TB-Profiler result

Run: ERR2512964
Summary

Run ID: ERR2512964

Sample name:

Date: 31-03-2023 19:22:14

Number of reads: 469260

Percentage reads mapped: 99.51

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 0.99
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
gyrB 7059 p.Ile607Thr missense_variant 0.14
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 490751 c.-32T>G upstream_gene_variant 0.21
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 759751 c.-56G>A upstream_gene_variant 0.14
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760841 c.1035T>C synonymous_variant 0.13
rpoB 760858 p.Val351Ala missense_variant 0.14
rpoB 760862 c.1056G>C synonymous_variant 0.14
rpoB 760865 c.1059C>T synonymous_variant 0.14
rpoB 760886 p.Glu360Asp missense_variant 0.17
rpoB 760887 p.Thr361Val missense_variant 0.17
rpoB 760910 c.1104C>T synonymous_variant 0.15
rpoB 760916 c.1110C>T synonymous_variant 0.18
rpoB 760928 c.1122G>C synonymous_variant 0.17
rpoB 760943 c.1137C>T synonymous_variant 0.13
rpoB 760946 c.1140A>G synonymous_variant 0.13
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776246 c.2235C>T synonymous_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781404 c.-156G>T upstream_gene_variant 0.1
atpE 1460915 c.-130C>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674802 p.Ala201Thr missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154878 p.Trp412Arg missense_variant 0.12
Rv1979c 2222051 c.1114C>T synonymous_variant 0.12
Rv1979c 2222614 p.Ile184Asn missense_variant 0.1
Rv1979c 2222826 c.338delT frameshift_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223301 c.-138delG upstream_gene_variant 0.14
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518077 c.-38G>T upstream_gene_variant 0.11
eis 2714993 p.Pro114Ala missense_variant 0.12
ahpC 2726338 p.Val49Gly missense_variant 0.27
folC 2746660 c.938delT frameshift_variant 0.33
pepQ 2859419 c.999delC frameshift_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474376 p.Ala124Pro missense_variant 0.18
fbiA 3640834 p.Gln98Lys missense_variant 0.12
fbiB 3642685 p.Leu384* stop_gained 0.33
embC 4239951 p.Arg30Gln missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4248772 c.2259A>G synonymous_variant 0.15
embB 4248799 c.2286T>G synonymous_variant 0.12
embB 4249579 c.3066G>A synonymous_variant 0.13
aftB 4267988 c.849G>A synonymous_variant 0.25
ubiA 4269889 c.-56C>T upstream_gene_variant 0.1
ethA 4327338 p.Asp46Asn missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0