Run ID: SRR1166137
Sample name:
Date: 03-04-2023 01:21:03
Number of reads: 11726238
Percentage reads mapped: 98.22
Strain: lineage4.8
Drug-resistance: Pre-XDR-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 |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Met | missense_variant | 1.0 | streptomycin |
katG | 2155167 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288817 | p.Thr142Met | missense_variant | 1.0 | pyrazinamide |
eis | 2715344 | c.-12C>T | upstream_gene_variant | 1.0 | kanamycin |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rpoB | 762423 | p.Ile873Phe | missense_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 | 0.99 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3064875 | c.1317C>G | synonymous_variant | 1.0 |
ald | 3086946 | c.128_129dupCG | frameshift_variant | 0.99 |
ald | 3086987 | p.Gln56His | missense_variant | 1.0 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
Rv3083 | 3448500 | c.-4A>G | upstream_gene_variant | 1.0 |
Rv3083 | 3448501 | c.-3G>T | upstream_gene_variant | 1.0 |
fprA | 3474119 | p.Met38Thr | missense_variant | 1.0 |
fbiA | 3641477 | p.Asp312Gly | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ubiA | 4269148 | p.Val229Ala | missense_variant | 1.0 |
ethA | 4326533 | p.Thr314Ile | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338600 | c.-79T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448498 | c.-5_*1408del | transcript_ablation | 1.0 |