view test-data/summary/nsp8.BUSTED.json @ 11:6960dd62c983 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit e7a89841d59689e87db592e112f9c8fb5331d954
author iuc
date Thu, 02 Mar 2023 15:11:29 +0000
parents c046f72e5e3a
children
line wrap: on
line source

{
 "Evidence Ratios":{
   "constrained":    [
[0.9898739518379264, 0.991027168169301, 0.9898739518379268, 0.9897812891397899, 0.9906204835370439, 0.9853516617064797, 0.9880798288003553, 0.9889781190332573, 0.988350548699827, 0.989374526624819, 0.9897812891397899, 0.9927999621758878, 0.9898739523607402, 0.9898739518379268, 0.9853516617064797, 0.9898739518379268, 0.9930617996638492, 0.9898739518379268, 0.9956363652357774, 0.9953242584232271, 0.9898739518379268, 0.9927999621758878, 0.9906204835370439, 0.9909311149283309, 0.9898739518379268, 0.9888494594022271, 0.9898739518379268, 0.9942729604246417, 0.9875096976732132, 0.9910812249043462, 0.9889781181731668, 0.9953242584232271, 0.9888494594022271, 0.9888494594022271, 0.9883505486998261, 0.9965511193500521, 25.13531965114348, 0.9852148186803413, 0.9918415472526246, 0.9918415472526246, 0.9889781181731668, 0.9852148186803413, 0.9942729604246417, 0.9888494579313646, 0.9898739518379264, 0.9965511193500521, 0.9889781181731668, 0.9953242584232271, 0.9853516617064797, 0.992154409566355, 0.9870114629546288, 0.9910812249043471, 0.9898739523607402, 0.9898739518379259, 0.9850252204427772, 0.9956363652357774, 0.9870114629546279, 0.9918415472526255, 0.9852148186803413, 0.9953242584232271, 0.9918415472526255, 0.9850252204427772, 0.9898739518379268, 0.9910812249043471, 0.9956363652357774, 0.9898739518379264, 0.9850252204427763, 0.9930618001690927, 0.9956363652357774, 0.9850252204427763, 0.9927999621758878, 0.9965511193500521, 0.9909311149283309, 0.9898739518379251, 0.9903437970819426, 0.9889781181731668, 0.9906204835370439, 0.992154409566355, 0.9918415472526255, 0.985295756376881, 0.9898739523607393, 0.9965511193500521, 0.988849459402228, 0.9930617996638492, 0.9880798288003553, 0.9898739518379264, 0.9850252204427772, 0.9909311149283309, 0.9930618006884053, 0.9850252204427772, 0.9883505486998261, 0.9864186408890355, 0.9930617996638492, 0.9850252204427772, 0.9883505486998261, 0.9903437970819426, 0.9918415472526255, 0.9852148186803413, 0.9910812249043462, 0.9942729604246417, 0.9910812249043462, 0.9898739523607402, 0.9883505490263698, 0.9953496025065315, 0.9953496025065315, 0.989949703415869, 0.9904917523355582, 0.9953496025065315, 0.9942729604246417, 0.9898739523607402, 0.9903437970819426, 0.9910812249043471, 0.9875096976732132, 0.9845430842971005, 0.9888494594022271, 0.9893745237101182, 0.9852148186803413, 0.9953496025065315, 0.991027168169301, 0.991027168169301, 0.9893745237101174, 0.9883505486998261, 0.9930618006884053, 0.9930618006884058, 0.9898739523607393, 0.9898739518379268, 0.9965511193500521, 0.991493380871755, 0.9850252204427772, 0.9888494594022271, 0.9888494599031924, 0.991027168169301, 25.07231821165741, 0.9921544095663559, 0.9927999621758878, 0.9953496025065315, 0.9930618006884058, 0.9927999621758878, 0.9965511193500521, 0.9942729604246413, 0.9930617956571987, 0.9845430842971005, 0.9910812249043471, 0.9875096976732132, 0.9930618006884071, 0.9930618006884053, 0.9853516617064797, 0.9930617996638501, 0.9927999621758878, 0.9898739523607402, 0.9897812891397899, 0.9898739523607402, 0.9852148186803413, 0.9831688610767204, 0.9953242584232271, 0.9904917523355591, 0.9956363652357774, 0.9909311149283309, 0.9888494594022271, 0.9888494614381848, 0.9910812249043471, 0.9898739523607402, 0.991081224904348, 0.9880798288003553, 0.9965511193500521, 0.989949703415869, 0.9888494594022271, 0.9956363652357774, 0.9883505486998261, 0.9880798288003553, 0.9953242584232271, 0.989949703415869, 0.9880798288003553, 0.9850252204427772, 0.992154409566355, 0.9942729604246413, 0.9897812891397899, 0.9893745237101174, 0.9942729604246413, 0.990980695768284, 0.9898739523607402, 0.9831688610767204, 0.9893745237101174, 0.9883505486998261, 0.989949703415869, 0.9888494614381844, 0.9930618006884071, 0.9898739518379264, 0.990980695768284, 0.985295756376881, 0.9898739518379259, 0.9942729604246417, 0.9889781181731668, 0.9898739518379264, 0.9888494599031924, 0.9965511193500521, 0.990980695768284, 0.9909311149283309] 
    ],
   "optimized null":    [
[1.001061179155383, 0.9981801923998775, 1.007445646572804, 0.9986684361938667, 0.9982614978097065, 0.9974878927693214, 0.9988586378203514, 1.00591248541363, 1.003570982887535, 0.998970464965304, 0.9986684361938667, 0.9993645847290388, 0.9991154896713258, 1.001577408811675, 0.9958075380717575, 1.001577408811675, 1.001490540679443, 0.9995533543698061, 1.000218837534594, 0.9998489491704574, 1.004114654363102, 0.9993645847290388, 0.992385331825308, 0.9999620995608361, 1.003979614753838, 1.000705396466669, 1.00122447917908, 0.9997592602995539, 1.001159101808876, 1.002876965397287, 1.00057182709568, 0.9998489491704574, 1.000705396466669, 1.000705396466669, 1.000560331356014, 0.9999292702792036, 1.281834389529234, 0.999368601724384, 0.9984003659599175, 0.9996774498430806, 1.00057182709568, 0.999368601724384, 0.9997592602995539, 1.003667413995549, 1.001061179155383, 0.9999292702792036, 1.00057182709568, 0.9998489491704574, 0.9974878927693214, 1.002642508094879, 0.9986601773906773, 0.9993295239299337, 0.9991154896713258, 1.003494726862042, 0.9966126795958589, 1.000218837534594, 1.001012552429769, 0.9996829567993305, 0.999368601724384, 0.9998489491704574, 0.9996829567993305, 0.9966126795958589, 1.004323704060278, 0.9993295239299337, 1.000218837534594, 1.001061179155383, 0.9967266795961967, 1.003925166897283, 1.000218837534594, 0.9967704281570511, 0.9993645847290388, 0.9999292702792036, 0.9999518198143036, 0.9987029259769936, 0.9990346539613603, 0.9919882712952706, 0.9995975131049666, 1.002642508094879, 0.9996829567993305, 0.9986770722502338, 0.9968256987963833, 0.9999292702792036, 0.9920080218322835, 1.001490540679443, 0.9938979692094124, 