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 8-1
medoid: Sporomusa acidovorans DSM 3132 GCF 002257695 1
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AAI clade 8-2
medoid: Borreliella burgdorferi GCF 002151505 1
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AAI clade 8-3
medoid: Eggerthella lenta GCF 003339975 1
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AAI clade 8-4
medoid: Clostridium carboxidivorans P7 GCF 001038625 1
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AAI clade 8-4-1
medoid: Thermoanaerobacter brockii subsp. finnii Ako 1 GCF 000175295 2
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AAI clade 8-4-2
medoid: Clostridium sporogenes GCF 000973705 1
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AAI clade 8-4-3
medoid: Clostridium weizhouense GCF 019431045 1
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AAI clade 8-4-4
medoid: Acetivibrio straminisolvens JCM 21531 GCF 000521465 1
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AAI clade 8-4-5
medoid: Clostridium carboxidivorans P7 GCF 001038625 1
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AAI clade 8-4-6
medoid: Clostridium ganghwense GCF 026735165 1
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AAI clade 8-4-7
medoid: Clostridium acidisoli DSM 12555 GCF 900176305 1
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AAI clade 8-4-8
medoid: Tissierella praeacuta DSM 18095 GCF 900128955 1
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AAI clade 8-4-9
medoid: Acetobacterium dehalogenans DSM 11527 GCF 000472665 1
4 datasets: Acetobacterium bakii GCF 001263355 1 (AAI: 65.85%), Acetobacterium dehalogenans DSM 11527 GCF 000472665 1 (AAI: 100.0%), Acetobacterium wieringae GCF 001766835 1 (AAI: 79.88%), and Acetobacterium woodii DSM 1030 GCF 000247605 1 (AAI: 72.96%)
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AAI clade 8-4-10
medoid: Acetobacterium paludosum GCF 008086595 1
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AAI clade 8-4-11
medoid: Amygdalobacter nucleatus GCF 001552885 1
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AAI clade 8-4-12
medoid: Aristaeella hokkaidonensis GCF 018128945 1
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AAI clade 8-4-13
medoid: Clostridium formicaceticum GCF 001854185 1
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AAI clade 8-4-14
medoid: Clostridium estertheticum subsp. estertheticum GCF 001877035 1
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AAI clade 8-4-15
medoid: Clostridium tetani GCF 000762305 1
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AAI clade 8-4-16
medoid: Clostridium zeae GCF 017312485 1
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AAI clade 8-4-17
medoid: Clostridium chauvoei GCF 002327185 1
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AAI clade 8-4-18
medoid: Clostridium caldaquaticum GCF 023806125 1
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AAI clade 8-4-19
medoid: Eubacterium limosum GCF 000807675 2
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AAI clade 8-4-20
medoid: Mediannikoviicoccus vaginalis GCF 928097925 1
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AAI clade 8-4-21
medoid: Alkaliphilus peptidifermentans DSM 18978 GCF 900101495 1
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AAI clade 8-4-22
medoid: Youngiibacter fragilis 232 1 GCF 000495435 3
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AAI clade 8-4-23
medoid: Ruminiclostridium papyrosolvens DSM 2782 GCF 000175795 2
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AAI clade 8-4-24
medoid: Caloranaerobacter azorensis DSM 13643 GCF 900129995 1
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AAI clade 8-4-25
medoid: Thermoanaerobacterium butyriciformans GCF 017874545 1
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AAI clade 8-4-26
medoid: Alkalibacter mobilis GCF 015594845 1
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AAI clade 8-4-27
medoid: Mogibacterium diversum GCF 002998925 1
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AAI clade 8-4-28
medoid: Sinanaerobacter chloroacetimidivorans GCF 018128545 1
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AAI clade 8-4-29
medoid: Pumilibacter intestinalis GCF 943193005 1
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AAI clade 8-4-30
medoid: Inediibacterium massiliense GCF 001282725 1
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AAI clade 8-4-31
medoid: Geosporobacter subterraneus DSM 17957 GCF 900142145 1
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AAI clade 8-4-32
medoid: Zongyangia hominis GCF 014385095 1
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AAI clade 8-4-33
medoid: Baileyella intestinalis GCF 009695865 1
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AAI clade 8-4-34
medoid: Caldanaerobius fijiensis DSM 17918 GCF 900129075 1
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AAI clade 8-4-35
medoid: Caldicoprobacter algeriensis GCF 023838525 1
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AAI clade 8-4-36
medoid: Caloramator australicus RC3 GCF 000297115 1
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AAI clade 8-4-37
medoid: Caloramator proteoclasticus DSM 10124 GCF 900129265 1
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AAI clade 8-4-38
medoid: Candidatus Apopatousia equi GCA 018064325 1
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AAI clade 8-4-39
medoid: Candidatus Caballimonas caccae GCA 018065575 1
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AAI clade 8-4-40
medoid: Clostridium lundense DSM 17049 GCF 000619945 1
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AAI clade 8-4-41
medoid: Clostridium polynesiense GCF 000820705 1
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AAI clade 8-4-42
medoid: Clostridium senegalense JC122 GCF 000285575 1
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AAI clade 8-4-43
medoid: Sedimentibacter saalensis GCF 007830175 1
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AAI clade 8-4-44
medoid: Eubacterium barkeri GCF 900107125 1
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AAI clade 8-4-45
medoid: Ezakiella massiliensis GCF 900120165 1
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AAI clade 8-4-46
medoid: Fenollaria massiliensis GCF 000312505 2
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AAI clade 8-4-47
medoid: Gehongia tenuis GCF 014384795 1
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AAI clade 8-4-48
medoid: Kallipyga gabonensis GCF 001286805 1
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AAI clade 8-4-49
medoid: Murdochiella massiliensis GCF 900059565 1
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AAI clade 8-4-50
medoid: Lutispora saccharofermentans GCF 024363565 1
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AAI clade 8-4-51
medoid: Maledivibacter halophilus GCF 900167445 1
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AAI clade 8-4-52
medoid: Candidatus Improbicoccus pseudotrichonymphae GCA 036322855 1
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AAI clade 8-4-53
medoid: Candidatus Paraimprobicoccus trichonymphae GCA 036322875 1
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AAI clade 8-4-1
medoid: Thermoanaerobacter brockii subsp. finnii Ako 1 GCF 000175295 2
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AAI clade 8-5
medoid: Geomonas fuzhouensis GCF 020179575 1
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AAI clade 8-6
medoid: Fusobacterium polymorphum GCF 035320945 1
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AAI clade 8-7
medoid: Argonema antarcticum A004 B2 GCF 023333585 1
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AAI clade 8-1
medoid: Sporomusa acidovorans DSM 3132 GCF 002257695 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 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