Run ID: SRR15368792
Sample name:
Date: 03-04-2023 13:49:52
Number of reads: 7093551
Percentage reads mapped: 99.39
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 | 1.0 |
lineage4.4.2 | Euro-American | T1;T2 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Ala | missense_variant | 0.97 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 760663 | p.Ala286Val | missense_variant | 1.0 | rifampicin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
embB | 4247730 | p.Gly406Ala | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5077 | c.-163_-162insC | 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 |
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 |
PPE35 | 2169041 | c.1572G>A | synonymous_variant | 0.39 |
PPE35 | 2169044 | c.1569G>C | synonymous_variant | 0.44 |
PPE35 | 2169047 | p.Ile522Val | missense_variant | 0.37 |
PPE35 | 2169053 | c.1560T>C | synonymous_variant | 0.96 |
PPE35 | 2169056 | c.1557A>G | synonymous_variant | 0.37 |
PPE35 | 2169059 | c.1554G>A | synonymous_variant | 0.59 |
PPE35 | 2169063 | p.Met517Thr | missense_variant | 0.96 |
PPE35 | 2169065 | p.Ala516Ile | missense_variant | 0.59 |
PPE35 | 2169068 | c.1545G>T | synonymous_variant | 0.62 |
PPE35 | 2169071 | c.1542A>G | synonymous_variant | 0.3 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2860189 | p.Arg77His | missense_variant | 1.0 |
Rv2752c | 3066099 | p.Met31Ile | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3877969 | p.Ala180Val | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246508 | c.-6G>A | upstream_gene_variant | 0.99 |
aftB | 4268928 | c.-92C>T | upstream_gene_variant | 1.0 |
aftB | 4269375 | c.-539G>A | upstream_gene_variant | 1.0 |
whiB6 | 4338389 | p.Pro45Ala | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408118 | p.Pro29Thr | missense_variant | 1.0 |