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: asm GCA 900155255 1
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AAI clade 2
medoid: asm GCA 003225555 1
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AAI clade 3
medoid: miga PS19A HMP 2012 SRS017439 bin 51
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AAI clade 4
medoid: miga BA16A LX33 339
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AAI clade 4-1
medoid: asm GCA 003818205 1
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AAI clade 4-2
medoid: asm GCA 002400765 1
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AAI clade 4-3
medoid: asm GCA 002402395 1
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AAI clade 4-4
medoid: asm GCA 002383605 1
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AAI clade 4-5
medoid: miga SW19B 10678 0020 idba bin 71
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AAI clade 4-6
medoid: asm GCA 002317135 1
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AAI clade 4-7
medoid: asm GCA 900319235 1
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AAI clade 4-8
medoid: asm GCA 002315625 1
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AAI clade 4-9
medoid: asm GCA 002402965 1
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AAI clade 4-10
medoid: miga BA16A LX33 339
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AAI clade 4-11
medoid: asm GCA 002362105 1
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AAI clade 4-12
medoid: asm GCA 002371265 1
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AAI clade 4-13
medoid: asm GCA 002372395 1
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AAI clade 4-14
medoid: asm GCA 002393195 1
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AAI clade 4-15
medoid: asm GCA 002380425 1
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AAI clade 4-16
medoid: asm GCA 002408065 1
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AAI clade 4-17
medoid: asm GCA 002428105 1
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AAI clade 4-18
medoid: miga PS19A BackhedF 2015 SID179 4M bin 6
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AAI clade 4-19
medoid: asm GCA 002427105 1
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AAI clade 4-20
medoid: miga PS19A BackhedF 2015 SID544 M bin 50
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AAI clade 4-21
medoid: asm GCA 002412935 1
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AAI clade 4-22
medoid: asm GCA 002426885 1
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AAI clade 4-23
medoid: asm GCA 002470645 1
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AAI clade 4-24
medoid: asm GCA 002478515 1
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AAI clade 4-25
medoid: asm GCA 900314145 1
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AAI clade 4-26
medoid: miga SW19B 10675 0018 idba bin 114
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AAI clade 4-27
medoid: miga SW19B 10675 0039 idba bin 75
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AAI clade 4-28
medoid: miga SW19B 10675 0013 idba bin 12
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AAI clade 4-29
medoid: asm GCA 002373285 1
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AAI clade 4-30
medoid: miga PS19A ZeeviD 2015 PNP Main 690 megahit bin 3
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AAI clade 4-31
medoid: asm GCA 002436725 1
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AAI clade 4-32
medoid: miga PS19A LiSS 2016 FAT 023 22 14 0 bin 68
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AAI clade 4-33
medoid: miga SW19B 10677 0017 idba bin 150
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AAI clade 4-34
medoid: asm GCA 002481345 1
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AAI clade 4-35
medoid: miga BA16A 33 10N
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AAI clade 4-36
medoid: asm GCA 002482045 1
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AAI clade 4-37
medoid: asm GCA 900315635 1
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AAI clade 4-38
medoid: miga SW19B 10678 0031 idba bin 116
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AAI clade 4-39
medoid: miga SW19B 10674 0004 idba bin 119
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AAI clade 4-40
medoid: miga SW19B 10678 0033 idba bin 29
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AAI clade 4-41
medoid: miga PS19A CM cf CF TNFC057IS t1M15 bin 1
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AAI clade 4-42
medoid: asm GCA 002436705 1
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AAI clade 4-43
medoid: asm GCA 002342585 1
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AAI clade 4-44
medoid: asm GCA 002353585 1
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AAI clade 4-45
medoid: asm GCA 900318305 1
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AAI clade 4-46
medoid: asm GCA 002392805 1
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AAI clade 4-47
medoid: miga SW19B 10678 0028 idba bin 142
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AAI clade 4-48
medoid: miga PS19A CosteaPI 2017 SID713B002 11 90 0 bin 87
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AAI clade 4-49
medoid: miga PS19A CosteaPI 2017 SID713A066 11 0 0 bin 48
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AAI clade 4-49-1
medoid: miga PS19A CosteaPI 2017 SID713A066 11 0 0 bin 48
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AAI clade 4-49-1-1
medoid: miga PS19A CosteaPI 2017 SID713A066 11 0 0 bin 48
8 datasets: asm GCA 002431845 1 (AAI: 73.68%), miga PS19A BritoIL 2016 M2 39 ST bin 47 (AAI: 72.5%), miga PS19A BritoIL 2016 W1 33 ST bin 51 (AAI: 78.09%), miga PS19A BritoIL 2016 W1 9 ST bin 43 (AAI: 73.46%), miga PS19A CosteaPI 2017 SID713A066 11 0 0 bin 48 (AAI: 100.0%), miga PS19A HeQ 2017 SZAXPI029554 33 bin 64 (AAI: 92.15%), miga PS19A LiJ 2014 MH0261 bin 21 (AAI: 75.25%), and miga PS19A ZeeviD 2015 PNP Main 790 megahit bin 8 (AAI: 68.94%)
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AAI clade 4-49-1-2
medoid: miga PS19A HMP 2012 SRS049959 bin 39
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AAI clade 4-49-1-1
medoid: miga PS19A CosteaPI 2017 SID713A066 11 0 0 bin 48
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AAI clade 4-49-2
medoid: miga SW19B 10677 0054 idba bin 195
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AAI clade 4-49-3
medoid: miga PS19A CosteaPI 2017 pluto1 11 30 0 bin 50
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AAI clade 4-49-4
medoid: miga PS19A LiJ 2014 O2 UC35 1 bin 26
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AAI clade 4-49-1
medoid: miga PS19A CosteaPI 2017 SID713A066 11 0 0 bin 48
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AAI clade 4-50
medoid: asm GCA 002451695 1
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AAI clade 4-51
medoid: miga SW19B 10678 0013 idba bin 95
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AAI clade 4-52
medoid: miga SW19B 10677 0002 idba bin 84
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AAI clade 4-53
medoid: asm GCA 002427965 1
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AAI clade 4-54
medoid: asm GCA 002429115 1
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AAI clade 4-55
medoid: asm GCA 002349325 1
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AAI clade 4-56
medoid: miga SW19B 10676 0026 idba bin 121
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AAI clade 4-57
medoid: miga SW19B 10675 0032 idba bin 18
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AAI clade 4-58
medoid: miga SW19B 10677 0028 idba bin 45
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AAI clade 4-59
medoid: miga SW19B 10675 0041 idba bin 30
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AAI clade 4-60
medoid: asm GCA 900321475 1
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AAI clade 4-61
medoid: miga PS19A BritoIL 2016 W3 22 SA bin 33
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AAI clade 4-62
medoid: miga SW19B 10675 0017 idba bin 58
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AAI clade 4-63
medoid: asm GCA 003563525 1
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AAI clade 4-64
medoid: asm GCA 003645785 1
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AAI clade 4-65
medoid: asm GCA 003648455 1
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AAI clade 4-66
medoid: miga PS19A HMP 2012 SRS023958 bin 23
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AAI clade 4-67
medoid: miga PS19A HMP 2012 SRS019128 bin 45
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AAI clade 4-68
medoid: miga PS19A HMP 2012 SRS047219 bin 27
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AAI clade 4-69
medoid: miga SW19B 10572 0013 idba bin 2
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AAI clade 4-70
medoid: miga SW19B 10676 0048 idba bin 13
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AAI clade 4-71
medoid: miga SW19B 10675 0029 idba bin 82
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AAI clade 4-72
medoid: miga SW19B 10676 min2k bin 4046
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AAI clade 4-73
medoid: miga SW19B 10677 0008 idba bin 148
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AAI clade 4-74
medoid: miga SW19B 10677 0030 idba bin 19
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AAI clade 4-75
medoid: miga SW19B 10676 0004 idba bin 39
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AAI clade 4-76
medoid: miga PS19A FengQ 2015 SID31878 bin 68
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AAI clade 4-77
medoid: miga PS19A ZeeviD 2015 PNP Main 247 megahit bin 41
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AAI clade 4-78
medoid: miga PS19A LoombaR 2017 SID1022 aav bin 20
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AAI clade 4-79
medoid: miga PS19A HMP 2012 SRS022536 bin 50
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AAI clade 4-80
medoid: miga PS19A HMP 2012 SRS014690 bin 33
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AAI clade 4-81
medoid: miga PS19A CM periimplantitis SP 305SPI T016 bin 1
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AAI clade 4-82
medoid: miga PS19A CM periimplantitis SP 281SPI T016 bin 16
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AAI clade 4-83
medoid: miga PS19A CM periimplantitis SP 321SPI T016 bin 10
