Run ID: ERR2229406
Sample name:
Date: 31-03-2023 17:10:17
Number of reads: 831933
Percentage reads mapped: 99.25
Strain: lineage4.8
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
pncA | 2289066 | c.175delT | frameshift_variant | 0.13 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 8839 | p.Arg513Pro | missense_variant | 0.12 |
gyrA | 9515 | p.Glu738Asp | missense_variant | 0.12 |
fgd1 | 491599 | p.Asp273Tyr | missense_variant | 0.13 |
fgd1 | 491662 | p.Val294Phe | missense_variant | 0.12 |
mshA | 576089 | p.Arg248Cys | missense_variant | 0.15 |
rpoB | 761706 | p.Asp634Tyr | missense_variant | 0.17 |
rpoC | 764404 | c.1036delA | frameshift_variant | 0.2 |
rpoC | 765546 | p.Arg726His | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777119 | p.His454Gln | missense_variant | 0.25 |
mmpL5 | 777122 | c.1359C>T | synonymous_variant | 0.26 |
mmpL5 | 777128 | c.1353A>G | synonymous_variant | 0.29 |
mmpL5 | 777191 | c.1290C>A | synonymous_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1304796 | c.1866G>A | synonymous_variant | 0.12 |
fbiC | 1305053 | p.Met708Thr | missense_variant | 0.17 |
fbiC | 1305352 | p.Gly808Cys | missense_variant | 0.14 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474488 | n.831G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476515 | n.2858C>T | non_coding_transcript_exon_variant | 0.14 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.25 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102244 | p.Arg267Trp | missense_variant | 0.14 |
ndh | 2102389 | c.654G>C | synonymous_variant | 0.18 |
ndh | 2102392 | c.651C>A | synonymous_variant | 0.18 |
ndh | 2102834 | p.Pro70Arg | missense_variant | 0.12 |
PPE35 | 2167814 | c.2799C>T | synonymous_variant | 0.21 |
PPE35 | 2167865 | c.2748G>C | synonymous_variant | 0.21 |
PPE35 | 2167868 | c.2745A>C | synonymous_variant | 0.22 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169203 | c.1410C>A | synonymous_variant | 0.15 |
PPE35 | 2169206 | c.1407A>G | synonymous_variant | 0.15 |
PPE35 | 2169209 | c.1404C>G | synonymous_variant | 0.15 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.6 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.64 |
PPE35 | 2170147 | p.Ser156Ala | missense_variant | 0.21 |
PPE35 | 2170159 | p.Ala152Ser | missense_variant | 0.15 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288780 | p.Arg154Ser | missense_variant | 0.17 |
pncA | 2289637 | c.-397delC | upstream_gene_variant | 0.22 |
kasA | 2519128 | c.1014G>C | synonymous_variant | 0.14 |
kasA | 2519131 | c.1017G>C | synonymous_variant | 0.14 |
kasA | 2519140 | c.1026G>C | synonymous_variant | 0.25 |
kasA | 2519143 | c.1029G>C | synonymous_variant | 0.25 |
kasA | 2519153 | p.Ile347Val | missense_variant | 0.2 |
kasA | 2519167 | c.1053T>C | synonymous_variant | 0.17 |
kasA | 2519171 | p.Leu353Val | missense_variant | 0.17 |
eis | 2715469 | c.-137T>C | upstream_gene_variant | 0.2 |
ahpC | 2726470 | c.281dupT | frameshift_variant | 0.14 |
folC | 2747565 | p.Gly12* | stop_gained | 0.13 |
Rv2752c | 3064695 | c.1497A>G | synonymous_variant | 0.2 |
Rv2752c | 3065189 | p.Val335Leu | missense_variant | 0.13 |
Rv2752c | 3066301 | c.-110G>T | upstream_gene_variant | 0.18 |
thyA | 3074487 | c.-16T>A | upstream_gene_variant | 0.18 |
ald | 3087774 | p.Pro319Ser | missense_variant | 0.14 |
fbiD | 3339744 | c.627A>C | synonymous_variant | 0.29 |
Rv3083 | 3448453 | c.-51G>A | upstream_gene_variant | 0.17 |
fprA | 3474360 | p.Asp118Glu | missense_variant | 0.18 |
alr | 3840932 | p.Asn163Lys | missense_variant | 0.15 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.26 |
rpoA | 3877482 | c.1026C>T | synonymous_variant | 0.17 |
rpoA | 3877719 | p.Cys263* | stop_gained | 0.15 |
clpC1 | 4039162 | p.His515Asp | missense_variant | 0.14 |
clpC1 | 4039645 | p.His354Asp | missense_variant | 0.25 |
clpC1 | 4039654 | p.Thr351Ser | missense_variant | 0.25 |
clpC1 | 4039691 | c.1014G>C | synonymous_variant | 0.2 |
panD | 4043918 | p.Ala122Thr | missense_variant | 0.12 |
embC | 4240590 | p.Ala243Asp | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4243029 | p.Asp1056Gly | missense_variant | 0.2 |
embA | 4243664 | c.432T>C | synonymous_variant | 0.18 |
embA | 4243739 | p.Gln169His | missense_variant | 0.15 |
embA | 4244076 | c.844C>A | synonymous_variant | 0.2 |
embA | 4244204 | p.Met324Ile | missense_variant | 0.25 |
embB | 4247215 | c.702C>T | synonymous_variant | 0.29 |
embB | 4247470 | c.957T>C | synonymous_variant | 0.14 |
embB | 4248731 | p.Val740Leu | missense_variant | 0.14 |
aftB | 4267767 | p.Leu357Gln | missense_variant | 0.18 |
aftB | 4268562 | p.Leu92Pro | missense_variant | 0.22 |
aftB | 4268657 | c.180G>A | synonymous_variant | 0.29 |
aftB | 4269555 | c.-719C>A | upstream_gene_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |