partis-bcr 1.0.8.post1.dev1__py3-none-any.whl → 1.0.9.post1.dev1__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {partis_bcr-1.0.8.post1.dev1.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/METADATA +1 -1
- {partis_bcr-1.0.8.post1.dev1.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/RECORD +95 -95
- test/new-results/get-selection-metrics-new-simu.yaml +1 -1
- test/new-results/test.log +2 -2
- test/paired/new-results/partition-new-simu/fasttree/iclust-0/log +4 -4
- test/paired/new-results/partition-new-simu/fasttree/iclust-1/log +4 -4
- test/paired/new-results/partition-new-simu/fasttree/iclust-2/log +1 -1
- test/paired/new-results/partition-new-simu/igh+igk/partition-igh/fasttree/iclust-1/log +3 -3
- test/paired/new-results/partition-new-simu/igh+igl/partition-igl/fasttree/iclust-0/log +1 -1
- test/paired/new-results/partition-new-simu-annotation-performance/plots/flcount-matrix.svg +107 -107
- test/paired/new-results/partition-new-simu-annotation-performance/plots/func-non-func-per-drop-log.svg +83 -83
- test/paired/new-results/partition-new-simu-annotation-performance/plots/func-non-func-per-drop.svg +61 -61
- test/paired/new-results/partition-new-simu-annotation-performance/plots/paired-seqs-per-seq-after.svg +18 -18
- test/paired/new-results/partition-new-simu-annotation-performance/plots/paired-seqs-per-seq-before.svg +24 -24
- test/paired/new-results/partition-new-simu-annotation-performance/plots/pseq-matrix.svg +35 -35
- test/paired/new-results/partition-new-simu-annotation-performance/plots/seqs-per-droplet.svg +22 -22
- test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-correct-family.svg +45 -45
- test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-correct.svg +45 -45
- test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-mispaired.svg +45 -45
- test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-multiple.svg +15 -15
- test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-near-family.svg +15 -15
- test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-total.svg +47 -47
- test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-unpaired.svg +48 -48
- test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance.svg +27 -27
- test/paired/new-results/run-times.csv +6 -6
- test/paired/new-results/subset-partition-new-simu/isub-0/partition.log +6 -6
- test/paired/new-results/subset-partition-new-simu/isub-1/partition.log +5 -5
- test/paired/new-results/subset-partition-new-simu/merged-partition.log +3 -3
- test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/sw-cache.yaml +1 -1
- test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk/sw-cache.yaml +1 -1
- test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl/sw-cache.yaml +1 -1
- test/paired/new-results/test.log +33 -33
- test/ref-results/partition-new-simu/iqtree/iclust-0/log +187 -151
- test/ref-results/partition-new-simu/iqtree/iclust-0/out.ckp.gz +0 -0
- test/ref-results/partition-new-simu/iqtree/iclust-0/out.iqtree +34 -34
- test/ref-results/partition-new-simu/iqtree/iclust-0/out.log +187 -151
- test/ref-results/partition-new-simu/iqtree/iclust-0/out.model.gz +0 -0
- test/ref-results/partition-new-simu/iqtree/iclust-0/out.state +2820 -2820
- test/ref-results/partition-new-simu/iqtree/iclust-0/out.treefile +1 -1
- test/ref-results/partition-new-simu/iqtree/iclust-1/log +166 -207
- test/ref-results/partition-new-simu/iqtree/iclust-1/out.ckp.gz +0 -0
- test/ref-results/partition-new-simu/iqtree/iclust-1/out.iqtree +151 -151
- test/ref-results/partition-new-simu/iqtree/iclust-1/out.log +166 -207
- test/ref-results/partition-new-simu/iqtree/iclust-1/out.model.gz +0 -0
- test/ref-results/partition-new-simu/iqtree/iclust-1/out.state +740 -740
- test/ref-results/partition-new-simu/iqtree/iclust-1/out.treefile +1 -1
- test/ref-results/partition-new-simu/iqtree/iclust-2/log +134 -135
- test/ref-results/partition-new-simu/iqtree/iclust-2/out.ckp.gz +0 -0
- test/ref-results/partition-new-simu/iqtree/iclust-2/out.iqtree +17 -17
- test/ref-results/partition-new-simu/iqtree/iclust-2/out.log +134 -135
- test/ref-results/partition-new-simu/iqtree/iclust-2/out.model.gz +0 -0
- test/ref-results/partition-new-simu/iqtree/iclust-2/out.state +763 -763
- test/ref-results/partition-new-simu/iqtree/iclust-2/out.treefile +1 -1
- test/ref-results/partition-new-simu/iqtree-annotations.yaml +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.ancestralProbs +30 -30
- test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.ancestralStates +7 -7
- test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.ancestralTree +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.bestModel +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.bestTree +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.bestTreeCollapsed +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.log +87 -87
- test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.mlTrees +20 -20
- test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.startTree +20 -20
- test/ref-results/partition-new-simu/raxml/iclust-0/log +198 -197
- test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.ancestralTree +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.bestTree +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.bestTreeCollapsed +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.log +54 -54
- test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.mlTrees +20 -20
- test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.startTree +20 -20
- test/ref-results/partition-new-simu/raxml/iclust-1/log +112 -112
- test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralProbs +22 -22
- test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralStates +6 -6
- test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralTree +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.bestModel +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.bestTree +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.bestTreeCollapsed +1 -1
- test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.log +84 -84
- test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.mlTrees +20 -20
- test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.startTree +20 -20
- test/ref-results/partition-new-simu/raxml/iclust-2/log +182 -182
- test/ref-results/partition-new-simu/raxml-annotations.yaml +1 -1
- {partis_bcr-1.0.8.post1.dev1.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/cf-alleles.py +0 -0
- {partis_bcr-1.0.8.post1.dev1.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/cf-germlines.py +0 -0
- {partis_bcr-1.0.8.post1.dev1.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/compare-plotdirs.py +0 -0
- {partis_bcr-1.0.8.post1.dev1.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/extract-pairing-info.py +0 -0
- {partis_bcr-1.0.8.post1.dev1.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/gctree-run.py +0 -0
- {partis_bcr-1.0.8.post1.dev1.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/get-naive-probabilities.py +0 -0
- {partis_bcr-1.0.8.post1.dev1.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/parse-output.py +0 -0
- {partis_bcr-1.0.8.post1.dev1.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/partis-test.py +0 -0
- {partis_bcr-1.0.8.post1.dev1.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/split-loci.py +0 -0
- {partis_bcr-1.0.8.post1.dev1.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/WHEEL +0 -0
- {partis_bcr-1.0.8.post1.dev1.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/entry_points.txt +0 -0
- {partis_bcr-1.0.8.post1.dev1.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/licenses/COPYING +0 -0
- {partis_bcr-1.0.8.post1.dev1.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/top_level.txt +0 -0
@@ -2,7 +2,7 @@ IQ-TREE 3.0.1 built May 5 2025
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Input file name: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/iqtree/iclust-1/input-seqs.fa
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Type of analysis: ModelFinder + tree reconstruction
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REFERENCES
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List of models sorted by BIC scores:
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F81+F -521.218 1074.437 + 0.
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HKY+I -524.663 1079.325 - 0.
