TB-Profiler result

Run: ERR2229130
Summary

Run ID: ERR2229130

Sample name:

Date: 31-03-2023 16:42:25

Number of reads: 1099737

Percentage reads mapped: 99.39

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
fgd1 491281 p.Asp167Asn missense_variant 0.13
fgd1 491331 c.549G>A synonymous_variant 0.11
fgd1 491761 p.Asp327Tyr missense_variant 0.12
mshA 576639 p.Glu431Val missense_variant 0.14
ccsA 620440 p.Gly184Arg missense_variant 0.14
ccsA 620784 c.894C>A synonymous_variant 0.12
rpoB 761029 p.Pro408Gln missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775674 p.Trp936Leu missense_variant 0.17
mmpL5 775826 c.2655G>A synonymous_variant 0.14
mmpL5 777119 p.His454Gln missense_variant 0.23
mmpL5 777122 c.1359C>T synonymous_variant 0.23
mmpL5 777128 c.1353A>G synonymous_variant 0.18
mmpL5 777292 p.Ala397Ser missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304224 p.Gly432Ser missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
inhA 1674620 p.Pro140Leu missense_variant 0.13
rpsA 1834961 c.1423delG frameshift_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102094 p.Val317Met missense_variant 0.11
PPE35 2167814 c.2799C>T synonymous_variant 0.14
PPE35 2167965 p.Ala883Gly missense_variant 0.21
PPE35 2167967 c.2646A>C synonymous_variant 0.21
PPE35 2168140 p.Ala825Thr missense_variant 0.13
PPE35 2168143 p.Phe824Leu missense_variant 0.13
PPE35 2168150 c.2463T>C synonymous_variant 0.14
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.11
PPE35 2169281 c.1332T>G synonymous_variant 0.11
PPE35 2169902 p.Leu237Phe missense_variant 0.15
PPE35 2170048 p.Leu189Val missense_variant 0.47
PPE35 2170053 p.Thr187Ser missense_variant 0.5
PPE35 2170147 p.Ser156Ala missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290023 c.-783delC upstream_gene_variant 0.12
pncA 2290117 c.-876C>T upstream_gene_variant 0.12
kasA 2519128 c.1014G>C synonymous_variant 0.13
kasA 2519131 c.1017G>C synonymous_variant 0.13
kasA 2519140 c.1026G>C synonymous_variant 0.11
kasA 2519143 c.1029G>C synonymous_variant 0.12
folC 2746344 p.Leu419Met missense_variant 0.12
thyA 3074619 c.-148C>A upstream_gene_variant 0.12
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 0.2
clpC1 4040144 c.561G>C synonymous_variant 0.18
embC 4242229 c.2367C>G synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243087 c.-146G>A upstream_gene_variant 0.12
embA 4243665 p.Thr145Ser missense_variant 0.15
embB 4246511 c.-3G>T upstream_gene_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.57
embB 4246548 p.Pro12Gln missense_variant 0.44
embB 4246555 c.42G>C synonymous_variant 0.56
embB 4246556 p.Ala15Pro missense_variant 0.6
embB 4246563 p.Leu17Trp missense_variant 0.6
embB 4246567 c.54G>T synonymous_variant 0.4
embB 4246772 p.Val87Leu missense_variant 0.15
aftB 4268010 p.Leu276Pro missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0