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 13-1
medoid: Bacteroides luhongzhouii GCF 009193295 2
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AAI clade 13-2
medoid: Marinifilum breve GCF 003202155 1
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AAI clade 13-3
medoid: Flavobacterium proteolyticum GCF 015223105 1
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AAI clade 13-4
medoid: Flavivirga abyssicola GCF 030540775 2
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AAI clade 13-5
medoid: Flavobacterium resistens GCF 009674815 1
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AAI clade 13-6
medoid: Tenacibaculum singaporense GCF 003867015 1
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AAI clade 13-7
medoid: Parabacteroides merdae ATCC 43184 GCF 025151215 1
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AAI clade 13-7-1
medoid: Porphyromonas gulae DSM 15663 GCF 000378065 1
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AAI clade 13-7-2
medoid: Barnesiella intestinihominis YIT 11860 GCF 000296465 1
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AAI clade 13-7-3
medoid: Heminiphilus faecis GCF 008728965 1
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AAI clade 13-7-4
medoid: Parabacteroides merdae ATCC 43184 GCF 025151215 1
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AAI clade 13-7-4-1
medoid: Parabacteroides merdae ATCC 43184 GCF 025151215 1
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AAI clade 13-7-4-1-1
medoid: Parabacteroides merdae ATCC 43184 GCF 025151215 1
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AAI clade 13-7-4-1-2
medoid: Parabacteroides bouchesdurhonensis GCF 900186615 1
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AAI clade 13-7-4-1-3
medoid: Tannerella forsythia GCF 001006485 1
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AAI clade 13-7-4-1-4
medoid: Candidatus Scybalocola fimicaballi GCA 018066165 1
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AAI clade 13-7-4-1-5
medoid: Parabacteroides faecalis GCF 022809355 1
1 dataset: Parabacteroides faecalis GCF 022809355 1 (AAI: 100.0%)
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AAI clade 13-7-4-1-6
medoid: Parabacteroides pacaensis GCF 900292045 1
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AAI clade 13-7-4-1-1
medoid: Parabacteroides merdae ATCC 43184 GCF 025151215 1
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AAI clade 13-7-4-2
medoid: Azobacteroides pseudotrichonymphae asm GCA 000010645 1
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AAI clade 13-7-4-1
medoid: Parabacteroides merdae ATCC 43184 GCF 025151215 1
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AAI clade 13-7-5
medoid: Parabacteroides timonensis GCF 900128505 1
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AAI clade 13-7-6
medoid: Porphyromonas levii DSM 23370 GCF 000379925 1
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AAI clade 13-7-7
medoid: Porphyromonas circumdentaria GCF 014206885 1
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AAI clade 13-7-8
medoid: Dysgonomonas gadei ATCC BAA 286 GCF 000213555 1
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AAI clade 13-7-9
medoid: Dysgonomonas capnocytophagoides DSM 22835 GCF 000426485 1
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AAI clade 13-7-10
medoid: Porphyromonas bobii GCF 943169685 1
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AAI clade 13-7-11
medoid: Porphyromonas vaginalis GCF 958301595 1
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AAI clade 13-7-12
medoid: Candidatus Sodaliphilus aphodohippi GCA 018065665 1
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AAI clade 13-7-13
medoid: Candidatus Colicola equi GCA 018066175 1
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AAI clade 13-7-14
medoid: Candidatus Colousia faecequi GCA 018065285 1
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AAI clade 13-7-15
medoid: Duncaniella muris GCF 003024805 1
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AAI clade 13-7-16
medoid: Proteiniphilum acetatigenes DSM 18083 GCF 000380985 1
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AAI clade 13-7-17
medoid: Paludibacter jiangxiensis GCF 001618385 1
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AAI clade 13-7-1
medoid: Porphyromonas gulae DSM 15663 GCF 000378065 1
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AAI clade 13-8
medoid: Prevotella vespertina GCF 009728485 1
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AAI clade 13-9
medoid: Salegentibacter agarivorans GCF 900113135 1
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AAI clade 13-10
medoid: Alistipes provencensis GCF 900083545 1
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AAI clade 13-11
medoid: Muricauda lutisoli GCF 017313105 1
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AAI clade 13-12
medoid: Chryseobacterium cucumeris GCF 001593385 1
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AAI clade 13-13
medoid: Fulvivirga ulvae GCF 021389975 1
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AAI clade 13-14
medoid: Flavobacterium yafengii GCF 030010375 1
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AAI clade 13-15
medoid: Mucilaginibacter endophyticus GCF 003351025 1
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AAI clade 13-16
medoid: Pedobacter riviphilus GCF 014692875 1
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AAI clade 13-17
medoid: Pontibacter ramchanderi GCF 002846395 1
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AAI clade 13-18
medoid: Algoriphagus algorifonticola GCF 007655305 1
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AAI clade 13-19
medoid: Sphingobacterium puteale GCF 003627955 1
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AAI clade 13-20
medoid: Aquimarina megaterium XH134 GCF 000520975 1
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AAI clade 13-21
medoid: Aequorivita aquimaris GCF 001573155 1
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AAI clade 13-22
medoid: Spirosoma aureum GCF 011604685 1
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AAI clade 13-23
medoid: Maribacter forsetii DSM 18668 GCF 000744105 1
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AAI clade 13-24
medoid: Chitinophaga eiseniae GCF 900167135 1
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AAI clade 13-25
medoid: Longitalea arenae GCF 016924755 1
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AAI clade 13-26
medoid: Dyadobacter psychrophilus GCF 900167945 1
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AAI clade 13-27
medoid: Winogradskyella thalassocola GCF 900099995 1
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AAI clade 13-28
medoid: Hymenobacter glacieicola GCF 014640315 1
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AAI clade 13-29
medoid: Fodinibius halophilus GCF 011059105 1
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AAI clade 13-30
medoid: Hymenobacter rubidus GCF 016734815 1
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AAI clade 13-1
medoid: Bacteroides luhongzhouii GCF 009193295 2
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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 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