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F81 -524.779 1075.559 - 0.0353 1076.581 - 0.0459 1126.434 + 0.278
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F81+I -524.779 1077.559 - 0.013 1078.742 - 0.0156 1132.348 - 0.0144
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JC+I -524.779 1077.559 - 0.013 1078.742 - 0.0156 1132.348 - 0.0144
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JC+I -524.779 1077.559 - 0.013 1078.742 - 0.0156 1132.348 - 0.0144
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TPM3u -523.895 1077.791 - 0.0116 1079.147 - 0.0127 1136.493 - 0.00182
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K3P -523.995 1077.990 - 0.0105 1079.346 - 0.0115 1136.693 - 0.00164
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|
63
|
+
TPM2 -524.023 1078.046 - 0.0102 1079.402 - 0.0112 1136.749 - 0.0016
|
64
|
+
TPM2 -524.023 1078.046 - 0.0102 1079.402 - 0.0112 1136.749 - 0.0016
|
65
|
+
TN -524.028 1078.055 - 0.0101 1079.411 - 0.0111 1136.758 - 0.00159
|
66
|
+
TNe -524.028 1078.055 - 0.0101 1079.411 - 0.0111 1136.758 - 0.00159
|
67
|
+
TNe -524.028 1078.055 - 0.0101 1079.411 - 0.0111 1136.758 - 0.00159
|
68
|
+
F81+F -521.218 1074.437 + 0.0618 1075.978 + 0.062 1137.053 - 0.00137
|
69
|
+
HKY+I -524.663 1079.325 - 0.00537 1080.681 - 0.00591 1138.028 - 0.000843
|
70
|
+
HKY+G4 -524.663 1079.325 - 0.00537 1080.681 - 0.00591 1138.028 - 0.000843
|
71
|
+
K2P+I -524.663 1079.326 - 0.00536 1080.682 - 0.0059 1138.028 - 0.000843
|
72
|
+
K2P+I -524.663 1079.326 - 0.00536 1080.682 - 0.0059 1138.028 - 0.000843
|
73
|
+
K2P+G4 -524.663 1079.326 - 0.00536 1080.682 - 0.0059 1138.028 - 0.000843
|
74
|
+
K2P+G4 -524.663 1079.326 - 0.00536 1080.682 - 0.0059 1138.028 - 0.000843
|
75
|
+
JC+R2 -524.779 1079.559 - 0.00478 1080.914 - 0.00526 1138.261 - 0.00075
|
76
|
+
JC+I+G4 -524.782 1079.564 - 0.00476 1080.920 - 0.00524 1138.267 - 0.000748
|
77
|
+
TIM3 -523.262 1078.523 - 0.00801 1080.064 - 0.00804 1141.139 - 0.000178
|
78
|
+
TIM3e -523.262 1078.523 - 0.00801 1080.064 - 0.00804 1141.139 - 0.000178
|
79
|
+
TIM3e -523.262 1078.523 - 0.00801 1080.064 - 0.00804 1141.139 - 0.000178
|
80
|
+
TIMe -523.336 1078.671 - 0.00744 1080.213 - 0.00746 1141.288 - 0.000165
|
81
|
+
TIMe -523.336 1078.671 - 0.00744 1080.213 - 0.00746 1141.288 - 0.000165
|
82
|
+
TIM -523.336 1078.671 - 0.00744 1080.213 - 0.00746 1141.288 - 0.000165
|
83
|
+
TIM2e -523.390 1078.780 - 0.00705 1080.321 - 0.00707 1141.396 - 0.000157
|
84
|
+
TIM2 -523.390 1078.780 - 0.00705 1080.321 - 0.00707 1141.396 - 0.000157
|
85
|
+
TIM2e -523.390 1078.780 - 0.00705 1080.321 - 0.00707 1141.396 - 0.000157
|
86
|
+
TPM3u+I -523.895 1079.791 - 0.00425 1081.332 - 0.00427 1142.407 - 9.44e-05
|
87
|
+
TPM3+G4 -523.895 1079.791 - 0.00425 1081.332 - 0.00427 1142.407 - 9.44e-05
|
88
|
+
TPM3u+G4 -523.895 1079.791 - 0.00425 1081.332 - 0.00427 1142.407 - 9.44e-05
|
89
|
+
TPM3+G4 -523.895 1079.791 - 0.00425 1081.332 - 0.00427 1142.407 - 9.44e-05
|
90
|
+
TPM3+I -523.895 1079.791 - 0.00425 1081.332 - 0.00427 1142.407 - 9.44e-05
|
91
|
+
TPM3+I -523.895 1079.791 - 0.00425 1081.332 - 0.00427 1142.407 - 9.44e-05
|
92
|
+
K3Pu+G4 -523.970 1079.940 - 0.00395 1081.481 - 0.00396 1142.556 - 8.76e-05
|
93
|
+
K3Pu+I -523.970 1079.940 - 0.00395 1081.481 - 0.00396 1142.556 - 8.76e-05
|
94
|
+
K3P+I -523.988 1079.976 - 0.00388 1081.517 - 0.00389 1142.592 - 8.6e-05
|
95
|
+
K3P+I -523.988 1079.976 - 0.00388 1081.517 - 0.00389 1142.592 - 8.6e-05
|
96
|
+
K3P+G4 -523.996 1079.991 - 0.00385 1081.532 - 0.00386 1142.607 - 8.54e-05
|
97
|
+
K3P+G4 -523.996 1079.991 - 0.00385 1081.532 - 0.00386 1142.607 - 8.54e-05
|
98
|
+
TPM2u+I -524.023 1080.046 - 0.00374 1081.587 - 0.00375 1142.662 - 8.31e-05
|
99
|
+
TPM2u+G4 -524.023 1080.046 - 0.00374 1081.587 - 0.00375 1142.662 - 8.31e-05
|
100
|
+
TPM2+I -524.023 1080.046 - 0.00374 1081.587 - 0.00375 1142.662 - 8.31e-05
|
101
|
+
TPM2+I -524.023 1080.046 - 0.00374 1081.587 - 0.00375 1142.662 - 8.31e-05
|
102
|
+
TPM2+G4 -524.023 1080.046 - 0.00374 1081.588 - 0.00375 1142.663 - 8.31e-05
|
103
|
+
TPM2+G4 -524.023 1080.046 - 0.00374 1081.588 - 0.00375 1142.663 - 8.31e-05
|
104
|
+
TNe+I -524.028 1080.055 - 0.00373 1081.596 - 0.00374 1142.671 - 8.27e-05
|
105
|
+
TN+I -524.028 1080.055 - 0.00373 1081.596 - 0.00374 1142.671 - 8.27e-05
|
106
|
+
TNe+I -524.028 1080.055 - 0.00373 1081.596 - 0.00374 1142.671 - 8.27e-05
|
107
|
+
TNe+G4 -524.028 1080.055 - 0.00373 1081.596 - 0.00374 1142.671 - 8.27e-05
|
108
|
+
TNe+G4 -524.028 1080.055 - 0.00373 1081.596 - 0.00374 1142.671 - 8.27e-05
|
109
|
+
TN+G4 -524.028 1080.055 - 0.00373 1081.596 - 0.00374 1142.671 - 8.27e-05
|
110
|
+
HKY+F -521.099 1076.198 - 0.0256 1077.937 - 0.0233 1142.728 - 8.04e-05
|
111
|
+
F81+F+I -521.218 1076.437 - 0.0227 1078.175 - 0.0207 1142.966 - 7.14e-05
|
112
|
+
F81+F+G4 -521.218 1076.437 - 0.0227 1078.175 - 0.0207 1142.966 - 7.14e-05
|
113
|
+
JC+I+R2 -524.782 1081.564 - 0.00175 1083.105 - 0.00176 1144.180 - 3.89e-05
|
114
|
+
TPM3u+F -520.242 1076.484 - 0.0222 1078.433 - 0.0182 1146.928 - 9.85e-06
|
115
|
+
TVM -523.261 1080.522 - 0.00295 1082.261 - 0.00268 1147.052 - 9.25e-06
|
116
|
+
TVMe -523.261 1080.522 - 0.00295 1082.261 - 0.00268 1147.052 - 9.25e-06
|
117
|
+
TVMe -523.261 1080.522 - 0.00295 1082.261 - 0.00268 1147.052 - 9.25e-06
|
118
|
+
TIM3e+I -523.262 1080.523 - 0.00295 1082.262 - 0.00268 1147.053 - 9.25e-06
|
119
|
+
TIM3e+I -523.262 1080.523 - 0.00295 1082.262 - 0.00268 1147.053 - 9.25e-06
|
120
|
+
TIM3+I -523.262 1080.523 - 0.00295 1082.262 - 0.00268 1147.053 - 9.25e-06
|
121
|
+
TIM3e+G4 -523.262 1080.523 - 0.00295 1082.262 - 0.00268 1147.053 - 9.25e-06
|
122
|
+
TIM3+G4 -523.262 1080.523 - 0.00295 1082.262 - 0.00268 1147.053 - 9.25e-06
|
123
|
+
TIM3e+G4 -523.262 1080.523 - 0.00295 1082.262 - 0.00268 1147.053 - 9.25e-06
|
124
|
+
TIMe+I -523.336 1080.671 - 0.00274 1082.410 - 0.00249 1147.201 - 8.59e-06
|
125
|
+
TIM+I -523.336 1080.671 - 0.00274 1082.410 - 0.00249 1147.201 - 8.59e-06
|
126
|
+
TIMe+I -523.336 1080.671 - 0.00274 1082.410 - 0.00249 1147.201 - 8.59e-06
|
127
|
+
TIMe+G4 -523.336 1080.672 - 0.00274 1082.410 - 0.00249 1147.201 - 8.59e-06
|
128
|
+
TIM+G4 -523.336 1080.672 - 0.00274 1082.410 - 0.00249 1147.201 - 8.59e-06
|
129
|
+
TIMe+G4 -523.336 1080.672 - 0.00274 1082.410 - 0.00249 1147.201 - 8.59e-06
|
130
|
+
K3Pu+F -520.390 1076.780 - 0.0192 1078.729 - 0.0157 1147.223 - 8.49e-06
|
131
|
+
TIM2e+I -523.390 1080.780 - 0.00259 1082.518 - 0.00236 1147.309 - 8.14e-06
|
132
|
+
TIM2+I -523.390 1080.780 - 0.00259 1082.518 - 0.00236 1147.309 - 8.14e-06
|
133
|
+
TIM2e+I -523.390 1080.780 - 0.00259 1082.518 - 0.00236 1147.309 - 8.14e-06
|
134
|
+
TIM2e+G4 -523.390 1080.780 - 0.00259 1082.518 - 0.00236 1147.309 - 8.14e-06
|
135
|
+
TIM2e+G4 -523.390 1080.780 - 0.00259 1082.518 - 0.00236 1147.309 - 8.14e-06
|
136
|
+
TIM2+G4 -523.390 1080.780 - 0.00259 1082.518 - 0.00236 1147.309 - 8.14e-06
|
137
|
+
TPM2u+F -520.505 1077.011 - 0.0171 1078.959 - 0.014 1147.454 - 7.57e-06
|
138
|
+
TN+F -520.525 1077.050 - 0.0167 1078.999 - 0.0137 1147.493 - 7.42e-06
|
139
|
+
HKY+F+I -521.099 1078.198 - 0.00943 1080.147 - 0.00771 1148.641 - 4.18e-06
|
140
|
+
HKY+F+G4 -521.099 1078.198 - 0.00943 1080.147 - 0.00771 1148.641 - 4.18e-06
|
141
|
+
JC+R3 -524.779 1083.559 - 0.000646 1085.297 - 0.000587 1150.088 - 2.03e-06
|
142
|
+
TIM3+F -519.670 1077.339 - 0.0145 1079.511 - 0.0106 1151.696 - 9.08e-07
|
143
|
+
SYM -522.627 1081.254 - 0.00205 1083.203 - 0.00167 1151.697 - 9.07e-07
|
144
|
+
GTR -522.627 1081.254 - 0.00205 1083.203 - 0.00167 1151.697 - 9.07e-07
|
145
|
+
SYM -522.627 1081.254 - 0.00205 1083.203 - 0.00167 1151.697 - 9.07e-07
|
146
|
+
TIM+F -519.818 1077.635 - 0.0125 1079.806 - 0.00915 1151.992 - 7.83e-07
|
147
|
+
TIM2+F -519.933 1077.866 - 0.0111 1080.037 - 0.00815 1152.222 - 6.98e-07
|
148
|
+
TPM3u+F+I -520.242 1078.484 - 0.00817 1080.656 - 0.00598 1152.841 - 5.12e-07
|
149
|
+
TPM3u+F+G4 -520.242 1078.484 - 0.00817 1080.656 - 0.00598 1152.841 - 5.12e-07
|
150
|
+
TVMe+I -523.261 1082.522 - 0.00109 1084.471 - 0.000888 1152.965 - 4.81e-07
