Run ID: SRR3391833
Sample name:
Date: 04-04-2023 05:12:43
Number of reads: 528057
Percentage reads mapped: 98.65
Strain: lineage4.8
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5078 | c.-162_-161insG | upstream_gene_variant | 0.11 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303638 | c.708A>G | synonymous_variant | 0.22 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.64 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.64 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726645 | c.453C>G | synonymous_variant | 0.29 |
pepQ | 2860148 | p.Gly91Arg | missense_variant | 0.25 |
Rv2752c | 3067123 | c.-932T>A | upstream_gene_variant | 0.13 |
fbiA | 3640447 | c.-96A>G | upstream_gene_variant | 0.33 |
rpoA | 3878599 | c.-92C>G | upstream_gene_variant | 1.0 |
clpC1 | 4039729 | p.Asp326Asn | missense_variant | 1.0 |
clpC1 | 4039807 | p.Gly300Arg | missense_variant | 0.17 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.3 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.5 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.56 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.56 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.57 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-6_*1408del | transcript_ablation | 1.0 |