TB-Profiler result

Run: SRR4034006

Summary

Run ID: SRR4034006

Sample name:

Date: 04-04-2023 06:30:20

Number of reads: 446851

Percentage reads mapped: 99.53

Strain: lineage4.3.2

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 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
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7793 c.492G>T synonymous_variant 0.33
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 762792 p.Val996Phe missense_variant 0.33
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303419 c.489C>T synonymous_variant 0.17
fbiC 1303536 c.606G>C synonymous_variant 0.91
Rv1258c 1407082 p.Ala87Thr missense_variant 0.67
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1476766 n.3109C>T non_coding_transcript_exon_variant 0.11
inhA 1674199 c.-3C>A upstream_gene_variant 0.14
rpsA 1833352 c.-190C>A upstream_gene_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918740 c.801C>A synonymous_variant 0.22
PPE35 2170279 p.Ala112Thr missense_variant 0.2
PPE35 2170595 c.18G>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289148 p.Ser32Arg missense_variant 0.12
pncA 2290107 c.-866T>A upstream_gene_variant 1.0
Rv2752c 3065806 p.Arg129Tyr missense_variant 0.14
Rv2752c 3065855 p.Ala113Ser missense_variant 0.15
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
fbiA 3640891 p.Gln117Lys missense_variant 0.14
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.5
clpC1 4039712 p.Tyr331* stop_gained 0.17
embA 4245482 c.2250G>A synonymous_variant 1.0
embB 4249009 c.2496G>A synonymous_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0