TB-Profiler result

Run: ERR4816950
Summary

Run ID: ERR4816950

Sample name:

Date: 01-04-2023 14:43:18

Number of reads: 1235074

Percentage reads mapped: 99.41

Strain: lineage4.1.2.1

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
lineage4.1 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
embB 4247782 p.Met423Ile missense_variant 0.16 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
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 491018 p.Phe79Ser missense_variant 0.11
fgd1 491533 p.Pro251Ser missense_variant 0.11
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575474 p.Asp43His missense_variant 0.2
mshA 575587 c.240C>G synonymous_variant 0.18
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 620315 p.Leu142Pro missense_variant 0.12
ccsA 620459 p.Gly190Asp missense_variant 0.12
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761156 c.1350G>A synonymous_variant 0.18
rpoB 761790 p.Arg662Cys missense_variant 0.12
rpoC 762561 c.-809C>A upstream_gene_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766087 c.2718C>G synonymous_variant 0.15
rpoC 766419 p.Gln1017Arg missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304245 p.Asp439His missense_variant 0.15
fbiC 1304348 p.Trp473Ser missense_variant 0.1
Rv1258c 1406385 p.Ala319Val missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473019 n.1174G>A non_coding_transcript_exon_variant 0.25
rrs 1473093 n.1248C>A non_coding_transcript_exon_variant 0.4
rrs 1473273 n.1428G>C non_coding_transcript_exon_variant 0.29
rrl 1475531 n.1874C>A non_coding_transcript_exon_variant 0.33
fabG1 1673469 c.35delC frameshift_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289332 c.-91G>A upstream_gene_variant 0.14
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518770 p.Arg219His missense_variant 0.17
pepQ 2859941 p.Arg160Ser missense_variant 0.17
ribD 2987385 p.Ala183Ser missense_variant 0.25
Rv2752c 3065623 p.Arg190Leu missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612871 p.Phe82Leu missense_variant 0.13
fbiA 3641507 p.Ala322Asp missense_variant 0.17
fbiB 3641941 p.Leu136Pro missense_variant 0.15
embC 4242218 p.Thr786Ser missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244076 p.Arg282Gly missense_variant 0.17
embA 4244759 p.Ser509Arg missense_variant 0.11
aftB 4268401 p.Ala146Thr missense_variant 0.18
aftB 4268788 p.Phe17Leu missense_variant 0.12
ubiA 4269818 p.Val6Leu missense_variant 0.15
ubiA 4269861 c.-28G>C upstream_gene_variant 0.14
ubiA 4269896 c.-63G>T upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408099 p.Leu35Pro missense_variant 0.18