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 20-1
medoid: Pseudoalteromonas distincta GCF 000814675 1
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AAI clade 20-2
medoid: Pseudoalteromonas galatheae GCF 005886105 2
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AAI clade 20-3
medoid: Shewanella aquimarina GCF 023349185 1
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AAI clade 20-4
medoid: Shewanella carassii GCF 002777975 1
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AAI clade 20-5
medoid: Francisella tularensis subsp. novicida U112 GCF 000833375 1
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AAI clade 20-6
medoid: Shewanella decolorationis GCF 030160495 1
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AAI clade 20-7
medoid: Shewanella oncorhynchi GCF 012584455 1
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AAI clade 20-8
medoid: Neiella holothuriorum GCF 019457915 1
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AAI clade 20-9
medoid: Hydrogenovibrio marinus DSM 11271 GCF 000711315 1
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AAI clade 20-10
medoid: Moritella marina ATCC 15381 GCF 000381865 1
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AAI clade 20-11
medoid: Parashewanella curva GCF 003675895 1
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AAI clade 20-12
medoid: Pseudoalteromonas shioyasakiensis GCF 001550135 1
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AAI clade 20-13
medoid: Pseudoalteromonas amylolytica GCF 001854605 1
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AAI clade 20-14
medoid: Pseudoalteromonas rhizosphaerae GCF 902498845 1
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AAI clade 20-15
medoid: Psychrosphaera aquimarina GCF 032461525 1
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AAI clade 20-16
medoid: Shewanella pneumatophori GCF 023283895 1
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AAI clade 20-17
medoid: Agarivorans albus GCF 019670105 1
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AAI clade 20-18
medoid: Alishewanella agri BL06 GCF 000272005 1
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AAI clade 20-19
medoid: Cognaticolwellia aestuarii GCF 002000025 1
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AAI clade 20-20
medoid: Cysteiniphilum litorale GCF 003428165 1
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AAI clade 20-21
medoid: Ferrimonas marina GCF 900129905 1
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AAI clade 20-22
medoid: Idiomarina abyssalis GCF 001294685 1
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AAI clade 20-23
medoid: Pseudidiomarina fusca GCF 032227045 1
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AAI clade 20-24
medoid: Rheinheimera pacifica GCF 900108485 1
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AAI clade 20-25
medoid: Rheinheimera faecalis GCF 021290965 1
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AAI clade 20-26
medoid: Shewanella holmiensis GCF 025370255 1
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AAI clade 20-27
medoid: Shewanella mesophila GCF 019457515 1
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AAI clade 20-28
medoid: Shewanella amazonensis SB2B GCF 000015245 1
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AAI clade 20-29
medoid: Shewanella nanhaiensis GCF 019457885 1
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AAI clade 20-30
medoid: Shewanella litoralis GCF 009828585 1
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AAI clade 20-31
medoid: Suttonella ornithocola GCF 001889065 1
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AAI clade 20-32
medoid: Thalassotalea loyana GCF 030161435 1
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AAI clade 20-33
medoid: Thalassomonas actiniarum GCF 000948975 2
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AAI clade 20-34
medoid: Vibrio tetraodonis GCF 003350295 1
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AAI clade 20-35
medoid: Alkalimonas delamerensis GCF 030717955 1
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AAI clade 20-36
medoid: Arsukibacterium perlucidum DSM 18276 GCF 000382165 1
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AAI clade 20-37
medoid: Saccharobesus litoralis GCF 003063625 1
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AAI clade 20-38
medoid: Colwellia demingiae GCF 007954275 1
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AAI clade 20-39
medoid: Granulosicoccus antarcticus IMCC3135 GCF 002215215 1
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AAI clade 20-40
medoid: Halofilum ochraceum GCF 001614315 2
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AAI clade 20-41
medoid: Kangiella spongicola GCF 003194565 2
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AAI clade 20-42
medoid: Leptospira venezuelensis GCF 002150035 1
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AAI clade 20-43
medoid: Leucothrix pacifica GCF 003172875 1
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AAI clade 20-44
medoid: Methylophaga thiooxydans DMS010 GCF 000156355 1
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AAI clade 20-45
medoid: Motilimonas eburnea GCF 021295345 1
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AAI clade 20-46
medoid: Natronospira proteinivora GCF 024170465 1
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AAI clade 20-47
medoid: Zobellella denitrificans GCF 002237365 1
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AAI clade 20-48
medoid: Pleionea mediterranea GCF 003148745 1
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AAI clade 20-49
medoid: Pseudoalteromonas aurantia 208 GCF 014858725 1
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AAI clade 20-50
medoid: Pseudoalteromonas piratica GCF 000788395 1
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AAI clade 20-51
medoid: Psychromonas ossibalaenae ATCC BAA 1528 GCF 000381745 1
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AAI clade 20-52
medoid: Rappaport israeli GCF 001888055 1
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AAI clade 20-53
medoid: Shewanella kaireitica GCF 023284045 1
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AAI clade 20-54
medoid: Shewanella sediminis HAW EB3 GCF 000018025 1
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AAI clade 20-55
medoid: Shewanella avicenniae GCF 017354945 1
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AAI clade 20-56
medoid: Shewanella benthica GCF 015069875 1
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AAI clade 20-57
medoid: Shewanella goraebulensis GCF 030252245 1
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AAI clade 20-58
medoid: Solimonas marina GCF 012241385 1
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AAI clade 20-59
medoid: Sulfurivirga caldicuralii GCF 900141795 1
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AAI clade 20-60
medoid: Thalassotalea sediminis GCF 030295915 1
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AAI clade 20-61
medoid: Thiomicrorhabdus immobilis GCF 021654855 1
7 datasets: Thiomicrorhabdus aquaedulcis GCF 004001325 1 (AAI: 63.07%), Thiomicrorhabdus arctica DSM 13458 GCF 000381085 1 (AAI: 63.67%), Thiomicrorhabdus chilensis DSM 12352 GCF 000483485 1 (AAI: 64.6%), Thiomicrorhabdus heinhorstiae GCF 013391765 2 (AAI: 66.22%), Thiomicrorhabdus immobilis GCF 021654855 1 (AAI: 100.0%), Thiomicrorhabdus lithotrophica GCF 029201445 1 (AAI: 75.89%), and Thiomicrorhabdus sediminis GCF 005885815 1 (AAI: 68.63%)
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AAI clade 20-62
medoid: Thiomicrorhabdus marina GCF 017571465 1
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AAI clade 20-63
medoid: Thiomicrospira microaerophila GCF 000934765 1
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AAI clade 20-64
medoid: Thiospirillum jenense GCF 014145225 1
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AAI clade 20-1
medoid: Pseudoalteromonas distincta GCF 000814675 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