TB-Profiler result

Run: SRR6045027
Summary

Run ID: SRR6045027

Sample name:

Date: 04-04-2023 11:51:35

Number of reads: 84784

Percentage reads mapped: 3.68

Strain: lineage4.9;lineage1.1

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 0.87
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 0.13
lineage4.9 Euro-American (H37Rv-like) T1 None 0.86
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
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 763012 p.Ala1069Asp missense_variant 0.4
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 0.67
rpoC 763886 c.517C>A synonymous_variant 0.67
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 779641 c.-736C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406503 p.Val280Leu missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 1.0
inhA 1673751 c.-451G>A upstream_gene_variant 0.4
tlyA 1917899 c.-41G>A upstream_gene_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289243 c.-3_-2insC upstream_gene_variant 1.0
kasA 2519312 p.Asn400Asp missense_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
folC 2747113 c.486C>A synonymous_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4239968 p.Ala36Ser missense_variant 0.5
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243398 p.Thr56Pro missense_variant 0.4
embA 4243848 p.Val206Met missense_variant 1.0
embA 4245934 p.Pro901Leu missense_variant 0.86
embA 4245969 p.Pro913Ser missense_variant 0.86
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248978 p.Thr822Lys missense_variant 0.29
embB 4249547 p.Phe1012Leu missense_variant 0.67
ethR 4327204 c.-345G>T upstream_gene_variant 0.33
ethR 4328071 p.Leu175Ile missense_variant 0.15
ethA 4328203 c.-730C>T upstream_gene_variant 0.25
whiB6 4338396 c.126G>T synonymous_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0