TB-Profiler result

Run: SRR1165641
Summary

Run ID: SRR1165641

Sample name:

Date: 03-04-2023 00:56:21

Number of reads: 4168181

Percentage reads mapped: 99.24

Strain: lineage4.8.1

Drug-resistance: MDR-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
lineage4.8.1 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
rpoB 761110 p.Asp435Val missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 0.99 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288790 p.Leu151Ser missense_variant 0.98 pyrazinamide
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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.8
fbiB 3642320 c.786C>T synonymous_variant 0.15
fbiB 3642342 p.Pro270Ser missense_variant 0.14
fbiB 3642874 p.Leu447Arg missense_variant 1.0
rpoA 3878641 c.-135delG upstream_gene_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247595 p.Cys361Tyr missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0