Run ID: ERR970451
Sample name:
Date: 02-04-2023 12:01:36
Number of reads: 7515290
Percentage reads mapped: 99.07
Strain: lineage4.1.2.1
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.2 | Euro-American | T;H | None | 1.0 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
pncA | 2289154 | c.87delC | frameshift_variant | 0.99 | pyrazinamide |
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 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 1.0 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.99 |
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 | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472153 | n.308G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472754 | n.909G>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289957 | c.-716G>T | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
ahpC | 2726142 | c.-51G>A | upstream_gene_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.29 |
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 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338600 | c.-79T>G | upstream_gene_variant | 0.99 |
whiB6 | 4338602 | c.-81A>T | upstream_gene_variant | 0.99 |