AAI-based medoid clustering
The AAI clusters provide a good overview of the above-species structure of the datasets and facilitate taxonomic classification.
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AAI clade 1
medoid: Rahnella aceris GCF 011684115 1
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AAI clade 2
medoid: Sinorhizobium saheli GCF 001651875 1
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AAI clade 3
medoid: Oceanobacillus limi GCF 900111445 1
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AAI clade 4
medoid: Pseudomonas alcaligenes GCF 900455475 1
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AAI clade 5
medoid: Alkalibacterium pelagium GCF 007991315 1
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AAI clade 6
medoid: Stenotrophomonas nematodicola GCF 009467805 1
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AAI clade 7
medoid: Thermaerobacter marianensis DSM 12885 GCF 000184705 1
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AAI clade 8
medoid: Megamonas hypermegale DSM 1672 GCF 000423385 1
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AAI clade 9
medoid: Actinomyces gaoshouyii GCF 002072175 1
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AAI clade 10
medoid: Micromonospora sagamiensis GCF 014680085 1
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AAI clade 11
medoid: Nonomuraea indica GCF 002850745 1
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AAI clade 12
medoid: Jiella avicenniae GCF 021390325 1
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AAI clade 13
medoid: Chitinophaga terrae ex Kim and Jung 2007 GCF 900107795 1
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AAI clade 14
medoid: Zeimonas arvi GCF 008039575 1
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AAI clade 15
medoid: Cognatiyoonia koreensis GCF 900109295 1
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AAI clade 16
medoid: Legionella beliardensis GCF 900452395 1
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AAI clade 17
medoid: Dorea hominis GCF 014287705 1
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AAI clade 18
medoid: Massilia putida GCF 001941825 1
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AAI clade 18-1
medoid: Burkholderia cepacia GCF 900446175 1
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AAI clade 18-2
medoid: Roseateles asaccharophilus GCF 004362405 1
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AAI clade 18-3
medoid: Acidovorax delafieldii GCF 007993815 1
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AAI clade 18-4
medoid: Morococcus cerebrosus GCF 000813705 1
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AAI clade 18-5
medoid: Paraburkholderia caffeinilytica GCF 902859905 1
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AAI clade 18-6
medoid: Ralstonia wenshanensis GCF 021173085 1
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AAI clade 18-7
medoid: Chromobacterium piscinae GCF 021129175 1
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AAI clade 18-8
medoid: Massilia puerhi GCF 009861485 1
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AAI clade 18-9
medoid: Cupriavidus alkaliphilus GCF 900094595 1
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AAI clade 18-10
medoid: Pandoraea sputorum GCF 000814845 2
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AAI clade 18-11
medoid: Paraburkholderia acidiphila GCF 009789655 1
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AAI clade 18-12
medoid: Caballeronia zhejiangensis GCF 000698575 1
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AAI clade 18-13
medoid: Silvimonas iriomotensis GCF 014645535 1
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AAI clade 18-14
medoid: Corallococcus coralloides DSM 2259 GCF 000255295 1
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AAI clade 18-15
medoid: Methylovorus mays GCF 020531915 1
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AAI clade 18-16
medoid: Polynucleobacter corsicus GCF 018688255 1
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AAI clade 18-16-1
medoid: Polynucleobacter acidiphobus GCF 003065385 1
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AAI clade 18-16-2
medoid: Polynucleobacter corsicus GCF 018688255 1
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AAI clade 18-16-3
medoid: Polynucleobacter alcilacus GCF 018881545 1
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AAI clade 18-16-4
medoid: Polynucleobacter antarcticus GCF 013307245 1
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AAI clade 18-16-5
medoid: Polynucleobacter ibericus GCF 018687955 1
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AAI clade 18-16-6
medoid: Polynucleobacter brandtiae GCF 002797575 1
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AAI clade 18-16-7
medoid: Polynucleobacter campilacus GCF 002206625 1
3 datasets: Polynucleobacter campilacus GCF 002206625 1 (AAI: 100.0%), Polynucleobacter hirudinilacicola GCF 002192535 1 (AAI: 84.46%), and Polynucleobacter nymphae GCF 018882155 1 (AAI: 86.99%)
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AAI clade 18-16-8
medoid: Polynucleobacter cosmopolitanus GCF 002224225 1
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AAI clade 18-16-9
medoid: Polynucleobacter difficilis GCF 003065365 1
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AAI clade 18-16-10
medoid: Polynucleobacter finlandensis GCF 018881755 1
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AAI clade 18-16-11
medoid: Polynucleobacter kasalickyi GCF 900176405 1
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AAI clade 18-16-12
medoid: Polynucleobacter meluiroseus GCF 900205755 1
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AAI clade 18-16-13
medoid: Polynucleobacter paneuropaeus GCF 003261235 1
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AAI clade 18-16-14
medoid: Polynucleobacter rarus GCF 003072505 1
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AAI clade 18-16-15
medoid: Polynucleobacter sinensis GCF 001595985 1
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AAI clade 18-16-16
medoid: Polynucleobacter sphagniphilus GCF 001953355 1
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AAI clade 18-16-17
medoid: Polynucleobacter tropicus GCF 013307225 1
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AAI clade 18-16-18
medoid: Polynucleobacter victoriensis GCF 900187875 1
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AAI clade 18-16-19
medoid: Polynucleobacter wuianus GCF 001659725 1
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AAI clade 18-16-1
medoid: Polynucleobacter acidiphobus GCF 003065385 1
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AAI clade 18-1
medoid: Burkholderia cepacia GCF 900446175 1
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AAI clade 19
medoid: Phycicoccus avicenniae GCF 018139485 1
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AAI clade 20
medoid: Lelliottia steviae GCF 015209785 1
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AAI clade 21
medoid: Natrarchaeobaculum aegyptiacum GCF 002156705 1
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AAI clade 22
medoid: Aquifex aeolicus VF5 GCF 000008625 1
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AAI clade 23
medoid: Campylobacter showae GCF 004803815 1
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AAI clade 24
medoid: Mannheimia bovis GCF 014541205 1
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AAI clade 25
medoid: Solobacterium moorei DSM 22971 GCF 000425005 1
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AAI clade 26
medoid: Neptunicella marina GCF 014270035 1
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AAI clade 27
medoid: Sphingomonas sabuli GCF 014352855 1
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AAI clade 28
medoid: Luteolibacter marinus GCF 014904755 1
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AAI clade 29
medoid: Mycoplasmoides genitalium GCF 036689675 1
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AAI clade 30
medoid: Brevundimonas huaxiensis GCF 014218725 1
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AAI clade 31
medoid: Lysobacter spongiicola DSM 21749 GCF 900167055 1
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AAI clade 32
medoid: Glycomyces dulcitolivorans GCF 003265355 1
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AAI clade 33
medoid: Methylovulum miyakonense HT12 GCF 000384075 1
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AAI clade 34
medoid: Candidatus Fiminaster equi GCA 018064745 1