Run ID: ERR4817015
Sample name:
Date: 01-04-2023 14:45:36
Number of reads: 2870803
Percentage reads mapped: 98.94
Strain: lineage4.2.2.1
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 | 1.0 |
lineage4.2.2.1 | Euro-American | LAM7-TUR | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.33 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289070 | p.Phe58Leu | missense_variant | 1.0 | pyrazinamide |
embB | 4248002 | p.Gln497Lys | missense_variant | 1.0 | ethambutol |
gid | 4407944 | c.258_259insG | frameshift_variant | 1.0 | streptomycin |
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 |
mshA | 576077 | c.730C>T | synonymous_variant | 1.0 |
rpoC | 764817 | p.Val483Gly | 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 | 1471978 | n.133C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472755 | n.910G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472790 | n.945T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473305 | n.1460G>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1473715 | n.58G>A | non_coding_transcript_exon_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
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 |
ethA | 4326533 | p.Thr314Ile | missense_variant | 1.0 |
ethR | 4327731 | p.Phe61Leu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |