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Table 4 References after Affinity Propagation clustering for nclusters = 32.

From: Using affinity propagation for identifying subspecies among clonal organisms: lessons from M. tuberculosis

AP-subfamily naming reference Most represented subfamilies Nb of spoligotype patterns
  Classical subfamily naming SIT spoligotype (43 format) First most represented subfamily Second most repr. family  
     Subfamily Prop.   
Afri1 AFRI1 181 AFRI1 0.531 AFRI 32
Afri2-3 AFRI2 331 AFRI2 0.364 AFRI3 22
Beij BEIJ 1 BEIJ 0.842 U 19
Bov1-3 BOV1 482 BOV1 0.585 BOV 159
Bov2 BOV2 683 BOV2 0.467 BOV 45
Cap CAP 647 CAP 0.75 U 20
CAS CAS1 26 CAS1 0.487 CAS 80
EAI1 EAI1 48 EAI1 0.804 U 46
EAI3-5 (del2-3-37-38-39) EAI2 11 EAI5 0.383 EAI3 55
EAI2 (del3-20-21) EAI2 19 EAI2 0.5 U 48
EAI EAI5 236 EAI5 0.651 EAI4 86
EAI6 (del23-37) EAI6 292 EAI6 0.5 EAI5 42
H1-2 H1 47 H1 0.790 U 62
H3 H3 50 H3 0.927 U 96
Ural H4 262 H4 0.714 U 28
LAM5-2-1(del3-13) LAM2 17 LAM5 0.207 U 92
LAM3 LAM3 33 LAM3 0.455 U 33
LAM LAM9 42 LAM9 0.574 LAM11 136
Manu MANU2 54 MANU2 0.793 U 29
Pin-Mic PIN 637 BOV 0.391 U 23
S S 34 S 0.678 U 59
T (T1-H3-Lam10-Cam) T1 53 T1 0.828 H3 261
T1a (del5-40-43) T1 833 T1 0.484 U 31
T1b (del21) T1 291 U 0.367 T1 30
T1c (del15) T2 118 T1 0.432 U 37
T2 (del40) T2 52 T2 0.521 U 119
T3 (del13) T3 37 T3 0.373 U 59
T4 (del19-23-24-38-39) T4 39 T1 0.406 T4 32
T5 (del23) T5 44 T5 0.561 U 41
X X1 119 X1 0.492 U 61
X2 X2 137 X2 0.824 T1 34
SEA1 (del29-34) U 458 U 0.955 CAS 22
  1. BEIJ = Beijing (also East Asia); afri=M. africanum; CAS = Central Asia (also East Africa and India); LAM = Latino-American and Mediterranean; H = Haarlem; EAI = East African Indian. Confirmed subfamilies are shown in bold.