Table 5.

Statistical analysis of phenotypic and genotypic variability within each cluster containing 6 or more members.

NUM	Phenotype	#Seqs	Intra_Pheno	P_Pheno	Intra_Geno	P_Geno	Avg_Muts	Shared_Muts	Shan._Ent.
1	444444444	15	0.69	0	6.15	0.47	9.1	4.95	14.52
2	444444442	28	0.56	0	7.31	0.02	8.3	3.4	18.78
4	444433433	10	0.64	0	7.83	0.05	8.7	3.84	18.33
5	444444413	6	0.63	2E-04	9.63	0.001	9.8	3.9	18.33
6	444433342	6	0.81	7E-04	7.07	0.27	7.7	3.33	13.74
7	444443422	31	0.8	0	7.5	0.008	7	2.43	19
9	444433422	7	0.63	0	8.31	0.04	8.6	3.79	16.91
12	444423402	6	0.65	2E-04	7.82	0.12	7.8	3.04	15.73
14	444232421	10	0.91	1E-04	6.61	0.34	5.9	2.19	14.14
16	444233401	8	0.82	1E-04	6.54	0.38	6.4	2.36	13.84
20	444222221	8	1.01	2E-04	6.18	0.49	5.2	1.41	13.84
26	442121211	13	0.85	0	4.11	0.05	3	0.71	9.88
29	321111111	9	0.8	0	2.38	7E-03	1.3	0.07	5.64
34	111010110	71	0.65	0	0.94	0	0.5	0.03	2.95
35	301000011	6	0.64	2E-04	0.67	3E-03	1	0.67	1.48
36	000000000	77	0.6	0	0.24	0	0.1	0	0.89

"Phenotype" is the nine-digit shorthand describing the binned level of resistance of the cluster centroid toward each of the nine drugs (see Fig. 1 for drug order). "Intra Pheno" is the average intra-cluster phenotypic distance (in scaled resistance unites). "P pheno" are p-values for intra-cluster phenotypic distance. A p-value of 0 indicates that a more extreme distance was not sampled in 10,000 trials. Analogous headings are shown for genotypic distance as well; genotypic distance was defined using the list of non-polymorphic positions in the Methods. "Avg Muts" is the average number of mutations at non-polymorphic positions for sequences within the cluster. "Shared Muts" is the average number of shared mutations between all pairs within a cluster. Shan. Ent. is the computed Shannon Entopy (in bits) for the cluster, adding up the entropies at each non-polymorphic position.