|
Locus name
|
"MIRU" alias [8]
|
"ETR" alias [7]
|
"QUB" alias [9, 11]
|
Other alias
|
Reference
|
TR location on H37Rv genome
|
Expected length in H37Rv (copy number)
|
Expected length in CDC1551 (copy number)
|
Expected length in M bovis AF2122 (copy number)
|
N° of strains
|
Size range observed (copy number)
|
N° of alleles observed
|
Polymorphism index
|
|---|
|
H37Rv_0024_18 bp
| | | |
Mtub01
|
This report
|
24648
|
328 (10)
|
310 (9)
|
310 (9)
|
92
|
274–328 bp (7–10)
|
4
|
0.48
|
|
H37Rv_0079_9 bp
| | | |
Mtub02
|
This report
|
79503
|
230 (6)
|
239 (7)
|
239 (7)
|
92
|
221–275 bp (5–11)
|
7
|
0.76
|
|
H37Rv_0154_53 bp
|
MIRU2
| | | |
[8]
|
154111
|
508 (2)
|
508 (2)
|
508 (2)
|
92
|
455–561 bp (1–3)
|
3
|
0.09
|
|
H37Rv_0424_51 bp
| | | |
Mtub04
|
This report
|
424010
|
269 (2.6)
|
371 (4.6)
|
269 (2.6)
|
28
|
218 – 320 (1.6–3.6)
|
3
|
0.52
|
|
H37Rv_0531_15 bp
| | | |
MPTR-A
|
[7]
|
531430
|
328 (16)
|
328 (16)
|
328 (16)
|
48
|
(15–17)
|
3
|
0.23
|
|
H37Rv_0577_58 bp
| |
ETR-C
| | |
[8]
|
577172
|
346 (4)
|
288 (3)
|
404 (5)
|
92
|
230–404 bp (2–5)
|
4
|
0.63
|
|
H37Rv_0580_77 bp
|
MIRU4
|
ETR-D
| | |
[7]
|
580546
|
353 (3.3)
|
330 (3)
|
483 (5)
|
92
|
253–715 bp (2–8)
|
7
|
0.35
|
|
H37Rv_0802_54 bp
|
MIRU40
| | | |
[8]
|
802194
|
199 (1)
|
415 (5)
|
253 (2)
|
92
|
199–469 bp (1–6)
|
5
|
0.71
|
|
H37Rv_0959_53 bp
|
MIRU10
| | | |
[8]
|
959868
|
643 (3)
|
750 (5)
|
590 (2)
|
92
|
537–1014 bp (1–10)
|
9
|
0.76
|
|
H37Rv_1121_15 bp
| | | |
Mtub12
|
This report
|
1121658
|
215 (4)
|
230 (5)
|
215 (4)
|
92
|
200–230 bp (3–5)
|
3
|
0.19
|
|
H37Rv_1443_56 bp
| | | |
Mtub16
|
This report
|
1443417
|
291 (1)
|
347 (2)
|
347 (2)
|
11
|
291–515 (1–5)
|
3
|
0.56
|
|
H37Rv_1451_57 bp
| | |
QUB-1451c
| |
[9]
|
1451778
|
305 (3.8)
|
305 (3.8)
|
305 (3.8)
|
56
|
(2–4) (bovis)
|
2
|
0.12
|
|
H37Rv_1612_21 bp
| | |
QUB-23
| |
[11]
|
1612529
|
141 (5)
|
162 (6)
|
162 (6)
|
20
|
141–203 (5–8)
|
3
|
0.18
|
|
H37Rv_1644_53 bp
|
MIRU16
| | | |
[8]
|
1644026
|
671 (2)
|
724 (3)
|
671 (2)
|
92
|
618–777 bp (1–4)
|
4
|
0.59
|
|
H37Rv_1895_57 bp
| | |
QUB-1895
| |
[9]
|
1895344
|
319 (4)
|
205 (2)
|
319 (4)
|
56
|
(2–4) (bovis)
|
3
|
0.35
|
|
H37Rv_1955_57 bp
| | | |
Mtub21
|
This report
|
1955580
|
206 (2)
|
263 (3)
|
263 (3)
|
92
|
149–491 bp (1–7)
|
7
|
0.76
|
|
H37Rv_1982_78 bp
| | |
QUB-18
| |
[11]
|
1982873
|
621 (5)
|
777 (7)
|
465 (3)
|
24
|
387–1167 (2–12)
|
9
|
0.74
|
|
H37Rv_2059_77 bp
|
MIRU20
| | | |
[8]
|
2059429
|
591 (2)
|
591 (2)
|
591 (2)
|
53
|
(1–2)
|
2
|
0.29
|
|
H37Rv_2074_56 bp*
| | | |
Mtub24
|
This report
|
2074431
|
805 (3.6)
|
693 (1.6)
|
693 (1.6)
|
44
|
637–749 (0.6–2.6)
|
3
|
0.52
|
|
H37Rv_2163_a_69 bp
| | |
QUB-11a
|
pUCD1
|
[11]
|
2163607
|
305 (3)
|
581 (7)
|
788 (10)
|
92
|
305–1832 bp (3–26)
|
15
|
0.88
|
|
H37Rv_2163_b_69 bp
| | |
QUB-11b
|
pUCD1
|
[11]
|
2163729
|
412 (5)
|
274 (3)
|
343 (4)
|
52
|
136–826 (1–11)
|
8
|
0.82
|
|
H37Rv_2165_75 pb
| |
ETR-A
| | |
[7]
|
2165223
|
397 (3)
|
322 (2)
|
847 (9)
|
92
|
322–847 bp (2–9)
|
8
|
0.73
|
|
H37Rv_2347_57 bp
| | | |
Mtub29
|
This report
|
2347393
|
350 (4)
|
292 (3)
|
293 (3)
|
92
|
236–350 bp (2–4)
|
3
|
0.55
|
|
H37Rv_2401_58 bp
| | | |
Mtub30
|
This report
|
2401815
|
319 (2)
|
435 (4)
|
435 (4)
|
92
|
261–435 bp (1–4)
|
3
|
0.55
|
|
H37Rv_2461_57 bp
| |
ETR-B
| | |
[7]
|
2461279
|
292 (3)
|
235 (2)
|
406 (5)
|
92
|
178–406 bp (1–5)
|
6
|
0.51
|
|
H37Rv_2531_53 bp
|
MIRU23
| | | |
[8]
|
2531560
|
873 (6)
|
820 (5)
|
767 (4)
|
92
|
608–979 bp (1–8)
|
7
|
0.60
|
|
H37RV_2387_54 bp
|
MIRU24
| | | |
[8]
|
2684427
|
447 (1)
|
447 (1)
|
447 (1)
|
53
|
(1–2)
|
2
|
0.24
|
|
H37Rv_2990_55 bp
| | | |
Mtub31
|
This report
|
2990582
|
257 (2)
|
312 (3)
|
312 (3)
|
49
|
202–312 bp (1–3)
|
3
|
0.15
|
|
H37Rv_2996_51 bp
|
MIRU26
| | | |
[8]
|
2996002
|
614 (3)
|
716 (5)
|
716 (5)
|
57
|
563–818 (2–7)
|
5
|
0.61
|
|
H37Rv_3006_53 bp
|
MIRU27
| |
QUB-5
| |
[8]
|
3006875
|
657 (3)
|
657 (3)
|
657 (3)
|
92
|
551–710 bp (1–4)
|
4
|
0.25
|
|
H37Rv_3171_54 bp
| | | |
Mtub34
|
This report
|
3171465
|
279 (3)
|
225 (2)
|
279 (3)
|
11
|
171–225 (1–2)
|
2
|
0.3
|
|
H37Rv_3192_53 bp
|
MIRU31
|
ETR-E
| | |
[7]
|
3192168
|
651 (3)
|
651 (3)
|
651 (3)
|
92
|
545–810 bp (1–6)
|
6
|
0.67
|
|
H37Rv_3232_56 bp
| | |
QUB-3232
| |
[9]
|
3232649
|
591 (3)
|
760 (6)
|
703 (5)
|
56
|
(4–22) (bovis)
|
10
|
0.65
|
|
H37Rv_3239_79 bp
| |
ETR-F
| | |
[7]
|
3239469
|
476 (2.8)
|
476 (2.8)
|
421 (2.1)
|
48
|
(1–3)
|
3
|
0.49
|
|
H37Rv_3336_59 bp
| | |
QUB-3336
| |
[9]
|
3336499
|
407 (5)
|
466 (6)
|
289 (3)
|
56
|
(3–21) (bovis)
|
8
|
0.55
|
|
H37Rv_3663_63 bp**
| | | |
Mtub38
|
This report
|
3663751
|
373 (2.7)
|
310 (1.7)
|
310 (1.7)
|
92
|
247–400 bp (0.7–3.1)
|
5
|
0.35
|
|
H37Rv_3690_58 bp*
| | | |
Mtub39
|
This report
|
3690947
|
341 (2.6)*
|
397 (3.6)
|
341 (2.6)
|
92
|
247–1349 bp (1–20)*
|
11
|
0.64
|
|
H37Rv_4052_111 bp
| | |
QUB-26
| |
[11]
|
4052969
|
708 (5)
|
819 (6)
|
597 (4)
|
100
|
(4–14) (bovis)
|
5
|
0.41
|
|
H37Rv_4156_59 bp
| | |
QUB-4156c
| |
[9]
|
4156797
|
224 (2)
|
283 (3)
|
165 (1)
|
52
|
106–283 (0–3)
|
4
|
0.69
|
|
H37Rv_4348_53 bp
|
MIRU39
| | | |
[8]
|
4348401
|
646 (2)
|
646 (2)
|
646 (2)
|
92
|
593–699 bp (1–3)
|
3
|
0.31
|
- The markers are listed according to their position in the H37Rv genome. The proposed reference name includes the size of the repeat unit. The twenty-one markers used in the present report are italicised and underlined. Alias names identified in the literature are indicated. QUB11a, QUB11b, and ETR-A (position 2163–2165) are located within the gene PPE34 [19]. The expected length assumes that the primers listed in Table 2 were used. * : the observed size (Table 3) is not the expected size. ** : the repeat unit is not easily defined, size variations do not correspond to a multiple of 63 base-pairs. Polymorphism index is calculated as 1 - ∑ (allele frequency)2 among the 86 distinct genotypes. The values are deduced from the original report in nine cases (indicated by the absence of size range in the "size range" column). In some instances [9, 11], the population of strains used is biased (M. bovis strains).
