Run ID: ERR2229366
Sample name:
Date: 31-03-2023 17:06:43
Number of reads: 1171614
Percentage reads mapped: 94.31
Strain: lineage4.8
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.18 |
mshA | 576288 | p.Arg314Leu | missense_variant | 0.12 |
rpoB | 762218 | c.2412T>C | synonymous_variant | 0.16 |
rpoB | 762233 | c.2427G>C | synonymous_variant | 0.23 |
rpoB | 762236 | c.2430G>T | synonymous_variant | 0.23 |
rpoB | 762245 | c.2439G>T | synonymous_variant | 0.26 |
rpoB | 762254 | c.2448T>C | synonymous_variant | 0.25 |
rpoB | 762257 | c.2451C>G | synonymous_variant | 0.25 |
rpoC | 762899 | c.-471G>T | upstream_gene_variant | 0.16 |
rpoC | 762920 | c.-450C>T | upstream_gene_variant | 0.14 |
rpoC | 762929 | c.-441G>C | upstream_gene_variant | 0.13 |
rpoC | 763534 | c.165T>C | synonymous_variant | 0.13 |
rpoC | 763537 | c.168C>G | synonymous_variant | 0.12 |
rpoC | 763570 | c.201G>C | synonymous_variant | 0.18 |
rpoC | 763573 | c.204G>C | synonymous_variant | 0.17 |
rpoC | 764605 | c.1236G>T | synonymous_variant | 0.17 |
rpoC | 764611 | c.1242G>T | synonymous_variant | 0.17 |
rpoC | 764681 | p.Leu438Met | missense_variant | 0.14 |
rpoC | 765631 | c.2262C>T | synonymous_variant | 0.13 |
rpoC | 766542 | p.Gly1058Val | missense_variant | 0.22 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776187 | p.Phe765Ser | missense_variant | 0.11 |
mmpL5 | 777119 | p.His454Gln | missense_variant | 0.19 |
mmpL5 | 777122 | c.1359C>T | synonymous_variant | 0.18 |
mmpL5 | 777128 | c.1353A>G | synonymous_variant | 0.19 |
mmpS5 | 778936 | c.-31C>G | upstream_gene_variant | 0.14 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1303792 | c.864delA | frameshift_variant | 0.15 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471929 | n.84C>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1471932 | n.87A>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1471934 | n.89A>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1471936 | n.91A>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472085 | n.240C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472107 | n.262A>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472108 | n.263C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472112 | n.267C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472122 | n.277G>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472123 | n.278A>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472124 | n.279C>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472225 | n.380C>G | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472251 | n.406G>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472368 | n.523A>G | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472396 | n.551A>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472400 | n.555C>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472507 | n.662C>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472522 | n.677T>G | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472571 | n.726G>T | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472581 | n.736A>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472582 | n.737G>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472584 | n.739A>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472585 | n.740A>C | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472623 | n.778A>C | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472647 | n.802C>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472673 | n.828T>G | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472677 | n.832C>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472682 | n.837T>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472683 | n.838T>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472687 | n.842A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472707 | n.862A>T | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472767 | n.922G>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472790 | n.945T>C | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472812 | n.967A>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472954 | n.1110delC | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472958 | n.1113_1114insC | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472986 | n.1141_1142insA | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472989 | n.1145delA | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472996 | n.1151T>C | non_coding_transcript_exon_variant | 0.31 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.42 |
rrs | 1473081 | n.1236C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473164 | n.1319C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1473226 | n.1381C>G | non_coding_transcript_exon_variant | 0.46 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473301 | n.1456T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473315 | n.1470T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473316 | n.1471C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473319 | n.1474C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1473839 | n.182G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1473862 | n.205C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1473876 | n.219G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1473887 | n.230T>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1473898 | n.241C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1473899 | n.242A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1473916 | n.259C>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1473922 | n.265A>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1473923 | n.266C>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474197 | n.540C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474202 | n.545T>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474218 | n.561T>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474253 | n.596A>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474467 | n.810A>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1474476 | n.819C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474488 | n.831G>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474496 | n.839C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1474497 | n.840G>C | non_coding_transcript_exon_variant | 0.28 |
rrl | 1474506 | n.849C>G | non_coding_transcript_exon_variant | 0.32 |
rrl | 1474507 | n.850G>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1474516 | n.859C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1474529 | n.872A>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1474530 | n.873G>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1474537 | n.880G>A | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474539 | n.882C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1474540 | n.883T>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474552 | n.895C>T | non_coding_transcript_exon_variant | 0.39 |
rrl | 1474558 | n.901G>A | non_coding_transcript_exon_variant | 0.38 |
rrl | 1474582 | n.925T>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474798 | n.1141C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474799 | n.1143delT | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474803 | n.1146_1147insA | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474806 | n.1149A>C | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474831 | n.1174A>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474853 | n.1196A>G | non_coding_transcript_exon_variant | 0.45 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474905 | n.1248T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475137 | n.1480A>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475170 | n.1513A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475699 | n.2042C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475722 | n.2065G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475869 | n.2212C>A | non_coding_transcript_exon_variant | 0.49 |
rrl | 1475877 | n.2220C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1475883 | n.2226A>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1475892 | n.2235A>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.38 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.38 |
rrl | 1475906 | n.2249C>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1475916 | n.2259C>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.47 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1475970 | n.2313C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1475978 | n.2321C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1475991 | n.2334T>A | non_coding_transcript_exon_variant | 0.26 |
rrl | 1475993 | n.2336C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1475996 | n.2339T>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476115 | n.2458T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476117 | n.2460G>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476130 | n.2473G>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476131 | n.2474C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476141 | n.2484A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476164 | n.2507A>G | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476204 | n.2547C>T | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476215 | n.2558C>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476235 | n.2578A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476245 | n.2588C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476363 | n.2706A>G | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476366 | n.2709A>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476368 | n.2711T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476374 | n.2717T>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476515 | n.2858C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476564 | n.2907G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476572 | n.2915G>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476573 | n.2916A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476585 | n.2928A>G | non_coding_transcript_exon_variant | 0.19 |
fabG1 | 1673346 | c.-94C>G | upstream_gene_variant | 0.14 |
fabG1 | 1673349 | c.-91G>C | upstream_gene_variant | 0.14 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.15 |
inhA | 1674508 | p.Met103Val | missense_variant | 0.25 |
rpsA | 1834069 | c.528G>C | synonymous_variant | 0.3 |
rpsA | 1834273 | c.732C>T | synonymous_variant | 0.15 |
rpsA | 1834286 | c.745_746delTCinsAG | synonymous_variant | 0.15 |
rpsA | 1834294 | c.753G>T | synonymous_variant | 0.15 |
rpsA | 1834486 | p.Glu315Asp | missense_variant | 0.12 |
rpsA | 1834489 | c.948T>C | synonymous_variant | 0.15 |
rpsA | 1834600 | c.1059G>C | synonymous_variant | 0.14 |
rpsA | 1834603 | p.Glu354Asp | missense_variant | 0.13 |
rpsA | 1834606 | c.1065C>T | synonymous_variant | 0.13 |
rpsA | 1834609 | c.1068T>C | synonymous_variant | 0.13 |
rpsA | 1834612 | c.1071G>C | synonymous_variant | 0.13 |
rpsA | 1834619 | c.1078T>C | synonymous_variant | 0.12 |
rpsA | 1834624 | c.1083G>C | synonymous_variant | 0.12 |
rpsA | 1834627 | c.1086C>T | synonymous_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102927 | p.Asp39Val | missense_variant | 0.2 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.26 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.26 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.62 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.64 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519067 | p.Gly318Ala | missense_variant | 0.12 |
kasA | 2519143 | c.1029G>C | synonymous_variant | 0.14 |
folC | 2746644 | p.Arg319Ser | missense_variant | 0.18 |
ribD | 2987034 | p.Gly66Arg | missense_variant | 0.22 |
Rv2752c | 3064885 | p.Ala436Val | missense_variant | 0.12 |
Rv2752c | 3065207 | p.Thr329Ser | missense_variant | 0.13 |
Rv3236c | 3612262 | c.855A>G | synonymous_variant | 0.11 |
alr | 3840200 | c.1220delA | frameshift_variant | 0.12 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.17 |
clpC1 | 4039003 | p.Asn568Asp | missense_variant | 0.14 |
clpC1 | 4040587 | p.Glu40* | stop_gained | 0.12 |
embC | 4241102 | p.Glu414Lys | missense_variant | 0.13 |
embC | 4241656 | c.1794G>T | synonymous_variant | 0.12 |
embA | 4242530 | c.-703C>A | upstream_gene_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245922 | p.Gly897Ala | missense_variant | 0.12 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.19 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.36 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.5 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.5 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.36 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.27 |
aftB | 4267901 | c.936G>T | synonymous_variant | 0.33 |
aftB | 4267989 | p.Ala283Glu | missense_variant | 0.14 |
aftB | 4268505 | p.Arg111Leu | missense_variant | 0.12 |
aftB | 4268564 | c.273G>A | synonymous_variant | 0.15 |
aftB | 4269291 | c.-455A>T | upstream_gene_variant | 0.25 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |