Run ID: ERR4423483
Sample name:
Date: 01-04-2023 05:50:43
Number of reads: 1173735
Percentage reads mapped: 99.77
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 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761139 | p.His445Tyr | missense_variant | 1.0 | rifampicin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5907 | p.Val223Ala | missense_variant | 0.11 |
gyrA | 7362 | p.Glu21Gln | 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 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476027 | n.2370G>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476045 | n.2388G>T | non_coding_transcript_exon_variant | 0.67 |
fabG1 | 1673346 | c.-94C>G | upstream_gene_variant | 0.11 |
fabG1 | 1673349 | c.-91G>C | upstream_gene_variant | 0.11 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.11 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.12 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.12 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
PPE35 | 2169149 | c.1464G>C | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
clpC1 | 4039729 | p.Asp326Asn | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244798 | c.1566G>A | 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 |