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 19
medoid: Phycicoccus avicenniae GCF 018139485 1
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AAI clade 19-1
medoid: Arthrobacter celericrescens GCF 003614925 1
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AAI clade 19-2
medoid: Oerskovia gallyi GCF 014836745 1
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AAI clade 19-3
medoid: Clavibacter phaseoli GCF 021923065 1
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AAI clade 19-4
medoid: Agromyces ramosus GCF 004216665 1
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AAI clade 19-4-1
medoid: Curtobacterium caseinilyticum GCF 030363035 1
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AAI clade 19-4-2
medoid: Rathayibacter tritici GCF 002932875 1
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AAI clade 19-4-2-1
medoid: Rathayibacter tritici GCF 002932875 1
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AAI clade 19-4-2-2
medoid: Rathayibacter iranicus GCF 002933035 1
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AAI clade 19-4-2-3
medoid: Rathayibacter tanaceti GCF 001634385 1
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AAI clade 19-4-2-4
medoid: Rathayibacter toxicus DSM 7488 GCF 000425325 1
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AAI clade 19-4-2-5
medoid: Amnibacterium flavum GCF 003097495 1
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AAI clade 19-4-2-6
medoid: Rathayibacter caricis DSM 15933 GCF 003044275 1
2 datasets: Rathayibacter caricis DSM 15933 GCF 003044275 1 (AAI: 100.0%) and Rathayibacter rubneri GCF 023743255 1 (AAI: 92.54%)
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AAI clade 19-4-2-7
medoid: Rathayibacter festucae DSM 15932 GCF 004011135 1
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AAI clade 19-4-2-8
medoid: Rathayibacter oskolensis GCF 900177245 1
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AAI clade 19-4-2-1
medoid: Rathayibacter tritici GCF 002932875 1
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AAI clade 19-4-3
medoid: Agromyces kandeliae GCF 009674665 1
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AAI clade 19-4-4
medoid: Gulosibacter chungangensis GCF 008831155 1
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AAI clade 19-4-5
medoid: Leifsonia virtsii GCF 030433675 1
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AAI clade 19-4-6
medoid: Salinibacterium hongtaonis GCF 003065485 1
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AAI clade 19-4-7
medoid: Agromyces lapidis GCF 009749405 1
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AAI clade 19-4-8
medoid: Agromyces allii GCF 009749385 1
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AAI clade 19-4-9
medoid: Herbiconiux aconitum GCF 024979235 1
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AAI clade 19-4-10
medoid: Curtobacterium herbarum GCF 016907335 1
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AAI clade 19-4-11
medoid: Zimmermannella faecalis ATCC 13722 GCF 000381765 1
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AAI clade 19-4-12
medoid: Labedella phragmitis GCF 004078635 1
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AAI clade 19-4-13
medoid: Microbacterium chengjingii GCF 011751765 2
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AAI clade 19-4-14
medoid: Microcella indica GCF 013414345 1
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AAI clade 19-4-15
medoid: Microterricola gilva GCF 004217495 1
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AAI clade 19-4-16
medoid: Mycetocola zhadangensis GCF 003668565 1
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AAI clade 19-4-17
medoid: Pseudoclavibacter caeni GCF 008831125 1
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AAI clade 19-4-18
medoid: Pseudoclavibacter terrae GCF 008831075 1
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AAI clade 19-4-19
medoid: Agrococcus lahaulensis DSM 17612 GCF 000425105 1
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AAI clade 19-4-20
medoid: Agromyces intestinalis GCF 008365295 1
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AAI clade 19-4-21
medoid: Agromyces hippuratus GCF 013410355 1
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AAI clade 19-4-22
medoid: Amnibacterium kyonggiense GCF 004364555 1
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AAI clade 19-4-23
medoid: Rhodoluna limnophila GCF 005845365 1
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AAI clade 19-4-24
medoid: Aurantimicrobium minutum GCF 002355535 1
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AAI clade 19-4-25
medoid: Protaetiibacter mangrovi GCF 024752305 1
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AAI clade 19-4-26
medoid: Humibacter ginsenosidimutans GCF 007859675 1
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AAI clade 19-4-27
medoid: Klugiella xanthotipulae GCF 006716695 1
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AAI clade 19-4-28
medoid: Microcella daejeonensis GCF 026625045 1
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AAI clade 19-4-29
medoid: Mycetocola saprophilus GCF 000718085 1
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AAI clade 19-4-30
medoid: Schumannella luteola GCF 013408685 1
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AAI clade 19-4-1
medoid: Curtobacterium caseinilyticum GCF 030363035 1
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AAI clade 19-5
medoid: Intrasporangium flavum GCF 001956915 1
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AAI clade 19-6
medoid: Brevibacterium sediminis GCF 013623905 1
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AAI clade 19-7
medoid: Cryobacterium glaciale GCF 004402535 1
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AAI clade 19-8
medoid: Microbacterium hibisci GCF 015278255 1
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AAI clade 19-9
medoid: Microbacterium oxydans GCF 006540085 1
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AAI clade 19-10
medoid: Cellulomonas dongxiuzhuiae GCF 017581985 1
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AAI clade 19-11
medoid: Demequina silvatica GCF 000971215 1
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AAI clade 19-12
medoid: Leucobacter chironomi DSM 19883 GCF 000421845 1
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AAI clade 19-1
medoid: Arthrobacter celericrescens GCF 003614925 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