TB-Profiler result

Run: ERR046955
Summary

Run ID: ERR046955

Sample name:

Date: 31-03-2023 08:58:38

Number of reads: 4878424

Percentage reads mapped: 99.46

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 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764653 c.1284G>A synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.19
mmpR5 779371 p.Ala128Pro missense_variant 0.24
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.34
inhA 1674952 p.Pro251Ala missense_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.21
PPE35 2169866 c.747G>C synonymous_variant 0.39
PPE35 2170156 p.Ala153Pro missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.15
folC 2747263 c.336C>A synonymous_variant 0.22
Rv2752c 3064552 p.Arg547Pro missense_variant 0.25
Rv2752c 3064741 p.Gly484Ala missense_variant 0.22
thyX 3067995 c.-50A>C upstream_gene_variant 0.22
thyA 3073806 c.666C>G synonymous_variant 0.19
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339550 p.Gly145Trp missense_variant 0.3
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.3
fbiB 3641955 p.Gly141Arg missense_variant 0.34
fbiB 3642734 c.1200G>C synonymous_variant 0.25
fbiB 3642772 p.Asp413Ala missense_variant 0.21
rpoA 3878238 p.Asp90Glu missense_variant 0.17
ddn 3987013 p.Gly57Ala missense_variant 0.25
clpC1 4038857 c.1848C>A synonymous_variant 0.22
clpC1 4039932 p.Gly258Val missense_variant 0.24
embC 4242425 p.Arg855Gly missense_variant 0.14
embC 4242476 p.Pro872Ala missense_variant 0.16
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.44
embC 4242827 p.Leu989Val missense_variant 0.3
embB 4248725 p.Ser738Ala missense_variant 0.31
ubiA 4269529 p.Ala102Gly missense_variant 0.2
ethA 4327672 c.-199G>A upstream_gene_variant 0.27
whiB6 4338595 c.-75delG upstream_gene_variant 1.0