 0.7182449860521957, 0.6081247108744521, 1.725289655759397],
1940 [0.5209867714395502, 2.47901322856045, 1, 4, 0.1736622571465167, 1.919434532352669, 1.624982121341705, -0.1772973536648592, 0.7901510566014533, 0.6147098132938391, 1.725289655759397],
1941 [0.8328764131889459, 2.167123586811055, 1, 5.5, 0.2776254710629819, 1.200658325970795, 2.375732060566523, 0.6413690710583896, 0.4697530458363114, 0.8444384023975759, 1.725289655759397],
1942 [1.315583835419405, 1.544468392052184, 2, 0, 0.4599859480826469, 1.520237590455346, 0, -0.881149194502186, 1, 0.2115870724334916, 1.725289655759397],
1943 [0.6657032717846703, 2.230171877897898, 1.166666666666667, 4.833333333333333, 0.2298798247077888, 1.752532571364677, 2.16724700962919, 0.2403738044102359, 0.628720427803877, 0.7291102920080381, 1.725289655759397],
1944 [0.634831467487735, 2.220712675704794, 1, 2, 0.2223154101823783, 1.575221222031373, 0.9006117819205289, -0.391012278928845, 0.8737030718137816, 0.5296615540471872, 1.725289655759397],
1945 [0.8644075140929272, 2.092474185443209, 0.5, 4.5, 0.2923375372875188, 0.5784308810927898, 2.150564165285915, 0.9112286038144367, 0.3607583632969551, 0.8225276102286037, 1.725289655759397],
1946 [0.7041640395144794, 2.288548304806175, 1, 1, 0.2352929244438709, 1.420123641487713, 0.4369582227737568, -0.5698552793334921, 0.9446372397066509, 0.4152230885943926, 1.725289655759397],
1947 [0.5191045467360328, 2.45572332648199, 1, 3, 0.1744990193918315, 1.926394223066794, 1.221635991175654, -0.4084869051051814, 0.8570267951080601, 0.5356233502567853, 1.725289655759397],
1948 [1.231179786569069, 1.531630144383083, 1, 1, 0.445625945084382, 0.8122290594022031, 0.6528991373454488, -0.09234966518513338, 0.8014175170676513, 0.6926694072364155, 1.725289655759397],
1949 [0.7496042892363417, 2.147705363295362, 0, 5, 0.2587242577200295, 0, 2.328066077149511, 1.349376940491073, 0.2238200260163463, 1, 1.725289655759397],
1950 [0.8070678282241839, 2.192932171775817, 0, 1, 0.2690226094080612, 0, 0.4560104561693802, 0.264309505738423, 0.7309773905919388, 1, 1.725289655759397],
1951 [1.223952042865946, 1.668414900581043, 1, 3, 0.4249191781226812, 0.8695175526281407, 1.798113885793766, 0.5758751027656168, 0.429260231240068, 0.8921419266071987, 1.725289655759397],
1952 [0.6876250278364709, 2.190284131911209, 0, 1, 0.2389321516655371, 0, 0.4565617699688191, 0.2646290542835606, 0.7610678483344629, 1, 1.725289655759397],
1953 [0.785040991006291, 2.203535767861766, 0, 5, 0.262680551428644, 0, 2.269080480981629, 1.315188132848846, 0.217910645949203, 1, 1.725289655759397],
1954 [1, 2, 0, 1, 0.3333333333333333, 0, 0.4999999999999999, 0.2898064092199763, 0.6666666666666667, 1, 1.725289655759397],
1955 [1, 1.416174943672039, 0, 0, 0.4138773157212806, 0, 0, 0, 1, 1, 1.725289655759397],
1956 [0.6800869905111925, 2.187242275693642, 2, 4, 0.2371848251007977, 2.940800262179232, 1.828786890437858, -0.6445372045379331, 0.8503092051904635, 0.4354119218762268, 1.725289655759397],
1957 [1, 2, 3, 0, 0.3333333333333333, 3, 0, -1.738838455319858, 1, 0.03703703703703698, 1.725289655759397],
1958 [0.5154245261353843, 2.396789961544301, 1, 5, 0.176987144427693, 1.965550079326624, 2.105395927024024, 0.1128102197608515, 0.7027919498324501, 0.6905802370656238, 1.725289655759397],
1959 [0.7825711582107827, 2.217428841789218, 1, 0, 0.2608570527369275, 1.277839068700579, 0, -0.7406519041222269, 1, 0.2608570527369275, 1.725289655759397],
