Run ID: SRR6982392
Sample name:
Date: 04-04-2023 18:36:01
Number of reads: 418177
Percentage reads mapped: 99.65
Strain: lineage4.3.4.2.1
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 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 1.0 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2155843 | p.Trp90* | stop_gained | 0.13 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6102 | p.Glu288Val | missense_variant | 0.1 |
gyrB | 6140 | p.Val301Leu | missense_variant | 1.0 |
gyrB | 6222 | p.Val328Gly | missense_variant | 0.11 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7670 | c.369A>G | synonymous_variant | 0.12 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576190 | c.843C>T | synonymous_variant | 0.12 |
rpoC | 764186 | p.Glu273Lys | missense_variant | 0.11 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 767152 | c.3783T>C | synonymous_variant | 0.13 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406433 | p.Met303Thr | missense_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472134 | n.289C>T | non_coding_transcript_exon_variant | 0.14 |
fabG1 | 1673852 | p.Ile138Lys | missense_variant | 0.22 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102298 | p.Val249Phe | missense_variant | 0.11 |
katG | 2155848 | p.Gln88His | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 0.95 |
folC | 2747343 | c.253_255delCTG | conservative_inframe_deletion | 0.12 |
pepQ | 2860158 | c.261C>T | synonymous_variant | 0.13 |
ribD | 2986770 | c.-69A>T | upstream_gene_variant | 0.1 |
Rv2752c | 3064561 | p.Thr544Asn | missense_variant | 0.11 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
thyA | 3074476 | c.-5C>A | upstream_gene_variant | 0.13 |
thyA | 3074599 | c.-128T>C | upstream_gene_variant | 0.22 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087888 | p.Thr357Ser | missense_variant | 0.15 |
fbiD | 3339410 | p.Ala98Val | missense_variant | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 1.0 |
alr | 3840719 | c.702A>G | synonymous_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
panD | 4043952 | c.330T>A | synonymous_variant | 0.11 |
embC | 4241621 | p.Thr587Pro | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4247246 | c.737delG | frameshift_variant | 0.13 |
aftB | 4267495 | p.Gly448Trp | missense_variant | 0.17 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |