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 10-1
medoid: Mycolicibacterium senegalense GCF 031458155 1
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AAI clade 10-2
medoid: Mycobacterium parascrofulaceum ATCC BAA 614 GCF 000164135 1
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AAI clade 10-3
medoid: Rhodococcus wratislaviensis GCF 900455735 1
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AAI clade 10-4
medoid: Actinoplanes pyxinae GCF 026626335 1
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AAI clade 10-4-1
medoid: Actinoplanes philippinensis GCF 016862335 1
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AAI clade 10-4-1-1
medoid: Actinoplanes campanulatus GCF 014191935 1
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AAI clade 10-4-1-2
medoid: Actinoplanes oblitus GCF 030252345 1
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AAI clade 10-4-1-3
medoid: Actinoplanes couchii GCF 016862075 1
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AAI clade 10-4-1-4
medoid: Actinoplanes philippinensis GCF 016862335 1
7 datasets: Actinoplanes italicus GCF 003001815 1 (AAI: 82.65%), Actinoplanes philippinensis GCF 016862335 1 (AAI: 100.0%), Actinoplanes xinjiangensis GCF 003148685 1 (AAI: 85.86%), Actinoplanes aureus GCF 015704865 1 (AAI: 77.14%), Actinoplanes sichuanensis GCF 033097365 1 (AAI: 87.49%), Actinoplanes utahensis GCF 016862455 1 (AAI: 79.3%), and Actinoplanes sandaracinus GCF 030009775 1 (AAI: 79.61%)
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AAI clade 10-4-1-5
medoid: Actinoplanes missouriensis 431 GCF 000284295 1
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AAI clade 10-4-1-1
medoid: Actinoplanes campanulatus GCF 014191935 1
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AAI clade 10-4-2
medoid: Actinoplanes lichenicola GCF 016785085 1
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AAI clade 10-4-3
medoid: Pseudosporangium ferrugineum GCF 003002065 1
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AAI clade 10-4-1
medoid: Actinoplanes philippinensis GCF 016862335 1
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AAI clade 10-5
medoid: Corynebacterium tuberculostearicum GCF 013408445 1
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AAI clade 10-6
medoid: Micromonospora solifontis GCF 003725545 1
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AAI clade 10-7
medoid: Amycolatopsis decaplanina DSM 44594 GCF 000342005 1
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AAI clade 10-8
medoid: Gordonia alkanivorans NBRC 16433 GCF 000225505 1
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AAI clade 10-9
medoid: Nocardia araoensis NBRC 100135 GCF 000308435 1
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AAI clade 10-10
medoid: Pseudonocardia halophobica GCF 027922425 1
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AAI clade 10-11
medoid: Lentzea atacamensis GCF 003148865 1
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AAI clade 10-12
medoid: Saccharopolyspora hirsuta GCF 008630535 1
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AAI clade 10-13
medoid: Geodermatophilus siccatus GCF 900103785 1
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AAI clade 10-1
medoid: Mycolicibacterium senegalense GCF 031458155 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