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 14-1
medoid: Bordetella pseudohinzii GCF 000657795 2
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AAI clade 14-2
medoid: Alcaligenes phenolicus GCF 026344105 1
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AAI clade 14-3
medoid: Achromobacter dolens GCF 902859745 1
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AAI clade 14-3-1
medoid: Achromobacter aegrifaciens GCF 902859735 1
3 datasets: Achromobacter insolitus GCF 900637265 1 (AAI: 94.67%), Achromobacter aegrifaciens GCF 902859735 1 (AAI: 100.0%), and Achromobacter anxifer GCF 903652925 1 (AAI: 95.96%)
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AAI clade 14-3-2
medoid: Achromobacter denitrificans GCF 013267395 1
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AAI clade 14-3-3
medoid: Achromobacter dolens GCF 902859745 1
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AAI clade 14-3-4
medoid: Achromobacter marplatensis GCF 003315095 1
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AAI clade 14-3-5
medoid: Achromobacter spanius GCF 002812705 1
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AAI clade 14-3-6
medoid: Achromobacter aestuarii GCF 009866805 1
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AAI clade 14-3-7
medoid: Achromobacter aloeverae GCF 004121055 1
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AAI clade 14-3-8
medoid: Achromobacter mucicolens GCF 902859725 1
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AAI clade 14-3-9
medoid: Achromobacter deleyi GCF 902859705 1
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AAI clade 14-3-10
medoid: Achromobacter pestifer GCF 902859625 1
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AAI clade 14-3-11
medoid: Achromobacter veterisilvae GCF 900496975 1
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AAI clade 14-3-12
medoid: Bordetella bronchialis GCF 001676705 1
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AAI clade 14-3-13
medoid: Bordetella flabilis GCF 001676725 1
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AAI clade 14-3-14
medoid: Bordetella petrii GCF 000067205 1
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AAI clade 14-3-15
medoid: Corticimicrobacter populi GCF 003123725 1
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AAI clade 14-3-16
medoid: Jezberella montanilacus GCF 003003055 1
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AAI clade 14-3-17
medoid: Pigmentiphaga kullae GCF 004216695 1
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AAI clade 14-3-18
medoid: Pigmentiphaga litoralis GCF 014651835 1
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AAI clade 14-3-19
medoid: Sheuella amnicola GCF 010499255 1
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AAI clade 14-3-20
medoid: Verticiella sediminum GCF 007558815 1
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AAI clade 14-3-21
medoid: Zwartia hollandica GCF 019923725 1
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AAI clade 14-3-22
medoid: Zwartia panacis GCF 030410395 1
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AAI clade 14-3-23
medoid: Zwartia vadi GCF 030410375 1
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AAI clade 14-3-1
medoid: Achromobacter aegrifaciens GCF 902859735 1
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AAI clade 14-4
medoid: Acidithiobacillus concretivorus GCF 018853445 1
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AAI clade 14-5
medoid: Chitiniphilus eburneus GCF 005048205 1
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AAI clade 14-6
medoid: Pollutimonas harenae GCF 004153685 1
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AAI clade 14-7
medoid: Gemmata obscuriglobus GCF 008065095 1
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AAI clade 14-8
medoid: Zeimonas sediminis GCF 023721795 1
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AAI clade 14-9
medoid: Advenella incenata GCF 004217095 1
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AAI clade 14-10
medoid: Tepidiphilus margaritifer DSM 15129 GCF 000425565 1
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AAI clade 14-11
medoid: Aromatoleum anaerobium GCF 012910705 2
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AAI clade 14-12
medoid: Aromatoleum petrolei GCF 012910985 1
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AAI clade 14-13
medoid: Rhodocyclus tenuis GCF 009469755 1
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AAI clade 14-14
medoid: Thauera humireducens GCF 001051995 2
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AAI clade 14-15
medoid: Sutterella megalosphaeroides GCF 003609995 1
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AAI clade 14-16
medoid: Tepidimonas aquatica GCF 007556585 1
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AAI clade 14-17
medoid: Dakarella massiliensis GCF 001182045 1
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AAI clade 14-18
medoid: Denitromonas halophila GCF 007625155 1
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AAI clade 14-19
medoid: Geothrix oryzae GCF 030295385 1
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AAI clade 14-20
medoid: Serpentinimonas barnesii GCF 000696225 1
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AAI clade 14-21
medoid: Hydrogenophilus thermoluteolus GCF 003574215 1
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AAI clade 14-1
medoid: Bordetella pseudohinzii GCF 000657795 2
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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