Run ID: SRR4033844
Sample name:
Date: 04-04-2023 06:22:33
Number of reads: 808331
Percentage reads mapped: 99.59
Strain: lineage4.3.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | None | 1.0 |
lineage4.3.2.1 | Euro-American (LAM) | LAM3 | RD761 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
ethA | 4327068 | c.405dupT | frameshift_variant | 0.14 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5520 | p.Pro94Leu | missense_variant | 1.0 |
gyrB | 6065 | p.Val276Met | missense_variant | 0.11 |
gyrA | 7222 | c.-80C>T | upstream_gene_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 759662 | c.-145C>T | upstream_gene_variant | 0.12 |
rpoC | 763082 | c.-288C>T | upstream_gene_variant | 0.11 |
rpoC | 764300 | p.Gly311Cys | missense_variant | 0.15 |
rpoC | 764879 | p.Leu504Met | missense_variant | 0.11 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 765680 | p.Asn771Tyr | missense_variant | 0.15 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775809 | p.Thr891Asn | missense_variant | 0.1 |
mmpL5 | 778129 | p.Ala118Thr | missense_variant | 0.13 |
mmpS5 | 778744 | p.Lys54Asn | missense_variant | 0.12 |
mmpR5 | 779000 | p.Asn4Ser | missense_variant | 0.14 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303016 | p.Val29Gly | missense_variant | 0.12 |
embR | 1417449 | c.-102C>A | upstream_gene_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472337 | n.492C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474228 | n.572delA | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475729 | n.2072C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476493 | n.2836A>T | non_coding_transcript_exon_variant | 0.12 |
fabG1 | 1673314 | c.-126G>A | upstream_gene_variant | 0.14 |
inhA | 1674952 | p.Pro251Ala | missense_variant | 0.29 |
rpsA | 1833995 | c.454C>T | synonymous_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102156 | p.Glu296Gly | missense_variant | 0.12 |
ndh | 2102559 | p.Ser162Gly | missense_variant | 0.13 |
ndh | 2103131 | c.-89C>A | upstream_gene_variant | 0.12 |
PPE35 | 2167900 | p.Gly905Arg | missense_variant | 0.11 |
PPE35 | 2168057 | p.Gln852His | missense_variant | 0.11 |
PPE35 | 2168463 | p.Pro717His | missense_variant | 0.15 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2715348 | c.-16G>A | upstream_gene_variant | 0.15 |
ahpC | 2726279 | c.87G>A | synonymous_variant | 0.14 |
ahpC | 2726449 | p.Ser86Leu | missense_variant | 0.14 |
ribD | 2986945 | p.Asp36Val | missense_variant | 0.11 |
Rv2752c | 3065997 | c.195C>T | synonymous_variant | 0.15 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.2 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473942 | c.-65C>T | upstream_gene_variant | 0.13 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474235 | p.Arg77Ser | missense_variant | 0.22 |
fprA | 3474719 | p.Ala238Val | missense_variant | 0.18 |
fbiB | 3641898 | p.Pro122Ser | missense_variant | 0.17 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4040892 | c.-188A>G | upstream_gene_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ethA | 4326475 | c.999G>A | synonymous_variant | 0.12 |
ethA | 4327722 | c.-249C>T | upstream_gene_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |