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: Brucella daejeonensis GCA 014199265 1
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AAI clade 2
medoid: GCA 017448355 1
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AAI clade 3
medoid: GCA 017467885 1
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AAI clade 3-1
medoid: GCA 017449675 1
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AAI clade 3-2
medoid: Bacteroides luhongzhouii GCA 009193295 2
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AAI clade 3-2-1
medoid: Bacteroides ovatus GCA 900107475 1
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AAI clade 3-2-2
medoid: Bacteroides faecis MAJ27 GCA 900106755 1
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AAI clade 3-2-3
medoid: GCF 002849695 1
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AAI clade 3-2-4
medoid: Bacteroides faecichinchillae GCA 900129065 1
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AAI clade 3-2-5
medoid: Bacteroides graminisolvens DSM 19988 JCM 15093 GCA 000428125 1
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AAI clade 3-2-6
medoid: Bacteroides reticulotermitis GCA 014196955 1
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AAI clade 3-2-7
medoid: Bacteroides pyogenes DSM 20611 JCM 6294 GCA 000428105 1
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AAI clade 3-2-8
medoid: Bacteroides faecium GCA 012113595 1
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AAI clade 3-2-9
medoid: Bacteroides ihuae GCA 900104585 1
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AAI clade 3-2-10
medoid: Bacteroides neonati GCA 000499785 1
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AAI clade 3-2-11
medoid: Bacteroides salyersiae WAL 10018 DSM 18765 JCM 12988 GCA 000381365 1
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AAI clade 3-2-12
medoid: Bacteroides nordii GCA 019930665 1
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AAI clade 3-2-13
medoid: Jilunia laotingensis GCA 014385165 1
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AAI clade 3-2-14
medoid: Bacteroides acidifaciens GCA 024623065 1
2 datasets: Bacteroides acidifaciens GCA 024623065 1 (AAI: 100.0%) and GCF 903181435 1 (AAI: 95.08%)
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AAI clade 3-2-15
medoid: GCA 002307035 1
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AAI clade 3-2-16
medoid: GCA 002315435 1
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AAI clade 3-2-17
medoid: GCA 002471185 1
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AAI clade 3-2-18
medoid: GCA 009929715 1
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AAI clade 3-2-19
medoid: GCA 015654535 1
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AAI clade 3-2-20
medoid: GCA 017992695 1
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AAI clade 3-2-21
medoid: GCA 900547205 1
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AAI clade 3-2-22
medoid: GCA 900755095 1
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AAI clade 3-2-23
medoid: GCA 900760755 1
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AAI clade 3-2-24
medoid: GCA 900766005 1
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AAI clade 3-2-25
medoid: GCA 910586915 1
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AAI clade 3-2-26
medoid: GCF 003438995 1
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AAI clade 3-2-27
medoid: GCF 010500965 1
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AAI clade 3-2-28
medoid: GCF 010500995 1
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AAI clade 3-2-29
medoid: GCF 010501015 1
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AAI clade 3-2-30
medoid: miga PS19A LiJ 2014 O2 CD1 0 PT bin 36
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AAI clade 3-2-31
medoid: miga PS19A XieH 2016 YSZC12003 36703 bin 44
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AAI clade 3-2-1
medoid: Bacteroides ovatus GCA 900107475 1
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AAI clade 3-3
medoid: Bacteroides uniformis GCA 900107315 1
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AAI clade 3-4
medoid: Phocaeicola fibrisolvens GCA 025567125 1
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AAI clade 3-5
medoid: GCF 002224675 1
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AAI clade 3-6
medoid: Parabacteroides merdae GCA 900445495 1
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AAI clade 3-7
medoid: GCF 018127965 1
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AAI clade 3-8
medoid: GCA 900550375 1
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AAI clade 3-9
medoid: Butyricimonas paravirosa GCA 011927845 1
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AAI clade 3-10
medoid: miga PS19A VogtmannE 2016 MMRS44197125ST 27 0 0 bin 35
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AAI clade 3-11
medoid: Maribellus comscasis GCA 009762775 1
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AAI clade 3-12
medoid: GCA 014801735 1
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AAI clade 3-13
medoid: GCA 018054805 1
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AAI clade 3-14
medoid: Prevotella ruminicola GCA 900108375 1
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AAI clade 3-15
medoid: GCA 017405965 1
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AAI clade 3-16
medoid: GCA 900543155 1
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AAI clade 3-17
medoid: GCA 007132365 1
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AAI clade 3-18
medoid: GCF 003712195 1
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AAI clade 3-19
medoid: GCA 014801985 1
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AAI clade 3-20
medoid: GCA 002372855 1
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AAI clade 3-21
medoid: GCA 900317055 1
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AAI clade 3-22
medoid: GCA 902776565 1
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AAI clade 3-23
medoid: GCA 902774295 1
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AAI clade 3-24
medoid: GCA 003157015 1
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AAI clade 3-25
medoid: GCA 902801475 1
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AAI clade 3-26
medoid: GCA 017961145 1
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AAI clade 3-27
medoid: GCA 017394705 1
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AAI clade 3-28
medoid: GCA 017557635 1
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AAI clade 3-29
medoid: GCA 902786595 1
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AAI clade 3-30
medoid: GCA 017555585 1
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AAI clade 3-1
medoid: GCA 017449675 1
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AAI clade 4
medoid: Pedobacter duraquae GCA 004362245 1
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AAI clade 5
medoid: Streptomyces angustmyceticus GCA 002154415 1
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AAI clade 6
medoid: Pseudomonas migulae GCA 024169545 1
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AAI clade 7
medoid: miga SS18A Bin 41 contigs
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AAI clade 8
medoid: Mucilaginibacter ginkgonis GCA 009754905 2
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AAI clade 9
medoid: GCA 900755995 1
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AAI clade 10
medoid: GCF 013113835 1
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AAI clade 11
