Table 1. Comparisons among the MIRU-profiler, CASTB and experimental results.
| GenBank accession | MIRU-profiler resulta | CASTB resulta | Experimental resulta | Mismatched locusb |
|---|---|---|---|---|
| Dataset 1: Genome assemblies downloaded from the NCBI database. | ||||
| GCA_000008585 | 2-4-3-2-5-5-3-3-2-3-2-3-4-2-5-1-5-3-2-3-3-6-3-2 | 2-4-3-2-5-5-3-3-2-3-2-3-4-2-5-1-5-3-2-3-3-6-3-2 | 2-4-3-2-5-5-3-3-2-3-2-3-4-2-5-1-5-3-2-3-3-6-3-2 | None |
| GCA_000193185 | 2-4-4-2-3-3-3-5-2-6-4-4-4-2-5-1-7-3-3-5-3-7-2-3 | 2-4-4-2-3-3-3-5-2-6-4-4-4-2-5-1-7-3-3-5-3-7-2-3 | 2-4-4-2-3-3-3-5-2-6-4-4-4-2-5-1-7-3-3-5-3-7-2-3 | None |
| GCA_000224435 | 1-3-2-2-5-4-2-3-2-1-2-4-1-2-5-1-5-3-3-2- 2-6-2-2 | 1-3-2-2-5-4-2-3-2-1-2-4-1-2-5-1-5-3-3-2- 2-6-2-2 | 1-3-2-2-5-4-2-3-2-1-2-4-1-2-5-1-5-3-3-2- 3-6-2-2 | Mtub39 |
| GCA_000331445 | 2-2-3-2-2-4-3-3-2-6-3-4-4-2-2-1-5-3-3-3-4-7-3-2 | 2-2-3-2-2-4-3-3-2-6-3-4-4-2-2-1-5-3-3-3-4-7-3-2 | 2-2-3-2-2-4-3-3-2-6-3-4-4-2-2-1-5-3-3-3-4-7-3-2 | None |
| GCA_000350205 | 2-2-3-2-3-4-3-3-1-4-3-2-4-2-3-1-5-3-3-3- 9- 2-3-2 | 2-2-3-2-3-4-3-3-1-4-3-2-4-2-3-1-5-3-3-3- 9- 2-3-2 | 2-2-3-2-3-4-3-3-1-4-3-2-4-2-3-1-5-3-3-3- 5- 9-3-2 | Mtub39, QUB26 |
| GCA_000737385 | 2-2-4-2-3-2-3-3-2-3-3-4-2-1-5-1-6-3-3-2-3- 3-2-2 | 2-2-4-2-3-2-3-3-2-3-3-4-2-1-5-1-6-3-3-2-3- 3-2-2 | 2-2-4-2-3-2-3-3-2-3-3-4-2-1-5-1-6-3-3-2-3- 6-2-2 | QUB26 |
| GCA_000954155 | 2-2-4-2-1-3-3-5-2-9-4-4-4-2-5-1-7-1-3-4-3-8-2-3 | 2-2-4-2-1-3-3-5-2-9-4-4-4-2-5-1-7-1-3-4-3-8-2-3 | 2-2-4-2-1-3-3-5-2-9-4-4-4-2-5-1-7-1-3-4-3-8-2-3 | None |
| GCA_002116755 | 2-2-4-2-1-3-3-5-2-8-4- 2- 2-2-5-1-7-1-3-4-3- 1-2-3 | 2-2-4-2-1-3-3-5-2-8-4- 2- 2-2-5-1-7-1-3-4-3- 1-2-3 | 2-2-4-2-1-3-3-5-2-8- 4- 4-4-2-5-1-7-1-3-4-3- 8-2-3 | Mtub29, Mtub30, QUB26 |
| GCA_002116795 | 2-2-4-2-1-3-3-5-2-9-4- 2-4-2-5-1-7-1-3-4-3-8-2-3 | 2-2-4-2-1-3-3-5-2-9-4- 2-4-2-5-1-7-1-3-4-3-8-2-3 | 2-2-4-2-1-3-3-5-2-9- 4-4-4-2-5-1-7-1-3-4-3-8-2-3 | Mtub29 |
| GCA_002116835 | 2-2-4-2-1-3-3-5-2-9-4-2-2-2-5-1-7-1-3-4-3- 1-2-4 | 2-2-4-2-1-3-3-5-2-9-4-2-2-2-5-1-7-1-3-4-3- 1-2-4 | 2-2-4-2-1-3-3-5-2-9-4-2-2-2-5-1-7-1-3-4-3- 8-2-4 | QUB26 |
| GCA_002116855 | 2-2-4-2-1-3-3-5-2-9-4-2-2-2-5-1-7-1-3-4-3-1-2-3 | 2-2-4-2-1-3-3-5-2-9-4-2-2-2-5-1-7-1-3-4-3-1-2-3 | 2-2-4-2-1-3-3-5-2-9-4-2-2-2-5-1-7-1-3-4-3-1-2-3 | None |
| Dataset 2: Complete genome sequences of four local strains isolated from Hong Kong. | ||||
| CP019613 | 2-4-4-2-3-3-3-2-2-5-4-4-4-2-5-1-6-3-3-5-3-7-2-3 | 2-4-4-2-3-3-3-2-2-5-4-4-4-2-5-1-6-3-3-5-3-7-2-3 | 2-4-4-2-3-3-3-2-2-5-4-4-4-2-5-1-6-3-3-5-3-7-2-3 | None |
| CP019610 | 2-4-4-2-1-3-3-5-2-5-4-4-4-2-5-1-7-1-3-5-3-8-2-3 | 2-4-4-2-1-3-3-5-2-5-4-4-4-2-5-1-7-1-3-5-3-8-2-3 | 2-4-4-2-1-3-3-5-2-5-4-4-4-2-5-1-7-1-3-5-3-8-2-3 | None |
| CP022577 | 2-2-4-2-2-3-3-5-2-5-4-4-4-2-5-1-7-3-3-4-5-8-2-3 | 2-2-4-2-2-3-3-5-2-5-4-4-4-2-5-1-7-3-3-4-5-8-2-3 | 2-2-4-2-2-3-3-5-2-5-4-4-4-2-5-1-7-3-3-4-5-8-2-3 | None |
| CP022578 | 2-2-4-2-2-3-3-5-2-5-4-4-4-2-5-1-7-3-3-4-5-8-2-3 | 2-2-4-2-2-3-3-5-2-5-4-4-4-2-5-1-7-3-3-4-5-8-2-3 | 2-2-4-2-2-3-3-5-2-5-4-4-4-2-5-1-7-3-3-4-5-8-2-3 | None |
| Dataset 3: Complete genome sequences for BCG-vaccine strains | ||||
| NC_008769 | 2-0-6-2s-2-2-3-1-2-3-5-2-2-5-4-2-5-3-3-3-2-5-0-2 | 2-0-6-2s-2-2-3-1-2-3-5-2-2-5-4-2-5-3-3-3-2-5-0-2 | 2-0-6-2s-2-2-3-1-2-3-5-2-2-5-4-2-5-3-3-3-2-5-0-2 | None |
| NC_012207 | 2-0-5-3s-2-2-3-1-2-3-5-2-2-5-4-2-5-3-3-3-2-4-0-2 | 2-0-5-3s-2-2-3-1-2-3-5-2-2-5-4-2-5-3-3-3-2-4-0-2 | 2-0-5-3s-2-2-3-1-2-3-5-2-2-5-4-2-5-3-3-3-2-4-0-2 | None |
Notes.
a
The number of repeats at the 24 MIRU-VNTR loci are presented in a 24-digit numeric pattern where each-digit represents the number of repeats at a particular locus according to the following order of the loci: MIRU02-Mtub04-ETRC-MIRU04-MIRU40-MIRU10-MIRU16-Mtub21-MIRU20-QUB11b-ETRA-Mtub29-Mtub30-ETRB-MIRU23-MIRU24-MIRU26-MIRU27-Mtub34-MIRU31-Mtub39-QUB26-QUB4156-MIRU39. The mismatched loci are bold and underlined .
b
Mismatched-locus = any locus that do not agree between the MIRU-profiler and experimental result.