Run ID: SRR14801396
Sample name:
Date: 03-04-2023 11:45:47
Number of reads: 2126585
Percentage reads mapped: 99.64
Strain: lineage4.8
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 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289090 | p.His51Pro | missense_variant | 1.0 | pyrazinamide |
embB | 4248003 | p.Gln497Pro | missense_variant | 0.98 | ethambutol |
embB | 4249583 | p.Asp1024Asn | missense_variant | 0.99 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.32 |
rpoC | 765618 | p.Glu750Gly | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302891 | c.-40G>A | upstream_gene_variant | 0.98 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
fabG1 | 1673558 | p.His40Pro | missense_variant | 0.23 |
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 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.19 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.73 |
fbiB | 3642535 | p.Arg334Gln | missense_variant | 0.98 |
rpoA | 3878613 | c.-106A>C | upstream_gene_variant | 0.22 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.5 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.5 |
clpC1 | 4038972 | p.Ile578Thr | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.21 |
embB | 4247395 | c.882C>T | synonymous_variant | 1.0 |
embB | 4248319 | c.1806A>T | synonymous_variant | 0.22 |
embB | 4248324 | p.Ala604Gly | missense_variant | 0.33 |
ethA | 4326704 | p.Pro257Gln | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407967 | p.Leu79Trp | missense_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |