TB-Profiler result

Run: ERR2229415
Summary

Run ID: ERR2229415

Sample name:

Date: 31-03-2023 17:10:12

Number of reads: 183437

Percentage reads mapped: 99.34

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
gyrB 6743 p.Val502Phe missense_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8394 p.Tyr365His missense_variant 0.29
rpoC 767163 p.Asn1265Thr missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406773 p.Ala190Thr missense_variant 0.17
embR 1416508 c.840C>T synonymous_variant 0.33
embR 1417157 p.Pro64Leu missense_variant 0.2
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 0.2
fabG1 1673349 c.-91G>C upstream_gene_variant 0.2
fabG1 1673357 c.-83G>A upstream_gene_variant 0.2
fabG1 1673359 c.-81T>C upstream_gene_variant 0.2
fabG1 1673361 c.-79C>G upstream_gene_variant 0.2
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.5
PPE35 2169281 c.1332T>G synonymous_variant 0.5
PPE35 2169287 c.1326T>C synonymous_variant 0.4
PPE35 2169457 p.His386Asp missense_variant 0.4
PPE35 2169902 p.Leu237Phe missense_variant 0.15
PPE35 2169910 p.Asn235Tyr missense_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.22
PPE35 2170053 p.Thr187Ser missense_variant 0.25
PPE35 2170147 p.Ser156Ala missense_variant 0.13
PPE35 2170157 p.Ala152Ser missense_variant 0.14
PPE35 2170169 c.444A>G synonymous_variant 0.15
PPE35 2170175 p.Leu146Ala missense_variant 0.14
PPE35 2170566 p.Phe16Tyr missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518199 p.Ile29Phe missense_variant 0.2
thyA 3074161 p.Pro104Leu missense_variant 0.25
ald 3087478 p.Ser220Leu missense_variant 0.22
Rv3236c 3611994 c.1122delC frameshift_variant 0.29
Rv3236c 3612906 c.211T>C synonymous_variant 0.4
alr 3841440 c.-20A>G upstream_gene_variant 0.12
rpoA 3878368 p.Pro47His missense_variant 0.22
clpC1 4039800 p.Ile302Asn missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245092 c.1860C>A synonymous_variant 0.29
embB 4246555 c.42G>C synonymous_variant 0.67
embB 4246556 p.Ala15Pro missense_variant 0.67
aftB 4266993 p.Leu615Pro missense_variant 0.25
aftB 4268756 p.Ile27Met missense_variant 0.67
ethA 4326018 p.Pro486Ser missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0