Run ID: ERR5866249
Sample name:
Date: 02-04-2023 00:35:08
Number of reads: 1205838
Percentage reads mapped: 99.75
Strain: lineage4.8
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 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761109 | p.Asp435Tyr | missense_variant | 1.0 | rifampicin |
pncA | 2288959 | c.282delC | frameshift_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 6316 | c.-986G>T | upstream_gene_variant | 0.15 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rpoB | 760413 | p.Gly203Ser | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776288 | c.2192delG | frameshift_variant | 0.15 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1407062 | c.279G>A | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474124 | n.467G>T | non_coding_transcript_exon_variant | 0.4 |
fabG1 | 1673560 | p.Lys41Leu | missense_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154670 | p.Ser481Trp | missense_variant | 1.0 |
katG | 2156470 | c.-360delT | upstream_gene_variant | 0.11 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
folC | 2747750 | c.-152G>A | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
Rv3083 | 3448500 | c.-4A>G | upstream_gene_variant | 1.0 |
Rv3083 | 3448501 | c.-3G>T | upstream_gene_variant | 1.0 |
Rv3236c | 3613143 | c.-27A>G | upstream_gene_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243331 | c.99G>T | synonymous_variant | 1.0 |
embB | 4248444 | p.Asn644Thr | missense_variant | 1.0 |
ethA | 4326906 | p.Leu190Phe | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408059 | p.His48Gln | missense_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |