TB-Profiler result

Run: SRR1723698_SRR1723699
Summary

Run ID: SRR1723698_SRR1723699

Sample name:

Date: 28-10-2022 12:13:24

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage2.2.1.1

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
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 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 761114 c.1312_1314delAAC conservative_inframe_deletion 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
gyrB 6934 p.Gln565His missense_variant 0.2
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
mshA 575907 p.Ala187Val missense_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.16
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766725 p.His1119Arg missense_variant 0.86
rpoC 767314 p.Tyr1315* stop_gained 0.21
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304085 c.1155C>A synonymous_variant 0.2
embR 1417073 p.Val92Gly missense_variant 0.21
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.17
fabG1 1673449 p.Thr4Pro missense_variant 0.26
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154677 p.Ala479Pro missense_variant 0.24
katG 2154724 p.Arg463Leu missense_variant 1.0
kasA 2518871 p.His253Tyr missense_variant 1.0
eis 2714846 p.Val163Ile missense_variant 1.0
thyA 3074465 p.Pro3Ala missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.32
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4248115 c.1602C>T synonymous_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0