TB-Profiler result

Run: SRR1723506

Summary

Run ID: SRR1723506

Sample name:

Date: 18-08-2022 08:18:43

Number of reads: 1344958

Percentage reads mapped: 99.05

Strain: lineage2.2.1

Drug-resistance: RR-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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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
rpoB 761139 p.His445Tyr missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
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
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 767314 p.Tyr1315* stop_gained 0.33
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476284 n.2627G>A non_coding_transcript_exon_variant 0.13
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834845 c.1313_1315delCCG disruptive_inframe_deletion 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155631 p.Trp161Arg missense_variant 0.92
ahpC 2726121 c.-72_-71insT upstream_gene_variant 1.0
folC 2747478 p.Thr41Pro missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
embC 4240744 c.882C>T synonymous_variant 1.0
embC 4242393 p.Asp844Ala missense_variant 0.2
embA 4243460 c.228C>T synonymous_variant 1.0
ethA 4326676 p.Ser266Arg missense_variant 0.93
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0