TB-Profiler result

Run: ERR2229298
Summary

Run ID: ERR2229298

Sample name:

Date: 31-03-2023 16:58:52

Number of reads: 1305975

Percentage reads mapped: 99.16

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
fgd1 491377 p.Gly199Cys missense_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.17
mshA 576781 c.1434G>T synonymous_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775922 c.2559G>C synonymous_variant 0.11
mmpL5 777128 c.1353A>G synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
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 1673380 c.-60C>G upstream_gene_variant 0.17
tlyA 1917760 c.-180C>A upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918166 p.Ala76Glu missense_variant 0.12
katG 2154874 p.Tyr413Phe missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169044 c.1569G>C synonymous_variant 0.2
PPE35 2169053 c.1560T>C synonymous_variant 0.17
PPE35 2169732 p.Asn294Ser missense_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.37
PPE35 2170053 p.Thr187Ser missense_variant 0.34
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290202 c.-961C>A upstream_gene_variant 0.22
kasA 2517943 c.-172A>T upstream_gene_variant 0.12
kasA 2518978 c.864T>C synonymous_variant 0.11
ahpC 2726541 p.Glu117Gln missense_variant 0.11
folC 2747767 c.-169A>G upstream_gene_variant 0.2
alr 3841546 c.-126C>A upstream_gene_variant 0.17
clpC1 4039730 c.975C>G synonymous_variant 0.22
embC 4241652 p.Ala597Val missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.17
embB 4246548 p.Pro12Gln missense_variant 0.18
embB 4246555 c.42G>C synonymous_variant 0.2
embB 4246556 p.Ala15Pro missense_variant 0.2
embB 4246563 p.Leu17Trp missense_variant 0.18
embB 4246567 c.54G>T synonymous_variant 0.2
embB 4249649 p.Ala1046Ser missense_variant 0.12
aftB 4268868 c.-32G>A upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0