TB-Profiler result

Run: ERR2229096
Summary

Run ID: ERR2229096

Sample name:

Date: 31-03-2023 16:38:24

Number of reads: 247686

Percentage reads mapped: 99.32

Strain: lineage4

Drug-resistance: Sensitive

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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
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 9635 c.2334T>A synonymous_variant 0.22
rpoB 763089 p.Lys1095* stop_gained 0.4
rpoC 766521 p.Gly1051Asp missense_variant 0.25
mmpL5 777119 p.His454Gln missense_variant 0.2
mmpL5 777122 c.1359C>T synonymous_variant 0.22
mmpL5 777128 c.1353A>G synonymous_variant 0.22
mmpL5 777174 p.Arg436Leu missense_variant 0.2
mmpR5 778175 c.-815A>G upstream_gene_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305343 p.Asn805Asp missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.19
fabG1 1673349 c.-91G>C upstream_gene_variant 0.19
fabG1 1673357 c.-83G>A upstream_gene_variant 0.14
fabG1 1673359 c.-81T>C upstream_gene_variant 0.15
fabG1 1673361 c.-79C>G upstream_gene_variant 0.15
fabG1 1673380 c.-60C>G upstream_gene_variant 0.31
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102538 p.Lys169Glu missense_variant 0.29
ndh 2102608 p.Leu145Phe missense_variant 0.25
PPE35 2167833 p.Leu927Arg missense_variant 0.14
PPE35 2167865 c.2748G>C synonymous_variant 0.22
PPE35 2167868 c.2745A>C synonymous_variant 0.22
PPE35 2167877 p.Ser912Arg missense_variant 0.15
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.25
PPE35 2169272 c.1341C>G synonymous_variant 0.27
PPE35 2169278 c.1335T>C synonymous_variant 0.18
PPE35 2169281 c.1332T>G synonymous_variant 0.2
PPE35 2169596 c.1017T>C synonymous_variant 0.12
PPE35 2169879 p.Phe245Ser missense_variant 0.27
PPE35 2169882 p.Ser244Asn missense_variant 0.27
PPE35 2169890 c.723C>T synonymous_variant 0.3
PPE35 2169893 c.720C>A synonymous_variant 0.3
PPE35 2169902 p.Leu237Phe missense_variant 0.33
PPE35 2170048 p.Leu189Val missense_variant 0.56
PPE35 2170053 p.Thr187Ser missense_variant 0.54
PPE35 2170235 c.378T>C synonymous_variant 0.13
PPE35 2170238 c.375T>G synonymous_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289006 p.Ala79Glu missense_variant 0.14
kasA 2518864 c.750G>C synonymous_variant 0.25
eis 2714252 p.Leu361Ile missense_variant 0.18
pepQ 2860609 c.-191A>T upstream_gene_variant 0.33
fbiD 3339406 p.Thr97Ser missense_variant 0.2
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 0.25
clpC1 4038590 c.2115C>T synonymous_variant 0.33
clpC1 4039730 c.975C>G synonymous_variant 0.25
embA 4243409 c.177C>A synonymous_variant 0.33
embA 4245328 c.2097delA frameshift_variant 0.67
embB 4246772 p.Val87Leu missense_variant 0.29
embB 4248530 p.Phe673Ile missense_variant 0.2
aftB 4267266 p.Ala524Val missense_variant 0.33
ethA 4326194 p.Glu427Gly missense_variant 0.18
ethA 4326411 p.Thr355Ala missense_variant 0.5
ethR 4326961 c.-588G>C upstream_gene_variant 0.29
ethR 4326964 c.-585G>A upstream_gene_variant 0.29
ethR 4326970 c.-579G>T upstream_gene_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407951 c.252G>A synonymous_variant 0.29
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0