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 8-1-1
medoid: Chlamydia psittaci 6BC GCF 000191925 1
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AAI clade 8-1-2
medoid: Caldicellulosiruptor hydrothermalis 108 GCF 000166355 1
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AAI clade 8-1-3
medoid: Veillonella dispar GCF 900637515 1
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AAI clade 8-1-4
medoid: Brachyspira hyodysenteriae ATCC 27164 GCF 001676785 2
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AAI clade 8-1-5
medoid: Dethiosulfovibrio marinus GCF 021568875 1
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AAI clade 8-1-6
medoid: Pectinatus haikarae GCF 030813505 1
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AAI clade 8-1-7
medoid: Megasphaera elsdenii DSM 20460 GCF 000283495 2
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AAI clade 8-1-8
medoid: Sporomusa silvacetica DSM 10669 GCF 002257705 1
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AAI clade 8-1-9
medoid: Acidaminococcus fermentans DSM 20731 GCF 000025305 1
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AAI clade 8-1-10
medoid: Propionispora hippei DSM 15287 GCF 900141835 1
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AAI clade 8-1-11
medoid: Mitsuokella multacida DSM 20544 GCF 000155955 1
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AAI clade 8-1-12
medoid: Desulfoscipio gibsoniae DSM 7213 GCF 000233715 2
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AAI clade 8-1-13
medoid: Desulfitobacterium chlororespirans DSM 11544 GCF 900143285 1
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AAI clade 8-1-14
medoid: Desulforamulus putei DSM 12395 GCF 900129195 1
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AAI clade 8-1-15
medoid: Dialister succinatiphilus YIT 11850 GCF 000242435 1
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AAI clade 8-1-16
medoid: Heliomicrobium undosum GCF 009877425 1
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AAI clade 8-1-16-1
medoid: Heliomicrobium undosum GCF 009877425 1
3 datasets: Heliomicrobium gestii GCF 009877435 1 (AAI: 81.01%), Heliomicrobium modesticaldum Ice1 GCF 000019165 1 (AAI: 84.12%), and Heliomicrobium undosum GCF 009877425 1 (AAI: 100.0%)
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AAI clade 8-1-16-2
medoid: Desulfonispora thiosulfatigenes DSM 11270 GCF 900176035 1
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AAI clade 8-1-16-3
medoid: Heliobacterium chlorum GCF 014502795 1
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AAI clade 8-1-16-4
medoid: Heliophilum fasciatum GCF 004341395 1
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AAI clade 8-1-16-5
medoid: Heliorestis acidaminivorans GCF 008933955 1
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AAI clade 8-1-16-6
medoid: Heliorestis convoluta GCF 009649955 1
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AAI clade 8-1-16-7
medoid: Leptospira ilyithenensis GCF 004771005 1
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AAI clade 8-1-16-1
medoid: Heliomicrobium undosum GCF 009877425 1
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AAI clade 8-1-17
medoid: Veillonella seminalis GCF 003992065 1
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AAI clade 8-1-18
medoid: Tepidanaerobacter acetatoxydans Re1 GCF 000213235 1
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AAI clade 8-1-19
medoid: Halanaerobium kushneri GCF 900156285 1
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AAI clade 8-1-20
medoid: Anaerobranca gottschalkii DSM 13577 GCF 900111575 1
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AAI clade 8-1-21
medoid: Thermosipho atlanticus DSM 15807 GCF 900129985 1
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AAI clade 8-1-22
medoid: Selenomonas infelix ATCC 43532 GCF 000234095 1
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AAI clade 8-1-23
medoid: Desulfosporosinus hippei DSM 8344 GCF 900100785 1
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AAI clade 8-1-24
medoid: Pelotomaculum isophthalicicum JI GCF 029478095 1
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AAI clade 8-1-25
medoid: Marinitoga aeolica GCF 029910535 1
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AAI clade 8-1-26
medoid: Pelosinus baikalensis GCF 020819555 1
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AAI clade 8-1-27
medoid: Pyramidobacter piscolens W5455 GCF 000177335 1
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AAI clade 8-1-28
medoid: Syntrophomonas wolfei subsp. wolfei str. Goettingen G311 GCF 000014725 1
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AAI clade 8-1-29
medoid: Thermodesulfobium acidiphilum GCF 003057965 1
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AAI clade 8-1-1
medoid: Chlamydia psittaci 6BC GCF 000191925 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 8-5
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