1.001061179155383, 0.9966126795958589, 0.9927830810777458, 1.0029597320465, 0.9966126795958589, 1.000560331356014, 1.000788163511886, 1.001490540679443, 0.9966126795958589, 1.000560331356014, 1.000303544656018, 0.9996829567993305, 0.999368601724384, 1.002237122841342, 0.9997592602995539, 1.002219955621295, 0.9991154896713258, 1.005854764954763, 1.003075181979286, 1.003075181979286, 0.9989279551918043, 1.001709589914997, 1.003075181979286, 0.9997592602995539, 0.9991154896713258, 0.9990346539613603, 0.9993295239299337, 1.001159101808876, 0.998065827046028, 1.000705396466669, 1.006288180698078, 0.999368601724384, 1.003075181979286, 0.9981801923998775, 0.9981801923998775, 1.00091575523785, 1.000560331356014, 1.002612062072352, 0.9995440587140352, 0.9976894108168048, 1.002112875342305, 0.9999292702792036, 1.004490330150976, 0.9966126795958589, 1.000705396466669, 1.003138094184142, 0.9981801923998775, 1.284013406503606, 1.001379511057303, 0.9993645847290388, 1.003075181979286, 0.9995440587140352, 0.9993645847290388, 0.9999292702792036, 0.9999601045433708, 0.9967752336948219, 0.998065827046028, 0.9993295239299337, 1.001159101808876, 1.00258329969032, 1.002612057872138, 0.9974878927693214, 1.004539445442081, 0.9993645847290388, 0.9991154896713258, 0.9986684361938667, 0.9991154896713258, 0.999368601724384, 0.9969872598027565, 0.9998489491704574, 1.004622073435842, 1.000218837534594, 0.9999620995608361, 1.000705396466669, 0.9997786128821514, 0.9980359981227677, 0.9991154896713258, 1.000949553658383, 0.9974873244377541, 0.9999292702792036, 0.9989279551918043, 1.000705396466669, 1.000218837534594, 1.000560331356014, 1.001245241090137, 0.9998489491704574, 0.9989279551918043, 0.9988586378203514, 0.9966126795958589, 1.002642508094879, 1.003016384716074, 0.9986684361938667, 1.00091575523785, 1.00267778127821, 0.9998259691921253, 0.9991154896713258, 0.9969872598027565, 1.00091575523785, 1.000560331356014, 0.9989279551918043, 0.9987604080821325, 1.003602655123076, 1.001061179155383, 0.9998259691921253, 0.9914468434821385, 1.003494726862042, 0.9997592602995539, 1.00057182709568, 1.001061179155383, 1.003138094184142, 0.9999292702792036, 0.9998259691921253, 0.9903933965336854] 
    ]
  },
 "Site Log Likelihood":{
   "constrained":    [
[-3.682357472325227, -3.776300688616876, -9.944276906247852, -4.297550817009201, -10.5596540507206, -4.105780634331993, -4.580674129714193, -9.970151407564654, -11.46565671411245, -4.748019407393962, -4.297550817009201, -3.657565081760389, -3.878780453385983, -10.49761963729573, -18.88979426491603, -10.49761963729573, -3.555084581961204, -9.548675903286503, -4.317883383348357, -3.465265693132814, -10.30414002521684, -3.657565081760389, -9.510479033471343, -4.912630775174183, -9.805154568153775, -3.728822242881625, -10.40315808995496, -3.147679775390014, -4.764663451017446, -18.16884363414784, -4.117282944334517, -3.465265693132814, -3.728822242881625, -3.728822242881625, -4.598026052578632, -3.377131190893194, -17.32945769208115, -4.968525104026408, -7.78359827909114, -10.09092571763366, -4.117282944334517, -4.968525104026408, -3.147679775390014, -4.621582394689528, -3.682357472325227, -3.377131190893194, -4.117282944334517, -3.465265693132814, -4.105780634331993, -4.769977388158328, -11.44992742406933, -3.275247699140286, -3.878780453385983, -5.153820152277429, -4.339765312757414, -4.317883383348357, -5.633798358662671, -3.972233903331526, -4.968525104026408, -3.465265693132814, -3.972233903331526, -4.339765312757414, -9.807924687948608, -3.275247699140286, -4.317883383348357, -3.682357472325227, -11.82244271112735, -5.026545622998994, -4.317883383348357, -11.18525608205252, -3.657565081760389, -3.377131190893194, -11.03164219105661, -9.084206813910907, -4.811275305099359, -10.58397990329851, -4.059897715306842, -4.769977388158328, -3.972233903331526, -5.411324406222005, -16.6852542465485, -3.377131190893194, -9.870658149788451, -3.555084581961204, -14.04121394200208, -3.682357472325227, -4.339765312757414, -10.36688456289803, -9.678108163422833, -4.339765312757414, -4.598026052578632, -5.600969733769029, -3.555084581961204, -4.339765312757414, -4.598026052578632, -9.454385941585913, -3.972233903331526, -4.968525104026408, -9.39887052679074, -3.147679775390014, -9.407505344306493, -3.878780453385983, -11.56229199947955, -4.642135034667025, -4.642135034667025, -3.556396911470319, -5.039617735101526, -4.642135034667025, -3.147679775390014, -3.878780453385983, -4.811275305099359, -3.275247699140286, -4.764663451017446, -5.130763146159272, -3.728822242881625, -11.51556716344883, -4.968525104026408, -4.642135034667025, -3.776300688616876, -3.776300688616876, -4.551605001943612, -4.598026052578632, -10.36869072601328, -3.751507242395927, -8.386030544964415, -9.667416803707951, -3.377131190893194, -11.01440951947037, -4.339765312757414, -3.728822242881625, -5.200283281380844, -3.776300688616876, -14.38440547760103, -9.246287037858769, -3.657565081760389, -4.642135034667025, -3.751507242395927, -3.657565081760389, -3.377131190893194, -10.71514571016754, -9.087357756844183, -5.130763146159272, -3.275247699140286, -4.764663451017446, -9.279911045164706, -10.36869073987512, -4.105780634331993, -9.084170715125213, -3.657565081760389, -3.878780453385983, -4.297550817009201, -3.878780453385983, -4.968525104026408, -5.864930581591143, -3.465265693132814, -9.42097849199379, -4.317883383348357, -4.912630775174183, -3.728822242881625, -11.22417616600895, -7.755247054487204, -3.878780453385983, -13.88124390301837, -8.838275081168794, -3.377131190893194, -3.556396911470319, -3.728822242881625, -4.317883383348357, -4.598026052578632, -17.56078455159669, -3.465265693132814, -3.556396911470319, -4.580674129714193, -4.339765312757414, -4.769977388158328, -9.273754318865633, -4.297550817009201, -4.551605001943612, -9.273671511767077, -4.354038288619527, -3.878780453385983, -5.864930581591143, -4.551605001943612, -4.598026052578632, -3.556396911470319, -3.925238329803292, -16.98272303572618, -3.682357472325227, -4.354038288619527, -9.941024879804147, -5.153820152277429, -3.147679775390014, -4.117282944334517, -3.682357472325227, -5.200283281380844, -3.377131190893194, -4.354038288619527, -16.86737410227446] 
    ],
   "optimized null":    [
[-3.693595754163412, -3.78349255327977, -9.961872636155539, -4.306489646204965, -10.567337816714, -4.118022051030144, -4.591523901802043, -9.987129554766129, -11.48093917396584, -4.757671668829823, -4.306489646204965, -3.664155547717748, -3.888073216454452, -10.50937346864028, -18.90034967454306, -10.50937346864028, -3.563536394449981, -9.558406823215826, -4.322475380147309, -3.469801337944866, -10.31842390287453, -3.664155547717748, -9.51225900682347, -4.921703131752585, -9.819303950522528, -3.7407405645808, -10.41455948540621, -3.153182508657493, -4.77839084341297, -18.18067525444402, -4.128937680807652, -3.469801337944866, -3.7407405645808, -3.7407405645808, -4.610304064794475, -3.380515300419775, -14.35347584646495, -4.982789077892374, -7.790189279318157, -10.09879503049391, -4.128937680807652, -4.982789077892374, -3.153182508657493, -4.63645627551453, -3.693595754163412, -3.380515300419775, -4.128937680807652, -3.469801337944866, -4.118022051030144, -4.780492939972695, -11.46166032877548, -3.283535783644063, -3.888073216454452, -5.167486452106921, -4.351460276022611, -4.322475380147309, -5.647884024487313, -3.980108724909701, -4.982789077892374, -3.469801337944866, -3.980108724909701, -4.351460276022611, -9.822416736991846, -3.283535783644063, -4.322475380147309, -3.693595754163412, -11.83425205531814, -5.037425487581499, -4.322475380147309, -11.19710931751428, -3.664155547717748, -3.380515300419775, -11.04070426744602, -9.093086563294671, -4.820012619172104, -10.58701898104857, -4.06891892852461, -4.780492939972695, -3.980108724909701, -5.424814025228835, -16.69225256137097, -3.380515300419775, -9.873847238490626, -3.563536394449981, -14.04708500385473, -3.693595754163412, -4.351460276022611, -10.36875173377495, -9.688025904616492, -4.351460276022611, -4.610304064794475, -5.615432016253243, -3.563536394449981, -4.351460276022611, -4.610304064794475, -9.464392566539528, -3.980108724909701, -4.982789077892374, -9.410063936442027, -3.153182508657493, -9.418681624910487, -3.888073216454452, -11.57984752935911, -4.649866742178364, -4.649866742178364, -3.5654254333856, -5.050879604978034, -4.649866742178364, -3.153182508657493, -3.888073216454452, -4.820012619172104, -3.283535783644063, -4.77839084341297, -5.144404719520196, -3.7407405645808, -11.53251798578229, -4.982789077892374, -4.649866742178364, -3.78349255327977, -3.78349255327977, -4.56320266788523, -4.610304064794475, -10.37826176311123, -3.758013577667889, -8.393894947058179, -9.679705115403692, -3.380515300419775, -11.02743280508498, -4.351460276022611, -3.7407405645808, -5.214629635425227, -3.78349255327977, -11.41263174656977, -9.255542127270305, -3.664155547717748, -4.649866742178364, -3.758013577667889, -3.664155547717748, -3.380515300419775, -10.72084931586544, -9.091090165371915, -5.144404719520196, -3.283535783644063, -4.77839084341297, -9.289453394402525, -10.3782617727838, -4.118022051030144, -9.095662269922325, -3.664155547717748, -3.888073216454452, -4.306489646204965, -3.888073216454452, -4.982789077892374, -5.878887686184218, -3.469801337944866, -9.435143656096123, -4.322475380147309, -4.921703131752585, -3.7407405645808, -11.2351679262301, -7.762239906872751, -3.888073216454452, -13.8911517915793, -8.84775102965672, -3.380515300419775, -3.5654254333856, -3.7407405645808, -4.322475380147309, -4.610304064794475, -17.57402080413453, -3.469801337944866, -3.5654254333856, -4.591523901802043, -4.351460276022611, -4.780492939972695, -9.282509665371331, -4.306489646204965, -4.56320266788523, -9.282089216126908, -4.362924467056057, -3.888073216454452, -5.878887686184218, -4.56320266788523, -4.610304064794475, -3.5654254333856, -3.9352111408046, -16.99328159736249, -3.693595754163412, -4.362924467056057, -9.947248357720975, -5.167486452106921, -3.153182508657493, -4.128937680807652, -3.693595754163412, -5.214629635425227, -3.380515300419775, -4.362924467056057, -16.86683131546217] 
    ],
   "unconstrained":    [
[-3.692535137660614, -3.785314018741374, -9.95445457158324, -4.307822097329952, -10.56907783185299, -4.120537318896539, -4.592665915831549, -9.981234479503247, -11.47737455189928, -4.758701734199743, -4.307822097329952, -3.66479116495055, -3.888958118193209, -10.50779730263112, -18.90455094948057, -10.50779730263112, -3.562046963523679, -9.55885356862189, -4.322256566554156, -3.469952400183734, -10.31431769055223, -3.66479116495055, -9.519902814603736, -4.921741032909988, -9.815332233489162, -3.740035416789282, -10.41333575529035, -3.153423277340393, -4.777232412843956, -18.17780241959128, -4.128366017142786, -3.469952400183734, -3.740035416789282, -3.740035416789282, -4.609743890365457, -3.380586032642036, -14.10518367764555, -4.983420675583826, -7.791790194138806, -10.09911763268132, -4.128366017142786, -4.983420675583826, -3.153423277340393, -4.632795570084633, -3.692535137660614, -3.380586032642036, -4.128366017142786, -3.469952400183734, -4.120537318896539, -4.777853917163751, -11.46300104974963, -3.284206484583728, -3.888958118193209, -5.163997817612818, -4.354853346384818, -4.322256566554156, -5.646871984342974, -3.980425818379191, -4.983420675583826, -3.469952400183734, -3.980425818379191, -4.354853346384818, -9.818102353283995, -3.284206484583728, -4.322256566554156, -3.692535137660614, -11.83753074475475, -5.033508004052695, -4.322256566554156, -11.20034411567993, -3.66479116495055, -3.380586032642036, -11.04075244879242, -9.094384479246296, -4.820978431457315, -10.59506297610678, -4.069321496439234, -4.777853917163751, -3.980425818379191, -5.426137828820052, -16.69543191135572, -3.380586032642036, -9.881871323696107, -3.562046963523679, -14.05320572811943, -3.692535137660614, -4.354853346384818, -10.37599482063383, -9.685070543953593, -4.354853346384818, -4.609743890365457, -5.614644163179112, -3.562046963523679, -4.354853346384818, -4.609743890365457, -9.464089067943869, -3.980425818379191, -4.983420675583826, -9.407829312234183, -3.153423277340393, -9.416464129749937, -3.888958118193209, -11.57400983693599, -4.646796278899748, -4.646796278899748, -3.566498053244854, -5.04917147474847, -4.646796278899748, -3.153423277340393, -3.888958118193209, -4.820978431457315, -3.284206484583728, -4.777232412843956, -5.14634076540211, -3.740035416789282, -11.52624949320061, -4.983420675583826, -4.646796278899748, -3.785314018741374, -3.785314018741374, -4.562287331695397, -4.609743890365457, -10.37565310654404, -3.758469622926687, -8.396208209771642, -9.677594469043338, -3.380586032642036, -11.0229525263881, -4.354853346384818, -3.740035416789282, -5.211496454781886, -3.785314018741374, -11.16264110015432, -9.254163566864191, -3.66479116495055, -4.646796278899748, -3.758469622926687, -3.66479116495055, -3.380586032642036, -10.72088921211792, -9.094320142441301, -5.14634076540211, -3.284206484583728, -4.777232412843956, -9.286873425695465, -10.37565312040588, -4.120537318896539, -9.091133096687686, -3.66479116495055, -3.888958118193209, -4.307822097329952, -3.888958118193209, -4.983420675583826, -5.881904973819005, -3.469952400183734, -9.430532231640733, -4.322256566554156, -4.921741032909988, -3.740035416789282, -11.23538933785769, -7.764205839930646, -3.888958118193209, -13.89020268846181, -8.85026686728615, -3.380586032642036, -3.566498053244854, -3.740035416789282, -4.322256566554156, -4.609743890365457, -17.57277633771404, -3.469952400183734, -3.566498053244854, -4.592665915831549, -4.354853346384818, -4.777853917163751, -9.279497820816012, -4.307822097329952, -4.562287331695397, -9.279415013717456, -4.363098513009049, -3.888958118193209, -5.881904973819005, -4.562287331695397, -4.609743890365457, -3.566498053244854, -3.936451501652034, -16.98968541625694, -3.692535137660614, -4.363098513009049, -9.955838302402194, -5.163997817612818, -3.153423277340393, -4.128366017142786, -3.692535137660614, -5.211496454781886, -3.380586032642036, -4.363098513009049, -16.87648436001027] 
    ]
  },
 "Synonymous site-posteriors":  [
[1, 1, 0.9999999999999999, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0.9999999999999999, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0.9999999999999999, 0.9999999999999999, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0.9999999999999999, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0.9999999999999999, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0.9999999999999999, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0.9999999999999999, 1, 1, 1, 1, 1, 1, 0.9999999999999999, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
  [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0] 
  ],
 "analysis":{
   "authors":"Sergei L Kosakovsky Pond",
   "citation":"*Gene-wide identification of episodic selection*, Mol Biol Evol. 32(5):1365-71",
   "contact":"spond@temple.edu",
   "info":"BUSTED (branch-site unrestricted statistical test of episodic diversification) uses a random effects branch-site model fitted \njointly to all or a subset of tree branches in order to test for alignment-wide evidence of episodic diversifying selection. \nAssuming there is evidence of positive selection (i.e. there is an omega > 1),  BUSTED will also perform a quick evidence-ratio \nstyle analysis to explore which individual sites may have been subject to selection. v2.0 adds support for synonymous rate variation, \nand relaxes the test statistic to 0.5 (chi^2_0 + chi^2_2). Version 2.1 adds a grid search for the initial starting point.\nVersion 2.2 changes the grid search to LHC, and adds an initial search phase to use adaptive Nedler-Mead. Version 3.0 implements the option\nfor branch-site variation in synonymous substitution rates. Version 3.1 adds HMM auto-correlation option for SRV, and binds SRV distributions for multiple branch sets\n",
   "requirements":"in-frame codon alignment and a phylogenetic tree (optionally annotated with {})",
   "version":"3.1"
  },
 "background":1,
 "branch attributes":{
   "0":{
     "Node20":{
       "MG94xREV with separate rates for branch sets":0.001634413111521572,
       "Nucleotide GTR":0.001684521619549293,
       "constrained":0.001693211721917988,
       "unconstrained":0.001634737470752693
      },
     "Node38":{
       "MG94xREV with separate rates for branch sets":0.001735516181117074,
       "Nucleotide GTR":0.00168484920326581,
       "constrained":0.001746636597224389,
       "unconstrained":0.001745922493640185
      },
     "Node4":{
       "MG94xREV with separate rates for branch sets":0.001634082124848593,
       "Nucleotide GTR":0.001683801387489096,
       "constrained":0.00169237478895786,
       "unconstrained":0.001634679276807916
      },
     "REFERENCE":{
       "MG94xREV with separate rates for branch sets":0,
       "Nucleotide GTR":0,
       "constrained":0,
       "original name":"REFERENCE",
       "unconstrained":0
      },
     "epi_isl_1181694_hCoV_19_USA_DE_DHSS_B1064373_2021":{
       "MG94xREV with separate rates for branch sets":0,
       "Nucleotide GTR":0,
       "constrained":0,
       "original name":"epi_isl_1181694/hCoV-19/USA/DE-DHSS-B1064373/2021",
       "unconstrained":0
      },
     "epi_isl_1357692_hCoV_19_India_WB_1931500870015_2021":{
       "MG94xREV with separate rates for branch sets":0.001732287226403216,
       "Nucleotide GTR":0.001682745450340891,
       "constrained":0.001740810892619706,
       "original name":"epi_isl_1357692/hCoV-19/India/WB-1931500870015/2021",
       "unconstrained":0.001741861798096834
      },
     "epi_isl_1384851_hCoV_19_India_MH_NCCS_ND13683_2021":{
       "MG94xREV with separate rates for branch sets":0,
