Run ID: ERR11043121
Sample name:
Date: 31-03-2023 11:28:18
Number of reads: 1961741
Percentage reads mapped: 99.58
Strain: lineage4.6.5
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 |
lineage4.6 | Euro-American | T;LAM | None | 1.0 |
lineage4.6.5 | Euro-American | T;LAM | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
tlyA | 1918647 | p.Asn236Lys | missense_variant | 1.0 | capreomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289038 | p.Trp68Cys | missense_variant | 1.0 | pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5489 | p.Ile84Val | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490756 | c.-27T>G | upstream_gene_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777974 | c.507C>T | synonymous_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471896 | n.51T>C | non_coding_transcript_exon_variant | 0.31 |
rrs | 1471900 | n.55C>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472379 | n.534T>C | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474488 | n.831G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474496 | n.839C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474830 | n.1173A>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474831 | n.1174A>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.12 |
fabG1 | 1673346 | c.-94C>G | upstream_gene_variant | 0.18 |
fabG1 | 1673349 | c.-91G>C | upstream_gene_variant | 0.18 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.22 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.22 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.23 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.31 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2167814 | c.2799C>T | synonymous_variant | 0.23 |
PPE35 | 2167825 | c.2780_2787delTGCTAGCC | frameshift_variant | 0.2 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.28 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.3 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518864 | c.750G>C | synonymous_variant | 0.15 |
folC | 2746995 | p.Val202Ile | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiA | 3640346 | c.-196delA | upstream_gene_variant | 1.0 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.18 |
clpC1 | 4038332 | c.2373C>T | synonymous_variant | 1.0 |
clpC1 | 4039018 | p.Ser563Ala | missense_variant | 0.29 |
clpC1 | 4039022 | c.1683A>G | synonymous_variant | 0.29 |
clpC1 | 4039031 | c.1674T>C | synonymous_variant | 0.27 |
clpC1 | 4039829 | p.Leu292Phe | missense_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.14 |
embB | 4247090 | p.Thr193Ala | missense_variant | 0.21 |
embB | 4247098 | c.585C>G | synonymous_variant | 0.21 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |