TB-Profiler result

Run: SRR11972325
Summary

Run ID: SRR11972325

Sample name:

Date: 03-04-2023 05:37:09

Number of reads: 1964218

Percentage reads mapped: 99.02

Strain: lineage4.5

Drug-resistance: RR-TB

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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
lineage4.5 Euro-American H;T RD122 0.99
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 761095 p.Leu430Pro missense_variant 1.0 rifampicin
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
rpoC 766187 p.Arg940Cys missense_variant 0.12
rpoC 766319 p.Ala984Thr missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407001 c.338_339delCG frameshift_variant 0.17
Rv1258c 1407380 c.-40C>T upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474303 n.646A>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155335 c.777C>T synonymous_variant 0.13
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715070 p.Ala88Val missense_variant 0.12
thyX 3067636 p.Leu104Ile missense_variant 0.12
fbiD 3339480 p.Gln121His missense_variant 1.0
fbiD 3339674 p.Arg186Pro missense_variant 0.11
fprA 3473815 c.-192G>A upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641135 p.Glu198Gly missense_variant 0.14
fbiB 3641223 c.-312C>G upstream_gene_variant 0.13
fbiB 3642186 p.Arg218Cys missense_variant 0.12
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embC 4240655 p.Ala265Thr missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243482 p.Ala84Ser missense_variant 1.0
embA 4244406 c.1174delA frameshift_variant 0.18
embB 4246544 p.Thr11Pro missense_variant 0.35
embB 4246548 p.Pro12Gln missense_variant 0.21
embB 4246555 c.42G>C synonymous_variant 0.2
embB 4246556 p.Ala15Pro missense_variant 0.2
embB 4246567 c.54_55insT frameshift_variant 0.2
embB 4247120 p.Ser203Ala missense_variant 0.13
embB 4247877 p.Leu455Pro missense_variant 0.11
embB 4248206 p.Ser565Arg missense_variant 1.0
ethR 4326961 c.-588G>C upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0