TB-Profiler result

Run: ERR11068485
Summary

Run ID: ERR11068485

Sample name:

Date: 06-04-2023 14:33:32

Number of reads: 3882867

Percentage reads mapped: 99.43

Strain: lineage2.2.1

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
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
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 0.99
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 575255 c.-93G>A upstream_gene_variant 0.25
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576119 p.Ala258Pro missense_variant 0.25
mshA 576204 p.Ala286Val missense_variant 0.17
mshA 576269 p.Ser308Ala missense_variant 0.12
mshA 576594 p.Val416Ala missense_variant 0.33
ccsA 619950 c.60G>T synonymous_variant 0.14
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761182 p.Arg459His missense_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766645 p.Glu1092Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304354 p.Ser475Trp missense_variant 0.12
fbiC 1304371 p.His481Tyr missense_variant 0.13
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406931 p.Trp137* stop_gained 0.12
embR 1416494 p.Gly285Asp missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrl 1475518 n.1861A>C non_coding_transcript_exon_variant 0.27
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918158 c.219G>A synonymous_variant 0.33
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170511 c.102G>A synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714900 p.Arg145Cys missense_variant 0.14
folC 2746590 p.Gly337Ser missense_variant 0.22
folC 2746655 p.Ala315Val missense_variant 0.25
pepQ 2860226 p.Ala65Thr missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339270 c.153G>T synonymous_variant 0.12
fbiD 3339570 c.453G>A synonymous_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 0.95
rpoA 3878576 c.-69T>C upstream_gene_variant 0.29
clpC1 4039572 p.Ala378Val missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243461 p.Ser77Pro missense_variant 0.12
embA 4244297 c.1065G>A synonymous_variant 0.4
embA 4245780 p.Ala850Ser missense_variant 0.12
embA 4246047 p.Ala939Thr missense_variant 0.14
embB 4246763 p.Pro84Ser missense_variant 0.33
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267943 c.894C>T synonymous_variant 0.12
ethR 4327997 p.Ala150Val missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0