1960 [0.8000298773092274, 2.079414537225552, 0, 6, 0.2778417507456851, 0, 2.885427553086874, 1.67243079644898, 0.1418385423653944, 1, 1.725289655759397],
1961 [0, 1.605943134986746, 0, 0, 0, null, 0, null, 1, 1, 1.725289655759397],
1962 [0.5664016288458401, 2.412243799415475, 3.166666666666667, 5.833333333333333, 0.1901540960437369, 5.590850211923652, 2.439366347139846, -1.838897827951718, 0.9372130590786925, 0.2111394272669082, 1.725289655759397],
1963 [0.498911356793194, 2.208835964652784, 2, 0, 0.184253291598408, 4.008728149335411, 0, -2.323510220995873, 0.9999999999999999, 0.03394927546484805, 1.725289655759397],
1964 [0.9579804757710482, 2.042019524228952, 0, 5, 0.3193268252570161, 0, 2.448556412254655, 1.419214683216139, 0.1461144532193281, 1, 1.725289655759397],
1965 [0.4161749436720388, 2.583825056327961, 0, 1, 0.1387249812240129, 0, 0.3870231065183506, 0.2243235535704873, 0.8612750187759871, 1, 1.725289655759397],
1966 [0.913304818839881, 2.033655392563306, 1, 4, 0.3099142008452885, 1.094924694769752, 1.966901577635643, 0.5209521722064038, 0.4970985452583533, 0.8494485690371256, 1.725289655759397],
1967 [1, 2, 2, 0, 0.3333333333333333, 2, 0, -1.159225636879905, 1, 0.1111111111111109, 1.725289655759397],
1968 [1.297103514722715, 1.702896485277286, 0, 1, 0.4323678382409049, 0, 0.5872347548108117, 0.3403687913217892, 0.5676321617590951, 1, 1.725289655759397],
1969 [0.9515415817883445, 2.048458418211656, 0, 3, 0.3171805272627815, 0, 1.464515937120685, 0.848852209964749, 0.3183594118243534, 1, 1.725289655759397],
1970 [0.5119231836448793, 2.207337856020568, 2, 0, 0.1882581981566071, 3.906836150220925, 0, -2.264452312212645, 0.9999999999999998, 0.03544114917317254, 1.725289655759397],
1971 [0.706575670862896, 2.166235629072722, 1, 3, 0.2459526913162486, 1.415276581457671, 1.384890895402814, -0.01761193313448725, 0.7450923228139181, 0.6767084325464141, 1.725289655759397],
1972 [1, 2, 2, 0, 0.3333333333333333, 2, 0, -1.159225636879905, 1, 0.1111111111111109, 1.725289655759397],
1973 [0.8589785718123822, 2.029072400593854, 0.5, 6.166666666666666, 0.2974250039280669, 0.6136060249452406, 3.114648443170177, 1.186584286607914, 0.2928570713917096, 0.9037277039468097, 1.725289655759397],
1974 [0.5502845325723215, 2.396433011910489, 0, 6, 0.1867449201578986, 0, 2.534936866282053, 1.469281901633082, 0.2852993555856185, 1, 1.725289655759397],
1975 [1, 1.875273350892593, 1, 0, 0.3477930192931265, 0.9999999999999998, 0, -0.5796128184399526, 1, 0.3477930192931264, 1.725289655759397],
1976 [0.8646289248300126, 2.135371075169988, 2, 1, 0.2882096416100042, 2.313131035250993, 0.4683026812660157, -1.069286161791172, 0.9760599244772276, 0.2013142415053557, 1.725289655759397],
1977 [0.4453926783961033, 2.554607321603898, 2, 1, 0.1484642261320344, 4.490419571336846, 0.3914495944418397, -2.375815541008863, 0.996727606987748, 0.05958009329844738, 1.725289655759397],
1978 [0.9543126197029367, 2.045687380297064, 1, 5, 0.3181042065676455, 1.095929564554576, 2.455848166520091, 0.8222101068370324, 0.375261288169125, 0.9023025068538029, 1.725289655759397],
1979 [0.613989860419179, 2.252136105941114, 2, 1, 0.2142229154006401, 3.257382782566757, 0.4440228978000083, -1.630659452095556, 0.9901689981860609, 0.118012368820371, 1.725289655759397],
1980 [1.184470352291266, 1.432648000272506, 2, 0, 0.4525857040935651, 1.68851841342517, 0, -0.9786869165931201, 1, 0.204833819549868, 1.725289655759397],
