view test-data/relax-out2-1.json @ 27:364eda3cc633 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"

{
 "Synonymous site-posteriors":  [
[0.2717348381268465, 0.5635158143073038, 0.5580958985234344, 0.4419267392327456, 0.1775513314393873, 0.01303903284026798, 0.00125071980641974, 0.2376006215377312, 0.8837687913991302, 0.697488732253998, 0.76440666757549, 0.1859131352278527, 0.4676839084660329, 0.5320161033357819, 0.4513687349306337, 0.8514990846254493, 0.9101555767748879, 0.9112112654445478, 0.9624478616388369, 0.9472735837633918, 0.8715894173292342, 0.9248557783401865, 0.3852870058193366, 0.7504386709677574, 0.7275694213063354, 0.1979029930878776, 0.2585255313006612, 0.426812371619399, 0.03564414482172501, 0.3292941826787388, 0.1427864928730872, 0.8324822227281018, 0.9311167984186458, 0.1209539167468769, 0.8726642109588801, 1.798577785061191e-05, 0.584102863529593, 0.5747348035616634, 0.5814406651776627, 0.02251840852563282, 0.1607002230623373, 0.499402751628698, 0.9327364905381349, 0.1164578922551683, 0.7414294602970922, 0.04004321943657974, 0.1252919499200681, 0.7016909689123084, 0.3099147090319344, 0.1594271385761372, 0.001721088532959928, 0.0002106542138058178, 0.7670245595319366, 0.01765606757145387, 0.08528617939935416, 0.01185048796937841, 0.008218049898468071, 0.294285815926654, 0.4088819101657737, 0.1819814701794264, 0.06741006997792491, 0.1648869485561294, 0.6641637464726119, 0.1696421815033135, 0.5337345685031449, 0.9785329157950278, 0.6089117121305408, 0.9214198863478258, 0.7040511824729966, 0.8748810706893103, 0.7603207301908244, 0.1587648197710778, 0.28009015626025, 0.9473769917649164, 0.03667497185975328, 0.6646432746680839, 0.005707942217110617, 0.4172795698582943, 0.002426641321239203, 0.9036479890682162, 0.8165937919459629, 0.5380686752231248, 0.8348947378138256, 0.8825623566861087, 0.003194607014896987, 0.1034323185116836, 0.1251183560640448, 0.6731739154042389, 0.02049494631105097, 0.7272701824195644, 0.9376578101739967, 0.03161216349993828, 0.08060038603464466, 0.05713766811791781, 0.7236799166647727, 0.03049686563145122, 0.4831167820690108, 0.3259152163804719, 0.9355990871535625, 0.2598255955335131, 0.649043721535527, 0.1395744847880144, 0.8655465087299661, 0.5535165112383126, 0.8759601400318501, 0.1331847979385494, 0.9385179832315519, 0.9590294197009215, 0.1177725177949566, 0.5310119897564728, 0.04436932195281112, 0.877273324169318, 0.07309972300058731, 0.8726642109588801, 0.0823189228969842, 0.674523501474146, 0.4093792912564727, 0.8837869026711356, 0.1208432028324516, 0.7875716367935024, 0.9342090047974666, 0.7281976470761374, 0.6335560301454017, 0.2642816632435872, 0.7601746562441594, 0.3971532429331721, 0.07967254820654134, 0.9205611063156326, 0.4126590346311199, 0.4718488374006657, 0.2324587146851173, 0.2530879180545083, 0.6735650752750825, 0.6778765556227805, 0.9393601651000962, 0.1757530496502532, 0.3931715696771638, 0.7913247469383754, 0.05849180455884406, 0.007027787474985664, 0.002980098295172601, 0.188566078048928, 0.02837364230845984, 0.008078062694748547, 0.4539148488391334, 0.2698860362225194, 0.03514662617223248, 0.8484422182215356, 0.5225500090930265, 0.8755046006217432, 0.01843684138990366, 0.6656855504934923, 0.7055653078864003, 0.236066638653311, 0.1567944657161159, 0.8781825877891227, 0.4362059051173987, 0.163327088806649, 0.004489982631214889, 0.03278376720971195, 0.03145887036879619, 0.6158371404365816, 0.8645373560796752, 0.6351698115277034, 0.04852978149651612, 0.2563374460202912, 0.07868312568368593, 0.9507071563814276, 0.007940480658871889, 0.9455733391892027, 0.4761025393051341, 0.06329409664274364, 0.486108446887078, 0.6554607928409875, 0.3294403859657761, 0.02718898835050054, 0.2632599441236705, 0.09462189267290307, 0.2747185708643275, 0.01971954733787938, 0.9591589529807978, 0.445066915720239, 0.7380186230528726, 0.3686112558749921, 0.9765948224615983, 0.9830372572797934, 0.3428744949444181],