medoid: Secundilactobacillus odoratitofui DSM 19909 JCM 15043 GCA 001434895 1
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AAI clade 12
medoid: GCA 016840965 1
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AAI clade 13
medoid: GCA 017622235 1
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AAI clade 14
medoid: GCA 904390925 1
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AAI clade 15
medoid: GCA 002375985 1
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AAI clade 16
medoid: GCA 003963015 1
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AAI clade 17
medoid: GCA 001771585 1
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AAI clade 18
medoid: GCF 018398895 1
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AAI clade 19
medoid: GCA 001295775 1
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AAI clade 20
medoid: Qipengyuania aquimaris GCA 009827445 1
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AAI clade 21
medoid: GCF 009363535 1
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AAI clade 22
medoid: GCA 904374795 1
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AAI clade 23
medoid: GCA 903955385 1
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AAI clade 24
medoid: GCA 903887975 1
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AAI clade 25
medoid: GCA 902602655 1
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AAI clade 26
medoid: GCA 905235755 1
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AAI clade 27
medoid: Anaerovorax odorimutans DSM 5092 GCA 000426305 1
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AAI clade 28
medoid: GCA 903909555 1
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AAI clade 29
medoid: Marinomonas aquimarina GCA 900089755 1
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AAI clade 30
medoid: GCA 015061955 1
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AAI clade 31
medoid: GCA 000421065 1
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AAI clade 32
medoid: GCA 002438845 1
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AAI clade 33
medoid: GCA 003602665 1
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AAI clade 34
medoid: GCA 910585295 1
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AAI clade 35
medoid: Nocardioides iriomotensis GCA 004168035 1
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AAI clade 36
medoid: GCA 017608235 1
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AAI clade 37
medoid: GCF 004332155 1
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AAI clade 38
medoid: GCA 009712635 1
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AAI clade 39
medoid: GCA 903926605 1
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AAI clade 40
medoid: GCA 017645955 1
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AAI clade 41
medoid: GCA 016793015 1
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AAI clade 42
medoid: GCA 900538305 1
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AAI clade 43
medoid: GCA 001002765 1
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AAI clade 44
medoid: GCA 902559935 1
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AAI clade 45
medoid: GCA 011371455 1
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AAI clade 46
medoid: GCA 000435515 1
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AAI clade 47
medoid: Anaerostipes butyraticus GCA 016586355 1
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AAI clade 48
medoid: GCF 002835935 1
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AAI clade 49
medoid: miga PS19A RaymondF 2016 P20E90 bin 24
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AAI clade 50
medoid: GCA 002338255 1
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AAI clade 51
medoid: Haloprofundus salinisoli GCA 020097815 1
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AAI clade 52
medoid: GCA 900167925 1
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AAI clade 53
medoid: GCA 900550065 1
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AAI clade 54
medoid: GCA 002314915 1
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AAI clade 55
medoid: Rhizorhabdus dicambivorans GCA 002355275 1
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AAI clade 56
medoid: GCA 005882335 1
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AAI clade 57
medoid: GCA 011065225 1
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AAI clade 58
medoid: GCA 016781775 1
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AAI clade 59
medoid: GCA 002362595 1
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AAI clade 60
medoid: GCA 016214555 1
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AAI clade 61
medoid: GCF 014764505 1
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AAI clade 62
medoid: GCA 902623215 1
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AAI clade 63
medoid: GCA 003514205 1
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AAI clade 64
medoid: GCF 009707955 1
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AAI clade 65
medoid: GCF 000348745 1
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AAI clade 66
medoid: GCA 900772425 1
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AAI clade 67
medoid: GCF 003590645 1
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AAI clade 68
medoid: GCF 902506105 1
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AAI clade 69
medoid: GCF 013407275 1
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AAI clade 70
medoid: GCA 015494795 1
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AAI clade 71
medoid: GCA 016709995 1
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AAI clade 72
medoid: GCA 002493965 1
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AAI clade 73
medoid: GCA 009469665 1
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AAI clade 74
medoid: GCA 001799635 1
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AAI clade 75
medoid: GCA 016650235 1
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AAI clade 76
medoid: Ochrovirga pacifica GCA 000220525 2
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AAI clade 77
medoid: GCA 009903855 1
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AAI clade 78
medoid: GCA 019204045 1
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AAI clade 79
medoid: GCA 902783375 1
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AAI clade 80
medoid: GCF 000350105 1
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AAI clade 81
medoid: GCA 903901345 1
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AAI clade 82
medoid: GCA 015075425 1
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AAI clade 83
medoid: GCA 001508835 1
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AAI clade 84
medoid: GCA 017746715 1
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AAI clade 85
medoid: Nocardioides plantarum GCA 006346395 1
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AAI clade 86
medoid: GCA 017438285 1
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AAI clade 87
medoid: GCA 002712945 1
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AAI clade 88
medoid: GCF 002214625 1
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AAI clade 89
medoid: GCA 902773215 1
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AAI clade 90
medoid: GCA 002723385 1
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AAI clade 91
medoid: GCA 019113455 1
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AAI clade 92
medoid: GCA 016286935 1
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AAI clade 93
medoid: GCA 003566775 1