TB-Profiler result

Run: SRR13837621
Summary

Run ID: SRR13837621

Sample name:

Date: 03-04-2023 09:14:31

Number of reads: 293850

Percentage reads mapped: 98.01

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 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
katG 2155411 p.Gly234Glu missense_variant 1.0 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
mshA 576259 c.912C>T synonymous_variant 1.0
ccsA 620690 p.Val267Glu missense_variant 1.0
rpoB 759805 c.-2T>C upstream_gene_variant 1.0
rpoB 761961 p.Pro719Thr missense_variant 1.0
rpoC 764895 p.Ile509Thr missense_variant 1.0
mmpL5 777574 p.Phe303Leu missense_variant 1.0
mmpL5 777578 c.903C>G synonymous_variant 1.0
mmpL5 778982 c.-502A>C upstream_gene_variant 1.0
rpsL 781387 c.-173G>C upstream_gene_variant 0.2
rplC 801169 p.Lys121* stop_gained 1.0
rrl 1474052 n.395G>T non_coding_transcript_exon_variant 1.0
rrl 1476479 n.2822T>G non_coding_transcript_exon_variant 1.0
tlyA 1918432 p.Pro165Thr missense_variant 1.0
ndh 2101769 p.Arg425His missense_variant 1.0
katG 2155508 p.Ala202Ser missense_variant 1.0
pncA 2289474 c.-233C>G upstream_gene_variant 1.0
folC 2746862 p.Leu246Arg missense_variant 1.0
folC 2747268 p.Asp111His missense_variant 1.0
Rv2752c 3065109 c.1083A>G synonymous_variant 1.0
thyX 3067267 p.Phe227Val missense_variant 0.15
fprA 3475241 p.Ala412Gly missense_variant 1.0
whiB7 3568816 c.-137C>T upstream_gene_variant 1.0
ddn 3986972 p.Lys43Asn missense_variant 0.13
clpC1 4038468 p.Asp746Gly missense_variant 1.0
clpC1 4040148 p.Lys186Ile missense_variant 1.0
embC 4240125 p.Cys88Tyr missense_variant 1.0
ethR 4327643 p.Thr32Ile missense_variant 1.0