       "Nucleotide GTR":0,
       "constrained":0,
       "original name":"epi_isl_1384851/hCoV-19/India/MH-NCCS-ND13683/2021",
       "unconstrained":0
      },
     "epi_isl_1415270_hCoV_19_India_MH_NCCS_BJ2_2021":{
       "MG94xREV with separate rates for branch sets":0.001731614558287267,
       "Nucleotide GTR":0.00168274558227101,
       "constrained":0.001724598894711448,
       "original name":"epi_isl_1415270/hCoV-19/India/MH-NCCS-BJ2/2021",
       "unconstrained":0.00172378454888454
      },
     "epi_isl_1416968_hCoV_19_Guadeloupe_IPP06229_2021":{
       "MG94xREV with separate rates for branch sets":0.001735723689749953,
       "Nucleotide GTR":0.001684401404203384,
       "constrained":0.001729230796728467,
       "original name":"epi_isl_1416968/hCoV-19/Guadeloupe/IPP06229/2021",
       "unconstrained":0.001728407952232285
      },
     "epi_isl_1533793_hCoV_19_India_MH_NCCS_CHN21027888_2021":{
       "MG94xREV with separate rates for branch sets":0.001732400224912789,
       "Nucleotide GTR":0.00168406792173386,
       "constrained":0.001742560499558777,
       "original name":"epi_isl_1533793/hCoV-19/India/MH-NCCS-CHN21027888/2021",
       "unconstrained":0.001741714354731224
      },
     "epi_isl_1543980_hCoV_19_Singapore_490_2021":{
       "MG94xREV with separate rates for branch sets":0.001734572372208465,
       "Nucleotide GTR":0.001684975469042935,
       "constrained":0.001731729790734787,
       "original name":"epi_isl_1543980/hCoV-19/Singapore/490/2021",
       "unconstrained":0.001732786109469241
      },
     "epi_isl_1544068_hCoV_19_India_MH_NCCS_RT231527_2021":{
       "MG94xREV with separate rates for branch sets":0.001735567212787407,
       "Nucleotide GTR":0.001684401583391051,
       "constrained":0.001747074976659773,
       "original name":"epi_isl_1544068/hCoV-19/India/MH-NCCS-RT231527/2021",
       "unconstrained":0.001746237158517961
      },
     "epi_isl_1573247_hCoV_19_Germany_un_RKI_I_068985_2021":{
       "MG94xREV with separate rates for branch sets":0.001732287290590118,
       "Nucleotide GTR":0.001682745512695379,
       "constrained":0.001740808563096063,
       "original name":"epi_isl_1573247/hCoV-19/Germany/un-RKI-I-068985/2021",
       "unconstrained":0.001741859812945089
      },
     "epi_isl_1589870_hCoV_19_India_WB_1931501009078_2021":{
       "MG94xREV with separate rates for branch sets":0,
       "Nucleotide GTR":0,
       "constrained":0,
       "original name":"epi_isl_1589870/hCoV-19/India/WB-1931501009078/2021",
       "unconstrained":0
      },
     "epi_isl_1589885_hCoV_19_India_WB_1931300250528_2021":{
       "MG94xREV with separate rates for branch sets":0.001733756929852886,
       "Nucleotide GTR":0.001684431017860219,
       "constrained":0.001734525657950819,
       "original name":"epi_isl_1589885/hCoV-19/India/WB-1931300250528/2021",
       "unconstrained":0.001733797611044031
      },
     "epi_isl_1592421_hCoV_19_USA_MA_CDC_STM_000044850_2021":{
       "MG94xREV with separate rates for branch sets":0.001733765372833339,
       "Nucleotide GTR":0.001684439221071522,
       "constrained":0.001734525641075956,
       "original name":"epi_isl_1592421/hCoV-19/USA/MA-CDC-STM-000044850/2021",
       "unconstrained":0.001733797586870458
      },
     "epi_isl_1615709_hCoV_19_England_CAMC_14E792B_2021":{
       "MG94xREV with separate rates for branch sets":0,
       "Nucleotide GTR":0,
       "constrained":0,
       "original name":"epi_isl_1615709/hCoV-19/England/CAMC-14E792B/2021",
       "unconstrained":0
      },
     "epi_isl_1632256_hCoV_19_England_RAND_14E1D70_2021":{
       "MG94xREV with separate rates for branch sets":0.001736016199313035,
       "Nucleotide GTR":0.00168443927661716,
       "constrained":0.001747480008189039,
       "original name":"epi_isl_1632256/hCoV-19/England/RAND-14E1D70/2021",
       "unconstrained":0.001746773965693989
      },
     "epi_isl_1652105_hCoV_19_Singapore_561_2021":{
       "MG94xREV with separate rates for branch sets":0.001733699172088262,
       "Nucleotide GTR":0.001685171120971631,
       "constrained":0.001732690281328906,
       "original name":"epi_isl_1652105/hCoV-19/Singapore/561/2021",
       "unconstrained":0.001731872572618556
      },
     "epi_isl_1652118_hCoV_19_Singapore_575_2021":{
       "MG94xREV with separate rates for branch sets":0.001733317353430654,
       "Nucleotide GTR":0.001684401899924961,
       "constrained":0.001730463712944027,
       "original name":"epi_isl_1652118/hCoV-19/Singapore/575/2021",
       "unconstrained":0.001729680833222066
      },
     "gb_LR757997_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_UNKNOWN_LR757997_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.01050948249148799,
       "Nucleotide GTR":0.01020457779555702,
       "constrained":0.01044120365653111,
       "original name":"gb_LR757997_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_UNKNOWN_LR757997_Segment_null_Host_Human",
       "unconstrained":0.01043688886686767
      },
     "gb_MT226610_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_CHN_KMS1_2020_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.0268366757984672,
       "Nucleotide GTR":0.02592331511084145,
       "constrained":0.02709485950713109,
       "original name":"gb_MT226610_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_CHN_KMS1_2020_Segment_null_Host_Human",
       "unconstrained":0.02711261487921226
      },
     "gb_MT326179_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WA_UW_1572_2020_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.005257318382466263,
       "Nucleotide GTR":0.005093980037543817,
       "constrained":0.005312488930776041,
       "original name":"gb_MT326179_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WA_UW_1572_2020_Segment_null_Host_Human",
       "unconstrained":0.005310237663772852
      },
     "gb_MT745751_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_BGD_DNAS_isl_BRB_2020_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.003479916215861459,
       "Nucleotide GTR":0.003379296026417724,
       "constrained":0.00346850100589682,
       "original name":"gb_MT745751_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_BGD_DNAS_isl_BRB_2020_Segment_null_Host_Human",
       "unconstrained":0.003467075173450572
      },
     "gb_MW154124_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_AUS_VIC7567_2020_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.003464849064657331,
       "Nucleotide GTR":0.003372774424630234,
       "constrained":0.003509522487583494,
       "original name":"gb_MW154124_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_AUS_VIC7567_2020_Segment_null_Host_Human",
       "unconstrained":0.003508106640264412
      },
     "gb_MW345265_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MD_MDH_0448_2020_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.003473329346287882,
       "Nucleotide GTR":0.003374190595560375,
       "constrained":0.003460491667549116,
       "original name":"gb_MW345265_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MD_MDH_0448_2020_Segment_null_Host_Human",
       "unconstrained":0.003458961168696655
      },
     "gb_MW486334_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WI_UW_2535_2020_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.005214237504223136,
       "Nucleotide GTR":0.00505933790460295,
       "constrained":0.005212676662201692,
       "original name":"gb_MW486334_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WI_UW_2535_2020_Segment_null_Host_Human",
       "unconstrained":0.00521043198515884
      },
     "gb_MW523870_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_LA_CDC_STM_A100279_2021_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.003464011560282554,
       "Nucleotide GTR":0.003373764235314068,
       "constrained":0.003487667486541674,
       "original name":"gb_MW523870_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_LA_CDC_STM_A100279_2021_Segment_null_Host_Human",
       "unconstrained":0.003486166370330776
      },
     "gb_MW525063_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MI_CDC_STM_0000013_D10_2021_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.005236219925304177,
       "Nucleotide GTR":0.005068409188375663,
       "constrained":0.005291926605586965,
       "original name":"gb_MW525063_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MI_CDC_STM_0000013_D10_2021_Segment_null_Host_Human",
       "unconstrained":0.005289677385186297
      },
     "gb_MW540189_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MA_MASPHL_01215_2020_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.003464842721698225,
       "Nucleotide GTR":0.003372774424770855,
       "constrained":0.003508044185651234,
       "original name":"gb_MW540189_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MA_MASPHL_01215_2020_Segment_null_Host_Human",
       "unconstrained":0.003507815553802554
      },
     "gb_MW562702_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_UT_UPHL_2102128070_2020_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.001735902729262228,
       "Nucleotide GTR":0.001686266012390882,
       "constrained":0.001736374314870017,
       "original name":"gb_MW562702_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_UT_UPHL_2102128070_2020_Segment_null_Host_Human",
       "unconstrained":0.001735532172102446
      },
     "gb_MW583322_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_AL_CDC_STM_000001665_2021_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.003480097445970276,
       "Nucleotide GTR":0.003374436490976879,
       "constrained":0.003479100177235689,
       "original name":"gb_MW583322_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_AL_CDC_STM_000001665_2021_Segment_null_Host_Human",
       "unconstrained":0.003478891730919581
      },
     "gb_MW585851_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_GA_CDC_STM_000004152_2021_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.00347257104743095,
       "Nucleotide GTR":0.003376034743011948,
       "constrained":0.003518997887784842,
       "original name":"gb_MW585851_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_GA_CDC_STM_000004152_2021_Segment_null_Host_Human",
       "unconstrained":0.003517561264776653
      },
     "gb_MW585867_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_CA_CDC_STM_000003621_2021_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.003474988463675508,
       "Nucleotide GTR":0.003374190741831846,
       "constrained":0.003517174184123671,
       "original name":"gb_MW585867_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_CA_CDC_STM_000003621_2021_Segment_null_Host_Human",
       "unconstrained":0.00351929009659662
      },
     "gb_MW593074_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MN_MDH_2645_2021_Segment_null_Host_Human":{
       "MG94xREV with separate rates for branch sets":0.003471294880555319,
       "Nucleotide GTR":0.003376937492543959,
       "constrained":0.003517915599429177,
       "original name":"gb_MW593074_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MN_MDH_2645_2021_Segment_null_Host_Human",
       "unconstrained":0.003516462270783854
      }
    },
   "attributes":{
     "MG94xREV with separate rates for branch sets":{
       "attribute type":"branch length",
       "display order":1
      },
     "Nucleotide GTR":{
       "attribute type":"branch length",
       "display order":0
      },
     "constrained":{
       "attribute type":"branch length",
       "display order":1
      },
     "original name":{
       "attribute type":"node label",
       "display order":0
      },
     "unconstrained":{
       "attribute type":"branch length",
       "display order":0
      }
    }
  },
