AAI-based medoid clustering

The AAI clusters provide a good overview of the above-species structure of the datasets and facilitate taxonomic classification.

  • AAI clade 1 medoid: asm GCA 900155255 1
  • AAI clade 2 medoid: asm GCA 003225555 1
  • AAI clade 3 medoid: miga PS19A HMP 2012 SRS017439 bin 51
  • AAI clade 4 medoid: miga BA16A LX33 339
  • AAI clade 5 medoid: asm GCA 002344625 1
  • AAI clade 6 medoid: miga ZQ19A BG 240
  • AAI clade 7 medoid: asm GCA 003220495 1
  • AAI clade 8 medoid: asm GCA 001768045 1
  • AAI clade 9 medoid: miga ZQ19A BG 239
  • AAI clade 10 medoid: asm GCA 002508675 1
  • AAI clade 11 medoid: miga PU18A 2609459660
  • AAI clade 12 medoid: asm GCA 003662385 1
  • AAI clade 13 medoid: asm GCA 002869845 2
  • AAI clade 14 medoid: miga ZQ19A BG 334
  • AAI clade 15 medoid: miga PS19A CM periimplantitis SP 502SPI T016 bin 11
  • AAI clade 16 medoid: asm GCA 003218215 1
  • AAI clade 17 medoid: gb PMWP00000000
  • AAI clade 18 medoid: miga PS19A FerrettiP 2018 CA C10052MS2906SK t0M15 bin 9
  • AAI clade 19 medoid: miga ZQ19A BG 192
  • AAI clade 20 medoid: asm GCA 003222055 1
  • AAI clade 21 medoid: asm GCA 002304435 1
  • AAI clade 22 medoid: gb PMOA00000000
  • AAI clade 23 medoid: asm GCA 001180165 1
  • AAI clade 24 medoid: asm GCA 900155275 1
  • AAI clade 25 medoid: asm GCA 003562785 1
  • AAI clade 26 medoid: miga PS19A FengQ 2015 SID531281 bin 23
  • AAI clade 27 medoid: miga PS19A XieH 2016 YSZC12003 37277 bin 27
  • AAI clade 28 medoid: miga PS19A CM madagascar A27 02 1FE bin 15
  • AAI clade 29 medoid: asm GCA 900317055 1
  • AAI clade 30 medoid: gb MERW00000000
  • AAI clade 31 medoid: miga PS19A HMP 2012 SRS011126 bin 64
  • AAI clade 32 medoid: asm GCA 002320005 1
  • AAI clade 33 medoid: asm GCA 900318825 1
  • AAI clade 34 medoid: miga BA16A 35 5E
  • AAI clade 35 medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES36 bin 65
  • AAI clade 36 medoid: asm GCA 001604115 1
  • AAI clade 37 medoid: miga SW19B 10676 0045 idba bin 101
  • AAI clade 38 medoid: miga BA16A 35 12A
  • AAI clade 39 medoid: miga SW19B 10678 0025 idba bin 69
  • AAI clade 40 medoid: asm GCA 002372655 1
  • AAI clade 41 medoid: miga ZQ19A BG 670
  • AAI clade 42 medoid: asm GCA 002732585 1
  • AAI clade 43 medoid: gb MFTG00000000
  • AAI clade 44 medoid: asm GCF 000217915 1
  • AAI clade 45 medoid: miga SW19B 10676 0006 idba bin 64
  • AAI clade 46 medoid: asm GCA 005503595 1
  • AAI clade 47 medoid: miga PS19A BritoIL 2016 W1 5 ST bin 1
  • AAI clade 48 medoid: miga PS19A ZellerG 2014 CCIS38765456ST 20 0 bin 96
  • AAI clade 49 medoid: asm GCA 002787475 1
  • AAI clade 50 medoid: asm GCA 002411275 1
  • AAI clade 51 medoid: asm GCA 001003965 1
  • AAI clade 52 medoid: asm GCA 900315795 1
  • AAI clade 53 medoid: asm GCA 002782265 1
  • AAI clade 54 medoid: asm GCA 002506275 1
  • AAI clade 55 medoid: asm GCA 002501805 1
  • AAI clade 56 medoid: miga PS19A HMP 2012 SRS024289 bin 35
  • AAI clade 57 medoid: asm GCA 002362915 1
  • AAI clade 58 medoid: miga PS19A FerrettiP 2018 CA C10031IS2534SA t2M15 bin 2
  • AAI clade 59 medoid: asm GCA 002478295 1
  • AAI clade 60 medoid: miga PS19A HMP 2012 SRS019127 bin 5
  • AAI clade 61 medoid: asm GCA 002373045 1