|
151
|
+
TVM+I -523.261 1082.522 - 0.00109 1084.471 - 0.000888 1152.965 - 4.81e-07
|
152
|
+
TVMe+I -523.261 1082.522 - 0.00109 1084.471 - 0.000888 1152.965 - 4.81e-07
|
153
|
+
TVM+G4 -523.261 1082.522 - 0.00109 1084.471 - 0.000888 1152.965 - 4.81e-07
|
154
|
+
TVMe+G4 -523.261 1082.522 - 0.00109 1084.471 - 0.000888 1152.965 - 4.81e-07
|
155
|
+
TVMe+G4 -523.261 1082.522 - 0.00109 1084.471 - 0.000888 1152.965 - 4.81e-07
|
156
|
+
K3Pu+F+I -520.390 1078.780 - 0.00705 1080.952 - 0.00516 1153.137 - 4.42e-07
|
157
|
+
K3Pu+F+G4 -520.390 1078.780 - 0.00705 1080.952 - 0.00516 1153.137 - 4.42e-07
|
158
|
+
TPM2u+F+G4 -520.505 1079.010 - 0.00628 1081.181 - 0.0046 1153.367 - 3.94e-07
|
159
|
+
TPM2u+F+I -520.505 1079.010 - 0.00628 1081.182 - 0.0046 1153.367 - 3.94e-07
|
160
|
+
TN+F+G4 -520.525 1079.050 - 0.00616 1081.222 - 0.00451 1153.407 - 3.86e-07
|
161
|
+
TN+F+I -520.525 1079.051 - 0.00616 1081.222 - 0.00451 1153.407 - 3.86e-07
|
162
|
+
JC+I+R3 -524.782 1085.564 - 0.000237 1087.513 - 0.000194 1156.007 - 1.05e-07
|
163
|
+
TVM+F -519.650 1079.300 - 0.00544 1081.707 - 0.00354 1157.570 - 4.81e-08
|
164
|
+
TIM3+F+I -519.669 1079.339 - 0.00533 1081.746 - 0.00347 1157.609 - 4.72e-08
|
165
|
+
TIM3+F+G4 -519.669 1079.339 - 0.00533 1081.746 - 0.00347 1157.609 - 4.72e-08
|
166
|
+
SYM+I -522.627 1083.254 - 0.000753 1085.425 - 0.000551 1157.611 - 4.72e-08
|
167
|
+
GTR+I -522.627 1083.254 - 0.000753 1085.425 - 0.000551 1157.611 - 4.72e-08
|
168
|
+
SYM+I -522.627 1083.254 - 0.000753 1085.425 - 0.000551 1157.611 - 4.72e-08
|
169
|
+
SYM+G4 -522.627 1083.254 - 0.000753 1085.425 - 0.000551 1157.611 - 4.72e-08
|
170
|
+
SYM+G4 -522.627 1083.254 - 0.000753 1085.425 - 0.000551 1157.611 - 4.72e-08
|
171
|
+
GTR+G4 -522.627 1083.254 - 0.000753 1085.425 - 0.000551 1157.611 - 4.72e-08
|
172
|
+
TIM+F+G4 -519.818 1079.635 - 0.0046 1082.042 - 0.00299 1157.905 - 4.07e-08
|
173
|
+
TIM+F+I -519.818 1079.636 - 0.0046 1082.042 - 0.00299 1157.906 - 4.07e-08
|
174
|
+
TIM2+F+I -519.933 1079.866 - 0.0041 1082.273 - 0.00266 1158.136 - 3.63e-08
|
175
|
+
TIM2+F+G4 -519.933 1079.866 - 0.0041 1082.273 - 0.00266 1158.136 - 3.63e-08
|
176
|
+
GTR+F -519.077 1080.154 - 0.00355 1082.810 - 0.00204 1162.338 - 4.44e-09
|
177
|
+
TVM+F+I -519.650 1081.300 - 0.002 1083.955 - 0.00115 1163.483 - 2.5e-09
|
178
|
+
TVM+F+G4 -519.650 1081.300 - 0.002 1083.955 - 0.00115 1163.483 - 2.5e-09
|
179
|
+
GTR+F+I -519.077 1082.154 - 0.0013 1085.071 - 0.000658 1168.251 - 2.31e-10
|
180
|
+
GTR+F+G4 -519.077 1082.154 - 0.0013 1085.071 - 0.000658 1168.251 - 2.31e-10
|
181
181
|
|
182
182
|
AIC, w-AIC : Akaike information criterion scores and weights.