1981 [0.6094749385429269, 2.234168713914946, 1, 2, 0.2143288727531432, 1.640756554142656, 0.8951875422583413, -0.4321413563197585, 0.8818805961978161, 0.515021617814888, 1.725289655759397],
1982 [1.390497265215147, 1.609502734784853, 1, 0, 0.4634990884050491, 0.7191671821413277, 0, -0.4168385173704538, 1, 0.4634990884050491, 1.725289655759397],
1983 [0.515986575161672, 2.034639226515701, 2, 1, 0.2022980300843592, 3.876069836455237, 0.4914876244239574, -1.96174723515718, 0.9917210556887518, 0.1062155903055397, 1.725289655759397],
1984 [1.026689427494268, 1.778563196489135, 1, 3, 0.3659882246314022, 0.9740043807021503, 1.686754795062648, 0.4131192765117325, 0.5346753263705093, 0.8384193703849537, 1.725289655759397],
1985 [0.6191923810652198, 2.368642556158739, 1.5, 2.5, 0.207670944189833, 2.422510427889138, 1.05902635668839, -0.7874901728943778, 0.8884103037270402, 0.3995062752260281, 1.725289655759397],
1986 [0.912674714902639, 2.052913918036707, 1, 5.5, 0.3077931798901828, 1.095680622757996, 2.633737967584397, 0.7880681623553446, 0.3996968315147039, 0.8914776024602844, 1.725289655759397],
1987 [0.9504217161225326, 2.032189263235718, 3, 6, 0.3185847210368772, 3.233355956577919, 2.922387486196885, -0.2764607897549032, 0.7150769207771153, 0.5341763803944494, 1.725289655759397],
1988 [0.6699422175504013, 2.325221577684591, 0.6666666666666667, 8.5, 0.2236746513216448, 1.05638162893713, 3.858803774305377, 1.55323537552147, 0.2622289013347361, 0.9037226658815665, 1.725289655759397],
1989 [0.9531780261440914, 2.046821973855909, 1, 5, 0.3177260087146971, 1.049121961031056, 2.407060256008831, 0.7670452684056749, 0.4039188353569343, 0.8898027580510227, 1.725289655759397],
1990 [0.6412303110713271, 2.204540734106206, 2, 4, 0.2253274423316525, 3.11900414791454, 1.814436874817708, -0.7561439140041785, 0.8675922736594839, 0.4066864498982908, 1.725289655759397],
1991 [0.6193320811838234, 2.216614432620847, 1.833333333333333, 6.583333333333334, 0.2223646822781374, 2.896430383501774, 2.963446495360119, 0.2214729670897475, 0.6239037738276377, 0.682079854204686, 1.717881683785966],
1992 [0.9361680866134802, 2.06383191338652, 1, 5, 0.31205602887116, 1.068184244153662, 2.429153900387575, 0.7924529737466629, 0.390668869851127, 0.8956812645675155, 1.725289655759397],
1993 [0.9653607734842997, 2.034639226515701, 1, 5, 0.3217869244947665, 1.035882156668409, 2.457438122119787, 0.8239520597054015, 0.3743639219220316, 0.9026811539630719, 1.725289655759397],
1994 [0.7802855479936737, 1.899691410376977, 0.5, 5.5, 0.2911538271090454, 0.6407910556406382, 2.895207068872609, 1.306688419365544, 0.2831724012199115, 0.8731437136526612, 1.725289655759397],
1995 [0.7066525864062013, 2.15681049336373, 1, 1, 0.2467825031161143, 1.415122535793247, 0.4636475958721875, -0.5514870716026298, 0.9390983961557451, 0.4326634023879736, 1.725289655759397],
1996 [0.9278486054607593, 2.072151394539241, 0, 5, 0.3092828684869197, 0, 2.412951106360541, 1.398577391515435, 0.157217591444011, 1, 1.725289655759397],
1997 [0.6038215671871429, 2.396178432812857, 0, 2, 0.2012738557290476, 0, 0.8346623826557915, 0.4837810160569296, 0.6379634535419422, 1, 1.725289655759397],
1998 [0.9068301121228288, 2.089207511015492, 2.333333333333333, 5.666666666666667, 0.3026764767970213, 2.573065563373448, 2.712352237290347, 0.08073234164010072, 0.63032116147405, 0.6516441553548806, 1.725289655759397],
