Run ID: SRR1169308
Sample name:
Date: 03-04-2023 02:51:13
Number of reads: 1056976
Percentage reads mapped: 98.06
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 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Trp | missense_variant | 1.0 | rifampicin |
katG | 2155167 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289105 | p.Ala46Val | missense_variant | 0.15 | pyrazinamide |
pncA | 2289171 | p.Gly24Asp | missense_variant | 0.45 | pyrazinamide |
embB | 4247730 | p.Gly406Asp | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7847 | c.546G>T | synonymous_variant | 0.11 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 0.97 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 764820 | p.Trp484Ser | missense_variant | 0.37 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 765792 | p.Thr808Ile | missense_variant | 0.18 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777924 | p.Val186Asp | missense_variant | 0.12 |
mmpL5 | 777925 | c.555_556insACCTT | frameshift_variant | 0.13 |
mmpL5 | 777929 | c.547_551delAAGGT | frameshift_variant | 0.13 |
mmpL5 | 777936 | p.Val182Asp | missense_variant | 0.12 |
mmpL5 | 777943 | p.Pro180Thr | missense_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1476056 | n.2399G>A | non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2156383 | c.-272A>G | upstream_gene_variant | 0.12 |
Rv1979c | 2222440 | p.Ala242Asp | missense_variant | 0.11 |
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 |
fbiB | 3641921 | c.387C>T | synonymous_variant | 0.13 |
alr | 3840830 | p.Met197Ile | missense_variant | 0.12 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4040205 | p.Thr167Met | missense_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |