Run ID: ERR6197023
Sample name:
Date: 02-04-2023 01:49:38
Number of reads: 2545384
Percentage reads mapped: 95.54
Strain: lineage4.7;lineage4.3.4.2
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.13 |
lineage4.7 | Euro-American (mainly T) | T1;T5 | None | 0.82 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 0.11 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 0.15 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.22 | rifampicin |
rrs | 1473247 | n.1402C>A | non_coding_transcript_exon_variant | 0.73 | kanamycin, capreomycin, aminoglycosides, amikacin |
rrs | 1473329 | n.1484G>T | non_coding_transcript_exon_variant | 0.69 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.19 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rpoB | 759615 | c.-192A>C | upstream_gene_variant | 0.29 |
rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.15 |
rpoB | 763005 | p.Cys1067Val | missense_variant | 0.14 |
rpoC | 763028 | c.-342T>C | upstream_gene_variant | 0.12 |
rpoC | 763053 | c.-317T>C | upstream_gene_variant | 0.14 |
rpoC | 763070 | c.-300T>C | upstream_gene_variant | 0.11 |
rpoC | 763578 | p.Phe70Tyr | missense_variant | 0.12 |
rpoC | 763666 | c.297G>C | synonymous_variant | 0.12 |
rpoC | 764918 | p.Val517Leu | missense_variant | 0.14 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.16 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302815 | c.-116G>A | upstream_gene_variant | 0.15 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472599 | n.754G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472620 | n.775A>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472634 | n.789T>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472647 | n.802C>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472659 | n.814G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472715 | n.870C>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472733 | n.888G>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472734 | n.889C>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472741 | n.896G>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472754 | n.909G>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472755 | n.910G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472790 | n.945T>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.8 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.8 |
rrs | 1473093 | n.1248C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473102 | n.1257C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473115 | n.1270G>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.77 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.9 |
rrs | 1473270 | n.1425G>A | non_coding_transcript_exon_variant | 0.72 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.74 |
rrs | 1473292 | n.1447G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473293 | n.1448G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473301 | n.1456T>C | non_coding_transcript_exon_variant | 0.75 |
rrs | 1473305 | n.1460G>T | non_coding_transcript_exon_variant | 0.72 |
rrs | 1473316 | n.1471C>T | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476160 | n.2503T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476164 | n.2507A>G | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476214 | n.2557G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476215 | n.2558C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476245 | n.2588C>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.9 |
rrl | 1476252 | n.2595T>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476256 | n.2599A>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.9 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.9 |
rrl | 1476262 | n.2605G>A | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476298 | n.2641C>A | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476300 | n.2643G>T | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476307 | n.2650A>T | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476309 | n.2652G>T | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476515 | n.2858C>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476535 | n.2878G>A | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476539 | n.2882A>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476580 | n.2923G>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476585 | n.2928A>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476607 | n.2950C>T | non_coding_transcript_exon_variant | 1.0 |
rpsA | 1833424 | c.-118C>T | upstream_gene_variant | 0.12 |
rpsA | 1833469 | c.-73G>T | upstream_gene_variant | 0.29 |
rpsA | 1834306 | c.765T>C | synonymous_variant | 0.11 |
rpsA | 1834327 | c.786G>T | synonymous_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289200 | c.42C>T | synonymous_variant | 0.89 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.17 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.16 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.11 |
alr | 3840719 | c.702A>G | synonymous_variant | 0.19 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.18 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4249732 | c.3219C>G | synonymous_variant | 0.74 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407970 | p.Pro78Leu | missense_variant | 0.14 |
gid | 4408156 | p.Leu16Arg | missense_variant | 0.17 |