TB-Profiler result

Run: SRR6831730
Summary

Run ID: SRR6831730

Sample name:

Date: 04-04-2023 16:59:57

Number of reads: 548285

Percentage reads mapped: 99.69

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 0.98
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
gyrB 5480 p.Gly81Ser missense_variant 0.4
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491649 p.Asp289Glu missense_variant 0.29
rpoB 761556 p.Ala584Thr missense_variant 0.2
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765350 p.Ala661Ser missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776191 p.Met764Leu missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407106 p.Asp79Asn missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473258 n.1413T>G non_coding_transcript_exon_variant 0.33
rrl 1476599 n.2942C>T non_coding_transcript_exon_variant 0.67
fabG1 1674076 p.Thr213Pro missense_variant 0.4
inhA 1674865 p.Trp222Gly missense_variant 0.2
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102155 p.Glu296Asp missense_variant 0.33
katG 2155574 p.Thr180Ser missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2715303 p.Glu10Asp missense_variant 0.17
ahpC 2726140 c.-53A>G upstream_gene_variant 0.17
pepQ 2860081 p.Ala113Val missense_variant 1.0
Rv2752c 3067135 c.-944C>T upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074167 p.Pro102Leu missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087800 c.983delG frameshift_variant 0.33
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
ddn 3987044 c.201G>A synonymous_variant 0.25
ddn 3987162 c.319C>T synonymous_variant 0.29
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243714 p.Thr161Ile missense_variant 0.2
aftB 4267295 c.1542G>A synonymous_variant 0.22
ethR 4327015 c.-534G>T upstream_gene_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338621 c.-100G>T upstream_gene_variant 0.15
gid 4407720 c.483C>G synonymous_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0