Run ID: SRR22528574
Sample name:
Date: 04-04-2023 04:19:04
Number of reads: 809582
Percentage reads mapped: 99.69
Strain: lineage4.3.3
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 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 |
embB | 4247729 | p.Gly406Ser | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 763045 | p.Gln1080Arg | missense_variant | 0.3 |
rpoC | 764944 | p.His525Gln | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 765225 | p.Ile619Thr | missense_variant | 0.11 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777061 | p.Ala474Thr | missense_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303701 | c.771C>T | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472212 | n.367T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472871 | n.1026G>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474458 | n.801C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476112 | n.2458delT | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476634 | n.2977T>C | non_coding_transcript_exon_variant | 0.12 |
rpsA | 1833588 | p.Ile16Thr | missense_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 0.96 |
katG | 2153901 | c.2211C>T | synonymous_variant | 0.12 |
katG | 2155373 | p.Asp247Asn | missense_variant | 0.12 |
PPE35 | 2169091 | p.Val508Met | missense_variant | 0.15 |
PPE35 | 2169259 | p.Gln452* | stop_gained | 0.12 |
Rv1979c | 2222304 | c.861C>T | synonymous_variant | 0.17 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | 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 | 3877520 | p.Trp330Arg | missense_variant | 0.15 |
rpoA | 3878468 | p.Leu14Phe | missense_variant | 0.14 |
rpoA | 3878549 | c.-43delC | upstream_gene_variant | 0.13 |
rpoA | 3878630 | c.-123G>C | upstream_gene_variant | 0.2 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4039062 | p.Ser548Trp | missense_variant | 0.1 |
embC | 4242182 | p.Ala774Ser | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
aftB | 4267666 | p.Asn391Asp | missense_variant | 0.13 |
aftB | 4268278 | p.Pro187Ser | missense_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338599 | c.-78A>C | upstream_gene_variant | 1.0 |
gid | 4407754 | p.Met150Arg | missense_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |