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 17-1
medoid: Blautia hominis GCF 002270465 1
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AAI clade 17-2
medoid: Clostridium scindens ATCC 35704 GCF 000154505 1
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AAI clade 17-3
medoid: Clostridium moniliforme GCF 017873235 1
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AAI clade 17-4
medoid: Romboutsia timonensis GCF 900106845 1
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AAI clade 17-4-1
medoid: Paraclostridium bifermentans GCF 019916025 1
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AAI clade 17-4-2
medoid: Romboutsia ilealis GCF 900015215 1
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AAI clade 17-4-3
medoid: Terrisporobacter glycolicus ATCC 14880 DSM 1288 GCF 000439105 1
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AAI clade 17-4-4
medoid: Peptostreptococcus canis GCF 014229965 1
6 datasets: Peptostreptococcus anaerobius GCF 900454605 1 (AAI: 65.18%), Peptostreptococcus canis GCF 014229965 1 (AAI: 100.0%), Peptostreptococcus faecalis GCF 900240845 1 (AAI: 62.44%), Peptostreptococcus porci GCF 009695815 1 (AAI: 69.83%), Peptostreptococcus russellii GCF 003012055 1 (AAI: 63.04%), and Peptostreptococcus stomatis DSM 17678 GCF 000147675 1 (AAI: 66.18%)
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AAI clade 17-4-5
medoid: Parvimonas micra ATCC 33270 GCF 000154405 1
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AAI clade 17-4-6
medoid: Serpentinicella alkaliphila GCF 004345905 1
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AAI clade 17-4-7
medoid: Acetobacterium fimetarium GCF 014284475 1
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AAI clade 17-4-8
medoid: Aminipila luticellarii GCF 004103735 1
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AAI clade 17-4-9
medoid: Crassaminicella profunda GCF 019884785 1
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AAI clade 17-4-10
medoid: Brotomerdimonas butyrica GCF 025567305 1
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AAI clade 17-4-11
medoid: Hornefia porci GCF 001940235 1
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AAI clade 17-4-12
medoid: Criibacterium bergeronii GCF 001693775 2
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AAI clade 17-4-13
medoid: Tepidibacter aestuarii GCF 934924865 1
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AAI clade 17-4-14
medoid: Fusibacter ferrireducens GCF 015352425 1
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AAI clade 17-4-1
medoid: Paraclostridium bifermentans GCF 019916025 1
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AAI clade 17-5
medoid: Faecalibacterium duncaniae GCF 010509575 1
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AAI clade 17-6
medoid: Lawsonibacter hominis GCF 014287895 1
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AAI clade 17-7
medoid: Clostridium indicum GCF 003432035 1
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AAI clade 17-8
medoid: Faecalispora jeddahensis GCF 000577335 1
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AAI clade 17-1
medoid: Blautia hominis GCF 002270465 1
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AAI clade 18
medoid: Massilia putida GCF 001941825 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