TB-Profiler result

Run: SRR6485054
Summary

Run ID: SRR6485054

Sample name:

Date: 04-04-2023 15:03:52

Number of reads: 1945912

Percentage reads mapped: 99.73

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 0.99
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 576108 p.Ala254Gly missense_variant 0.23
mshA 576482 p.Val379Leu missense_variant 0.15
rpoC 763511 p.Cys48Arg missense_variant 0.1
rpoC 763861 c.492C>T synonymous_variant 0.13
rpoC 764669 p.Pro434Thr missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776093 c.2388C>T synonymous_variant 0.12
mmpL5 776106 p.Leu792Pro missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473080 n.1235C>A non_coding_transcript_exon_variant 0.17
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475289 n.1632G>A non_coding_transcript_exon_variant 0.5
fabG1 1673380 c.-60C>G upstream_gene_variant 0.18
inhA 1673510 c.-692A>G upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156391 c.-280T>C upstream_gene_variant 0.12
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.31
PPE35 2170053 p.Thr187Ser missense_variant 0.31
PPE35 2170065 p.Ala183Gly missense_variant 0.21
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288936 c.306G>T synonymous_variant 0.11
Rv2752c 3065197 p.Asp332Ala missense_variant 0.12
thyA 3073757 p.Phe239Leu missense_variant 0.12
fprA 3474783 c.781delC frameshift_variant 0.14
fprA 3474841 p.Lys279Glu missense_variant 0.12
embA 4242253 c.-980C>T upstream_gene_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242737 p.Ala959Pro missense_variant 0.11
embB 4246205 c.-309A>T upstream_gene_variant 0.18
embB 4246548 p.Pro12Gln missense_variant 0.5
embB 4246555 c.42G>C synonymous_variant 0.4
embB 4246556 p.Ala15Pro missense_variant 0.4
aftB 4267895 p.Phe314Leu missense_variant 0.2
ubiA 4269864 c.-31C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1407del transcript_ablation 1.0