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 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 35-1
medoid: asm GCA 002385605 1
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AAI clade 35-2
medoid: asm GCA 002431905 1
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AAI clade 35-3
medoid: miga PS19A HMP 2012 SRS022609 bin 47
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AAI clade 35-4
medoid: asm GCA 900322215 1
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AAI clade 35-5
medoid: miga SW19B 10674 min2k bin 1904
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AAI clade 35-6
medoid: asm GCA 002349735 1
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AAI clade 35-7
medoid: miga SW19B 10677 0043 idba bin 68
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AAI clade 35-8
medoid: asm GCA 002372775 1
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AAI clade 35-9
medoid: asm GCA 002385905 1
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AAI clade 35-10
medoid: asm GCA 002406115 1
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AAI clade 35-11
medoid: asm GCA 002405915 1
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AAI clade 35-12
medoid: asm GCA 002405695 1
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AAI clade 35-13
medoid: asm GCA 002405615 1
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AAI clade 35-14
medoid: asm GCA 002424095 1
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AAI clade 35-15
medoid: miga PS19A XieH 2016 YSZC12003 35980 bin 98
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AAI clade 35-16
medoid: asm GCA 002437645 1
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AAI clade 35-17
medoid: miga PS19A LeChatelierE 2013 MH0409 bin 32
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AAI clade 35-18
medoid: miga PS19A LiJ 2014 MH0340 bin 29
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AAI clade 35-19
medoid: asm GCA 002476605 1
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AAI clade 35-20
medoid: asm GCA 002477805 1
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AAI clade 35-21
medoid: miga SW19B 10677 min2k bin 3833
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AAI clade 35-22
medoid: miga PS19A CosteaPI 2017 SID713B066 11 0 0 bin 56
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AAI clade 35-23
medoid: miga PS19A LeChatelierE 2013 MH0276 bin 5
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AAI clade 35-24
medoid: asm GCA 002309415 1
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AAI clade 35-25
medoid: miga SW19B 10677 0021 idba bin 153
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AAI clade 35-26
medoid: miga SW19B 10677 min2k bin 302
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AAI clade 35-27
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES36 bin 65
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AAI clade 35-28
medoid: miga PS19A ZeeviD 2015 PNP Main 131 megahit bin 46
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AAI clade 35-29
medoid: miga SW19B 10677 min2k bin 570
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AAI clade 35-30
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES49 bin 45
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AAI clade 35-31
medoid: miga SW19B 10572 0039 idba bin 47
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AAI clade 35-32
medoid: miga PS19A LeChatelierE 2013 MH0126 bin 17
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AAI clade 35-33
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES40 bin 52
4 datasets: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES10 bin 43 (AAI: 70.65%), miga PS19A Bengtsson PalmeJ 2015 TRAVELRES40 bin 52 (AAI: 100.0%), miga PS19A HMP 2012 SRS023914 bin 28 (AAI: 69.18%), and miga PS19A LiJ 2014 MH0222 bin 61 (AAI: 64.02%)
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AAI clade 35-34
medoid: miga PS19A XieH 2016 YSZC12003 37315 bin 114
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AAI clade 35-35
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES1 bin 29
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AAI clade 35-36
medoid: miga PS19A CosteaPI 2017 SID713B072 11 0 0 bin 50
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AAI clade 35-37
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES40 bin 117
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AAI clade 35-38
medoid: miga PS19A FerrettiP 2018 CA C10019IS2318FE t1M15 bin 54
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AAI clade 35-39
medoid: miga PS19A QinN 2014 LD 35 bin 25
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AAI clade 35-40
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES9 bin 65
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AAI clade 35-41
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES9 bin 6
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AAI clade 35-42
medoid: miga PS19A BritoIL 2016 M1 15 ST bin 37
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AAI clade 35-43
medoid: miga PS19A LeChatelierE 2013 MH0224 bin 20
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AAI clade 35-44
medoid: miga PS19A LeChatelierE 2013 MH0318 bin 4
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AAI clade 35-45
medoid: miga PS19A LiJ 2014 MH0340 bin 34
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AAI clade 35-46
medoid: miga PS19A BritoIL 2016 M1 16 ST bin 117
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AAI clade 35-47
medoid: miga PS19A NielsenHB 2014 MH0129 bin 22
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AAI clade 35-48
medoid: miga PS19A ZeeviD 2015 PNP Main 283 megahit bin 15
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AAI clade 35-49
medoid: miga PS19A CosteaPI 2017 SID713A039 11 0 0 bin 82
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AAI clade 35-50
medoid: miga PS19A CosteaPI 2017 pluto1 11 7 0 bin 40
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AAI clade 35-51
medoid: miga PS19A BritoIL 2016 W2 61 ST bin 61
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AAI clade 35-52
medoid: miga PS19A ZeeviD 2015 PNP Main 80 megahit bin 51
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AAI clade 35-53
medoid: miga PS19A BritoIL 2016 W1 3 ST bin 12
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AAI clade 35-54
medoid: miga PS19A XieH 2016 YSZC12003 36667 bin 25
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AAI clade 35-55
medoid: miga PS19A CM madagascar V50 02 1FE bin 30
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AAI clade 35-56
medoid: miga PS19A CosteaPI 2017 SID713B072 11 0 0 bin 60
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AAI clade 35-57
medoid: miga PS19A CosteaPI 2017 SID713B072 11 90 0 bin 37
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AAI clade 35-58
medoid: miga PS19A RampelliS 2015 H24 bin 39
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AAI clade 35-59
medoid: miga PS19A HMP 2012 SRS050752 bin 36
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AAI clade 35-60
medoid: miga PS19A XieH 2016 YSZC12003 35387 bin 32
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AAI clade 35-61
medoid: miga PS19A NielsenHB 2014 V1 UC17 2 bin 4
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AAI clade 35-62
medoid: miga PS19A NielsenHB 2014 MH0143 bin 43
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AAI clade 35-63
medoid: miga PS19A LeChatelierE 2013 MH0454 bin 86
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AAI clade 35-64
medoid: miga PS19A LiJ 2014 MH0281 bin 38
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AAI clade 35-65
medoid: miga PS19A ZeeviD 2015 PNP Validation 38 megahit bin 3
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AAI clade 35-66
medoid: miga PS19A LiJ 2014 V1 FI36 bin 91
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AAI clade 35-67
medoid: miga PS19A XieH 2016 YSZC12003 36000 bin 97
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AAI clade 35-68
medoid: miga PS19A XieH 2016 YSZC12003 35561 bin 85
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AAI clade 35-69
medoid: miga PS19A ZeeviD 2015 PNP Main 46 megahit bin 44
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AAI clade 35-1
medoid: asm GCA 002385605 1
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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