pythonVersion
2.7.9
pythonImplementation
CPython
Bacteria
false
Source data for tree(s) 'tree1'
tree1
Source data for tree(s) 'tree2'
tree2
Source data for tree(s) 'tree3'
tree3
Source data for tree(s) 'tree4'
tree4
Source data for tree(s) 'tree8'
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otu1
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^ot:comment
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tree1
tree2
tree3
tree4
Ruth Timme
844192
Bacteria (domain in cellular organisms)
ot_301
Ruth E Timme, Hugh Rand, Martin Shumway, Eija K Trees, Mustafa Simmons, Richa Agarwala, Steven Davis, Glen Tillman, Stephanie Defibaugh-Chavez, Heather A Carleton, William A Klimke, Lee S Katz, 2017, 'Benchmark datasets for phylogenomic pipeline validation, applications for foodborne pathogen surveillance'
2017
foodborne outbreak
SNP phylogeny
CFSAN000211
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000954
739160
Salmonella enterica subsp. enterica serovar Bareilly
D7328
559439
Campylobacter jejuni
D7320
559439
Campylobacter jejuni
D7331
559439
Campylobacter jejuni
D7321
559439
Campylobacter jejuni
D7329
559439
Campylobacter jejuni
2014D-0067
559439
Campylobacter jejuni
2014D-0070
559439
Campylobacter jejuni
2014D-0189
559439
Campylobacter jejuni
2014D-0068
559439
Campylobacter jejuni
D5663
559439
Campylobacter jejuni
CFSAN000963
739160
Salmonella enterica subsp. enterica serovar Bareilly
PNUSA000195
559439
Campylobacter jejuni
PNUSA000196
559439
Campylobacter jejuni
PNUSA000194
559439
Campylobacter jejuni
CFSAN000958
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000951
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN001118
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000700
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN001115
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000752
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000669
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000970
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000212
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN001112
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000753
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000961
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN000189
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN002349
1038312
Listeria monocytogenes
PNUSAL000957
1038312
Listeria monocytogenes
MOD1 LS985
1038312
Listeria monocytogenes
CFSAN023464
1038312
Listeria monocytogenes
CFSAN023465
1038312
Listeria monocytogenes
CFSAN023471
1038312
Listeria monocytogenes
CFSAN000191
739160
Salmonella enterica subsp. enterica serovar Bareilly
CFSAN023470
1038312
Listeria monocytogenes
MOD1 LS997
1038312
Listeria monocytogenes
MOD1 LS1011
1038312
Listeria monocytogenes
MOD1 LS1003
1038312
Listeria monocytogenes
MOD1 LS1009
1038312
Listeria monocytogenes
MOD1 LS1006
1038312
Listeria monocytogenes
MOD1 LS989
1038312
Listeria monocytogenes
MOD1 LS1010
1038312
Listeria monocytogenes
MOD1 LS996
1038312
Listeria monocytogenes
MOD1 LS998
1038312
Listeria monocytogenes
CFSAN000228
739160
Salmonella enterica subsp. enterica serovar Bareilly
MOD1 LS1004
1038312
Listeria monocytogenes
MOD1 LS994
1038312
Listeria monocytogenes
CFSAN023468
1038312
Listeria monocytogenes
MOD1 LS1008
1038312
Listeria monocytogenes
CFSAN023469
1038312
Listeria monocytogenes
CFSAN023463
1038312
Listeria monocytogenes
MOD1 LS982
1038312
Listeria monocytogenes
PNUSAL000870
1038312
Listeria monocytogenes
PNUSAL001024
1038312
Listeria monocytogenes
MOD1 LS995
1038312
Listeria monocytogenes
CFSAN000661
739160
