TB-Profiler result

Run: SRR6797497
Summary

Run ID: SRR6797497

Sample name:

Date: 04-04-2023 16:11:09

Number of reads: 1071912

Percentage reads mapped: 98.53

Strain: lineage4.1.1.3

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 0.99
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 0.99
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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
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
rpoC 763895 p.Lys176* stop_gained 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778657 c.-177C>T upstream_gene_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.11
rrl 1476591 n.2934T>C non_coding_transcript_exon_variant 0.18
inhA 1674948 p.Trp249* stop_gained 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2222833 p.Ser111Tyr missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519007 p.Ala298Val missense_variant 0.12
ahpC 2726338 p.Val49Gly missense_variant 0.38
folC 2747709 c.-111C>T upstream_gene_variant 0.2
ribD 2986710 c.-128delG upstream_gene_variant 0.13
Rv2752c 3065753 c.438delC frameshift_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245496 p.Gly755Asp missense_variant 0.12
embB 4248639 p.Ile709Thr missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0