 "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, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197] 
      ],
     "name":"busted.filter.default"
    }
  },
 "fits":{
   "Constrained model":{
     "AIC-c":2537.370055580011,
     "Log Likelihood":-1205.042170647148,
     "Rate Distributions":{
       "Background":{
         "0":{
           "omega":0.00623371489168318,
           "proportion":0.02824597255703105
          },
         "1":{
           "omega":0.1719986773053319,
           "proportion":0.8104926399157489
          },
         "2":{
           "omega":2.233103409549535,
           "proportion":0.16126138752722
          }
        },
       "Synonymous site-to-site rates":{
         "0":{
           "proportion":0,
           "rate":0.9507923294014373
          },
         "1":{
           "proportion":1,
           "rate":1
          },
         "2":{
           "proportion":0,
           "rate":1.059005087778388
          }
        },
       "Test":{
         "0":{
           "omega":0.9993683385761363,
           "proportion":2.155223602575912e-10
          },
         "1":{
           "omega":0.999707726011995,
           "proportion":2.155223602111413e-10
          },
         "2":{
           "omega":1,
           "proportion":0.9999999995689552
          }
        }
      },
     "display order":3,
     "estimated parameters":63
    },
   "MG94xREV with separate rates for branch sets":{
     "AIC-c":2512.962001126987,
     "Equilibrium frequencies":      [
[0.03825952761243274],
      [0.01370948533169502],
      [0.0238326285579188],
      [0.05169206288834598],
      [0.02910782227384961],
      [0.01043016700423795],
      [0.01813184740308045],
      [0.03932728586627101],
      [0.01035067712195123],
      [0.003708944282165923],
      [0.006447644771501305],
      [0.01398469573761802],
      [0.0283653688047424],
      [0.01016412464618009],
      [0.01766935821790241],
      [0.03832416445281453],
      [0.01521889661505549],
      [0.005453366858635389],
      [0.009480156518454269],
      [0.02056209812326697],
      [0.01157852606970437],
      [0.004148917752546374],
      [0.007212496554133422],
      [0.01564363009947405],
      [0.00411729822204095],
      [0.001475345962268018],
      [0.002564747797779777],
      [0.005562840210150803],
      [0.01128319250724396],
      [0.004043091272315801],
      [0.007028527343480687],
      [0.01524460789411934],
      [0.03592403244011121],
      [0.01287261047188149],
      [0.02237780168434643],
      [0.04853659885475865],
      [0.02733097915424774],
      [0.009793473186905268],
      [0.01702501611901085],
      [0.03692661100139533],
      [0.009718835644621534],
      [0.003482537371104292],
      [0.0060540580187001],
      [0.01313102107355921],
      [0.02663384763763138],
      [0.009543670983435077],
      [0.01659075888876379],
      [0.0359847236220365],
      [0.00848480075962617],
      [0.03199221880690793],
      [0.01801483181642438],
      [0.006455230577911434],
      [0.01122180073845716],
      [0.02433965804833868],
      [0.002295465694104339],
      [0.003990447484454917],
      [0.008655128485630147],
      [0.01755532734880559],
      [0.00629057695692368],
      [0.01093556617204019],
      [0.02371882618448924] 
      ],
     "Log Likelihood":-1205.058976375078,
     "Rate Distributions":{
       "non-synonymous/synonymous rate ratio for *background*":        [
[0.4929148114260853, 1] 
        ],
       "non-synonymous/synonymous rate ratio for *test*":        [
[24.31954749176878, 1] 
        ]
      },
     "display order":1,
     "estimated parameters":51
    },
   "Nucleotide GTR":{
     "AIC-c":2633.0046471406,
     "Equilibrium frequencies":      [
[0.3251262626262627],
      [0.1799242424242424],
      [0.2026515151515151],
      [0.2922979797979798] 
      ],
     "Log Likelihood":-1247.247280799152,
     "Rate Distributions":{
       "Substitution rate from nucleotide A to nucleotide C":0,
       "Substitution rate from nucleotide A to nucleotide G":1,
       "Substitution rate from nucleotide A to nucleotide T":0.3101631549852981,
       "Substitution rate from nucleotide C to nucleotide G":1.129990583516242,
       "Substitution rate from nucleotide C to nucleotide T":2.723444388603395,
       "Substitution rate from nucleotide G to nucleotide T":1.720896006888861
      },
     "display order":0,
     "estimated parameters":69
    },
   "Unconstrained model":{
     "AIC-c":2538.426858070025,
     "Log Likelihood":-1204.550057961818,
     "Rate Distributions":{
       "Background":{
         "0":{
           "omega":0,
           "proportion":0.02741862862724963
          },
         "1":{
           "omega":0.1719979491289183,
           "proportion":0.8111826871363725
          },
         "2":{
           "omega":2.232058479326601,
           "proportion":0.1613986842363778
          }
        },
       "Synonymous site-to-site rates":{
         "0":{
           "proportion":0,
           "rate":0.9502886367487763
          },
         "1":{
           "proportion":1,
           "rate":1
          },
         "2":{
           "proportion":0,
           "rate":1.059678592887729
          }
        },
       "Test":{
         "0":{
           "omega":0.9993684330797956,
           "proportion":0
          },
         "1":{
           "omega":0.999368433118802,
           "proportion":0
          },
         "2":{
           "omega":25.32658549655282,
           "proportion":1
          }
        }
      },
     "display order":2,
     "estimated parameters":64
    }
  },
 "input":{
   "file name":"/home/aglucaci/SARS-CoV-2/clades/B-1-617/nsp8.combined.fas",
   "number of sequences":32,
   "number of sites":198,
   "partition count":1,
   "trees":{
     "0":"(REFERENCE,(gb_MT226610_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_CHN_KMS1_2020_Segment_null_Host_Human,epi_isl_1589870_hCoV_19_India_WB_1931501009078_2021)Node20,gb_MT326179_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WA_UW_1572_2020_Segment_null_Host_Human,epi_isl_1589885_hCoV_19_India_WB_1931300250528_2021,(epi_isl_1615709_hCoV_19_England_CAMC_14E792B_2021,gb_MW523870_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_LA_CDC_STM_A100279_2021_Segment_null_Host_Human)Node4,epi_isl_1592421_hCoV_19_USA_MA_CDC_STM_000044850_2021,gb_MW345265_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MD_MDH_0448_2020_Segment_null_Host_Human,gb_MW525063_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MI_CDC_STM_0000013_D10_2021_Segment_null_Host_Human,epi_isl_1181694_hCoV_19_USA_DE_DHSS_B1064373_2021,gb_MW585851_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_GA_CDC_STM_000004152_2021_Segment_null_Host_Human,(gb_MW583322_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_AL_CDC_STM_000001665_2021_Segment_null_Host_Human,gb_MW562702_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_UT_UPHL_2102128070_2020_Segment_null_Host_Human,epi_isl_1384851_hCoV_19_India_MH_NCCS_ND13683_2021)Node38,epi_isl_1357692_hCoV_19_India_WB_1931500870015_2021,gb_MW486334_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WI_UW_2535_2020_Segment_null_Host_Human,epi_isl_1533793_hCoV_19_India_MH_NCCS_CHN21027888_2021,gb_LR757997_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_UNKNOWN_LR757997_Segment_null_Host_Human,epi_isl_1415270_hCoV_19_India_MH_NCCS_BJ2_2021,epi_isl_1543980_hCoV_19_Singapore_490_2021,epi_isl_1632256_hCoV_19_England_RAND_14E1D70_2021,gb_MT745751_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_BGD_DNAS_isl_BRB_2020_Segment_null_Host_Human,epi_isl_1573247_hCoV_19_Germany_un_RKI_I_068985_2021,gb_MW585867_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_CA_CDC_STM_000003621_2021_Segment_null_Host_Human,gb_MW540189_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MA_MASPHL_01215_2020_Segment_null_Host_Human,epi_isl_1652118_hCoV_19_Singapore_575_2021,epi_isl_1652105_hCoV_19_Singapore_561_2021,gb_MW593074_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MN_MDH_2645_2021_Segment_null_Host_Human,gb_MW154124_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_AUS_VIC7567_2020_Segment_null_Host_Human,epi_isl_1416968_hCoV_19_Guadeloupe_IPP06229_2021,epi_isl_1544068_hCoV_19_India_MH_NCCS_RT231527_2021)"
    }
  },
 "test results":{
   "LRT":0.9842253706597148,
   "p-value":0.3056667368082906
  },
 "tested":{
   "0":{
     "Node20":"test",
     "Node38":"background",
     "Node4":"test",
     "REFERENCE":"background",
     "epi_isl_1181694_hCoV_19_USA_DE_DHSS_B1064373_2021":"background",
     "epi_isl_1357692_hCoV_19_India_WB_1931500870015_2021":"background",
     "epi_isl_1384851_hCoV_19_India_MH_NCCS_ND13683_2021":"background",
     "epi_isl_1415270_hCoV_19_India_MH_NCCS_BJ2_2021":"background",
     "epi_isl_1416968_hCoV_19_Guadeloupe_IPP06229_2021":"background",
     "epi_isl_1533793_hCoV_19_India_MH_NCCS_CHN21027888_2021":"background",
     "epi_isl_1543980_hCoV_19_Singapore_490_2021":"background",
     "epi_isl_1544068_hCoV_19_India_MH_NCCS_RT231527_2021":"background",
     "epi_isl_1573247_hCoV_19_Germany_un_RKI_I_068985_2021":"background",
     "epi_isl_1589870_hCoV_19_India_WB_1931501009078_2021":"background",
     "epi_isl_1589885_hCoV_19_India_WB_1931300250528_2021":"background",
     "epi_isl_1592421_hCoV_19_USA_MA_CDC_STM_000044850_2021":"background",
     "epi_isl_1615709_hCoV_19_England_CAMC_14E792B_2021":"background",
     "epi_isl_1632256_hCoV_19_England_RAND_14E1D70_2021":"background",
     "epi_isl_1652105_hCoV_19_Singapore_561_2021":"background",
     "epi_isl_1652118_hCoV_19_Singapore_575_2021":"background",
     "gb_LR757997_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_UNKNOWN_LR757997_Segment_null_Host_Human":"background",
     "gb_MT226610_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_CHN_KMS1_2020_Segment_null_Host_Human":"background",
     "gb_MT326179_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WA_UW_1572_2020_Segment_null_Host_Human":"background",
     "gb_MT745751_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_BGD_DNAS_isl_BRB_2020_Segment_null_Host_Human":"background",
     "gb_MW154124_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_AUS_VIC7567_2020_Segment_null_Host_Human":"background",
     "gb_MW345265_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MD_MDH_0448_2020_Segment_null_Host_Human":"background",
     "gb_MW486334_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WI_UW_2535_2020_Segment_null_Host_Human":"background",
     "gb_MW523870_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_LA_CDC_STM_A100279_2021_Segment_null_Host_Human":"background",
     "gb_MW525063_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MI_CDC_STM_0000013_D10_2021_Segment_null_Host_Human":"background",
     "gb_MW540189_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MA_MASPHL_01215_2020_Segment_null_Host_Human":"background",
     "gb_MW562702_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_UT_UPHL_2102128070_2020_Segment_null_Host_Human":"background",
     "gb_MW583322_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_AL_CDC_STM_000001665_2021_Segment_null_Host_Human":"background",
     "gb_MW585851_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_GA_CDC_STM_000004152_2021_Segment_null_Host_Human":"background",
     "gb_MW585867_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_CA_CDC_STM_000003621_2021_Segment_null_Host_Human":"background",
     "gb_MW593074_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MN_MDH_2645_2021_Segment_null_Host_Human":"background"
    }
  },
 "timers":{
   "Constrained BUSTED model fitting":{
     "order":3,
     "timer":3
    },
   "Overall":{
     "order":0,
     "timer":76
    },
   "Preliminary model fitting":{
     "order":1,
     "timer":6
    },
   "Unconstrained BUSTED model fitting":{
     "order":2,
     "timer":66
    }
  }
}