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Heterochronous_H3N2.out
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Heterochronous_H3N2.out
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Due to MODULEPATH changes, the following have been reloaded:
1) beagle-lib/3.0.2 2) fftw/3.3.8 3) openmpi/3.1.4 4) scalapack/2.0.2
BEAST v2.6.3, 2002-2020
Bayesian Evolutionary Analysis Sampling Trees
Designed and developed by
Remco Bouckaert, Alexei J. Drummond, Andrew Rambaut & Marc A. Suchard
Centre for Computational Evolution
University of Auckland
r.bouckaert@auckland.ac.nz
alexei@cs.auckland.ac.nz
Institute of Evolutionary Biology
University of Edinburgh
a.rambaut@ed.ac.uk
David Geffen School of Medicine
University of California, Los Angeles
msuchard@ucla.edu
Downloads, Help & Resources:
http://beast2.org/
Source code distributed under the GNU Lesser General Public License:
http://github.com/CompEvol/beast2
BEAST developers:
Alex Alekseyenko, Trevor Bedford, Erik Bloomquist, Joseph Heled,
Sebastian Hoehna, Denise Kuehnert, Philippe Lemey, Wai Lok Sibon Li,
Gerton Lunter, Sidney Markowitz, Vladimir Minin, Michael Defoin Platel,
Oliver Pybus, Tim Vaughan, Chieh-Hsi Wu, Walter Xie
Thanks to:
Roald Forsberg, Beth Shapiro and Korbinian Strimmer
Random number seed: 1636936624385
File: Heterochronous_H3N2.xml seed: 1636936624385 threads: 1
Loading package BEAST v2.6.3
Loading package CoupledMCMC v1.0.2
Loading package BEASTLabs v1.9.6
Loading package BDSKY v1.4.7
Loading package MODEL_SELECTION v1.5.3
Loading package BEAST v2.6.3
Alignment(InfluenzaAH3N2_HAgene_2009_California_heterochronous)
139 taxa
1738 sites
184 patterns
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/05/03' as: 2009.3342465753424
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/05/05' as: 2009.3397260273973
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/05/26' as: 2009.3972602739725
Using format 'yyyy/M/dd' to parse '2009/05/26' as: 2009.3972602739725
Using format 'yyyy/M/dd' to parse '2009/05/04' as: 2009.33698630137
Using format 'yyyy/M/dd' to parse '2009/05/01' as: 2009.3287671232877
Using format 'yyyy/M/dd' to parse '2009/05/01' as: 2009.3287671232877
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/05/01' as: 2009.3287671232877
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/26' as: 2009.3150684931506
Using format 'yyyy/M/dd' to parse '2009/05/01' as: 2009.3287671232877
Using format 'yyyy/M/dd' to parse '2009/05/01' as: 2009.3287671232877
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/05/06' as: 2009.3424657534247
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/05/11' as: 2009.3561643835617
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/05/06' as: 2009.3424657534247
Using format 'yyyy/M/dd' to parse '2009/05/09' as: 2009.3506849315067
Using format 'yyyy/M/dd' to parse '2009/05/18' as: 2009.3753424657534
Using format 'yyyy/M/dd' to parse '2009/05/04' as: 2009.33698630137
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/05/09' as: 2009.3506849315067
Using format 'yyyy/M/dd' to parse '2009/05/09' as: 2009.3506849315067
Using format 'yyyy/M/dd' to parse '2009/06/03' as: 2009.4191780821918
Using format 'yyyy/M/dd' to parse '2009/05/11' as: 2009.3561643835617
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/05/26' as: 2009.3972602739725
Using format 'yyyy/M/dd' to parse '2009/05/02' as: 2009.331506849315
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/05/11' as: 2009.3561643835617
Using format 'yyyy/M/dd' to parse '2009/05/11' as: 2009.3561643835617
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/05/01' as: 2009.3287671232877
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/05/06' as: 2009.3424657534247
Using format 'yyyy/M/dd' to parse '2009/05/11' as: 2009.3561643835617
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/25' as: 2009.3123287671233
Using format 'yyyy/M/dd' to parse '2009/04/25' as: 2009.3123287671233
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/05/11' as: 2009.3561643835617
Using format 'yyyy/M/dd' to parse '2009/05/19' as: 2009.3780821917808
Using format 'yyyy/M/dd' to parse '2009/05/04' as: 2009.33698630137
Using format 'yyyy/M/dd' to parse '2009/06/05' as: 2009.4246575342465
Using format 'yyyy/M/dd' to parse '2009/06/08' as: 2009.4328767123288
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/06/02' as: 2009.4164383561645
Using format 'yyyy/M/dd' to parse '2009/04/26' as: 2009.3150684931506
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/05/06' as: 2009.3424657534247
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/05/04' as: 2009.33698630137
Using format 'yyyy/M/dd' to parse '2009/05/04' as: 2009.33698630137
Using format 'yyyy/M/dd' to parse '2009/05/20' as: 2009.3808219178081
Using format 'yyyy/M/dd' to parse '2009/04/26' as: 2009.3150684931506
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/04/26' as: 2009.3150684931506
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/05/07' as: 2009.345205479452
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/05/23' as: 2009.3890410958904
Using format 'yyyy/M/dd' to parse '2009/05/23' as: 2009.3890410958904
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/05/02' as: 2009.331506849315
Using format 'yyyy/M/dd' to parse '2009/05/18' as: 2009.3753424657534
Using format 'yyyy/M/dd' to parse '2009/04/25' as: 2009.3123287671233
Using format 'yyyy/M/dd' to parse '2009/05/01' as: 2009.3287671232877
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/27' as: 2009.317808219178
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/05/03' as: 2009.3342465753424
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/05/04' as: 2009.33698630137
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/28' as: 2009.3205479452056
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/04/29' as: 2009.323287671233
Using format 'yyyy/M/dd' to parse '2009/05/02' as: 2009.331506849315
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/04/30' as: 2009.3260273972603
Using format 'yyyy/M/dd' to parse '2009/05/01' as: 2009.3287671232877
Using format 'yyyy/M/dd' to parse '2009/04/26' as: 2009.3150684931506
CY064815_A_California_VRDL136_2009_2009/04/26 = 2009/04/26 (0.11780821917818685)
CY064823_A_California_VRDL138_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY064847_A_California_VRDL143_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY064855_A_California_VRDL144_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY064863_A_California_VRDL145_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY064879_A_California_VRDL147_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY064887_A_California_VRDL158_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY066519_A_California_VRDL156_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY067197_A_California_VRDL241_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY067205_A_California_VRDL291_2009_2009/05/01 = 2009/05/01 (0.10410958904117251)
CY067213_A_California_VRDL296_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY067221_A_California_VRDL302_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY067229_A_California_VRDL304_2009_2009/05/07 = 2009/05/07 (0.08767123287680079)
CY067237_A_California_VRDL307_2009_2009/05/02 = 2009/05/02 (0.10136986301381512)
CY067245_A_California_VRDL314_2009_2009/05/01 = 2009/05/01 (0.10410958904117251)
CY067253_A_California_VRDL316_2009_2009/05/04 = 2009/05/04 (0.09589041095887296)
CY067921_A_California_VRDL176_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY067929_A_California_VRDL177_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY067937_A_California_VRDL286_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY067945_A_California_VRDL287_2009_2009/05/04 = 2009/05/04 (0.09589041095887296)
CY067953_A_California_VRDL288_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY067961_A_California_VRDL328_2009_2009/05/09 = 2009/05/09 (0.082191780822086)
CY067969_A_California_VRDL339_2009_2009/05/04 = 2009/05/04 (0.09589041095887296)
CY067977_A_California_VRDL340_2009_2009/05/04 = 2009/05/04 (0.09589041095887296)
CY067985_A_California_VRDL342_2009_2009/05/20 = 2009/05/20 (0.05205479452069994)
CY067993_A_California_VRDL343_2009_2009/05/11 = 2009/05/11 (0.07671232876714384)
CY068001_A_California_VRDL344_2009_2009/05/19 = 2009/05/19 (0.054794520548057335)
CY068009_A_California_VRDL345_2009_2009/05/26 = 2009/05/26 (0.03561643835632822)
CY068017_A_California_VRDL349_2009_2009/05/26 = 2009/05/26 (0.03561643835632822)
CY068025_A_California_VRDL351_2009_2009/05/23 = 2009/05/23 (0.04383561643840039)
CY068033_A_California_VRDL352_2009_2009/05/11 = 2009/05/11 (0.07671232876714384)
CY068041_A_California_VRDL354_2009_2009/05/26 = 2009/05/26 (0.03561643835632822)
CY068049_A_California_VRDL355_2009_2009/05/11 = 2009/05/11 (0.07671232876714384)
CY068057_A_California_VRDL357_2009_2009/06/05 = 2009/06/05 (0.00821917808229955)
CY068065_A_California_VRDL360_2009_2009/06/03 = 2009/06/03 (0.013698630137014334)
CY068089_A_California_VRDL367_2009_2009/04/25 = 2009/04/25 (0.12054794520554424)
CY068097_A_California_VRDL368_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY068105_A_California_VRDL373_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY068113_A_California_VRDL374_2009_2009/04/25 = 2009/04/25 (0.12054794520554424)
CY068121_A_California_VRDL375_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY068129_A_California_VRDL396_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068137_A_California_VRDL159_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068145_A_California_VRDL160_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068153_A_California_VRDL161_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068161_A_California_VRDL164_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068169_A_California_VRDL165_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068177_A_California_VRDL166_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068185_A_California_VRDL168_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068193_A_California_VRDL169_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068201_A_California_VRDL170_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068209_A_California_VRDL172_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068217_A_California_VRDL173_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068225_A_California_VRDL188_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068233_A_California_VRDL211_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068241_A_California_VRDL212_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068249_A_California_VRDL216_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068257_A_California_VRDL230_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068265_A_California_VRDL231_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068273_A_California_VRDL233_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068281_A_California_VRDL243_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068289_A_California_VRDL247_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068297_A_California_VRDL248_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY068305_A_California_VRDL250_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068313_A_California_VRDL253_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068321_A_California_VRDL259_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068329_A_California_VRDL260_2009_2009/05/01 = 2009/05/01 (0.10410958904117251)
CY068337_A_California_VRDL261_2009_2009/05/02 = 2009/05/02 (0.10136986301381512)
CY068353_A_California_VRDL263_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068369_A_California_VRDL266_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068377_A_California_VRDL268_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068385_A_California_VRDL271_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068393_A_California_VRDL272_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068401_A_California_VRDL274_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068409_A_California_VRDL277_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068417_A_California_VRDL278_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068425_A_California_VRDL279_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068433_A_California_VRDL285_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068441_A_California_VRDL293_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068449_A_California_VRDL294_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068457_A_California_VRDL305_2009_2009/05/01 = 2009/05/01 (0.10410958904117251)
CY068465_A_California_VRDL308_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068473_A_California_VRDL309_2009_2009/05/02 = 2009/05/02 (0.10136986301381512)
CY068481_A_California_VRDL310_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068489_A_California_VRDL312_2009_2009/05/01 = 2009/05/01 (0.10410958904117251)
CY068497_A_California_VRDL313_2009_2009/05/01 = 2009/05/01 (0.10410958904117251)
CY068505_A_California_VRDL315_2009_2009/05/01 = 2009/05/01 (0.10410958904117251)
CY068513_A_California_VRDL317_2009_2009/05/06 = 2009/05/06 (0.09041095890415818)
CY068521_A_California_VRDL318_2009_2009/05/06 = 2009/05/06 (0.09041095890415818)
CY068529_A_California_VRDL319_2009_2009/05/06 = 2009/05/06 (0.09041095890415818)
CY068537_A_California_VRDL321_2009_2009/05/04 = 2009/05/04 (0.09589041095887296)
CY068545_A_California_VRDL322_2009_2009/05/04 = 2009/05/04 (0.09589041095887296)
CY068553_A_California_VRDL325_2009_2009/05/03 = 2009/05/03 (0.09863013698645773)
CY068561_A_California_VRDL327_2009_2009/05/11 = 2009/05/11 (0.07671232876714384)
CY068569_A_California_VRDL329_2009_2009/05/09 = 2009/05/09 (0.082191780822086)
