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 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 27-1
medoid: Sphingobium indicum GCF 013408165 1
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AAI clade 27-2
medoid: Sphingopyxis chilensis GCF 035930445 1
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AAI clade 27-3
medoid: Polymorphobacter fuscus GCF 009372075 1
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AAI clade 27-4
medoid: Iodidimonas gelatinilytica GCF 008579125 1
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AAI clade 27-5
medoid: Rickettsia asembonensis GCF 000828125 2
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AAI clade 27-6
medoid: Sphingomonas bisphenolicum GCF 024349785 1
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AAI clade 27-7
medoid: Sphingomonas liriopis GCF 024211255 1
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AAI clade 27-8
medoid: Sphingomonas yabuuchiae GCF 014199595 1
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AAI clade 27-9
medoid: Sphingomonas tagetis GCF 024211275 1
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AAI clade 27-10
medoid: Sphingomonas prati GCF 014643515 1
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AAI clade 27-11
medoid: Altererythrobacter ishigakiensis GCF 001663155 1
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AAI clade 27-12
medoid: Alteriqipengyuania lutimaris GCF 003363135 1
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AAI clade 27-13
medoid: Aurantiacibacter odishensis GCF 003605195 1
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AAI clade 27-14
medoid: Novosphingobium mathurense GCF 900168325 1
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AAI clade 27-15
medoid: Altericroceibacterium spongiae GCF 003610805 1
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AAI clade 27-16
medoid: Croceicoccus gelatinilyticus GCF 018398395 1
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AAI clade 27-17
medoid: Erythrobacter colymbi GCF 002155685 1
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AAI clade 27-18
medoid: Erythrobacter rubeus GCF 014705715 1
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AAI clade 27-19
medoid: Novosphingobium jiangmenense GCF 015694345 1
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AAI clade 27-20
medoid: Novosphingobium pokkalii GCF 014652855 1
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AAI clade 27-21
medoid: Pacificimonas flava GCF 000342165 1
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AAI clade 27-22
medoid: Pelagerythrobacter aerophilus GCF 003581645 1
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AAI clade 27-23
medoid: Pontixanthobacter aestiaquae GCF 009827455 1
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AAI clade 27-24
medoid: Qipengyuania mesophila GCF 019711655 1
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AAI clade 27-25
medoid: Sphingomicrobium aestuariivivum GCF 022953075 1
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AAI clade 27-26
medoid: Sphingomicrobium flavum GCF 024721605 1
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AAI clade 27-27
medoid: Sphingomonas ginsenosidimutans GCF 002374835 1
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AAI clade 27-28
medoid: Sphingomonas endolithica GCF 025231525 1
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AAI clade 27-29
medoid: Sphingomonas kaistensis GCF 011927725 1
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AAI clade 27-30
medoid: Sphingomonas panni GCF 022664435 1
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AAI clade 27-31
medoid: Sphingomonas echinoides ATCC 14820 GCF 000241465 1
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AAI clade 27-32
medoid: Sphingomonas hankyongi GCF 023516575 1
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AAI clade 27-33
medoid: Sphingomonas psychrotolerans GCF 032334595 1
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AAI clade 27-34
medoid: Stakelama flava GCF 019351405 1
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AAI clade 27-35
medoid: Tsuneonella dongtanensis GCF 001698205 1
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AAI clade 27-36
medoid: Zymomonas mobilis subsp. pomaceae ATCC 29192 GCF 000218875 1
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AAI clade 27-37
medoid: Sphingosinicella flava GCF 016025255 1
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AAI clade 27-38
medoid: Aurantiacibacter xanthus GCF 003584015 1
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AAI clade 27-39
medoid: Alteripontixanthobacter muriae GCF 013336795 1
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AAI clade 27-40
medoid: Qipengyuania gelatinilytica GCF 019711315 1
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AAI clade 27-41
medoid: Alteriqipengyuania halimionae GCF 009827575 1
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AAI clade 27-42
medoid: Anaeromyxobacter paludicola GCF 023169965 1
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AAI clade 27-43
medoid: Sphingomonas cavernae GCF 003590775 1
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AAI clade 27-44
medoid: Sphingomonas fennica GCF 003034225 1
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AAI clade 27-45
medoid: Sphingomonas ursincola GCF 013607875 1
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AAI clade 27-46
medoid: Croceibacterium ferulae GCF 003660445 1
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AAI clade 27-47
medoid: Kordiimonas aestuarii GCF 025574465 1
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AAI clade 27-48
medoid: Fundidesulfovibrio terrae GCF 022808915 1
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AAI clade 27-49
medoid: Govania unica GCF 027920805 1
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AAI clade 27-50
medoid: Sphingosinicella microcystinivorans GCF 003634215 1
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AAI clade 27-51
medoid: Sphingomonas citri GCF 019429485 1
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AAI clade 27-52
medoid: Novosphingobium aerophilum GCF 014230305 1
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AAI clade 27-53
medoid: Novosphingobium naphthalenivorans NBRC 102051 GCF 001590985 1
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AAI clade 27-54
medoid: Novosphingobium decolorationis GCF 018417475 1
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AAI clade 27-55
medoid: Novosphingobium resinovorum GCF 027922145 1
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AAI clade 27-56
medoid: Novosphingobium huizhouense GCF 020179475 1
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AAI clade 27-57
medoid: Novosphingobium humi GCF 028607105 1
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AAI clade 27-58
medoid: Novosphingobium rosa NBRC 15208 GCF 001598555 1
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AAI clade 27-59
medoid: Novosphingopyxis baekryungensis DSM 16222 GCF 000420305 1
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AAI clade 27-60
medoid: Paraliomyxa miuraensis GCF 026337845 1
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AAI clade 27-61
medoid: Parasphingopyxis algicola GCF 013378075 1
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AAI clade 27-62
medoid: Parasphingorhabdus litoris DSM 22379 GCF 020906275 1
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AAI clade 27-63
medoid: Pseudobdellovibrio exovorus JSS GCF 000348725 1
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AAI clade 27-64
medoid: Qipengyuania nanhaisediminis GCF 900115585 1
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AAI clade 27-65
medoid: Rhizorhabdus histidinilytica GCF 900167915 1
5 datasets: Rhizorhabdus dicambivorans GCF 002355275 1 (AAI: 75.98%), Rhizorhabdus histidinilytica GCF 900167915 1 (AAI: 100.0%), Rhizorhabdus phycosphaerae GCF 011044255 1 (AAI: 73.87%), Sphingomonas crocodyli GCF 004005865 1 (AAI: 69.03%), and Tardibacter chloracetimidivorans GCF 001890385 1 (AAI: 59.77%)
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AAI clade 27-66
medoid: Sphingobium arseniciresistens GCF 029167225 1
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AAI clade 27-67
medoid: Sandaracinobacteroides sayramensis GCF 022014495 1
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AAI clade 27-68
medoid: Sandarakinorhabdus oryzae GCF 009733735 1
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AAI clade 27-69
medoid: Sphingobium xanthum GCF 019737615 1
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AAI clade 27-70
medoid: Sphingomonas oryzagri GCF 029906645 1
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AAI clade 27-71
medoid: Sphingomonas albertensis GCF 014358075 1
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AAI clade 27-72
medoid: Sphingomonas caseinilyticus GCF 023516455 1
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AAI clade 27-73
medoid: Sphingomonas mali NBRC 15500 GCF 001598415 1
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AAI clade 27-74
medoid: Sphingomonas azotifigens NBRC 15497 GCF 002091475 1
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AAI clade 27-75
medoid: Sphingomonas spermidinifaciens GCF 002351485 1
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AAI clade 27-76
medoid: Sphingomonas changbaiensis NBRC 104936 GCF 000974765 1
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AAI clade 27-77
medoid: Sphingomonas citricola GCF 019429535 1
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AAI clade 27-78
medoid: Sphingomonas dokdonensis GCF 002197685 1
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AAI clade 27-79
medoid: Sphingomonas panacis GCF 001717955 1
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AAI clade 27-80
medoid: Sphingorhabdus lacus GCF 009768975 1
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AAI clade 27-81
medoid: Sphingosinithalassobacter portus GCF 003171655 1
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AAI clade 27-82
medoid: Tsuneonella suprasediminis GCF 003605755 1
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AAI clade 27-1
medoid: Sphingobium indicum GCF 013408165 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