TB-Profiler result

Run: SRR023479
Summary

Run ID: SRR023479

Sample name:

Date: 02-04-2023 14:12:57

Number of reads: 4181438

Percentage reads mapped: 96.69

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 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
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 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801243 c.435C>T synonymous_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170173 c.437_439dupTGG conservative_inframe_insertion 0.91
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.99
pncA 2289294 c.-53G>A upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2714993 p.Pro114Ser missense_variant 1.0
ribD 2987404 p.Arg189Gln missense_variant 0.17
thyA 3074536 c.-65G>T upstream_gene_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 0.99
Rv3083 3449168 p.Ala222Glu missense_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642320 c.786C>T synonymous_variant 0.12
fbiB 3642322 p.Val263Ala missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243931 c.699G>A synonymous_variant 0.12
embA 4244497 p.Ala422Glu missense_variant 0.19
embA 4244562 c.1330C>A synonymous_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0