Table 1:
Number of genomic k-mers from MTBC and MOTT members after initial hg19 clearing step matching selected targets, with k-mer length distinction (≥20, ≥25, ≥30, ≥35 bp), with estimation of percentage of k-mers from a given mycobaterial genome matching the M. tuberculosis genome for query length ≥30 and ≥35
| Query k-mer length ≥20 | Query k-mer length ≥25 | Query k-mer length ≥30 | Query k-mer length ≥35 | |||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Species group | Alignment target | Genome length (bp) | Sequences mapped to MTB genome (%) | Full genome | Borowka et al. | Bos et al. | Bouwman et al. | Sequences mapped to MTB genome (%) | Full genome | Borowka et al. | Bos et al. | Bouwman et al. | Sequences mapped to MTB genome (%) | Full genome | Borowka et al. | Bos et al. | Bouwman et al. | Sequences mapped to MTB genome (%) | Full genome | Borowka et al. | Bos et al. | Bouwman et al. |
| MOTT | M. leprae | 3,268,203 | 3.19 | 140,922 | 19,736 | 101 | 1,683 | 4.88 | 215,257 | 4,349 | 85 | 2,240 | 2.61 | 115,138 | 1,430 | 26 | 1,201 | 1.45 | 63,860 | 543 | 6 | 715 |
| M. abscessus | 5,067,172 | 5.26 | 232,228 | 46,530 | 158 | 2,915 | 2.87 | 126,769 | 2,816 | 103 | 1,890 | 1.39 | 61,160 | 283 | 46 | 1,065 | 0.75 | 33,175 | 62 | 14 | 644 | |
| M. smegmatis | 6,988,209 | 11.19 | 493,570 | 107,339 | 543 | 6,917 | 5.68 | 250,537 | 7,793 | 340 | 2,919 | 2.88 | 127,219 | 1,187 | 162 | 1,610 | 1.64 | 72,286 | 262 | 65 | 944 | |
| M. fortuitum | 6,254,616 | 8.48 | 374,030 | 77,785 | 291 | 5,208 | 5.22 | 230,382 | 5,940 | 131 | 2,774 | 2.69 | 118,483 | 958 | 40 | 1,534 | 1.53 | 67,463 | 236 | 16 | 916 | |
| M. phlei | 5,349,645 | 8.98 | 396,255 | 88,582 | 391 | 5,909 | 6.57 | 289,788 | 9,912 | 157 | 3,597 | 3.45 | 152,331 | 1,665 | 97 | 1,951 | 2.03 | 89,593 | 377 | 56 | 1,176 | |
| M. simiae | 5,938,797 | 9.33 | 411,677 | 80,142 | 339 | 5,414 | 9.51 | 419,641 | 12,734 | 197 | 4,578 | 5.35 | 235,800 | 3,904 | 93 | 2,702 | 3.15 | 139,050 | 1,450 | 33 | 1,575 | |
| M. asiaticum | 5,910,436 | 9.00 | 396,854 | 76,829 | 413 | 5,597 | 10.69 | 471,493 | 19,780 | 392 | 5,022 | 0.00 | 265,638 | 5,366 | 186 | 2,806 | 3.54 | 156,188 | 1,531 | 71 | 1,706 | |
| M. xenopi | 4,434,836 | 7.14 | 314,850 | 60,482 | 262 | 4,336 | 8.17 | 360,395 | 11,534 | 207 | 4,105 | 0.00 | 200,395 | 3,233 | 120 | 2,126 | 2.62 | 115,687 | 1,060 | 68 | 1,235 | |
| M. marinum | 6,660,144 | 9.48 | 418,304 | 82,499 | 466 | 5,715 | 14.08 | 621,166 | 52,438 | 707 | 6,366 | 7.88 | 347,459 | 16,301 | 266 | 3,465 | 4.49 | 198,076 | 4,208 | 88 | 2,046 | |
| M. ulcerans | 5,805,761 | 8.26 | 364,492 | 71,682 | 339 | 4,800 | 12.26 | 540,893 | 36,626 | 448 | 5,543 | 6.94 | 306,075 | 10,994 | 160 | 3,094 | 4.04 | 178,217 | 3,088 | 61 | 1,886 | |
| M. kansasii | 6,402,301 | 10.51 | 463,445 | 89,051 | 472 | 6,353 | 15.93 | 702,577 | 39,990 | 596 | 7,181 | 9.54 | 420,814 | 13,458 | 278 | 4,032 | 5.82 | 256,893 | 4,132 | 129 | 2,373 | |
| M. avium | 4,829,781 | 8.07 | 356,159 | 71,620 | 322 | 5,128 | 12.08 | 532,953 | 16,610 | 194 | 5,331 | 7.31 | 322,606 | 4,752 | 110 | 3,271 | 4.58 | 202,232 | 1,475 | 65 | 2,095 | |
| M. haemophilum | 4,235,765 | 7.08 | 312,375 | 52,214 | 274 | 4,137 | 13.05 | 575,862 | 22,641 | 540 | 6,284 | 7.98 | 352,034 | 8,023 | 374 | 3,703 | 4.94 | 217,744 | 2,893 | 254 | 2,322 | |
| MTBC | M. caprae | 4,288,871 | 17.53 | 773,238 | 181,627 | 598 | 9,935 | 94.85 | 4,184,378 | 734,742 | 2,306 | 37,814 | 96.27 | 4,245,996 | 725,608 | 2,253 | 35,935 | 96.21 | 4,244,109 | 713,211 | 2,214 | 34,394 |
| M. microti | 4,370,115 | 17.81 | 785,606 | 188,016 | 825 | 10,498 | 96.71 | 4,266,542 | 772,527 | 3,989 | 40,576 | 98.17 | 4,330,722 | 771,950 | 3,873 | 38,507 | 98.12 | 4,328,596 | 758,572 | 3,785 | 36,841 | |
| M. africanum | 4,389,314 | 17.87 | 788,161 | 186,939 | 850 | 10,494 | 97.15 | 4,285,645 | 764,554 | 4,038 | 40,740 | 98.63 | 4,350,937 | 764,150 | 3,893 | 38,685 | 98.60 | 4,349,503 | 751,103 | 3,796 | 37,018 | |
| M. bovis | 4,345,492 | 17.72 | 781,857 | 184,148 | 592 | 10,161 | 96.31 | 4,248,729 | 750,458 | 2,304 | 39,042 | 97.79 | 4,313,964 | 749,050 | 2,252 | 36,990 | 97.76 | 4,312,566 | 735 993 | 2,213 | 35,367 | |
| M. tuberculosis | 4,411,532 | 18.07 | 797,099 | 192,022 | 833 | 10,844 | 98.41 | 4,341,179 | 791,071 | 3,947 | 42,253 | 99.97 | 4,410,355 | 792,717 | 3,851 | 40,180 | 100 | 4,411,458 | 779,771 | 3,777 | 38,435 | |