Run ID: SRR1166822
Sample name:
Date: 03-04-2023 01:27:21
Number of reads: 2447964
Percentage reads mapped: 98.61
Strain: lineage4.2.2.2
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 |
lineage4.2 | Euro-American | H;T;LAM | None | 0.99 |
lineage4.2.2 | Euro-American (Ural) | T;LAM7-TUR | None | 1.0 |
lineage4.2.2.2 | Euro-American (Ural) | T;LAM7-TUR | None | 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 | 2288961 | p.Phe94Cys | missense_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5076 | c.-164_-163insT | upstream_gene_variant | 1.0 |
gyrB | 6816 | p.Lys526Arg | missense_variant | 0.1 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8688 | p.Ala463Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576077 | c.730C>T | synonymous_variant | 1.0 |
rpoB | 760143 | p.Val113Ile | missense_variant | 0.12 |
rpoB | 761489 | c.1683G>A | synonymous_variant | 1.0 |
rpoC | 764840 | p.Ile491Val | 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 |
rrs | 1473280 | n.1435G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474138 | n.481T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474774 | n.1117A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474924 | n.1267G>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1475070 | n.1413T>C | non_coding_transcript_exon_variant | 0.11 |
rpsA | 1833426 | c.-116T>G | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726160 | c.-33A>G | upstream_gene_variant | 0.12 |
Rv2752c | 3066280 | c.-89C>T | upstream_gene_variant | 1.0 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ubiA | 4269991 | c.-158C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407758 | p.Ser149Arg | missense_variant | 1.0 |