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AAI clade 4-84
medoid: miga PS19A CM periimplantitis SP 384SPI T016 bin 6
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AAI clade 4-85
medoid: miga PS19A DavidLA 2015 LD Run1 09 bin 10
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AAI clade 4-86
medoid: miga PS19A VincentC 2016 MM080 megahit bin 11
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AAI clade 4-87
medoid: miga PS19A HMP 2012 SRS019124 bin 4
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AAI clade 4-88
medoid: miga PS19A VincentC 2016 MM089 1 megahit bin 18
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AAI clade 4-89
medoid: miga PS19A HMP 2012 SRS058053 bin 5
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AAI clade 4-90
medoid: miga PS19A HMP 2012 SRS075404 bin 1
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AAI clade 4-91
medoid: miga PS19A HMP 2012 SRS049389 bin 18
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AAI clade 4-92
medoid: miga PS19A LiJ 2014 V1 FI17 bin 55
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AAI clade 4-93
medoid: miga PS19A VincentC 2016 MM061 megahit bin 27
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AAI clade 4-1
medoid: asm GCA 003818205 1
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AAI clade 5
medoid: asm GCA 002344625 1
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AAI clade 6
medoid: miga ZQ19A BG 240
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AAI clade 7
medoid: asm GCA 003220495 1
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AAI clade 8
medoid: asm GCA 001768045 1
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AAI clade 9
medoid: miga ZQ19A BG 239
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AAI clade 10
medoid: asm GCA 002508675 1
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AAI clade 11
medoid: miga PU18A 2609459660
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AAI clade 12
medoid: asm GCA 003662385 1
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AAI clade 13
medoid: asm GCA 002869845 2
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AAI clade 14
medoid: miga ZQ19A BG 334
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AAI clade 15
medoid: miga PS19A CM periimplantitis SP 502SPI T016 bin 11
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AAI clade 16
medoid: asm GCA 003218215 1
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AAI clade 17
medoid: gb PMWP00000000
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AAI clade 18
medoid: miga PS19A FerrettiP 2018 CA C10052MS2906SK t0M15 bin 9
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AAI clade 19
medoid: miga ZQ19A BG 192
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AAI clade 20
medoid: asm GCA 003222055 1
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AAI clade 21
medoid: asm GCA 002304435 1
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AAI clade 22
medoid: gb PMOA00000000
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AAI clade 23
medoid: asm GCA 001180165 1
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AAI clade 24
medoid: asm GCA 900155275 1
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AAI clade 25
medoid: asm GCA 003562785 1
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AAI clade 26
medoid: miga PS19A FengQ 2015 SID531281 bin 23
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AAI clade 27
medoid: miga PS19A XieH 2016 YSZC12003 37277 bin 27
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AAI clade 28
medoid: miga PS19A CM madagascar A27 02 1FE bin 15
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AAI clade 29
medoid: asm GCA 900317055 1
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AAI clade 30
medoid: gb MERW00000000
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AAI clade 31
medoid: miga PS19A HMP 2012 SRS011126 bin 64
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AAI clade 32
medoid: asm GCA 002320005 1
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AAI clade 33
medoid: asm GCA 900318825 1
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AAI clade 34
medoid: miga BA16A 35 5E
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AAI clade 35
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES36 bin 65
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AAI clade 36
medoid: asm GCA 001604115 1
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AAI clade 37
medoid: miga SW19B 10676 0045 idba bin 101
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AAI clade 38
medoid: miga BA16A 35 12A
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AAI clade 39
medoid: miga SW19B 10678 0025 idba bin 69
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AAI clade 40
medoid: asm GCA 002372655 1
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AAI clade 41
medoid: miga ZQ19A BG 670
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AAI clade 42
medoid: asm GCA 002732585 1
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AAI clade 43
medoid: gb MFTG00000000
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AAI clade 44
medoid: asm GCF 000217915 1
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AAI clade 45
