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 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 23-1
medoid: Aliarcobacter cryaerophilus ATCC 43158 GCF 006165035 1
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AAI clade 23-2
medoid: Campylobacter jejuni GCF 001457695 1
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AAI clade 23-3
medoid: Helicobacter pylori GCF 003050665 1
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AAI clade 23-4
medoid: Campylobacter pinnipediorum subsp. pinnipediorum GCF 002021925 1
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AAI clade 23-5
medoid: Campylobacter hyointestinalis subsp. hyointestinalis GCF 013372145 1
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AAI clade 23-6
medoid: Campylobacter lari subsp. concheus GCF 008245025 1
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AAI clade 23-6-1
medoid: Campylobacter lari subsp. concheus GCF 008245025 1
4 datasets: Campylobacter lari subsp. lari GCF 900111465 1 (AAI: 92.72%), Campylobacter lari subsp. concheus GCF 008245025 1 (AAI: 100.0%), Campylobacter ornithocola GCF 001705345 1 (AAI: 92.03%), and Campylobacter subantarcticus LMG 24377 GCF 000816305 1 (AAI: 88.55%)
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AAI clade 23-6-2
medoid: Campylobacter armoricus GCF 006176165 1
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AAI clade 23-6-3
medoid: Campylobacter insulaenigrae GCF 900637885 1
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AAI clade 23-6-4
medoid: Campylobacter volucris GCF 008245045 1
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AAI clade 23-6-5
medoid: Campylobacter avium LMG 24591 GCF 002238335 1
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AAI clade 23-6-6
medoid: Campylobacter canadensis GCF 013177655 1
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AAI clade 23-6-7
medoid: Campylobacter peloridis LMG 23910 GCF 000816785 1
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AAI clade 23-6-8
medoid: Campylobacter troglodytis GCF 006864425 1
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AAI clade 23-6-1
medoid: Campylobacter lari subsp. concheus GCF 008245025 1
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AAI clade 23-7
medoid: Helicobacter labetoulli GCF 003670275 1
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AAI clade 23-8
medoid: Arcobacter aquimarinus GCF 004115795 1
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AAI clade 23-9
medoid: Helicobacter salomonis GCF 017979425 1
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AAI clade 23-10
medoid: Malaciobacter halophilus GCF 002837275 1
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AAI clade 23-11
medoid: Arcobacter peruensis GCF 003711085 1
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AAI clade 23-12
medoid: Caminibacter pacificus GCF 003752135 1
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AAI clade 23-13
medoid: Campylobacter massiliensis GCF 014253065 1
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AAI clade 23-14
medoid: Helicobacter bilis ATCC 51630 GCF 000686565 1
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AAI clade 23-15
medoid: Helicobacter colisuis GCF 023646285 1
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AAI clade 23-16
medoid: Helicobacter brantae GCF 003364205 1
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AAI clade 23-17
medoid: Hydrogenimonas cancrithermarum GCF 030296055 1
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AAI clade 23-18
medoid: Nitrosophilus kaiyonis GCF 027943725 1
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AAI clade 23-19
medoid: Candidatus Sulfurimonas baltica GCF 015265455 1
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AAI clade 23-20
medoid: Sulfurovum riftiae GCF 001595645 1
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AAI clade 23-21
medoid: Sulfurimonas hydrogeniphila GCF 009068765 1
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AAI clade 23-22
medoid: Sulfurospirillum halorespirans DSM 13726 GCF 001723605 1
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AAI clade 23-1
medoid: Aliarcobacter cryaerophilus ATCC 43158 GCF 006165035 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