TB-Profiler result

Run: SRR4033234
Summary

Run ID: SRR4033234

Sample name:

Date: 04-04-2023 05:56:07

Number of reads: 1217160

Percentage reads mapped: 99.75

Strain: lineage4.8.1

Drug-resistance: HR-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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 1.0
lineage4.8.1 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
katG 2155849 p.Gln88Arg missense_variant 0.2 isoniazid
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
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777325 p.Ile386Val missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406277 p.Leu355Arg missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
inhA 1674952 p.Pro251Ala missense_variant 0.17
rpsA 1834564 c.1023C>T synonymous_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.31
ribD 2987307 p.Ala157Pro missense_variant 0.18
Rv2752c 3065182 p.Ser337Leu missense_variant 0.12
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
fbiB 3642874 p.Leu447Arg missense_variant 1.0
rpoA 3878238 p.Asp90Glu missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244007 p.Ala259Thr missense_variant 0.11
embA 4245811 p.Pro860Gln missense_variant 0.15
embB 4246016 c.-498G>A upstream_gene_variant 0.12
ethA 4328346 c.-873A>T upstream_gene_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0