TB-Profiler result

Run: ERR4815043
Summary

Run ID: ERR4815043

Sample name:

Date: 01-04-2023 13:38:13

Number of reads: 345005

Percentage reads mapped: 99.28

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
lineage4.1.2 Euro-American T;H None 0.98
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 5321 p.Lys28Glu missense_variant 0.1
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
mshA 576315 p.Ala323Glu missense_variant 0.25
ccsA 620748 c.858T>G synonymous_variant 0.44
rpoB 759615 c.-192A>C upstream_gene_variant 0.33
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 0.14
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775715 c.2766G>A synonymous_variant 0.14
mmpL5 775718 c.2763C>G synonymous_variant 0.14
mmpL5 775726 c.2755C>T synonymous_variant 0.13
mmpL5 775727 c.2754C>G synonymous_variant 0.13
mmpL5 775736 c.2745C>G synonymous_variant 0.13
mmpL5 775741 c.2740C>T synonymous_variant 0.12
mmpL5 775742 c.2739C>T synonymous_variant 0.12
mmpL5 775747 p.Met912Leu missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302802 c.-129G>A upstream_gene_variant 0.12
fbiC 1303016 p.Val29Gly missense_variant 0.29
fbiC 1303144 p.Ser72Pro missense_variant 0.12
fbiC 1303155 c.225G>A synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.29
PPE35 2167967 c.2646A>C synonymous_variant 0.29
PPE35 2169269 c.1344A>G synonymous_variant 0.17
PPE35 2169272 c.1341C>A synonymous_variant 0.18
PPE35 2169278 c.1335T>C synonymous_variant 0.18
PPE35 2169281 c.1332T>G synonymous_variant 0.18
PPE35 2169287 c.1326T>C synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223299 c.-135G>C upstream_gene_variant 0.25
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
thyX 3067357 p.Ala197Pro missense_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473983 c.-24C>T upstream_gene_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642674 c.1140C>T synonymous_variant 0.18
alr 3840668 c.753G>A synonymous_variant 0.2
panD 4043993 p.Arg97Trp missense_variant 1.0
embC 4241650 p.Leu596Phe missense_variant 0.14
embC 4241711 p.Arg617Trp missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246567 c.54_55insT frameshift_variant 0.17
embB 4247480 p.Phe323Leu missense_variant 0.18
ubiA 4269442 p.Tyr131Cys missense_variant 0.22
whiB6 4338220 p.Arg101His missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338598 c.-77G>A upstream_gene_variant 1.0