TB-Profiler result

Run: SRR11033643
Summary

Run ID: SRR11033643

Sample name:

Date: 02-04-2023 20:04:56

Number of reads: 1683159

Percentage reads mapped: 99.71

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7994 c.693C>A synonymous_variant 0.14
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 8959 p.Asp553Gly missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.29
mshA 576133 c.786A>C synonymous_variant 0.18
rpoB 760540 p.Arg245Gln missense_variant 0.12
rpoB 762026 c.2220G>T synonymous_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779074 p.Ser29Pro missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303095 c.165G>A synonymous_variant 1.0
Rv1258c 1406686 p.Val219Ile missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472414 n.569C>T non_coding_transcript_exon_variant 0.29
rrs 1473227 n.1382C>A non_coding_transcript_exon_variant 0.33
inhA 1674299 p.Gly33Val missense_variant 0.11
rpsA 1834036 c.495C>A synonymous_variant 0.12
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918482 c.543G>T synonymous_variant 0.11
katG 2155596 c.516G>A synonymous_variant 0.12
katG 2156196 c.-85C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
ahpC 2726725 p.Trp178* stop_gained 0.18
folC 2746340 p.Ala420Val missense_variant 1.0
folC 2747552 p.Gly16Asp missense_variant 0.11
thyX 3067589 c.357G>T synonymous_variant 0.18
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877649 p.Arg287Cys missense_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038968 c.1737G>A synonymous_variant 1.0
clpC1 4039939 p.Val256Leu missense_variant 0.11
embC 4242056 p.Pro732Thr missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246569 p.Ala19Asp missense_variant 0.19
aftB 4268009 c.828G>T synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0