  • AAI clade 62 medoid: gb PLQF00000000
  • AAI clade 63 medoid: asm GCA 002352835 1
  • AAI clade 64 medoid: miga PS19A FengQ 2015 SID31700 bin 66
  • AAI clade 65 medoid: miga PS19A FerrettiP 2018 CA C10052MS2903SA t0M16 bin 3
  • AAI clade 66 medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES6 bin 23
  • AAI clade 67 medoid: miga SW19B 10678 0003 idba bin 42
  • AAI clade 68 medoid: miga PS19A BritoIL 2016 M1 3 ST bin 29
  • AAI clade 69 medoid: miga PS19A ZeeviD 2015 PNP Main 426 megahit bin 27
  • AAI clade 70 medoid: asm GCA 002369075 1
  • AAI clade 71 medoid: miga SW19B 10675 0017 idba bin 79
  • AAI clade 72 medoid: miga PS19A CM madagascar V53 02 1FE bin 36
  • AAI clade 73 medoid: miga PS19A RampelliS 2015 H1 bin 24
  • AAI clade 74 medoid: miga PS19A HMP 2012 SRS024138 bin 26
  • AAI clade 75 medoid: asm GCA 002294525 1
  • AAI clade 76 medoid: miga PS19A BritoIL 2016 WL 32 ST bin 18
  • AAI clade 77 medoid: miga PS19A LeChatelierE 2013 MH0333 bin 59
  • AAI clade 78 medoid: miga SW19B 10677 0035 idba bin 49
  • AAI clade 79 medoid: miga PS19A XieH 2016 YSZC12003 37293 bin 71
  • AAI clade 80 medoid: miga PS19A ZeeviD 2015 PNP Main 401 megahit bin 4
  • AAI clade 81 medoid: miga PS19A OhJ 2014 MET0095 bin 1
  • AAI clade 82 medoid: miga PS19A BritoIL 2016 M1 59 ST bin 42
  • AAI clade 83 medoid: miga PS19A VincentC 2016 MM027 2 megahit bin 14
  • AAI clade 84 medoid: asm GCA 003020965 1
  • AAI clade 85 medoid: miga PS19A CosteaPI 2017 daisy 11 386 0 bin 19
  • AAI clade 86 medoid: miga PS19A HMP 2012 SRS023595 bin 63
  • AAI clade 87 medoid: asm GCA 001701225 1
    • AAI clade 87-1 medoid: miga SW19B 10677 min2k bin 1638
    • AAI clade 87-2 medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES12 bin 114
    • AAI clade 87-3 medoid: miga PS19A XieH 2016 YSZC12003 35723 bin 77
    • AAI clade 87-4 medoid: miga PS19A HMP 2012 SRS011084 bin 15
    • AAI clade 87-5 medoid: asm GCA 001689405 1
      3 datasets: asm GCA 002358425 1 (AAI: 87.35%), asm GCA 002491405 1 (AAI: 70.13%), and asm GCA 001689405 1 (AAI: 100.0%)
    • AAI clade 87-6 medoid: miga PS19A CM madagascar A90 04 1FE bin 56
    • AAI clade 87-7 medoid: asm GCA 002404675 1
    • AAI clade 87-8 medoid: miga PS19A LeChatelierE 2013 MH0415 bin 3
    • AAI clade 87-9 medoid: miga PS19A ZeeviD 2015 PNP Main 481 megahit bin 45
    • AAI clade 87-10 medoid: asm GCA 001701225 1
    • AAI clade 87-11 medoid: miga PS19A HMP 2012 SRS011134 bin 18
    • AAI clade 87-12 medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES11 bin 144
    • AAI clade 87-13 medoid: miga PS19A RaymondF 2016 P7C90 bin 6
    • AAI clade 87-14 medoid: asm GCA 002493245 1
    • AAI clade 87-15 medoid: asm GCA 002493125 1
    • AAI clade 87-16 medoid: miga PS19A ZellerG 2014 CCMD42428553ST 21 0 bin 37
    • AAI clade 87-17 medoid: asm GCA 002491945 1
    • AAI clade 87-18 medoid: miga PS19A RaymondF 2016 P7C0 bin 2
    • AAI clade 87-19 medoid: asm GCA 002491805 1
    • AAI clade 87-20 medoid: asm GCA 002491785 1
    • AAI clade 87-21 medoid: asm GCA 002491345 1
    • AAI clade 87-22 medoid: miga PS19A HMP 2012 SRS011134 bin 25
    • AAI clade 87-23 medoid: asm GCA 002491165 1
    • AAI clade 87-24 medoid: asm GCA 002490725 1
    • AAI clade 87-25 medoid: asm GCA 002473395 1
    • AAI clade 87-26 medoid: asm GCA 001701105 1
    • AAI clade 87-27 medoid: asm GCA 001689565 1
    • AAI clade 87-28 medoid: asm GCA 001701065 1
    • AAI clade 87-29 medoid: asm GCA 001689515 1
    • AAI clade 87-30 medoid: miga PS19A KarlssonFH 2013 S249 bin 5
    • AAI clade 87-31 medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES46 bin 84
    • AAI clade 87-32 medoid: asm GCA 001689645 1
    • AAI clade 87-33 medoid: asm GCA 001689585 1
    • AAI clade 87-34 medoid: asm GCA 001689665 1
    • AAI clade 87-35 medoid: asm GCA 001689445 1
    • AAI clade 87-36 medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES45 bin 45
    • AAI clade 87-37 medoid: miga SW19B 10676 0036 idba bin 131
    • AAI clade 87-38 medoid: miga PS19A BackhedF 2015 SID544 M bin 9
    • AAI clade 87-39 medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES12 bin 95
    • AAI clade 87-40 medoid: miga PS19A ZeeviD 2015 PNP Main 561 megahit bin 33
    • AAI clade 87-41 medoid: miga PS19A ZeeviD 2015 PNP Main 509 megahit bin 27
    • AAI clade 87-42 medoid: miga PS19A BritoIL 2016 W3 23 SA bin 8
    • AAI clade 87-43 medoid: miga PS19A XieH 2016 YSZC12003 37277 bin 86
    • AAI clade 87-44 medoid: miga PS19A ChengpingW 2017 AS9raw bin 2
    • AAI clade 87-45 medoid: miga PS19A CosteaPI 2017 SID713A026 11 0 0 bin 49
    • AAI clade 87-46 medoid: miga PS19A QinN 2014 HD 35 bin 25
    • AAI clade 87-47 medoid: miga PS19A HMP 2012 SRS011061 bin 30
    • AAI clade 87-48 medoid: miga PS19A LiJ 2014 MH0308 bin 65
    • AAI clade 87-49 medoid: miga PS19A HMP 2012 SRS011405 bin 18
    • AAI clade 87-50 medoid: miga PS19A ZeeviD 2015 PNP Main 646 megahit bin 17
    • AAI clade 87-51 medoid: miga PS19A NielsenHB 2014 O2 UC40 2 bin 23
    • AAI clade 87-52 medoid: miga PS19A HMP 2012 SRS022609 bin 42
    • AAI clade 87-53 medoid: miga PS19A HMP 2012 SRS022609 bin 63
    • AAI clade 87-54 medoid: miga PS19A LeChatelierE 2013 MH0077 bin 17
    • AAI clade 87-55 medoid: miga PS19A LeChatelierE 2013 MH0175 bin 43
    • AAI clade 87-56 medoid: miga PS19A LeChatelierE 2013 MH0267 bin 81
    • AAI clade 87-57 medoid: miga PS19A LeChatelierE 2013 MH0415 bin 70
    • AAI clade 87-58 medoid: miga PS19A Obregon TitoAJ 2015 NO02 bin 58
    • AAI clade 87-59 medoid: miga PS19A QinJ 2012 DLM014 bin 15
    • AAI clade 87-60 medoid: miga PS19A QinJ 2012 DOM012 bin 10
    • AAI clade 87-61 medoid: miga PS19A XieH 2016 YSZC12003 37316 bin 1
    • AAI clade 87-62 medoid: miga PS19A VogtmannE 2016 MMRS84159866ST 27 0 0 bin 55
    • AAI clade 87-63 medoid: miga PS19A XieH 2016 YSZC12003 36049 bin 7
    • AAI clade 87-64 medoid: miga PS19A XieH 2016 YSZC12003 36118 bin 32
    • AAI clade 87-65 medoid: miga PS19A YuJ 2015 SZAXPI003409 8 bin 85
    • AAI clade 87-66 medoid: miga PS19A ZeeviD 2015 PNP Main 632 megahit bin 12
  • AAI clade 88 medoid: miga SW19B 10676 0021 idba bin 107
  • AAI clade 89 medoid: miga SW19B 10678 0026 idba bin 16
  • AAI clade 90 medoid: miga PS19A Bengtsson PalmeJ 2015 TRAVELRES2 bin 43
  • AAI clade 91 medoid: miga PS19A VogtmannE 2016 MMRS43563715ST 27 0 0 bin 27
  • AAI clade 92 medoid: miga SW19B 10674 0007 idba bin 173
  • AAI clade 93 medoid: miga PS19A VatanenT 2016 G80490 bin 1