|
183
183
|
AICc, w-AICc : Corrected AIC scores and weights.
|
@@ -227,7 +227,7 @@ Corrected Akaike information criterion (AICc) score: 1075.9776
|
|
227
227
|
Bayesian information criterion (BIC) score: 1137.0526
|
228
228
|
|
229
229
|
Total tree length (sum of branch lengths): 0.0055
|
230
|
-
Sum of internal branch lengths: 0.0000 (0.
|
230
|
+
Sum of internal branch lengths: 0.0000 (0.0914% of tree length)
|
231
231
|
|
232
232
|
WARNING: 5 near-zero internal branches (<0.0027) should be treated with caution
|
233
233
|
Such branches are denoted by '**' in the figure below
|
@@ -238,21 +238,21 @@ NOTE: Tree is UNROOTED although outgroup taxon 'XnaiveX' is drawn at root
|
|
238
238
|
| (Node1)
|
239
239
|
+**13de8675ec
|
240
240
|
|
|
241
|
-
|
|
241
|
+
| +----------------------------------------------------------20a0129b57
|
242
|
+
| +**| (Node6)
|
243
|
+
| | +----------------------------------------------------------97366cf0d8
|
244
|
+
| +**| (Node5)
|
245
|
+
| | +**33aaa62e12
|
242
246
|
| +**| (Node4)
|
243
|
-
| |
|
247
|
+
| | +**31e052ee14
|
244
248
|
| +**| (Node3)
|
245
|
-
| | +**
|
249
|
+
| | +**91796617a0
|
246
250
|
+**| (Node2)
|
247
|
-
|
248
|
-
+**| (Node5)
|
249
|
-
| +**33aaa62e12
|
250
|
-
+**| (Node6)
|
251
|
-
+**91796617a0
|
251
|
+
+**4233d708fe
|
252
252
|
|
253
253
|
Tree in newick format:
|
254
254
|
|
255
|
-
(XnaiveX:0.0000010000,13de8675ec:0.0000010000,(((20a0129b57:0.
|
255
|
+
(XnaiveX:0.0000010000,13de8675ec:0.0000010000,(((((20a0129b57:0.0027294000,97366cf0d8:0.0027294000)Node6:0.0000010000,33aaa62e12:0.0000010000)Node5:0.0000010000,31e052ee14:0.0000010000)Node4:0.0000010000,91796617a0:0.0000010000)Node3:0.0000010000,4233d708fe:0.0000010000)Node2:0.0000010000)Node1;
|
256
256
|
|
257
257
|
ALISIM COMMAND
|
258
258
|
--------------
|
@@ -273,7 +273,7 @@ For more information on using AliSim, please visit: www.iqtree.org/doc/AliSim
|
|
273
273
|
TIME STAMP
|
274
274
|
----------
|
275
275
|
|
276
|
-
Date and time:
|
277
|
-
Total CPU time used: 0.
|
278
|
-
Total wall-clock time used: 0.
|
276
|
+
Date and time: Mon Aug 18 15:31:52 2025
|
277
|
+
Total CPU time used: 0.19099 seconds (0h:0m:0s)
|
278
|
+
Total wall-clock time used: 0.205656 seconds (0h:0m:0s)
|
279
279
|
|