Run ID: ERR2515893
Sample name:
Date: 31-03-2023 21:10:49
Number of reads: 692866
Percentage reads mapped: 99.64
Strain: lineage4.3.2.1
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | None | 0.99 |
lineage4.3.2.1 | Euro-American (LAM) | LAM3 | RD761 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2155276 | p.Gly279Asp | missense_variant | 0.82 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5252 | p.Lys5Glu | missense_variant | 0.12 |
gyrB | 5520 | p.Pro94Leu | missense_variant | 1.0 |
gyrA | 7222 | c.-80C>T | upstream_gene_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 | 491045 | p.Gln88Leu | missense_variant | 0.11 |
rpoB | 759793 | c.-14T>C | upstream_gene_variant | 0.11 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776922 | p.Ala520Asp | missense_variant | 0.11 |
mmpL5 | 779376 | c.-896C>A | upstream_gene_variant | 0.14 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1407275 | c.66T>A | synonymous_variant | 0.12 |
embR | 1416307 | c.1041C>T | synonymous_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472337 | n.492C>T | non_coding_transcript_exon_variant | 1.0 |
fabG1 | 1674160 | p.Gly241Ser | missense_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2156122 | c.-11G>T | upstream_gene_variant | 0.14 |
katG | 2156169 | c.-58A>G | upstream_gene_variant | 0.12 |
katG | 2156487 | c.-376G>T | upstream_gene_variant | 0.12 |
PPE35 | 2170069 | c.543delG | frameshift_variant | 0.11 |
Rv1979c | 2222112 | c.1053C>A | synonymous_variant | 0.11 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290009 | c.-768A>C | upstream_gene_variant | 0.17 |
ahpC | 2726103 | c.-89delT | upstream_gene_variant | 0.17 |
pepQ | 2859545 | p.His292Asn | missense_variant | 0.14 |
Rv2752c | 3065853 | c.339A>G | synonymous_variant | 0.11 |
Rv2752c | 3065935 | p.His86Arg | missense_variant | 0.11 |
thyX | 3067424 | c.522G>T | synonymous_variant | 0.11 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473998 | c.-9G>A | upstream_gene_variant | 1.0 |
fprA | 3473998 | c.-10_-9insA | upstream_gene_variant | 1.0 |
fprA | 3474031 | p.Val9Leu | missense_variant | 0.17 |
fbiA | 3641084 | c.543delG | frameshift_variant | 0.11 |
rpoA | 3878438 | p.Glu24Gln | missense_variant | 0.2 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
aftB | 4267005 | p.Val611Asp | missense_variant | 0.14 |
aftB | 4267865 | c.972G>A | synonymous_variant | 0.11 |
aftB | 4268594 | c.243C>T | synonymous_variant | 0.18 |
ethA | 4327443 | p.Gly11Cys | missense_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |