TB-Profiler result

Run: ERR2229402
Summary

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

Download CSV Download TXT Download PDF Download JSON
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
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
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
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