  [0.6626894690463668, 0.4168101145890417, 0.4227716136375318, 0.5460469376257381, 0.7920802349484392, 0.9148946082433389, 0.6025519507878634, 0.7576953307230244, 0.1161768196008485, 0.300870904847558, 0.2351081226775128, 0.8132535813497387, 0.5318877996344101, 0.4668967839553491, 0.5457786619820105, 0.1479110732581859, 0.08981215498205385, 0.08864753614086184, 0.03754663901787957, 0.05264738134386953, 0.1282694830193035, 0.07509403773664582, 0.6045747073099006, 0.2494182492383805, 0.2720633389832785, 0.7686452193266411, 0.7347907000739735, 0.5704008539033848, 0.8900810148388362, 0.6622067969268041, 0.8222772439705183, 0.1671173022573758, 0.06877381770722009, 0.8768213463619609, 0.1268874503761271, 0.1127865527442154, 0.4132113433068393, 0.4078574964781727, 0.4019815819137846, 0.8609057131470997, 0.8219904610542867, 0.497435507143602, 0.06718726850208989, 0.8529792964008307, 0.2575997459825998, 0.9202924086001865, 0.8495464183712909, 0.2964912971104518, 0.6713145926257978, 0.8291180520156611, 0.6114543507973933, 0.2852631377967785, 0.2328104534903255, 0.8072678280286864, 0.8704118647701751, 0.8427300705564067, 0.7172581750896507, 0.6964353697830554, 0.5892268563480649, 0.7827711632788862, 0.8763689637592522, 0.8149993211355185, 0.3354138449867816, 0.8200034180317622, 0.4608569377024781, 0.02146293171169837, 0.3894693088064173, 0.07856223214512185, 0.2951219222963878, 0.1248753788288069, 0.23850651390316, 0.822201023791224, 0.627275494762912, 0.05261813265775258, 0.8618949472054331, 0.3346412073253501, 0.8548149468968558, 0.5771185613312407, 0.7242200780105019, 0.09629867844856514, 0.1833251080952038, 0.4588348344430745, 0.1648017491057893, 0.1173023384873724, 0.7202020363335049, 0.841920226122869, 0.8253774540837836, 0.3259201372675988, 0.9264522698755596, 0.2718783364189744, 0.0623161368626097, 0.8817427136123017, 0.8412649479334562, 0.9101565666023068, 0.2759454352414827, 0.9059210056507722, 0.5150853978968362, 0.6682724435455734, 0.06435014148842051, 0.7307347025520569, 0.3503065425489416, 0.8426431543383731, 0.1343468579892265, 0.4453254501015221, 0.1238238880869908, 0.8434973789347984, 0.06147302641543798, 0.04096257607882416, 0.8697710797731286, 0.4656522682859228, 0.8377220353741578, 0.1225914426265887, 0.9157074633499515, 0.1268874503761271, 0.8810277708456211, 0.3236042343456706, 0.588466435226929, 0.1160918158368492, 0.868633806828536, 0.2120841007705051, 0.06578091460596601, 0.2717239680174366, 0.3631554309323438, 0.7318741011598721, 0.239303295331146, 0.5985069490535606, 0.8666265919603693, 0.07938077259629264, 0.5792577459252287, 0.5245227397084671, 0.7592533746052446, 0.7288592173620518, 0.3258846389358249, 0.3207495865537446, 0.06062952030075518, 0.8044647321952209, 0.6033218973236086, 0.2073209509499806, 0.9162118523056947, 0.7716338299835022, 0.5285881514017859, 0.8084325119883748, 0.9006732458311826, 0.7316022733524018, 0.539869789386791, 0.7265086919845559, 0.9506048395545971, 0.1507140050836589, 0.4768164423437415, 0.1243504919061002, 0.9208249402822801, 0.3328277190287885, 0.2938257782692427, 0.7556466811772135, 0.8229833832301169, 0.1217860716119049, 0.5579303813087731, 0.8256475188252808, 0.8404190118570157, 0.950929802178094, 0.913563134751453, 0.3826711465162441, 0.135233583856236, 0.3614714112014848, 0.9068087012645575, 0.7306455673064629, 0.8856728807826224, 0.04924521380966264, 0.7635888647846074, 0.05441972871740726, 0.5202968979030539, 0.9150032818678139, 0.5115466967684428, 0.3420818098691781, 0.6627903995193176, 0.9330488261015766, 0.7312957304732464, 0.9017792297379452, 0.722935810930791, 0.8786602595958583, 0.04081198111512852, 0.5544293545628831, 0.2612792602560225, 0.6262138192390445, 0.02340007387678394, 0.01696213795705415, 0.646589884642663],
  [0.06557569282678667, 0.01967407110365451, 0.01913248783903384, 0.0120263231415164, 0.03036843361217343, 0.07206635891639328, 0.3961973294057168, 0.004704047739244364, 5.438900002120045e-05, 0.00164036289844408, 0.0004852097469972091, 0.0008332834224085657, 0.0004282918995570831, 0.001087112708869119, 0.002852603087355827, 0.0005898421163648459, 3.226824305841269e-05, 0.0001411984145905345, 5.499343283400918e-06, 7.90348927388237e-05, 0.0001410996514624031, 5.018392316756171e-05, 0.01013828687076274, 0.0001430797938620912, 0.0003672397103861051, 0.03345178758548123, 0.006683768625365442, 0.002786774477216176, 0.07427484033943885, 0.008499020394457128, 0.0349362631563945, 0.0004004750145224402, 0.0001093838741341128, 0.002224736891162243, 0.0004483386649928336, 0.887195461477934, 0.002685793163567702, 0.01740769996016384, 0.01657775290855277, 0.1165758783272675, 0.01730931588337583, 0.003161741227700084, 7.624095977511847e-05, 0.03056281134400099, 0.0009707937203079199, 0.0396643719632338, 0.02516163170864108, 0.001817733977239793, 0.01877069834226778, 0.01145480940820172, 0.3868245606696468, 0.7145262079894158, 0.0001649869777379475, 0.17507610439986, 0.04430195583047072, 0.1454194414742148, 0.2745237750118811, 0.009278814290290408, 0.001891233486161397, 0.03524736654168742, 0.05622096626282277, 0.02011373030835192, 0.0004224085406065104, 0.01035440046492424, 0.005408493794377071, 4.15249327386775e-06, 0.001618979063041763, 1.788150705243962e-05, 0.000826895230615602, 0.0002435504818827977, 0.001172755906015731, 0.01903415643769825, 0.09263434897683805, 4.8755773309914e-06, 0.1014300809348136, 0.0007155180065658238, 0.1394771108860336, 0.00560186881046495, 0.2733532806682589, 5.3332483218848e-05, 8.109995883345423e-05, 0.003096490333800809, 0.0003035130803851473, 0.0001353048265188285, 0.2766033566515981, 0.0546474553654474, 0.04950418985217168, 0.0009059473281622822, 0.05305278381338922, 0.0008514811614612199, 2.605296339365474e-05, 0.08664512288775998, 0.07813466603189904, 0.03270576527977536, 0.0003746480937446711, 0.06358212871777665, 0.001797820034153072, 0.005812340073954746, 5.077135801693337e-05, 0.009439701914429836, 0.0006497359155314646, 0.01778236087361252, 0.0001066332808073946, 0.001158038660165389, 0.0002159718811591629, 0.02331782312665233, 8.990353010030482e-06, 8.004220254467764e-06, 0.01245640243191475, 0.003335741957604481, 0.1179086426730309, 0.0001352332040930898, 0.01119281364946127, 0.0004483386649928336, 0.03665330625739472, 0.001872264180183387, 0.002154273516598294, 0.0001212814920152467, 0.01052299033901241, 0.0003442624359924907, 1.008059656744195e-05, 7.838490642616451e-05, 0.003288538922254504, 0.003844235596540642, 0.0005220484246945975, 0.004339808013267371, 0.05370085983308932, 5.81210880747816e-05, 0.008083219443651434, 0.003628422890867134, 0.008287910709638229, 0.01805286458343986, 0.0005502857890926899, 0.001373857823474923, 1.031459914862341e-05, 0.01978221815452602, 0.003506532999227595, 0.001354302111643929, 0.02529634313546128, 0.2213383825415122, 0.4684317503030413, 0.003001409962697131, 0.07095311186035747, 0.2603196639528496, 0.006215361774075545, 0.003605271792924552, 0.01424853427317049, 0.0008437766948056027, 0.0006335485632318505, 0.000144907472156624, 0.06073821832781605, 0.00148673047771923, 0.0006089138443571592, 0.008286680169475522, 0.0202221510537672, 3.134059897233663e-05, 0.005863713573828175, 0.01102539236807026, 0.1550910055117694, 0.01628643061219398, 0.05497799487975088, 0.00149171304717441, 0.0002290600640888508, 0.003358777270811912, 0.0446615172389264, 0.01301698667324574, 0.03564399353369165, 4.76298089098848e-05, 0.2284706545565208, 6.932093390199401e-06, 0.003600562791811967, 0.02170262148944251, 0.002344856344479302, 0.002457397289834446, 0.007769214514906187, 0.03976218554792285, 0.005444325403083032, 0.00359887758915189, 0.002345618204881661, 0.1016201930662625, 2.906590407364353e-05, 0.0005037297168778199, 0.0007021166911049794, 0.005174924885963465, 5.103661617929586e-06, 6.047631523361472e-07, 0.01053562041291899] 
  ],
 "analysis":0,
 "branch attributes":{
   "0":{
     "BABOON":{
       "General descriptive":0.001859093275691098,
       "MG94xREV with separate rates for branch sets":0.001728762656048212,
       "Nucleotide GTR":0.001680040630127455,
       "RELAX alternative":0.001429829115377586,
       "RELAX null":0.00162000085935921,
       "RELAX partitioned descriptive":0.001425818785563505,
       "k (general descriptive)":0.09975999558426636,
       "original name":"BABOON"
      },
     "CAT":{
       "General descriptive":0.3647017264253697,
       "MG94xREV with separate rates for branch sets":0.276093367337407,
       "Nucleotide GTR":0.2660909938917123,
       "RELAX alternative":0.3756323856089179,
       "RELAX null":0.3608767062015097,
       "RELAX partitioned descriptive":0.3779196268605463,
       "k (general descriptive)":2.315896411158361,
       "original name":"CAT"
      },
     "CHIMP":{
       "General descriptive":0.001848668319765628,
       "MG94xREV with separate rates for branch sets":0.001822931846626064,
       "Nucleotide GTR":0.001818373670119325,
       "RELAX alternative":0.00185493617203229,
       "RELAX null":0.001854095610530333,
       "RELAX partitioned descriptive":0.00185387819029751,
       "k (general descriptive)":5.254528914257314,
       "original name":"CHIMP"
      },
     "COW":{
       "General descriptive":0.3732204271616263,
       "MG94xREV with separate rates for branch sets":0.2488439658756959,
       "Nucleotide GTR":0.2481025999892287,
       "RELAX alternative":0.3383682965197552,
       "RELAX null":0.3267413510264365,
       "RELAX partitioned descriptive":0.3368059806284254,
       "k (general descriptive)":2.844135916463983,
       "original name":"COW"
      },
     "HORSE":{
       "General descriptive":0.2802894874897226,
       "MG94xREV with separate rates for branch sets":0.2115283499416638,
       "Nucleotide GTR":0.2090310577070883,
       "RELAX alternative":0.263552542851074,
       "RELAX null":0.2568271402938284,
       "RELAX partitioned descriptive":0.262017696350779,
       "k (general descriptive)":1.928668982186118,
       "original name":"HORSE"
      },
     "HUMAN":{
       "General descriptive":0,
       "MG94xREV with separate rates for branch sets":0,
       "Nucleotide GTR":0,
       "RELAX alternative":0,
       "RELAX null":0,
       "RELAX partitioned descriptive":0,
       "k (general descriptive)":1.458575021945062,
       "original name":"HUMAN"
      },
     "MOUSE":{
       "General descriptive":0.1308201891676921,
       "MG94xREV with separate rates for branch sets":0.1193025698417779,
       "Nucleotide GTR":0.1180171198334285,
       "RELAX alternative":0.1517050531281043,
       "RELAX null":0.1483289620283821,
       "RELAX partitioned descriptive":0.1490164254890325,
       "k (general descriptive)":0.4631708151770838,
       "original name":"MOUSE"
      },
     "Node1":{
       "General descriptive":0.3501050632149825,
       "MG94xREV with separate rates for branch sets":0.2890877742792198,
       "Nucleotide GTR":0.2767237570684924,
       "RELAX alternative":0.4255409853463661,
       "RELAX null":0.4550463522153177,
       "RELAX partitioned descriptive":0.4344852084340091,
       "k (general descriptive)":0.4579130056597299
      },
     "Node12":{
       "General descriptive":0.01766689355384354,
       "MG94xREV with separate rates for branch sets":0.01757408524377322,
       "Nucleotide GTR":0.01784803874223016,
       "RELAX alternative":0.01676792601958491,
       "RELAX null":0.01717214969820526,
       "RELAX partitioned descriptive":0.01691268333643598,
       "k (general descriptive)":0.124164332983979
      },
     "Node2":{
       "General descriptive":0.0577170117416439,
       "MG94xREV with separate rates for branch sets":0.06231584601001511,
       "Nucleotide GTR":0.06613162123865737,
       "RELAX alternative":0.0656020383942497,
       "RELAX null":0.06749468776339668,
       "RELAX partitioned descriptive":0.063727560710161,
       "k (general descriptive)":0.5375515816350908
      },
     "Node3":{
       "General descriptive":0.1331109882486915,
       "MG94xREV with separate rates for branch sets":0.1003158387194354,
       "Nucleotide GTR":0.09886326330774685,
       "RELAX alternative":0.1377575305960468,
       "RELAX null":0.1387229575435225,
       "RELAX partitioned descriptive":0.1370056132243871,
       "k (general descriptive)":1.983651509686636
      },
     "Node8":{
       "General descriptive":0.1404566834691408,
       "MG94xREV with separate rates for branch sets":0.1126868091796008,
       "Nucleotide GTR":0.106239268140425,
       "RELAX alternative":0.1456361998411515,
       "RELAX null":0.1432141493320635,
       "RELAX partitioned descriptive":0.1499980670367906,
       "k (general descriptive)":2.210307133212389
      },
     "Node9":{
       "General descriptive":0.0266459915750866,
       "MG94xREV with separate rates for branch sets":0.02627629459000785,
       "Nucleotide GTR":0.02566573875750134,
       "RELAX alternative":0.02987801750435297,
       "RELAX null":0.02953491567444994,
       "RELAX partitioned descriptive":0.02997035035825657,
       "k (general descriptive)":0.07328040064262234
      },
     "PIG":{
       "General descriptive":0.2103978170052953,
       "MG94xREV with separate rates for branch sets":0.1921267861604921,
       "Nucleotide GTR":0.1871893456388788,
       "RELAX alternative":0.2514899807955971,
       "RELAX null":0.2481060168445591,
       "RELAX partitioned descriptive":0.251294309938668,
       "k (general descriptive)":1.57905583202459,
       "original name":"PIG"
      },
     "RAT":{
       "General descriptive":0.07161013387643886,
       "MG94xREV with separate rates for branch sets":0.06830746072347418,
       "Nucleotide GTR":0.06661283005976348,
       "RELAX alternative":0.07293805936494982,
       "RELAX null":0.07115038941652747,
       "RELAX partitioned descriptive":0.07467247582140474,
       "k (general descriptive)":1.319839560623237,
       "original name":"RAT"
      },
     "RHMONKEY":{
       "General descriptive":0.003674114425886965,
       "MG94xREV with separate rates for branch sets":0.003753885794232333,
       "Nucleotide GTR":0.003775170135617877,
       "RELAX alternative":0.004180662465434332,
       "RELAX null":0.003978610819466039,
       "RELAX partitioned descriptive":0.004190519057865823,
       "k (general descriptive)":5.183560186695944,
       "original name":"RHMONKEY"
      }
    },
   "attributes":{
     "General descriptive":{
       "attribute type":"branch length",
       "display order":4
      },
     "MG94xREV with separate rates for branch sets":{
       "attribute type":"branch length",
       "display order":1
      },
     "Nucleotide GTR":{
       "attribute type":"branch length",
       "display order":0
      },
     "RELAX alternative":{
       "attribute type":"branch length",
       "display order":2
      },
     "RELAX null":{
       "attribute type":"branch length",
       "display order":3
      },
     "RELAX partitioned descriptive":{
       "attribute type":"branch length",
       "display order":5
      },
     "k (general descriptive)":{
       "attribute type":"branch label",
       "display order":4
      },
     "original name":{
       "attribute type":"node label",
       "display order":-1
      }
    }
  },
 "data partitions":{
   "0":{
     "coverage":      [
[0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166, 167, 168, 169, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 180, 181, 182, 183, 184, 185, 186] 
      ],
     "name":"relax.filter.default"
    }
  },
 "fits":{
   "General descriptive":{
     "AIC-c":6945.891070751259,
     "Log Likelihood":-3420.486789501042,
     "Rate Distributions":{
       "Shared":{
         "0":{
           "omega":2.20271427504516e-18,
           "proportion":0.00789425874100967
          },
         "1":{
           "omega":2.20271427504516e-18,
           "proportion":0.5381203586928067
          },
         "2":{
           "omega":2.202714092571507,
           "proportion":0.4539853825661836
          }
        }
      },
     "display order":4,
     "estimated parameters":51
    },
   "MG94xREV with separate rates for branch sets":{
     "AIC-c":6987.278662183248,
     "Equilibrium frequencies":      [
[0.04876086397632926],
      [0.03982224127745371],
      [0.0494959405650269],
      [0.04152830682371345],
      [0.01810345074594235],
      [0.01478480742075003],
      [0.01837636270304883],
      [0.01541821854326533],
      [0.01892910005547028],
      [0.01545910240515689],
      [0.01921445878706794],
      [0.01612140169177368],
      [0.02829747763884322],
      [0.02311011106415996],
      [0.02872406592369408],
      [0.02410019507229243],
      [0.01663805943190806],
      [0.01358804506433061],
      [0.01688888041768248],
      [0.01417018446135155],
      [0.006177213955434187],
      [0.005044834822351987],
      [0.006270336287397383],
      [0.00526096577332031],
      [0.006458939937330408],
      [0.005274916061901906],
      [0.006556309326397028],
      [0.005500904159606446],
      [0.009655594186286731],
      [0.007885574003572761],
      [0.009801153568494354],
      [0.008223407979974132],
      [0.03327785448210915],
      [0.02717750758119989],
      [0.03377952261833742],
      [0.02834184710178207],
      [0.01235507229404208],
      [0.01009019590244688],
      [0.01254132667213156],
      [0.01052248035033209],
      [0.01291855364640413],
      [0.01055038238273567],
      [0.01311330258173711],
      [0.01100238215235291],
      [0.01931219560697892],
      [0.0157719705998612],
      [0.01960332955558842],
      [0.01644767379420349],
      [0.01965132601881859],
      [0.02049322866376102],
      [0.008933621043463411],
      [0.007295949736387736],
      [0.009068296583349953],
      [0.007608523013862737],
      [0.007628698224327205],
      [0.009481877006094248],
      [0.00795552712159237],
      [0.01396413011303752],
      [0.01140428846505027],
      [0.01417464125436193],
      [0.01189287130232129] 
      ],
     "Log Likelihood":-3461.064480792223,
     "Rate Distributions":{
       "non-synonymous/synonymous rate ratio for *Reference*":        [
[1.240656122625563, 1] 
        ],
       "non-synonymous/synonymous rate ratio for *Test*":        [
[0.5611761689874598, 1] 
        ]
      },
     "display order":1,
     "estimated parameters":32
    },
   "Nucleotide GTR":{
     "AIC-c":7112.857310169033,
     "Equilibrium frequencies":      [
[0.3592490842490842],
      [0.181959706959707],
      [0.240018315018315],
      [0.2187728937728937] 
      ],
     "Log Likelihood":-3532.32122446679,
     "Rate Distributions":{
       "Substitution rate from nucleotide A to nucleotide C":0.5501644800943087,
       "Substitution rate from nucleotide A to nucleotide G":1,
       "Substitution rate from nucleotide A to nucleotide T":0.2647746107611847,
       "Substitution rate from nucleotide C to nucleotide G":0.4917423221832032,
       "Substitution rate from nucleotide C to nucleotide T":1.02837595903795,
       "Substitution rate from nucleotide G to nucleotide T":0.304509117524575
      },
     "display order":0,
     "estimated parameters":24
    },
   "RELAX alternative":{
     "AIC-c":6901.392449196474,
     "Log Likelihood":-3408.754211469135,
     "Rate Distributions":{
       "Reference":{
         "0":{
           "omega":0,
           "proportion":0.3814061972635792
          },
         "1":{
           "omega":0.4330262245823013,
           "proportion":0
          },
         "2":{
           "omega":2.405594515133199,
           "proportion":0.6185938027364208
          }
        },
       "Synonymous site-to-site rates":{
         "0":{
           "proportion":0.2800901562602482,
           "rate":0.2837970682663188
          },
         "1":{
           "proportion":0.6272754947629234,
           "rate":0.9947075941569237
          },
         "2":{
           "proportion":0.09263434897682828,
           "rate":3.20135608237551
          }
        },
       "Test":{
         "0":{
           "omega":0,
           "proportion":0.3814061972635792
          },
         "1":{
           "omega":0.9999750044281671,
           "proportion":0
          },
         "2":{
           "omega":1.00002621592498,
           "proportion":0.6185938027364208
          }
        }
      },
     "display order":2,
     "estimated parameters":41
    },
   "RELAX null":{
     "AIC-c":6910.777215627525,
     "Log Likelihood":-3414.491942969586,
