TB-Profiler result

Run: SRR19428566
Summary

Run ID: SRR19428566

Sample name:

Date: 03-04-2023 21:40:31

Number of reads: 1306356

Percentage reads mapped: 99.76

Strain: lineage4.3.4.2.1

Drug-resistance: Other

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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
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 1.0
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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
embB 4247728 p.Glu405Asp missense_variant 0.22 ethambutol
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 6140 p.Val301Leu missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8795 c.1494C>T synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491305 p.Ala175Ser missense_variant 0.22
mshA 575314 c.-34C>A upstream_gene_variant 0.5
mshA 575869 c.522G>T synonymous_variant 0.13
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 779609 c.-704C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303996 p.Gly356Ser missense_variant 0.4
Rv1258c 1407170 p.Phe57Leu missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834963 c.1422G>T synonymous_variant 0.29
rpsA 1834977 p.Gly479Val missense_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170101 p.Pro171Gln missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289909 c.-668G>A upstream_gene_variant 1.0
kasA 2519164 c.1050C>T synonymous_variant 0.18
folC 2746571 p.Arg343Leu missense_variant 0.14
folC 2747726 c.-128G>T upstream_gene_variant 0.11
pepQ 2860191 p.Glu76Asp missense_variant 0.22
ribD 2987337 p.Gly167Ser missense_variant 0.14
Rv2752c 3067139 c.-948G>T upstream_gene_variant 0.14
thyX 3067275 p.Pro224His missense_variant 0.33
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087333 p.Val172Met missense_variant 0.4
fbiD 3339337 p.Gly74Trp missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
fbiB 3642065 c.531C>A synonymous_variant 0.14
fbiB 3642207 p.Asp225Tyr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4241159 p.Ala433Ser missense_variant 0.14
embC 4241167 c.1305C>A synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243857 p.Leu209Ile missense_variant 0.14
embA 4244169 p.Gln313Lys missense_variant 0.12
embA 4244254 p.Arg341Leu missense_variant 0.29
embA 4244353 p.Pro374Gln missense_variant 0.12
embA 4245745 p.Pro838Gln missense_variant 0.2
embB 4247658 p.Pro382His missense_variant 0.22
aftB 4267655 c.1182C>T synonymous_variant 0.13
aftB 4267710 p.Ser376Ile missense_variant 0.11
ethR 4328021 p.Asp158Gly missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0