TB-Profiler result

Run: SRR6831852

Summary

Run ID: SRR6831852

Sample name:

Date: 04-04-2023 17:04:39

Number of reads: 666939

Percentage reads mapped: 99.62

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 0.92
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 8457 p.Glu386Lys missense_variant 0.4
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576623 p.Ala426Thr missense_variant 1.0
rpoC 764919 p.Val517Ala missense_variant 0.12
rpoC 764972 p.Asp535His missense_variant 0.18
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779057 c.71delG frameshift_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417414 c.-67G>A upstream_gene_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472250 n.405G>C non_coding_transcript_exon_variant 0.22
rpsA 1833592 c.51C>T synonymous_variant 0.13
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918580 p.Arg214Leu missense_variant 0.13
katG 2156116 c.-5A>G upstream_gene_variant 0.12
katG 2156196 c.-85C>T upstream_gene_variant 1.0
PPE35 2169411 p.Thr401Asn missense_variant 0.17
Rv1979c 2222214 c.951C>G synonymous_variant 0.17
Rv1979c 2223128 p.Lys13Glu missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2714381 p.Ser318Pro missense_variant 0.29
folC 2746337 p.Ala421Val missense_variant 0.17
folC 2746340 p.Ala420Val missense_variant 1.0
pepQ 2860285 c.133delG frameshift_variant 0.11
Rv2752c 3064792 p.Ile467Thr missense_variant 0.29
Rv2752c 3066051 c.141G>A synonymous_variant 0.18
thyX 3067744 p.Gly68Arg missense_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087528 p.Gly237Arg missense_variant 0.12
Rv3083 3448447 c.-57T>C upstream_gene_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840870 p.Ala184Val missense_variant 0.11
ddn 3987229 p.Met129Arg missense_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038945 p.Asp587Ala missense_variant 0.22
clpC1 4038968 c.1737G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249048 c.2535A>G synonymous_variant 0.22
aftB 4268874 c.-38T>A upstream_gene_variant 0.2
ubiA 4269919 c.-86T>C upstream_gene_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338687 c.-166G>T upstream_gene_variant 0.13
gid 4408156 p.Leu16Arg missense_variant 1.0