medoid: miga SW19B 10676 0006 idba bin 64
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AAI clade 46
medoid: asm GCA 005503595 1
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AAI clade 47
medoid: miga PS19A BritoIL 2016 W1 5 ST bin 1
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AAI clade 48
medoid: miga PS19A ZellerG 2014 CCIS38765456ST 20 0 bin 96
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AAI clade 49
medoid: asm GCA 002787475 1
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AAI clade 50
medoid: asm GCA 002411275 1
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AAI clade 51
medoid: asm GCA 001003965 1
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AAI clade 52
medoid: asm GCA 900315795 1
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AAI clade 53
medoid: asm GCA 002782265 1
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AAI clade 54
medoid: asm GCA 002506275 1
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AAI clade 55
medoid: asm GCA 002501805 1
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AAI clade 56
medoid: miga PS19A HMP 2012 SRS024289 bin 35
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AAI clade 57
medoid: asm GCA 002362915 1
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AAI clade 58
medoid: miga PS19A FerrettiP 2018 CA C10031IS2534SA t2M15 bin 2
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AAI clade 59
medoid: asm GCA 002478295 1
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AAI clade 60
medoid: miga PS19A HMP 2012 SRS019127 bin 5
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AAI clade 61
medoid: asm GCA 002373045 1
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AAI clade 62
medoid: gb PLQF00000000
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AAI clade 63
medoid: asm GCA 002352835 1
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AAI clade 64
medoid: miga PS19A FengQ 2015 SID31700 bin 66
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AAI clade 65
medoid: miga PS19A FerrettiP 2018 CA C10052MS2903SA t0M16 bin 3
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AAI clade 66
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES6 bin 23
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AAI clade 67
medoid: miga SW19B 10678 0003 idba bin 42
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AAI clade 68
medoid: miga PS19A BritoIL 2016 M1 3 ST bin 29
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AAI clade 69
medoid: miga PS19A ZeeviD 2015 PNP Main 426 megahit bin 27
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AAI clade 70
medoid: asm GCA 002369075 1
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AAI clade 71
medoid: miga SW19B 10675 0017 idba bin 79
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AAI clade 72
medoid: miga PS19A CM madagascar V53 02 1FE bin 36
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AAI clade 73
medoid: miga PS19A RampelliS 2015 H1 bin 24
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AAI clade 74
medoid: miga PS19A HMP 2012 SRS024138 bin 26
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AAI clade 75
medoid: asm GCA 002294525 1
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AAI clade 76
medoid: miga PS19A BritoIL 2016 WL 32 ST bin 18
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AAI clade 77
medoid: miga PS19A LeChatelierE 2013 MH0333 bin 59
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AAI clade 78
medoid: miga SW19B 10677 0035 idba bin 49
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AAI clade 79
medoid: miga PS19A XieH 2016 YSZC12003 37293 bin 71
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AAI clade 80
medoid: miga PS19A ZeeviD 2015 PNP Main 401 megahit bin 4
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AAI clade 81
medoid: miga PS19A OhJ 2014 MET0095 bin 1
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AAI clade 82
medoid: miga PS19A BritoIL 2016 M1 59 ST bin 42
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AAI clade 83
medoid: miga PS19A VincentC 2016 MM027 2 megahit bin 14
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AAI clade 84
medoid: asm GCA 003020965 1
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AAI clade 85
medoid: miga PS19A CosteaPI 2017 daisy 11 386 0 bin 19
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AAI clade 86
medoid: miga PS19A HMP 2012 SRS023595 bin 63
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AAI clade 87
medoid: asm GCA 001701225 1
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AAI clade 88
medoid: miga SW19B 10676 0021 idba bin 107
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AAI clade 89
medoid: miga SW19B 10678 0026 idba bin 16
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AAI clade 90
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES2 bin 43
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AAI clade 91
medoid: miga PS19A VogtmannE 2016 MMRS43563715ST 27 0 0 bin 27
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AAI clade 92
medoid: miga SW19B 10674 0007 idba bin 173
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AAI clade 93
medoid: miga PS19A VatanenT 2016 G80490 bin 1