TB-Profiler result

Run: SRR023494

Summary

Run ID: SRR023494

Sample name:

Date: 02-04-2023 14:14:17

Number of reads: 13398575

Percentage reads mapped: 96.63

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.99
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 763949 c.580C>A synonymous_variant 0.4
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.98
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1917977 p.Arg13Gln missense_variant 0.2
ndh 2101690 p.Glu451Asp missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746578 p.Arg341Ser missense_variant 0.13
folC 2747766 c.-168A>G upstream_gene_variant 0.12
pepQ 2859636 c.783G>C synonymous_variant 0.12
pepQ 2859984 c.435A>T synonymous_variant 0.13
ribD 2987389 p.Ala184Asp missense_variant 0.13
Rv2752c 3064751 p.Arg481Cys missense_variant 1.0
thyX 3067280 c.666G>T synonymous_variant 0.18
thyX 3067892 c.54G>A synonymous_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339051 c.-67C>T upstream_gene_variant 0.18
fbiD 3339707 p.Ala197Asp missense_variant 0.33
Rv3083 3448774 p.Glu91* stop_gained 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640379 c.-164T>C upstream_gene_variant 1.0
fbiB 3642714 p.Gly394Cys missense_variant 0.12
embA 4242346 c.-887C>A upstream_gene_variant 0.14
embC 4242574 p.Glu904Asp missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243458 p.Cys76Arg missense_variant 0.11
embA 4243950 p.Tyr240Asn missense_variant 0.22
embB 4248585 p.Arg691His missense_variant 0.13
whiB6 4338202 p.Arg107His missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0