TB-Profiler result

Run: ERR4813249
Summary

Run ID: ERR4813249

Sample name:

Date: 01-04-2023 12:37:45

Number of reads: 148890

Percentage reads mapped: 98.96

Strain: lineage4.4.2

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
lineage4.4.2 Euro-American T1;T2 None 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 7328 p.Asp9Glu missense_variant 0.67
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 765076 c.1707A>G synonymous_variant 0.67
rpoC 765214 c.1845G>A synonymous_variant 0.29
rpoC 766013 p.Gln882Lys missense_variant 0.5
rpoC 766054 c.2685C>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781488 c.-71_-69delGCC upstream_gene_variant 0.4
fbiC 1302838 c.-93G>A upstream_gene_variant 0.4
fbiC 1302897 c.-34G>T upstream_gene_variant 0.33
fbiC 1304441 p.Arg504His missense_variant 0.2
rpsA 1834168 c.627C>T synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154233 p.Leu627Met missense_variant 0.4
katG 2155080 c.1032G>A synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518435 c.321G>T synonymous_variant 0.5
pepQ 2860218 c.201A>G synonymous_variant 0.33
pepQ 2860289 p.Leu44Met missense_variant 0.33
Rv2752c 3066099 p.Met31Ile missense_variant 1.0
thyA 3074369 p.Arg35Ser missense_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474607 p.Gly201Ser missense_variant 0.4
fprA 3474865 p.Ile287Phe missense_variant 0.67
panD 4044028 c.253delG frameshift_variant 0.17
embC 4241598 p.Met579Arg missense_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246508 c.-6G>A upstream_gene_variant 1.0
embB 4248314 p.Ala601Ser missense_variant 0.29
embB 4248319 c.1806A>T synonymous_variant 0.29
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
ethA 4327579 c.-106G>A upstream_gene_variant 0.33
whiB6 4338564 c.-43C>T upstream_gene_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0