TB-Profiler result

Run: ERR2229257
Summary

Run ID: ERR2229257

Sample name:

Date: 31-03-2023 16:53:11

Number of reads: 1100668

Percentage reads mapped: 99.06

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
mshA 575584 c.237G>T synonymous_variant 0.14
ccsA 620734 c.844C>A synonymous_variant 0.14
rpoB 761469 p.Val555Ile missense_variant 0.14
rpoC 763507 c.138G>T synonymous_variant 0.13
rpoC 764663 p.Val432Ile missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775863 p.Ala873Glu missense_variant 0.17
mmpL5 775885 p.Ile866Phe missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800676 c.-133C>A upstream_gene_variant 0.13
rplC 801166 p.Gly120Arg missense_variant 0.11
fbiC 1303720 p.Gly264Cys missense_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.13
fabG1 1673349 c.-91G>C upstream_gene_variant 0.13
fabG1 1673357 c.-83G>A upstream_gene_variant 0.13
fabG1 1673359 c.-81T>C upstream_gene_variant 0.13
fabG1 1673361 c.-79C>G upstream_gene_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.3
fabG1 1674152 p.Pro238Gln missense_variant 0.17
inhA 1674309 c.108G>T synonymous_variant 0.18
inhA 1674832 p.Ala211Ser missense_variant 0.15
rpsA 1834942 p.Asp467Glu missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.2
PPE35 2167965 p.Ala883Gly missense_variant 0.24
PPE35 2167967 c.2646A>C synonymous_variant 0.22
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.29
PPE35 2169910 p.Asn235Tyr missense_variant 0.21
PPE35 2170048 p.Leu189Val missense_variant 0.38
PPE35 2170053 p.Thr187Ser missense_variant 0.37
Rv1979c 2223201 c.-38delG upstream_gene_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288977 p.Ala89Ser missense_variant 0.13
kasA 2519293 p.Asp393Glu missense_variant 0.2
eis 2714323 p.Arg337His missense_variant 0.14
folC 2746646 p.Gln318Arg missense_variant 0.17
folC 2746813 c.786A>G synonymous_variant 0.11
folC 2747755 c.-157C>T upstream_gene_variant 0.13
ribD 2987206 p.Ser123Tyr missense_variant 0.22
Rv2752c 3065227 c.964delG frameshift_variant 0.25
thyX 3067625 c.321C>A synonymous_variant 0.12
fbiD 3339666 c.549G>T synonymous_variant 0.25
fprA 3474497 p.Arg164Gln missense_variant 0.15
alr 3840787 p.Ala212Ser missense_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.38
clpC1 4038482 p.Gln741His missense_variant 0.18
embC 4239800 c.-63T>G upstream_gene_variant 0.2
embC 4240219 c.357C>A synonymous_variant 0.12
embC 4241744 p.Phe628Leu missense_variant 0.2
embC 4242065 p.Ser735Ala missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246555 c.42G>C synonymous_variant 0.33
embB 4246556 p.Ala15Pro missense_variant 0.33
embB 4247028 p.Leu172Arg missense_variant 0.22
ethA 4326014 p.Val487Gly missense_variant 0.18
ethR 4327844 p.Arg99Leu missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0