Run ID: SRR21277283
Sample name:
Date: 04-04-2023 00:55:29
Number of reads: 13779881
Percentage reads mapped: 99.0
Strain: lineage4.4.2
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 |
lineage4.4 | Euro-American | S;T | None | 0.99 |
lineage4.4.2 | Euro-American | T1;T2 | None | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7581 | p.Asp94Asn | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761110 | p.Asp435Val | missense_variant | 1.0 | rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
folC | 2747481 | p.Glu40Gln | missense_variant | 1.0 | para-aminosalicylic_acid |
embB | 4248002 | p.Gln497Lys | missense_variant | 0.99 | 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 | 9304 | p.Gly668Asp | 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 | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289106 | p.Ala46Thr | missense_variant | 1.0 |
pepQ | 2860048 | c.370dupG | frameshift_variant | 0.17 |
Rv2752c | 3066099 | p.Met31Ile | missense_variant | 1.0 |
thyX | 3067954 | c.-9G>A | upstream_gene_variant | 0.99 |
thyA | 3074336 | p.Thr46Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087533 | c.715delG | frameshift_variant | 0.65 |
fbiD | 3339668 | p.Gly184Val | missense_variant | 0.22 |
Rv3083 | 3449185 | p.Glu228* | stop_gained | 0.5 |
Rv3083 | 3449566 | p.Gly355Trp | missense_variant | 0.5 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
alr | 3840463 | p.Arg320Trp | missense_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246508 | c.-6G>A | upstream_gene_variant | 1.0 |
aftB | 4268928 | c.-92C>T | upstream_gene_variant | 1.0 |
aftB | 4269375 | c.-539G>A | upstream_gene_variant | 1.0 |
ethA | 4327293 | p.Thr61Ala | missense_variant | 0.99 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407790 | p.Ala138Val | missense_variant | 1.0 |
Rv3083 | 3448909 | c.407_1120del | disruptive_inframe_deletion | 1.0 |