TB-Profiler result

Run: ERR3063112
Summary

Run ID: ERR3063112

Sample name:

Date: 01-04-2023 00:10:00

Number of reads: 932498

Percentage reads mapped: 99.6

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7814 c.513C>A synonymous_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620004 p.Gln38His missense_variant 0.12
rpoB 761031 p.Gln409Lys missense_variant 0.11
rpoB 761182 p.Arg459His missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1460921 c.-124C>A upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673745 p.Glu102Asp missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918068 c.129C>A synonymous_variant 0.17
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2168803 p.Gly604* stop_gained 0.15
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170384 p.Ala77Ser missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714846 p.Val163Phe missense_variant 0.11
pepQ 2860053 c.366G>A synonymous_variant 0.12
Rv2752c 3064822 p.Val457Ala missense_variant 0.11
Rv2752c 3064825 p.Asp456Val missense_variant 0.11
Rv2752c 3064828 p.Gly455Asp missense_variant 0.11
thyX 3067418 c.528C>T synonymous_variant 0.15
thyA 3074648 c.-177T>G upstream_gene_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612017 p.Pro367Gln missense_variant 0.12
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3641834 c.300G>T synonymous_variant 0.13
fbiB 3641882 c.348C>T synonymous_variant 0.14
embC 4240678 c.816T>C synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242868 c.-365C>T upstream_gene_variant 0.11
embA 4243974 p.Phe248Leu missense_variant 0.14
embA 4244777 p.Met515Ile missense_variant 0.12
whiB6 4338358 c.-188_163del frameshift_variant&start_lost 1.0