     "Rate Distributions":{
       "Reference":{
         "0":{
           "omega":0,
           "proportion":0.04600287725570656
          },
         "1":{
           "omega":0,
           "proportion":0.3432466763494891
          },
         "2":{
           "omega":1.896477292815783,
           "proportion":0.6107504463948045
          }
        },
       "Synonymous site-to-site rates":{
         "0":{
           "proportion":0.2641095265325168,
           "rate":0.2744837794048847
          },
         "1":{
           "proportion":0.6330324513232739,
           "rate":0.9729462345446451
          },
         "2":{
           "proportion":0.1028580221442092,
           "rate":3.029415427453047
          }
        },
       "Test":{
         "0":{
           "omega":0,
           "proportion":0.04600287725570656
          },
         "1":{
           "omega":0,
           "proportion":0.3432466763494891
          },
         "2":{
           "omega":1.896477292815783,
           "proportion":0.6107504463948045
          }
        }
      },
     "display order":3,
     "estimated parameters":40
    },
   "RELAX partitioned descriptive":{
     "AIC-c":6909.42794543134,
     "Log Likelihood":-3408.579104294618,
     "Rate Distributions":{
       "Reference":{
         "0":{
           "omega":0.05035684771569529,
           "proportion":0.3805224005150026
          },
         "1":{
           "omega":0.07013486723985318,
           "proportion":0.003462124163764896
          },
         "2":{
           "omega":2.344944921144001,
           "proportion":0.6160154753212325
          }
        },
       "Test":{
         "0":{
           "omega":0,
           "proportion":0.03160127773820932
          },
         "1":{
           "omega":0,
           "proportion":0.4079248249859382
          },
         "2":{
           "omega":1.11269394570475,
           "proportion":0.5604738972758525
          }
        }
      },
     "display order":5,
     "estimated parameters":45
    }
  },
 "input":{
   "file name":"/tmp/tmpbauyxvdv/job_working_directory/000/5/working/./input.nex",
   "number of sequences":10,
   "number of sites":187,
   "partition count":1,
   "trees":{
     "0":"((((PIG:0.147969,COW:0.21343)Node3:0.08509899999999999,HORSE:0.165787,CAT:0.264806)Node2:0.058611,((RHMONKEY:0.002015,BABOON:0.003108)Node9:0.022733,(HUMAN:0.004349,CHIMP:0.000799)Node12:0.011873)Node8:0.101856)Node1:0.340802,RAT:0.050958,MOUSE:0.09795)"
    }
  },
 "test results":{
   "LRT":11.47546300090198,
   "p-value":0.0007052107640865835,
   "relaxation or intensification parameter":2.986519568748539e-05
  },
 "tested":{
   "0":{
     "BABOON":"Test",
     "CAT":"Reference",
     "CHIMP":"Test",
     "COW":"Reference",
     "HORSE":"Reference",
     "HUMAN":"Test",
     "MOUSE":"Reference",
     "Node1":"Test",
     "Node12":"Test",
     "Node2":"Reference",
     "Node3":"Reference",
     "Node8":"Test",
     "Node9":"Test",
     "PIG":"Reference",
     "RAT":"Reference",
     "RHMONKEY":"Test"
    }
  },
 "timers":{
   "General descriptive model fitting":{
     "order":2,
     "timer":127
    },
   "Overall":{
     "order":0,
     "timer":645
    },
   "Preliminary model fitting":{
     "order":1,
     "timer":8
    },
   "RELAX alternative model fitting":{
     "order":3,
     "timer":178
    },
   "RELAX null model fitting":{
     "order":4,
     "timer":115
    },
   "RELAX partitioned descriptive":{
     "order":5,
     "timer":216
    }
  }
}