CY068577_A_California_VRDL331_2009_2009/05/11 = 2009/05/11 (0.07671232876714384)
CY068585_A_California_VRDL332_2009_2009/05/11 = 2009/05/11 (0.07671232876714384)
CY068593_A_California_VRDL333_2009_2009/05/06 = 2009/05/06 (0.09041095890415818)
CY068601_A_California_VRDL334_2009_2009/05/18 = 2009/05/18 (0.05753424657541473)
CY068609_A_California_VRDL335_2009_2009/05/03 = 2009/05/03 (0.09863013698645773)
CY068617_A_California_VRDL336_2009_2009/05/05 = 2009/05/05 (0.09315068493151557)
CY068625_A_California_VRDL338_2009_2009/05/18 = 2009/05/18 (0.05753424657541473)
CY068633_A_California_VRDL394_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068678_A_California_VRDL178_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068686_A_California_VRDL181_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068694_A_California_VRDL183_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY068702_A_California_VRDL184_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068710_A_California_VRDL185_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068718_A_California_VRDL187_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068726_A_California_VRDL196_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068734_A_California_VRDL198_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068742_A_California_VRDL199_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068750_A_California_VRDL201_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068758_A_California_VRDL203_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068766_A_California_VRDL204_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068774_A_California_VRDL205_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068782_A_California_VRDL207_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY068790_A_California_VRDL208_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068798_A_California_VRDL210_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068806_A_California_VRDL246_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY068814_A_California_VRDL269_2009_2009/04/30 = 2009/04/30 (0.1068493150685299)
CY068822_A_California_VRDL381_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY068830_A_California_VRDL383_2009_2009/04/26 = 2009/04/26 (0.11780821917818685)
CY068838_A_California_VRDL384_2009_2009/04/25 = 2009/04/25 (0.12054794520554424)
CY068846_A_California_VRDL387_2009_2009/04/27 = 2009/04/27 (0.11506849315082945)
CY068854_A_California_VRDL390_2009_2009/04/26 = 2009/04/26 (0.11780821917818685)
CY068862_A_California_VRDL391_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068870_A_California_VRDL392_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY068878_A_California_VRDL393_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY070919_A_California_VRDL330_2009_2009/05/09 = 2009/05/09 (0.082191780822086)
CY072190_A_California_VRDL347_2009_2009/05/23 = 2009/05/23 (0.04383561643840039)
CY072198_A_California_VRDL385_2009_2009/04/26 = 2009/04/26 (0.11780821917818685)
CY072206_A_California_VRDL386_2009_2009/04/26 = 2009/04/26 (0.11780821917818685)
CY077425_A_California_VRDL356_2009_2009/06/02 = 2009/06/02 (0.016438356164371726)
CY089540_A_California_VRDL359_2009_2009/06/08 = 2009/06/08 (0.0)
CY092329_A_California_VRDL182_2009_2009/04/28 = 2009/04/28 (0.11232876712324469)
CY092353_A_California_VRDL197_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY092361_A_California_VRDL242_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY092369_A_California_VRDL255_2009_2009/04/29 = 2009/04/29 (0.1095890410958873)
CY092377_A_California_VRDL257_2009_2009/05/01 = 2009/05/01 (0.10410958904117251)
Using BEAGLE version: 3.0.2 resource 0: CPU
with instance flags: PRECISION_DOUBLE COMPUTATION_SYNCH EIGEN_REAL SCALING_MANUAL SCALERS_RAW VECTOR_SSE PROCESSOR_CPU FRAMEWORK_CPU
Ignoring ambiguities in tree likelihood.
Ignoring character uncertainty in tree likelihood.
With 184 unique site patterns.
Using rescaling scheme : dynamic
===============================================================================
Citations for this model:
Bouckaert, Remco, Timothy G. Vaughan, Joëlle Barido-Sottani, Sebastián Duchêne, Mathieu Fourment,
Alexandra Gavryushkina, Joseph Heled, Graham Jones, Denise Kühnert, Nicola De Maio, Michael Matschiner,
Fábio K. Mendes, Nicola F. Müller, Huw A. Ogilvie, Louis du Plessis, Alex Popinga, Andrew Rambaut,
David Rasmussen, Igor Siveroni, Marc A. Suchard, Chieh-Hsi Wu, Dong Xie, Chi Zhang, Tanja Stadler,
Alexei J. Drummond
BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis.
