Run ID: SRR11349133
Sample name:
Date: 02-04-2023 20:52:08
Number of reads: 2283215
Percentage reads mapped: 28.89
Strain: lineage4.3.3
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 | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
ahpC | 2726141 | c.-52C>T | upstream_gene_variant | 1.0 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
embB | 4247730 | p.Gly406Ala | missense_variant | 1.0 | ethambutol |
ethA | 4327484 | c.-11A>G | upstream_gene_variant | 1.0 | ethionamide |
pncA | 2288565 | c.377_*115del | frameshift_variant&stop_lost&splice_region_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.28 |
mshA | 576113 | p.Arg256Gly | missense_variant | 0.19 |
rpoC | 762899 | c.-471G>C | upstream_gene_variant | 0.16 |
rpoC | 762923 | c.-447C>G | upstream_gene_variant | 0.17 |
rpoB | 762925 | p.Thr1040Ile | missense_variant | 0.17 |
rpoB | 762934 | c.3129_3130insAGCC | frameshift_variant | 0.15 |
rpoB | 762938 | c.3133_3136delATGA | frameshift_variant | 0.14 |
rpoC | 762965 | c.-405T>C | upstream_gene_variant | 0.17 |
rpoC | 764560 | c.1191T>G | synonymous_variant | 0.16 |
rpoC | 764575 | c.1206T>G | synonymous_variant | 0.58 |
rpoC | 764581 | c.1212T>C | synonymous_variant | 0.62 |
rpoC | 764582 | p.Leu405Met | missense_variant | 0.63 |
rpoC | 764587 | c.1218C>G | synonymous_variant | 0.66 |
rpoC | 764605 | c.1236G>C | synonymous_variant | 0.63 |
rpoC | 764611 | c.1242G>C | synonymous_variant | 0.63 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.62 |
rpoC | 764641 | c.1272C>T | synonymous_variant | 0.6 |
rpoC | 764650 | c.1281G>T | synonymous_variant | 0.57 |
rpoC | 764663 | p.Val432Thr | missense_variant | 0.52 |
rpoC | 764668 | c.1299C>G | synonymous_variant | 0.54 |
rpoC | 764672 | p.Gln435Glu | missense_variant | 0.55 |
rpoC | 764677 | c.1308C>G | synonymous_variant | 0.52 |
rpoC | 764695 | c.1326T>C | synonymous_variant | 0.49 |
rpoC | 764701 | c.1332C>G | synonymous_variant | 0.42 |
rpoC | 764705 | p.Leu446Lys | missense_variant | 0.41 |
rpoC | 764716 | c.1347G>C | synonymous_variant | 0.35 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 765619 | p.Glu750Asp | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472120 | n.275G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472128 | n.283G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472147 | n.302G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472153 | n.308G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472266 | n.421C>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472277 | n.432C>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472349 | n.504A>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472374 | n.529T>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472379 | n.534T>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472382 | n.537G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472714 | n.869A>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472715 | n.870C>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472770 | n.925C>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472812 | n.967A>C | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472826 | n.981G>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475791 | n.2134A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475883 | n.2226A>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476056 | n.2399G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476336 | n.2679C>G | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476357 | n.2700T>A | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476368 | n.2711T>C | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.81 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.78 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.78 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476491 | n.2834T>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476501 | n.2844C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.23 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223051 | p.Glu38Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
pepQ | 2860342 | p.Asp26Ala | missense_variant | 1.0 |
Rv2752c | 3065824 | p.Pro123Leu | missense_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
thyA | 3074160 | c.312A>G | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878618 | c.-111A>C | upstream_gene_variant | 0.33 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.14 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |
gid | 4407912 | c.160_290del | frameshift_variant | 1.0 |