TB-Profiler result

Run: SRR023455
Summary

Run ID: SRR023455

Sample name:

Date: 02-04-2023 14:11:47

Number of reads: 228331

Percentage reads mapped: 99.0

Strain: lineage4

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
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 2155168 p.Ser315Thr 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620488 p.Thr200Ala missense_variant 0.5
rpoB 762343 p.Val846Gly missense_variant 0.33
rpoC 763787 p.Asp140Tyr missense_variant 0.4
rpoC 765053 p.Ser562Pro missense_variant 1.0
mmpL5 776596 p.Thr629Pro missense_variant 0.5
mmpS5 778496 p.Cys137Phe missense_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474259 n.602A>G non_coding_transcript_exon_variant 0.18
rrl 1475769 n.2112T>G non_coding_transcript_exon_variant 0.38
rrl 1475803 n.2146T>G non_coding_transcript_exon_variant 0.38
fabG1 1673941 p.Ala168Pro missense_variant 1.0
PPE35 2167666 p.Gln983Lys missense_variant 0.5
Rv1979c 2222883 c.282C>T synonymous_variant 0.5
pepQ 2860279 p.Ala47Gly missense_variant 1.0
pepQ 2860351 p.Leu23Pro missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiA 3640393 c.-150A>G upstream_gene_variant 1.0
ddn 3987297 c.454T>C stop_lost&splice_region_variant 0.67
panD 4043895 c.387C>G synonymous_variant 1.0
embC 4239763 c.-100C>T upstream_gene_variant 1.0
embA 4245640 p.Asn803Thr missense_variant 1.0
embB 4249334 p.Ala941Pro missense_variant 0.67
gid 4408156 p.Leu16Arg missense_variant 1.0