TB-Profiler result

Run: SRR1723935
Summary

Run ID: SRR1723935

Sample name:

Date: 20-10-2023 17:13:34

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.5

Drug-resistance: MDR-TB

Download CSV Download TXT Download PDF Download JSON
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
lineage4.5 Euro-American H;T RD122 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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
katG 2154362 c.1749_1750insG frameshift_variant 1.0 isoniazid
ahpC 2726112 c.-81C>T upstream_gene_variant 1.0 isoniazid
embB 4247495 p.Asp328Tyr missense_variant 1.0 ethambutol
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 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoB 761405 c.1599C>T synonymous_variant 1.0
rpoB 762423 p.Ile873Phe missense_variant 0.19
rpoC 762785 c.-585C>T upstream_gene_variant 1.0
rpoC 765569 p.Ala734Thr missense_variant 0.8
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778960 c.-481delC upstream_gene_variant 1.0
mmpL5 778969 c.-489A>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406101 p.Pro414Ser missense_variant 1.0
embR 1416973 c.375G>A synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289226 p.Ile6Leu missense_variant 0.47
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877482 c.1026C>T synonymous_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
ddn 3986782 c.-62G>A upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embC 4240973 p.Val371Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0