TB-Profiler result

Run: ERR2229537
Summary

Run ID: ERR2229537

Sample name:

Date: 31-03-2023 17:18:02

Number of reads: 1425375

Percentage reads mapped: 99.39

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
rpoB 760846 p.Thr347Asn missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304461 p.Asp511Tyr missense_variant 0.17
fbiC 1304493 p.Asp521Glu missense_variant 0.15
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 0.11
fabG1 1673349 c.-91G>C upstream_gene_variant 0.12
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
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167814 c.2799C>T synonymous_variant 0.14
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169606 p.Asn336Thr missense_variant 0.13
PPE35 2169902 p.Leu237Phe missense_variant 0.2
PPE35 2169910 p.Asn235Tyr missense_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.44
PPE35 2170053 p.Thr187Ser missense_variant 0.48
PPE35 2170147 p.Ser156Ala missense_variant 0.12
PPE35 2170157 p.Ala152Ser missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715105 c.228G>A synonymous_variant 0.12
folC 2746832 p.Val256Gly missense_variant 0.13
ribD 2987512 p.Arg225His missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3236c 3612654 p.Leu155Met missense_variant 0.11
fbiA 3640512 c.-31T>C upstream_gene_variant 0.11
alr 3841546 c.-126C>A upstream_gene_variant 0.27
rpoA 3878511 c.-5delA upstream_gene_variant 0.2
clpC1 4039099 c.1606C>A synonymous_variant 0.13
clpC1 4039645 p.His354Asp missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.42
embB 4246548 p.Pro12Gln missense_variant 0.55
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246563 p.Leu17Trp missense_variant 0.25
embB 4246567 c.54G>T synonymous_variant 0.25
ethA 4327042 p.Asp144Glu missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0