TB-Profiler result

Run: ERR11068750
Summary

Run ID: ERR11068750

Sample name:

Date: 07-04-2023 00:24:37

Number of reads: 3829107

Percentage reads mapped: 99.61

Strain: lineage4

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
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
mshA 576119 p.Ala258Pro missense_variant 0.25
mshA 576624 p.Ala426Val missense_variant 0.14
mshA 576711 p.Arg455Gln missense_variant 0.11
ccsA 619794 c.-97C>T upstream_gene_variant 0.33
rpoC 763923 p.Glu185Gly missense_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416938 p.His137Pro missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154674 p.Ala480Ser missense_variant 1.0
katG 2155782 c.330C>T synonymous_variant 0.2
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170122 p.Ala164Glu missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289808 c.-567C>T upstream_gene_variant 1.0
thyX 3067311 p.Ala212Val missense_variant 0.25
thyX 3067496 c.450G>A synonymous_variant 0.5
ald 3086796 c.-24C>T upstream_gene_variant 1.0
ald 3087344 c.525C>T synonymous_variant 0.11
fbiD 3339570 c.453_454insC frameshift_variant 0.15
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
fbiB 3642220 p.Ala229Val missense_variant 0.25
alr 3841130 c.291G>A synonymous_variant 0.25
embC 4240634 p.Arg258Trp missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243888 p.Val219Gly missense_variant 0.12
embA 4244883 p.Arg551* stop_gained 0.25
embB 4247034 p.Ser174Asn missense_variant 0.67
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0