Run ID: SRR7592350
Sample name:
Date: 04-04-2023 19:49:17
Number of reads: 2220719
Percentage reads mapped: 99.66
Strain: lineage4.7
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 |
lineage4.7 | Euro-American (mainly T) | T1;T5 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
eis | 2715347 | c.-15C>G | upstream_gene_variant | 1.0 | kanamycin |
embA | 4243221 | c.-12C>T | upstream_gene_variant | 1.0 | ethambutol |
embB | 4247553 | p.Ser347Thr | missense_variant | 0.99 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mshA | 576393 | p.Pro349Leu | missense_variant | 0.16 |
rpoC | 765084 | p.Arg572His | 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 |
rrl | 1474294 | n.637C>G | non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289248 | c.-7T>G | upstream_gene_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.24 |
Rv2752c | 3065479 | p.Phe238Ser | missense_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.58 |
rpoA | 3878597 | c.-90G>C | upstream_gene_variant | 0.14 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.71 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.3 |
clpC1 | 4039889 | c.816G>A | synonymous_variant | 1.0 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.26 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246527 | p.Ala5Gly | missense_variant | 0.24 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.29 |
embB | 4249732 | c.3219C>G | synonymous_variant | 1.0 |
ethR | 4327826 | p.Asn93Ser | missense_variant | 1.0 |
whiB6 | 4338351 | c.170dupC | frameshift_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407627 | c.575delG | frameshift_variant | 1.0 |