Run ID: ERR6879053
Sample name:
Date: 02-04-2023 03:48:20
Number of reads: 12200315
Percentage reads mapped: 99.54
Strain: lineage4.3.3;lineage4.1.2.1
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 | 0.52 |
lineage4.1 | Euro-American | T;X;H | None | 0.47 |
lineage4.1.2 | Euro-American | T;H | None | 0.47 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 0.53 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 0.47 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.57 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.54 | isoniazid |
embB | 4247429 | p.Met306Val | missense_variant | 0.51 | 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 | 8040 | p.Gly247Ser | missense_variant | 0.56 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 0.43 |
mshA | 575679 | p.Asn111Ser | missense_variant | 0.47 |
rpoB | 760115 | c.309C>T | synonymous_variant | 0.46 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.56 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.51 |
rpoC | 767123 | p.Val1252Met | missense_variant | 0.49 |
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 | 1471869 | n.24G>A | non_coding_transcript_exon_variant | 0.49 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.25 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 0.45 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 0.57 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.27 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.54 |
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 | 0.51 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.13 |
embC | 4242182 | p.Ala774Ser | missense_variant | 0.52 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 0.42 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.26 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75_-74insA | upstream_gene_variant | 1.0 |
whiB6 | 4338602 | c.-81A>T | upstream_gene_variant | 0.45 |
gid | 4407973 | p.Val77Gly | missense_variant | 0.52 |
gid | 4408156 | p.Leu16Arg | missense_variant | 0.53 |