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 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 73-1
medoid: miga SW19B 10674 0021 idba bin 50
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AAI clade 73-2
medoid: asm GCA 002329385 1
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AAI clade 73-3
medoid: miga PS19A ZeeviD 2015 PNP Main 481 megahit bin 33
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AAI clade 73-4
medoid: asm GCA 002339425 1
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AAI clade 73-5
medoid: asm GCA 002372215 1
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AAI clade 73-6
medoid: miga PS19A LiJ 2017 H3M516804 bin 42
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AAI clade 73-7
medoid: asm GCA 002311665 1
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AAI clade 73-8
medoid: miga PS19A CM madagascar A28 02 1FE bin 69
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AAI clade 73-9
medoid: miga SW19B 10677 min2k bin 2476
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AAI clade 73-10
medoid: asm GCA 900314255 1
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AAI clade 73-11
medoid: miga PS19A LiJ 2014 MH0303 bin 35
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AAI clade 73-12
medoid: miga PS19A RampelliS 2015 H1 bin 24
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AAI clade 73-13
medoid: miga SW19B 10677 min2k bin 3140
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AAI clade 73-14
medoid: miga PS19A BackhedF 2015 SID42 4M bin 11
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AAI clade 73-15
medoid: miga SW19B 10677 0027 idba bin 96
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AAI clade 73-16
medoid: miga SW19B 10676 0037 idba bin 67
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AAI clade 73-17
medoid: asm GCA 002414075 1
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AAI clade 73-18
medoid: miga PS19A BritoIL 2016 M1 65 ST bin 2
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AAI clade 73-19
medoid: asm GCA 900317555 1
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AAI clade 73-20
medoid: miga PS19A XieH 2016 YSZC12003 35712 bin 43
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AAI clade 73-21
medoid: miga SW19B 10676 0017 idba bin 142
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AAI clade 73-22
medoid: asm GCA 002361735 1
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AAI clade 73-23
medoid: miga SW19B 10678 0047 idba bin 72
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AAI clade 73-24
medoid: miga PS19A VogtmannE 2016 MMRS40913371ST 27 0 0 bin 18
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AAI clade 73-25
medoid: miga SW19B 10676 0042 idba bin 130
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AAI clade 73-25-1
medoid: asm GCA 002358875 1
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AAI clade 73-25-2
medoid: miga SW19B 10676 0026 idba bin 46
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AAI clade 73-25-3
medoid: miga SW19B 10676 0042 idba bin 130
5 datasets: asm GCA 002390025 1 (AAI: 76.78%), asm GCA 900318375 1 (AAI: 76.21%), miga SW19B 10676 0042 idba bin 130 (AAI: 100.0%), miga SW19B 10676 0047 idba bin 115 (AAI: 72.4%), and miga SW19B 10572 0009 idba bin 1 (AAI: 78.2%)
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AAI clade 73-25-4
medoid: miga SW19B 10678 0016 idba bin 7
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AAI clade 73-25-1
medoid: asm GCA 002358875 1
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AAI clade 73-26
medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES30 bin 101
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AAI clade 73-27
medoid: asm GCA 900320345 1
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AAI clade 73-28
medoid: asm GCA 002448395 1
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AAI clade 73-29
medoid: miga SW19B 10674 0003 idba bin 9
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AAI clade 73-30
medoid: miga SW19B 10674 0022 idba bin 38
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AAI clade 73-31
medoid: miga SW19B 10677 0006 idba bin 55
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AAI clade 73-32
medoid: asm GCA 002494135 1
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AAI clade 73-33
medoid: miga SW19B 10677 min2k bin 2145
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AAI clade 73-34
medoid: miga SW19B 10676 0036 idba bin 65
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AAI clade 73-35
medoid: miga SW19B 10677 min2k bin 1732
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AAI clade 73-36
medoid: miga SW19B 10677 0029 idba bin 176
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AAI clade 73-37
medoid: miga SW19B 10677 0027 idba bin 33
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AAI clade 73-38
medoid: asm GCA 002394165 1
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AAI clade 73-39
medoid: miga PS19A CM madagascar A94 02 1FE bin 73
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AAI clade 73-40
medoid: miga SW19B 10674 min2k bin 226
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AAI clade 73-41
medoid: miga PS19A VatanenT 2016 G80284 bin 14
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AAI clade 73-42
medoid: asm GCA 002449995 1
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AAI clade 73-43
medoid: asm GCA 002490775 1
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AAI clade 73-44
medoid: miga PS19A LeChatelierE 2013 MH0419 bin 21
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AAI clade 73-45
medoid: asm GCA 002481215 1
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AAI clade 73-46
medoid: miga PS19A SchirmerM 2016 G89027 bin 28
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AAI clade 73-47
medoid: miga SW19B 10678 min2k bin 1803
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AAI clade 73-48
medoid: asm GCA 002293475 1
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AAI clade 73-49
medoid: miga PS19A RampelliS 2015 H17 bin 87
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AAI clade 73-50
medoid: miga SW19B 10676 0013 idba bin 40
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AAI clade 73-51
medoid: asm GCA 900321855 1
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AAI clade 73-52
medoid: miga SW19B 10677 0023 idba bin 237
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AAI clade 73-53
medoid: miga SW19B 10675 min2k bin 1145
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AAI clade 73-54
medoid: miga SW19B 10676 0048 idba bin 15
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AAI clade 73-55
medoid: asm GCA 900317585 1
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AAI clade 73-56
medoid: miga SW19B 10677 0051 idba bin 67
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AAI clade 73-57
medoid: miga SW19B 10677 min2k bin 4689
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AAI clade 73-58
medoid: miga PS19A WenC 2017 N036 bin 27
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AAI clade 73-59
medoid: miga SW19B 10677 min2k bin 2462
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AAI clade 73-60
medoid: miga SW19B 10572 0012 idba bin 65
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AAI clade 73-61
medoid: miga SW19B 10674 min2k bin 2744
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AAI clade 73-62
medoid: miga SW19B 10675 min2k bin 3785
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AAI clade 73-63
medoid: miga SW19B 10677 min2k bin 4359
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AAI clade 73-64
medoid: miga PS19A CosteaPI 2017 SID713A051 11 0 0 bin 58
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AAI clade 73-65
medoid: miga SW19B 10674 min2k bin 3329
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AAI clade 73-66
medoid: miga PS19A KarlssonFH 2013 S144 bin 49
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AAI clade 73-67
medoid: miga SW19B 10676 min2k bin 887
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AAI clade 73-68
medoid: miga SW19B 10677 0009 idba bin 200
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AAI clade 73-69
medoid: miga PS19A BritoIL 2016 W2 11 ST bin 30
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AAI clade 73-70
medoid: miga PS19A BackhedF 2015 SID566 M bin 14
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AAI clade 73-71
medoid: miga PS19A BackhedF 2015 SID87 12M bin 15
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AAI clade 73-72
medoid: miga PS19A HMP 2012 SRS019389 bin 3
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AAI clade 73-73
medoid: miga PS19A ChengpingW 2017 AS19raw bin 38
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AAI clade 73-74
medoid: miga PS19A FengQ 2015 SID531775 bin 38
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AAI clade 73-75
medoid: miga PS19A HeQ 2017 SZAXPI029598 166 bin 26
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AAI clade 73-76
medoid: miga PS19A FengQ 2015 SID531775 bin 60
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AAI clade 73-77
medoid: miga PS19A HMP 2012 SRS063932 bin 82
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AAI clade 73-78
medoid: miga PS19A LoombaR 2017 SID1050 bax bin 31
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AAI clade 73-79
medoid: miga PS19A XieH 2016 YSZC12003 36058 bin 33
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AAI clade 73-80
medoid: miga PS19A VincentC 2016 MM049 1 megahit bin 17
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AAI clade 73-1
medoid: miga SW19B 10674 0021 idba bin 50
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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