Run ID: ERR2512541
Sample name:
Date: 31-03-2023 19:06:10
Number of reads: 1942533
Percentage reads mapped: 99.22
Strain: lineage4.2.1.1
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 |
lineage4.2 | Euro-American | H;T;LAM | None | 1.0 |
lineage4.2.1 | Euro-American (TUR) | H3;H4 | None | 1.0 |
lineage4.2.1.1 | Euro-American (TUR) | H3;H4 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
tlyA | 1918317 | c.379_380delCG | frameshift_variant | 1.0 | capreomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 759615 | c.-192A>C | upstream_gene_variant | 0.26 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777451 | p.Val344Leu | 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 | 1471923 | n.78T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1471925 | n.80T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1471936 | n.91A>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1473262 | n.1417T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473270 | n.1425G>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473276 | n.1431A>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473277 | n.1432G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473288 | n.1443C>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473289 | n.1444T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473301 | n.1456T>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473316 | n.1471C>T | non_coding_transcript_exon_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169879 | p.Phe245Cys | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2860122 | p.Ser99Arg | missense_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 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408213 | c.-11C>T | upstream_gene_variant | 1.0 |