Run ID: ERR11081831
Sample name:
Date: 09-04-2023 12:14:03
Number of reads: 1413317
Percentage reads mapped: 99.42
Strain: lineage4.8
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 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761101 | p.Gln432Pro | missense_variant | 0.97 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288703 | p.Val180Gly | missense_variant | 1.0 | pyrazinamide |
eis | 2715344 | c.-12C>T | upstream_gene_variant | 1.0 | kanamycin |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
fgd1 | 491407 | p.Pro209Thr | missense_variant | 0.22 |
mshA | 575366 | p.Asp7Tyr | missense_variant | 0.25 |
rpoC | 764817 | p.Val483Gly | missense_variant | 0.98 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406510 | c.831G>A | synonymous_variant | 0.25 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.16 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1917987 | c.48G>A | synonymous_variant | 0.18 |
tlyA | 1918058 | p.Val40Gly | missense_variant | 0.5 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.24 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.25 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
fbiB | 3640974 | c.-561T>G | upstream_gene_variant | 1.0 |
clpC1 | 4038257 | c.2448G>T | synonymous_variant | 0.5 |
embC | 4241657 | p.Ser599Ala | missense_variant | 0.25 |
embC | 4241699 | p.Met613Val | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242743 | p.Thr961Pro | missense_variant | 0.27 |
embA | 4243433 | c.201A>C | synonymous_variant | 0.33 |
embA | 4244508 | p.Leu426Val | missense_variant | 0.2 |
aftB | 4268832 | p.Val2Gly | missense_variant | 0.18 |
whiB6 | 4338234 | c.288A>G | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |