Run ID: ERR2229402
Sample name:
Date: 31-03-2023 17:10:06
Number of reads: 1116515
Percentage reads mapped: 99.01
Strain: lineage4.8
Drug-resistance: Sensitive
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 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 9215 | c.1914C>A | synonymous_variant | 0.14 |
gyrA | 9263 | c.1962C>A | synonymous_variant | 0.18 |
gyrA | 9387 | p.Ala696Ser | missense_variant | 0.14 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.25 |
mshA | 576177 | p.Leu277Pro | missense_variant | 0.17 |
mshA | 576567 | p.Arg407Gln | missense_variant | 0.12 |
ccsA | 620079 | c.189C>A | synonymous_variant | 0.2 |
ccsA | 620297 | p.Pro136Gln | missense_variant | 0.13 |
ccsA | 620311 | p.Leu141Met | missense_variant | 0.13 |
ccsA | 620383 | p.Pro165Thr | missense_variant | 0.12 |
rpoB | 760061 | p.Tyr85* | stop_gained | 0.13 |
rpoB | 760086 | p.Ser94Pro | missense_variant | 0.14 |
rpoB | 760406 | c.600G>T | synonymous_variant | 0.14 |
rpoB | 760566 | p.Ser254Pro | missense_variant | 0.12 |
rpoC | 764535 | p.Arg389Pro | missense_variant | 0.29 |
rpoC | 764561 | p.Pro398Thr | missense_variant | 0.5 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775871 | p.Ile870Met | missense_variant | 0.17 |
mmpL5 | 775874 | c.2607C>A | synonymous_variant | 0.15 |
mmpL5 | 776753 | c.1727delA | frameshift_variant | 0.14 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1304394 | c.1464G>T | synonymous_variant | 0.12 |
Rv1258c | 1406409 | p.Leu311Arg | missense_variant | 0.18 |
embR | 1416482 | p.Val289Glu | missense_variant | 0.12 |
embR | 1416622 | c.726C>T | synonymous_variant | 0.14 |
embR | 1416664 | p.Tyr228* | stop_gained | 0.14 |
embR | 1416711 | p.Thr213Ser | missense_variant | 0.14 |
embR | 1416811 | p.Glu179Asp | missense_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472809 | n.964G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476601 | n.2944G>T | non_coding_transcript_exon_variant | 0.12 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.23 |
fabG1 | 1674019 | p.Leu194Met | missense_variant | 0.2 |
inhA | 1674835 | p.Gly212Cys | missense_variant | 0.13 |
rpsA | 1834227 | p.Gly229Val | missense_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102502 | p.Thr181Ala | missense_variant | 0.13 |
katG | 2154896 | p.Asp406Asn | missense_variant | 0.12 |
PPE35 | 2167745 | c.2868C>G | synonymous_variant | 0.14 |
PPE35 | 2167814 | c.2799C>T | synonymous_variant | 0.19 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.18 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.17 |
PPE35 | 2168197 | c.2416C>T | synonymous_variant | 0.22 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169269 | c.1344A>G | synonymous_variant | 0.16 |
PPE35 | 2169272 | c.1341C>G | synonymous_variant | 0.14 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.21 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.23 |
PPE35 | 2169287 | c.1326T>C | synonymous_variant | 0.28 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.53 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.58 |
Rv1979c | 2223139 | p.Tyr9Cys | missense_variant | 0.11 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289430 | c.-189C>G | upstream_gene_variant | 0.12 |
pncA | 2289502 | c.-261G>A | upstream_gene_variant | 0.13 |
kasA | 2518606 | c.492G>C | synonymous_variant | 0.19 |
kasA | 2518609 | p.Met165Ile | missense_variant | 0.21 |
kasA | 2518818 | p.Asp235Ala | missense_variant | 0.18 |
folC | 2746222 | c.1377C>T | synonymous_variant | 0.22 |
folC | 2746478 | p.Phe374Ser | missense_variant | 0.14 |
folC | 2747635 | c.-37A>G | upstream_gene_variant | 0.18 |
pepQ | 2860147 | p.Gly91Asp | missense_variant | 0.22 |
ribD | 2986747 | c.-92G>T | upstream_gene_variant | 0.13 |
ribD | 2987268 | p.Thr144Ser | missense_variant | 0.15 |
thyX | 3067204 | p.Thr248Pro | missense_variant | 0.18 |
thyX | 3067718 | c.228C>G | synonymous_variant | 0.11 |
thyX | 3068134 | c.-189C>A | upstream_gene_variant | 0.15 |
fprA | 3475037 | c.1032delC | frameshift_variant | 0.13 |
whiB7 | 3568507 | p.Gln58Arg | missense_variant | 0.11 |
Rv3236c | 3612746 | p.Val124Ala | missense_variant | 0.22 |
fbiA | 3640580 | p.Ala13Asp | missense_variant | 0.18 |
fbiA | 3641263 | p.Val241Ile | missense_variant | 0.13 |
fbiB | 3641935 | p.Ala134Asp | missense_variant | 0.13 |
fbiB | 3642031 | p.Gly166Val | missense_variant | 0.14 |
fbiB | 3642313 | p.Arg260Leu | missense_variant | 0.12 |
fbiB | 3642375 | p.Ala281Ser | missense_variant | 0.14 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.29 |
clpC1 | 4039359 | p.Ser449Ile | missense_variant | 0.13 |
clpC1 | 4039645 | p.His354Asp | missense_variant | 0.25 |
clpC1 | 4039654 | p.Thr351Ser | missense_variant | 0.26 |
clpC1 | 4039730 | c.975C>G | synonymous_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242854 | p.Gly998Cys | missense_variant | 0.18 |
embA | 4243860 | p.Gly210Cys | missense_variant | 0.18 |
embA | 4243950 | p.Tyr240Asn | missense_variant | 0.2 |
embA | 4244014 | p.Leu261Ser | missense_variant | 0.15 |
embA | 4244463 | p.Ala411Ser | missense_variant | 0.14 |
embA | 4245535 | p.Ser768Asn | missense_variant | 0.22 |
embA | 4245844 | p.Val871Ala | missense_variant | 0.13 |
embB | 4246328 | c.-186C>T | upstream_gene_variant | 0.29 |
embB | 4246361 | c.-153C>A | upstream_gene_variant | 0.25 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.25 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.44 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.44 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.25 |
embB | 4246567 | c.54_55insT | frameshift_variant | 0.17 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.14 |
embB | 4246956 | p.Ile148Thr | missense_variant | 0.13 |
aftB | 4268165 | p.Tyr224* | stop_gained | 0.12 |
ubiA | 4269106 | p.Tyr243Cys | missense_variant | 0.11 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-6_*1408del | transcript_ablation | 1.0 |