Run ID: SRR10315630
Sample name:
Date: 02-04-2023 17:13:14
Number of reads: 4619582
Percentage reads mapped: 87.82
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 | 761161 | p.Leu452Pro | missense_variant | 1.0 | rifampicin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.23 | streptomycin |
rrl | 1476471 | n.2814G>T | non_coding_transcript_exon_variant | 0.35 | linezolid |
fabG1 | 1673432 | c.-8T>A | upstream_gene_variant | 1.0 | isoniazid |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288785 | c.456dupC | frameshift_variant | 1.0 | pyrazinamide, pyrazinamide |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
ethA | 4327484 | c.-11A>G | upstream_gene_variant | 1.0 | ethionamide |
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 | 0.31 |
rpoC | 764995 | c.1626C>G | synonymous_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 | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472681 | n.837_838delTT | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472687 | n.842_843insC | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476056 | n.2399G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.12 |
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 |
Rv2752c | 3065824 | p.Pro123Leu | missense_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
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 | 0.19 |
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 |