PLoS computational biology 15, no. 4 (2019): e1006650.
Stadler, T., Kuehnert, D., Bonhoeffer, S., and Drummond, A. J. (2013):
Birth-death skyline plot reveals temporal changes of
epidemic spread in HIV and hepatitis C virus (HCV). PNAS 110(1): 228–33.
If sampled ancestors are used then please also cite: Gavryushkina A, Welch D, Stadler T, Drummond AJ (2014)
Bayesian inference of sampled ancestor trees for epidemiology and fossil calibration.
PLoS Comput Biol 10(12): e1003919. doi:10.1371/journal.pcbi.1003919
Hasegawa M, Kishino H, Yano T (1985) Dating the human-ape splitting by a
molecular clock of mitochondrial DNA. Journal of Molecular Evolution
22:160-174.
===============================================================================
Start likelihood: -15100.716531443415
Warning: Overwriting file InfluenzaAH3N2_HAgene_2009_California_heterochronous.log
Warning: Overwriting file InfluenzaAH3N2_HAgene_2009_California_heterochronous.trees
Sample posterior likelihood prior
0 -15100.7165 -12992.8836 -2107.8329 --
1000 -10049.2556 -9380.5431 -668.7125 --
2000 -8178.9531 -7933.2489 -245.7041 --
3000 -7537.4673 -7403.8461 -133.6212 --
4000 -7170.5871 -7145.8207 -24.7664 --
5000 -6716.2915 -6731.0311 14.7395 --
6000 -6519.8007 -6566.8440 47.0432 --
7000 -6244.7782 -6300.4442 55.6660 --
8000 -6037.8155 -6112.5331 74.7176 --
9000 -5748.6867 -5836.6877 88.0010 --
10000 -5617.2037 -5698.7414 81.5376 --
11000 -5542.9653 -5630.0938 87.1285 2m24s/Msamples
12000 -5412.2052 -5515.3849 103.1797 2m11s/Msamples
13000 -5245.1865 -5358.3789 113.1924 1m58s/Msamples
14000 -5180.2880 -5285.1985 104.9104 1m53s/Msamples
15000 -5093.9287 -5224.6023 130.6735 2m6s/Msamples
16000 -5038.4997 -5174.3547 135.8550 2m15s/Msamples
17000 -4981.9734 -5121.0952 139.1218 2m20s/Msamples
18000 -4946.5905 -5081.0839 134.4933 2m17s/Msamples
19000 -4891.1937 -5024.8928 133.6991 2m14s/Msamples
20000 -4873.8523 -5011.2891 137.4368 2m11s/Msamples
21000 -4834.1202 -4989.5128 155.3926 2m10s/Msamples
22000 -4765.3441 -4931.1645 165.8204 2m15s/Msamples
23000 -4773.3303 -4926.5435 153.2132 2m13s/Msamples
24000 -4740.4005 -4900.0572 159.6567 2m11s/Msamples
25000 -4735.8456 -4897.9807 162.1350 2m9s/Msamples
26000 -4713.4793 -4866.3962 152.9169 2m8s/Msamples
27000 -4646.0221 -4797.0928 151.0706 2m7s/Msamples
28000 -4611.1937 -4754.8631 143.6694 2m5s/Msamples
29000 -4600.3337 -4748.0739 147.7401 2m4s/Msamples
30000 -4574.6386 -4718.1010 143.4623 2m4s/Msamples
31000 -4547.4540 -4691.6383 144.1842 2m3s/Msamples
32000 -4508.5868 -4647.1222 138.5354 2m4s/Msamples
33000 -4487.4655 -4627.2555 139.7899 2m3s/Msamples
34000 -4457.0836 -4596.3983 139.3146 2m2s/Msamples
35000 -4443.7065 -4587.7199 144.0133 2m1s/Msamples
36000 -4455.8965 -4584.4120 128.5155 2m1s/Msamples
37000 -4438.4861 -4578.5121 140.0259 2m0s/Msamples
