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 12-1
medoid: Azospirillum brasilense GCF 008365405 1
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AAI clade 12-2
medoid: Asaia krungthepensis NRIC 0535 GCF 025995175 1
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AAI clade 12-3
medoid: Aurantimonas endophytica GCF 014196845 1
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AAI clade 12-4
medoid: Gluconobacter potus GCF 001580675 1
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AAI clade 12-5
medoid: Gluconobacter frateurii GCF 002723955 1
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AAI clade 12-6
medoid: Acetobacter sicerae GCF 011516765 1
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AAI clade 12-7
medoid: Acetobacter fabarum DSM 19596 GCF 025995875 1
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AAI clade 12-8
medoid: Acetobacter nitrogenifigens DSM 23921 NBRC 105050 GCF 000429165 1
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AAI clade 12-9
medoid: Afifella marina DSM 2698 GCF 003258905 1
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AAI clade 12-10
medoid: Azospirillum melinis GCF 017876055 1
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AAI clade 12-11
medoid: Bombella pluederhausensis GCF 026385525 1
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AAI clade 12-11-1
medoid: Bombella apis GCF 014878255 1
1 dataset: Bombella apis GCF 014878255 1 (AAI: 100.0%)
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AAI clade 12-11-2
medoid: Bombella pollinis GCF 026385485 1
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AAI clade 12-11-3
medoid: Saccharibacter floricola DSM 15669 GCF 000378165 1
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AAI clade 12-11-4
medoid: Aristophania vespae GCF 009906835 1
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AAI clade 12-11-5
medoid: Bombella mellum GCF 014048465 1
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AAI clade 12-11-6
medoid: Bombella intestini GCF 002003665 1
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AAI clade 12-11-7
medoid: Bombella pluederhausensis GCF 026385525 1
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AAI clade 12-11-8
medoid: Formicincola oecophyllae GCF 006542395 2
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AAI clade 12-11-9
medoid: Oecophyllibacter saccharovorans GCF 006542375 1
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AAI clade 12-11-1
medoid: Bombella apis GCF 014878255 1
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AAI clade 12-12
medoid: Gluconacetobacter liquefaciens GCF 003350405 1
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AAI clade 12-13
medoid: Komagataeibacter sucrofermentans DSM 15973 GCF 025994575 1
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AAI clade 12-14
medoid: Myxococcus virescens GCF 007989405 1
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AAI clade 12-15
medoid: Novacetimonas maltaceti GCF 002906255 1
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AAI clade 12-16
medoid: Amorphus coralli DSM 19760 GCF 000374525 1
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AAI clade 12-17
medoid: Stigmatella ashevillena GCF 028368975 1
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AAI clade 12-18
medoid: Paramagnetospirillum caucaseum GCF 000342045 1
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AAI clade 12-19
medoid: Acidiphilium angustum ATCC 35903 GCF 000701585 1
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AAI clade 12-20
medoid: Acidocella facilis ATCC 35904 GCF 000687875 1
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AAI clade 12-21
medoid: Archangium violaceum Cb vi76 GCF 000733295 1
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AAI clade 12-22
medoid: Aureimonas flava GCF 003583935 1
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AAI clade 12-23
medoid: Belnapia arida GCF 016773205 1
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AAI clade 12-24
medoid: Methylobacterium ajmalii GCF 016613415 1
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AAI clade 12-25
medoid: Geminicoccus harenae GCF 014750705 1
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AAI clade 12-26
medoid: Komagataeibacter swingsii DSM 16373 GCF 025994595 1
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AAI clade 12-27
medoid: Methylopila capsulata GCF 016907975 1
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AAI clade 12-28
medoid: Myxococcus eversor GCF 010894455 1
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AAI clade 12-29
medoid: Nannocystis exedens GCF 002343915 1
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AAI clade 12-30
medoid: Neokomagataea tanensis NBRC 106556 GCF 025994255 1
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AAI clade 12-31
medoid: Niveispirillum cyanobacteriorum GCF 002868735 1
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AAI clade 12-32
medoid: Rhodospirillum rubrum ATCC 11170 GCF 000013085 1
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AAI clade 12-33
medoid: Rhodovibrio salinarum DSM 9154 GCF 000515255 1
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AAI clade 12-34
medoid: Roseococcus suduntuyensis GCF 014196305 1
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AAI clade 12-35
medoid: Roseomonas gilardii subsp. rosea ATCC BAA 691 GCF 000518625 1
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AAI clade 12-36
medoid: Siccirubricoccus soli GCF 024102615 1
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AAI clade 12-37
medoid: Skermanella rosea GCF 016806835 2
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AAI clade 12-38
medoid: Oceanibaculum nanhaiense GCF 002148795 1
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AAI clade 12-39
medoid: Pelagibius marinus GCF 014925385 1
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AAI clade 12-40
medoid: Acidisoma silvae GCF 020618775 1
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AAI clade 12-41
medoid: Aestuariispira ectoiniformans GCF 025136295 1
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AAI clade 12-42
medoid: Anaeromyxobacter terrae GCF 022690685 1
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AAI clade 12-43
medoid: Ancylobacter koreensis GCF 023016525 1
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AAI clade 12-44
medoid: Corallococcus praedator GCF 003612125 1
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AAI clade 12-45
medoid: Elioraea tepidiphila DSM 17972 GCF 000378465 1
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AAI clade 12-46
medoid: Reyranella massiliensis 521 GCF 000312425 1
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AAI clade 12-47
medoid: Pseudoroseomonas vastitatis GCF 003604215 1
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AAI clade 12-1
medoid: Azospirillum brasilense GCF 008365405 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