TB-Profiler result

Run: ERR4816849
Summary

Run ID: ERR4816849

Sample name:

Date: 01-04-2023 14:39:45

Number of reads: 1395907

Percentage reads mapped: 99.52

Strain: lineage4.1.2.1

Drug-resistance: HR-TB

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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
katG 2155831 p.Asp94Gly missense_variant 0.11 isoniazid
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
rpoB 760927 p.Thr374Met missense_variant 0.13
rpoB 760944 c.1142delA frameshift_variant 0.15
rpoB 761401 p.Arg532His missense_variant 0.12
rpoB 762605 p.Cys933Trp missense_variant 0.11
rpoC 764387 c.1018T>C synonymous_variant 0.1
rpoC 764396 c.1029_1030delGT frameshift_variant 0.11
rpoC 764970 p.Ala534Val missense_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766642 c.3273C>T synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304824 p.Ala632Thr missense_variant 0.13
Rv1258c 1406092 p.Ser417Thr missense_variant 0.11
Rv1258c 1406912 p.Asn143Lys missense_variant 0.12
Rv1258c 1406917 p.Ile142Val missense_variant 0.12
embR 1416851 p.Leu166Pro missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473762 n.105C>A non_coding_transcript_exon_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518772 p.Asn220Asp missense_variant 0.12
folC 2747239 c.360T>C synonymous_variant 0.1
pepQ 2859718 p.Thr234Ser missense_variant 0.11
Rv2752c 3067106 c.-915G>A upstream_gene_variant 0.12
thyX 3067777 c.168delC frameshift_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448578 c.75C>T synonymous_variant 0.16
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474200 p.Lys65Arg missense_variant 0.13
fprA 3474212 p.Lys69Arg missense_variant 0.13
fprA 3474409 p.His135Tyr missense_variant 0.13
embC 4241702 p.Arg614Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243895 c.663G>A synonymous_variant 0.12
ubiA 4269626 p.Tyr70His missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0