38000 -4417.0330 -4541.0154 123.9824 1m59s/Msamples
39000 -4383.1074 -4520.1509 137.0434 1m58s/Msamples
40000 -4370.6495 -4493.9582 123.3087 1m58s/Msamples
41000 -4379.4887 -4497.4271 117.9383 1m58s/Msamples
42000 -4376.8392 -4500.4512 123.6119 1m57s/Msamples
43000 -4377.2295 -4497.3621 120.1325 1m56s/Msamples
44000 -4399.3606 -4497.6849 98.3242 1m55s/Msamples
45000 -4381.2652 -4486.8980 105.6328 2m1s/Msamples
46000 -4363.9175 -4477.3923 113.4747 2m3s/Msamples
47000 -4374.3175 -4462.5407 88.2231 2m2s/Msamples
48000 -4358.2084 -4459.3550 101.1465 2m1s/Msamples
49000 -4353.7574 -4451.9823 98.2249 2m0s/Msamples
50000 -4343.8162 -4448.6251 104.8088 2m0s/Msamples
51000 -4336.6066 -4444.9885 108.3819 1m59s/Msamples
52000 -4330.1924 -4446.2684 116.0759 1m58s/Msamples
53000 -4312.6818 -4434.2782 121.5963 1m57s/Msamples
54000 -4290.3802 -4402.3247 111.9445 1m57s/Msamples
55000 -4295.8688 -4413.3647 117.4959 1m57s/Msamples
56000 -4279.5796 -4409.2474 129.6677 1m56s/Msamples
57000 -4283.3048 -4393.3303 110.0254 1m55s/Msamples
58000 -4249.8652 -4369.6163 119.7510 1m55s/Msamples
59000 -4256.8414 -4363.3623 106.5208 1m55s/Msamples
60000 -4268.3086 -4365.0719 96.7632 1m54s/Msamples
61000 -4279.8671 -4361.6820 81.8148 1m54s/Msamples
62000 -4291.6461 -4354.6802 63.0340 1m54s/Msamples
63000 -4305.5793 -4358.6960 53.1167 1m53s/Msamples
64000 -4277.5868 -4352.6585 75.0717 1m53s/Msamples
65000 -4271.4906 -4348.1635 76.6729 1m52s/Msamples
66000 -4272.4209 -4352.9652 80.5442 1m52s/Msamples
67000 -4271.6704 -4350.0260 78.3556 1m51s/Msamples
68000 -4268.8711 -4365.7104 96.8392 1m51s/Msamples
69000 -4252.1724 -4359.3151 107.1427 1m50s/Msamples
70000 -4248.9773 -4348.2640 99.2866 1m50s/Msamples
71000 -4241.6132 -4330.0680 88.4547 1m50s/Msamples
72000 -4258.0005 -4337.0610 79.0604 1m50s/Msamples
73000 -4259.6674 -4345.7578 86.0903 1m49s/Msamples
74000 -4261.7671 -4357.9176 96.1504 1m49s/Msamples
75000 -4249.1707 -4341.6773 92.5065 1m49s/Msamples
76000 -4255.2188 -4329.0593 73.8405 1m48s/Msamples
77000 -4208.6419 -4305.0161 96.3742 1m48s/Msamples
78000 -4201.9042 -4299.4233 97.5190 1m48s/Msamples
79000 -4197.6562 -4294.3899 96.7336 1m48s/Msamples
80000 -4181.9574 -4272.4993 90.5418 1m47s/Msamples
81000 -4170.2125 -4260.2231 90.0105 1m47s/Msamples
82000 -4164.8261 -4248.1210 83.2949 1m47s/Msamples
83000 -4166.3306 -4239.7880 73.4574 1m47s/Msamples
84000 -4159.2039 -4237.9061 78.7021 1m46s/Msamples
85000 -4143.7452 -4234.1413 90.3960 1m46s/Msamples
86000 -4160.0612 -4234.1813 74.1200 1m46s/Msamples
87000 -4164.1539 -4236.6302 72.4762 1m46s/Msamples
88000 -4175.5989 -4241.9904 66.3915 1m46s/Msamples
89000 -4177.8378 -4242.7043 64.8665 1m46s/Msamples
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91000 -4172.9628 -4234.3672 61.4044 1m46s/Msamples
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