Run ID: ERR7361964
Sample name:
Date: 02-04-2023 04:14:26
Number of reads: 1352140
Percentage reads mapped: 99.55
Strain: lineage4.3.3
Drug-resistance: Pre-XDR-TB
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 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761110 | p.Asp435Gly | missense_variant | 1.0 | rifampicin |
rpoB | 761161 | p.Leu452Pro | missense_variant | 1.0 | rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
fabG1 | 1673432 | c.-8T>A | upstream_gene_variant | 1.0 | isoniazid |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288785 | c.456dupC | frameshift_variant | 1.0 | pyrazinamide, pyrazinamide |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
ethA | 4327484 | c.-11A>G | upstream_gene_variant | 1.0 | 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 | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 575663 | p.Gly106Trp | missense_variant | 0.22 |
ccsA | 620075 | p.Gly62Val | missense_variant | 0.25 |
rpoB | 763123 | p.Ile1106Thr | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_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 | 1473977 | n.320G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475031 | n.1374G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476056 | n.2399G>A | non_coding_transcript_exon_variant | 1.0 |
fabG1 | 1673473 | p.Pro12Thr | missense_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102510 | p.Ala178Asp | missense_variant | 0.12 |
Rv1979c | 2223051 | p.Glu38Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290237 | c.-996G>T | upstream_gene_variant | 0.17 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
folC | 2746928 | p.Pro224His | missense_variant | 0.12 |
Rv2752c | 3065824 | p.Pro123Leu | missense_variant | 1.0 |
thyX | 3067710 | p.Ser79* | stop_gained | 0.15 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339384 | c.267C>A | synonymous_variant | 0.14 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474144 | p.Trp46Cys | missense_variant | 0.18 |
fprA | 3475042 | p.Gly346Cys | missense_variant | 0.15 |
fbiB | 3642059 | p.Asn175Lys | missense_variant | 0.11 |
fbiB | 3642384 | p.Leu284Val | missense_variant | 0.13 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038802 | p.Tyr635His | missense_variant | 0.12 |
clpC1 | 4039523 | p.Phe394Leu | missense_variant | 0.14 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.14 |
embC | 4240252 | c.390G>T | synonymous_variant | 0.12 |
embC | 4241634 | p.Gly591Val | missense_variant | 0.15 |
embC | 4241664 | p.Gly601Val | missense_variant | 0.25 |
embC | 4242317 | p.Glu819* | stop_gained | 0.25 |
embC | 4242347 | p.Ala829Ser | missense_variant | 0.4 |
embA | 4242491 | c.-742C>A | upstream_gene_variant | 0.18 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243961 | c.729G>T | synonymous_variant | 0.13 |
embA | 4246474 | p.Val1081Ala | missense_variant | 0.15 |
embB | 4246718 | p.Ala69Pro | missense_variant | 0.12 |
embB | 4249733 | p.Pro1074Asn | missense_variant | 0.14 |
aftB | 4267715 | c.1122G>T | synonymous_variant | 0.23 |
ubiA | 4269271 | p.Val188Ala | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |
gid | 4407912 | c.160_290del | frameshift_variant | 1.0 |