1999 [0.4008436757486826, 2.029330170444659, 0, 3, 0.1649444447674268, 0, 1.478320306716108, 0.8568533995327389, 0.5822990862226557, 1, 1.725289655759397],
2000 [0.7389643787939167, 2.086005205876958, 0, 3, 0.2615831274091435, 0, 1.438155567180762, 0.8335734016487505, 0.4026287982935924, 1, 1.725289655759397],
2001 [0.1576624310073349, 1.666259984674887, 0, 3, 0.0864414131060299, 0, 1.800439323750157, 1.043557710868951, 0.7624462139510615, 1, 1.725289655759397],
2002 [0.7706672565854851, 2.229332743414515, 1, 4, 0.256889085528495, 1.312960703174895, 1.758629750260521, 0.1849831169945381, 0.6761938496473037, 0.7109049246297867, 1.537146090755571],
2003 [0.918128613830821, 2.08187138616918, 0, 2, 0.3060428712769402, 0, 0.960674138319452, 0.5568190449137106, 0.4815764965055533, 1, 1.725289655759397],
2004 [0.5100975226897894, 2.436862688713398, 0, 4, 0.1730927756391077, 0, 1.64145481751042, 0.9514082531190525, 0.4675490133082674, 1, 1.725289655759397],
2005 [0.8966968578847343, 1.642037753317381, 1, 4, 0.3538344523852633, 1.115204086204733, 2.442702979734417, 0.7694353751546591, 0.4210688108565674, 0.887353165393325, 1.725289655759397],
2006 [0.5446996599261835, 2.444824668946187, 2, 6, 0.1822027854617396, 3.671748207573758, 2.469395198364968, -0.6395677508663903, 0.824295415527497, 0.458673880911332, 1.725289655759397],
2007 [0.9393647524582979, 2.050382206902235, 2, 4, 0.3141954035666, 2.129098409074901, 1.95123259106649, -0.103093308079983, 0.7175136294201356, 0.6100548468646573, 1.725289655759397],
2008 [0.9930261789614826, 1.729576569823436, 2, 6, 0.3647341425056095, 2.014045593532712, 3.604897778287483, 0.8433433604945434, 0.3931728711383731, 0.8516454740288871, 1.725289655759397],
2009 [0.4642011124998626, 2.535798887500138, 1, 1, 0.1547337041666208, 2.154238697565155, 0.3943530399549264, -1.020052286139514, 0.9760574807948768, 0.2855248891281182, 1.725289655759397],
2010 [0.6749720260888831, 2.190994286795494, 0, 1, 0.235512895966169, 0, 0.4564137871224579, 0.2645432815289004, 0.764487104033831, 1, 1.725289655759397],
2011 [0.4261493864669901, 2.217213369077633, 2, 0, 0.1612148713123518, 4.693189908311464, 0, -2.720233030230351, 1, 0.02599023473225814, 1.725289655759397],
2012 [0.9324770623328013, 2.040339301342621, 2, 4.166666666666667, 0.3136678988068874, 2.144824876438837, 2.041512268408531, -0.106861264554767, 0.7186004203288798, 0.6088674213175868, 1.725289655759397],
2013 [1, 2, 4, 0, 0.3333333333333333, 3.999999999999999, 0, -2.31845127375981, 1, 0.01234567901234551, 1.725289655759397],
2014 [0.7091213139350294, 2.274638964597825, 1.833333333333333, 7.75, 0.238208072130221, 2.345533252336273, 3.410881111431381, 0.558113953217533, 0.5094497004116185, 0.7608688179374264, 1.725289655759397],
2015 [0.4161749436720389, 2.583825056327961, 0, 0, 0.1387249812240129, 0, 0, 0, 1, 1, 1.725289655759397],
2016 [0.6659596192381536, 2.256767693355746, 2.5, 6, 0.2284450217013008, 3.443359136114996, 2.639155331188279, -0.367350344747201, 0.7673619164483392, 0.5300792745888832, 1.725289655759397],
2017 [1, 2, 0, 1, 0.3333333333333333, 0, 0.4999999999999999, 0.2898064092199763, 0.6666666666666667, 1, 1.725289655759397],
2018 [0.459387925258634, 2.540612074741366, 1, 2, 0.1531293084195447, 2.176809500243183, 0.7872118769661439, -0.8054285949250646, 0.9368355759475115, 0.3926328355868177, 1.725289655759397],
2019 [0.68260572574677, 2.182710391950513, 0, 5.416666666666666, 0.238230511995077, 0, 2.477393204043783, 1.327736424808056, 0.2565180128752361, 1, 1.725289655759397],
2020 [0.6209312921230391, 2.230235398735714, 1, 2, 0.2177814766543932, 1.610484143230854, 0.8967663239197839, -0.4136799968217064, 0.8783719010971742, 0.5213872231511146, 1.725289655759397],
2021 [0.7803173801516352, 2.212772241130693, 1, 5, 0.2603123363353145, 1.31349237295003, 2.302026965721967, 0.5631982273065281, 0.5099524183271413, 0.8358889331635316, 1.725289655759397],
2022 [0.5250516553536253, 2.45302813924145, 1, 6, 0.1763054355717879, 1.930849168777699, 2.513667229467984, 0.5454049260406475, 0.5662130073449929, 0.777561508830334, 1.725289655759397],
2023 [0.203181127576837, 2.790309709539656, 1, 6, 0.06787431084056803, 4.92171695238688, 2.150298936167153, -1.606349407456378, 0.9230321845151072, 0.3886057635842186, 1.725289655759397],
2024 [0.7145233834068655, 2.170085079520931, 1, 3, 0.2477020339466259, 1.399534323470248, 1.382434277951112, -0.00991140557879785, 0.7421530662286839, 0.6796980736658556, 1.725289655759397],
2025 [0.8025307113169092, 2.197469288683092, 1, 6, 0.2675102371056363, 1.246058232910557, 2.730413585709635, 0.860351389602304, 0.4023716041625731, 0.8868613698058293, 1.725289655759397],
2026 [0.886960160336796, 2.113039839663204, 1, 4, 0.295653386778932, 1.127446355223306, 1.867415205641442, 0.4068397961730323, 0.5572071130808076, 0.8144379212000086, 1.725289655759397],
2027 [0.5840734718676881, 2.415926528132312, 2.5, 5.5, 0.1946911572892293, 4.175355120340121, 2.27655929762562, -0.9098022780654729, 0.8340495404636969, 0.3957525961476541, 1.725289655759397],
2028 [0.5268550139960962, 2.205618688973626, 0, 0, 0.1928124737023075, 0, 0, 0, 1, 1, 1.725289655759397],
2029 [1, 1.954150177116668, 1, 3, 0.3385068260057204, 0.9999999999999998, 1.535194190871489, 0.3102054133837139, 0.5833958240116991, 0.8085296778030449, 1.725289655759397],
2030 [0.7013114701420603, 2.186058834646364, 0, 2, 0.2428893408576666, 0, 0.9148884596802435, 0.530281078673453, 0.5732165501869386, 1, 1.725289655759397],
2031 [0.6103766338418385, 2.230395005807139, 1, 2, 0.2148629707938298, 1.638332702393587, 0.8967021513197104, -0.4298585739491048, 0.8813404805118064, 0.5160100083098675, 1.725289655759397],
2032 [1, 2, 0, 0, 0.3333333333333333, 0, 0, 0, 1, 1, 1.725289655759397],
2033 [1.416174943672039, 1.583825056327961, 0, 0, 0.4720583145573463, 0, 0, 0, 1, 1, 1.725289655759397],
2034 [0.566048512190645, 2.41804757094315, 2, 3, 0.1896884337572, 3.533266066295039, 1.240670380537576, -1.333516642795554, 0.9504034442939914, 0.2397204872545077, 1.725289655759397]
2035 ]
2036 }
2037 },
2038 "tested":{
2039 "0":{
2040 "Baboon":"test",
2041 "Cat":"test",
2042 "Chimp":"test",
2043 "Cow":"test",
2044 "Horse":"test",
2045 "Human":"test",
2046 "Mouse":"test",
2047 "Node1":"test",
2048 "Node12":"test",
2049 "Node2":"test",
2050 "Node3":"test",
2051 "Node8":"test",
2052 "Node9":"test",
2053 "Pig":"test",
2054 "Rat":"test",
2055 "RhMonkey":"test"
2056 }
2057 },
2058 "timers":{
2059 "Ancestor sampling analysis":{
2060 "order":3,
2061 "timer":12
2062 },
2063 "Model fitting":{
2064 "order":1,
2065 "timer":1
2066 },
2067 "Primary SLAC analysis":{
2068 "order":2,
2069 "timer":1
2070 },
2071 "Total time":{
2072 "order":0,
2073 "timer":14
2074 }
2075 }
2076 }