Salmonella enterica subsp. enterica serovar Bareilly
MOD1 LS1005
1038312
Listeria monocytogenes
MOD1 LS1000
1038312
Listeria monocytogenes
CFSAN023466
1038312
Listeria monocytogenes
CFSAN023467
1038312
Listeria monocytogenes
PNUSAL000730
1038312
Listeria monocytogenes
2014C-3655
5341889
Escherichia coli
2014C-3656
5341889
Escherichia coli
2014C-3907
5251867
Escherichia coli
2011C-3609.fasta.wgsim
5341889
Escherichia coli
2014C-3857
5341889
Escherichia coli
CFSAN001140
739160
Salmonella enterica subsp. enterica serovar Bareilly
2014C-3598
5251867
Escherichia coli
2014C-3600
5251867
Escherichia coli
2014C-3599
5251867
Escherichia coli
2014C-3850
5251867
Escherichia coli
2014C-3840
5251870
Escherichia coli
SIM 000211
338023
Salmonella enterica (merged with Salmonella)
SIM 000212
338023
Salmonella enterica (merged with Salmonella)
SIM 000191
338023
Salmonella enterica (merged with Salmonella)
SIM 000228
338023
Salmonella enterica (merged with Salmonella)
SIM 000189
338023
Salmonella enterica (merged with Salmonella)
CFSAN000968
739160
Salmonella enterica subsp. enterica serovar Bareilly
SIM 000961
338023
Salmonella enterica (merged with Salmonella)
SIM 000661
338023
Salmonella enterica (merged with Salmonella)
SIM 001140
338023
Salmonella enterica (merged with Salmonella)
SIM 000968
338023
Salmonella enterica (merged with Salmonella)
SIM 000960
338023
Salmonella enterica (merged with Salmonella)
SIM 000952
338023
Salmonella enterica (merged with Salmonella)
SIM 000954
338023
Salmonella enterica (merged with Salmonella)
SIM 000963
338023
Salmonella enterica (merged with Salmonella)
SIM 000958
338023
Salmonella enterica (merged with Salmonella)
SIM 000951
338023
Salmonella enterica (merged with Salmonella)
CFSAN000960
739160
Salmonella enterica subsp. enterica serovar Bareilly
SIM 001118
338023
Salmonella enterica (merged with Salmonella)
SIM 000700
338023
Salmonella enterica (merged with Salmonella)
SIM 001115
338023
Salmonella enterica (merged with Salmonella)
SIM 000752
338023
Salmonella enterica (merged with Salmonella)
SIM 000669
338023
Salmonella enterica (merged with Salmonella)
SIM 000970
338023
Salmonella enterica (merged with Salmonella)
SIM 001112
338023
Salmonella enterica (merged with Salmonella)
SIM 000753
338023
Salmonella enterica (merged with Salmonella)
CFSAN000952
739160
Salmonella enterica subsp. enterica serovar Bareilly
D7324
559439
Campylobacter jejuni
D7316
559439
Campylobacter jejuni
D7333
559439
Campylobacter jejuni
D7334
559439
Campylobacter jejuni
D7319
559439
Campylobacter jejuni
D7323
559439
Campylobacter jejuni
D7327
559439
Campylobacter jejuni
D7330
559439
Campylobacter jejuni
D7322
559439
Campylobacter jejuni
ot:undefined
Myr
Maximum likelihood
node9
node1
false
true
false
true
false
true
false
true
false
true
true
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
ot:undefined
Myr
Maximum likelihood
node34
ot:bootstrapValues
node32
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
true
true
false
true
false
true
false
true
false
true
false
true
false
100
100
100
96
43
30
67
28
79
23
4
16
36
2
1
1
58
96
45
41
49
20
100
75
46
45
71
ot:undefined
Myr
Maximum likelihood
ot:bootstrapValues
node90
false
true
true
false
true
false
true
false
true
false
true
true
true
false
true
true
true
false
true
false
100
100
100
67
32
100
63
ot:substitutionCount
Maximum likelihood
node119
tree4_ROOT
false
true
true
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
true
false
ot:bootstrapValues
Maximum likelihood
node142
node140
false
true
true
true
true
true
true
true
true
true
true
true
true
true
true
true
true
true
true
true
true
true
true