TB-Profiler result

Run: SRR6785315
Summary

Run ID: SRR6785315

Sample name:

Date: 04-04-2023 15:45:43

Number of reads: 2173833

Percentage reads mapped: 99.49

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
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 8040 p.Gly247Ser missense_variant 1.0
gyrA 8527 p.Arg409Gln missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.19
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777196 p.Glu429Gln missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303095 c.165G>A synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473829 n.172G>C non_coding_transcript_exon_variant 0.12
rrl 1473831 n.174G>T non_coding_transcript_exon_variant 0.14
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.14
rrl 1473839 n.182G>A non_coding_transcript_exon_variant 0.14
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.12
rrl 1473887 n.230T>C non_coding_transcript_exon_variant 0.11
rrl 1473888 n.231T>C non_coding_transcript_exon_variant 0.11
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.12
rrl 1473899 n.242A>G non_coding_transcript_exon_variant 0.12
rrl 1473916 n.259C>A non_coding_transcript_exon_variant 0.12
rrl 1473923 n.266C>G non_coding_transcript_exon_variant 0.12
rrl 1473924 n.267_268insT non_coding_transcript_exon_variant 0.12
rrl 1473937 n.280C>T non_coding_transcript_exon_variant 0.14
rrl 1473943 n.286G>T non_coding_transcript_exon_variant 0.12
rrl 1473945 n.288T>A non_coding_transcript_exon_variant 0.12
rrl 1473946 n.289A>T non_coding_transcript_exon_variant 0.13
rrl 1473950 n.293G>T non_coding_transcript_exon_variant 0.17
rrl 1474679 n.1022G>A non_coding_transcript_exon_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.24
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 1.0
PPE35 2169890 c.723C>T synonymous_variant 0.11
PPE35 2169902 p.Leu237Phe missense_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.15
PPE35 2170053 p.Thr187Ser missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289922 c.-681C>G upstream_gene_variant 0.12
pncA 2290131 c.-890G>C upstream_gene_variant 0.22
kasA 2518919 p.Gly269Ser missense_variant 1.0
folC 2746340 p.Ala420Val missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038968 c.1737G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.25
embB 4246555 c.42G>C synonymous_variant 0.29
embB 4246556 p.Ala15Pro missense_variant 0.29
embB 4246584 p.Arg24Pro missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408174 p.Ala10Gly missense_variant 1.0