Run ID: SRR4037649
Sample name:
Date: 04-04-2023 07:34:19
Number of reads: 472168
Percentage reads mapped: 99.65
Strain: lineage4.4.1.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 0.99 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
ethA | 4326292 | c.1181delA | frameshift_variant | 0.29 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7624 | p.Pro108Gln | missense_variant | 0.13 |
gyrA | 8159 | c.858G>T | synonymous_variant | 0.12 |
gyrA | 8722 | p.Arg474Leu | missense_variant | 0.22 |
gyrA | 8951 | c.1650G>A | synonymous_variant | 0.11 |
gyrA | 9138 | p.Gln613Glu | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
ccsA | 619981 | p.Leu31Met | missense_variant | 0.2 |
rpoB | 759851 | c.45G>T | synonymous_variant | 0.22 |
rpoB | 759887 | c.81C>A | synonymous_variant | 0.17 |
rpoB | 762745 | p.Gln980Arg | missense_variant | 0.4 |
rpoB | 763167 | p.Glu1121* | stop_gained | 0.2 |
rpoC | 765589 | c.2220G>T | synonymous_variant | 0.22 |
rpoC | 766073 | p.Ala902Thr | missense_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1416443 | p.Pro302Gln | missense_variant | 0.2 |
atpE | 1461016 | c.-29C>A | upstream_gene_variant | 0.17 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472083 | n.238G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474841 | n.1184G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475690 | n.2033G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476032 | n.2375C>A | non_coding_transcript_exon_variant | 0.15 |
fabG1 | 1673167 | c.-273G>T | upstream_gene_variant | 0.25 |
inhA | 1673363 | c.-839G>A | upstream_gene_variant | 1.0 |
fabG1 | 1674076 | p.Thr213Pro | missense_variant | 0.4 |
inhA | 1674300 | c.99C>A | synonymous_variant | 0.18 |
rpsA | 1834201 | c.660C>A | synonymous_variant | 0.29 |
rpsA | 1834958 | p.Leu473Met | missense_variant | 0.2 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918500 | c.561G>T | synonymous_variant | 0.12 |
ndh | 2102107 | c.936C>A | synonymous_variant | 0.22 |
ndh | 2102640 | p.Ala135Thr | missense_variant | 0.2 |
ndh | 2102990 | p.Val18Ala | missense_variant | 0.8 |
katG | 2154687 | c.1425C>A | synonymous_variant | 0.2 |
katG | 2154729 | p.Gln461His | missense_variant | 0.2 |
katG | 2154817 | p.Pro432His | missense_variant | 0.25 |
PPE35 | 2168015 | c.2598C>A | synonymous_variant | 0.22 |
PPE35 | 2168479 | p.Thr712Pro | missense_variant | 1.0 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
PPE35 | 2169964 | p.Leu217Ile | missense_variant | 0.25 |
PPE35 | 2169970 | p.Gly215Ser | missense_variant | 0.25 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289339 | c.-98C>A | upstream_gene_variant | 0.15 |
eis | 2714259 | c.1074C>T | synonymous_variant | 0.4 |
eis | 2714487 | c.846C>A | synonymous_variant | 0.25 |
eis | 2715354 | c.-22G>A | upstream_gene_variant | 0.12 |
ahpC | 2726236 | p.Leu15Pro | missense_variant | 0.17 |
folC | 2747662 | c.-64G>C | upstream_gene_variant | 0.22 |
Rv2752c | 3065745 | c.447C>A | synonymous_variant | 0.17 |
Rv2752c | 3066175 | p.Pro6Arg | missense_variant | 1.0 |
thyA | 3074250 | c.222G>A | synonymous_variant | 0.17 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3338952 | c.-166C>A | upstream_gene_variant | 0.18 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
Rv3083 | 3448768 | p.Ala89Thr | missense_variant | 0.14 |
Rv3083 | 3449545 | p.Leu348Met | missense_variant | 0.2 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474448 | c.445delC | frameshift_variant | 0.25 |
whiB7 | 3568779 | c.-100T>C | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
fbiB | 3640647 | c.-888G>A | upstream_gene_variant | 0.18 |
alr | 3840823 | p.Ala200Thr | missense_variant | 0.12 |
rpoA | 3877890 | c.618C>T | synonymous_variant | 0.18 |
clpC1 | 4039093 | p.Gly538Trp | missense_variant | 0.15 |
clpC1 | 4039948 | p.Gly253* | stop_gained | 0.25 |
panD | 4044082 | p.Gly67Asp | missense_variant | 0.17 |
embC | 4241940 | p.Pro693Gln | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245035 | c.1803C>A | synonymous_variant | 0.13 |
embB | 4247726 | p.Glu405Tyr | missense_variant | 0.15 |
embB | 4247767 | c.1254G>T | synonymous_variant | 0.25 |
embB | 4249196 | p.Gly895Trp | missense_variant | 0.25 |
aftB | 4267042 | p.Arg599Ser | missense_variant | 0.29 |
aftB | 4268168 | c.669C>A | synonymous_variant | 0.18 |
ubiA | 4269631 | p.Ala68Val | missense_variant | 0.33 |
ethA | 4326018 | p.Pro486Thr | missense_variant | 0.25 |
ethA | 4326422 | p.Gly351Val | missense_variant | 0.22 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408124 | p.Ala27Ser | missense_variant | 0.25 |