TB-Profiler result

Run: ERR2516416
Summary

Run ID: ERR2516416

Sample name:

Date: 31-03-2023 21:31:31

Number of reads: 1040578

Percentage reads mapped: 99.43

Strain: lineage2.2.1.1

Drug-resistance: MDR-TB

Download CSV Download TXT Download PDF Download JSON
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 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2289222 p.Val7Ala missense_variant 1.0 pyrazinamide
embB 4247429 p.Met306Val missense_variant 0.27 ethambutol
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
mshA 575711 p.Lys122Glu missense_variant 0.13
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 619698 c.-193G>T upstream_gene_variant 0.17
ccsA 620380 p.Met164Val missense_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.19
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766988 c.3619C>T synonymous_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 776730 p.Tyr584Cys missense_variant 0.13
mmpL5 778091 p.Trp130* stop_gained 0.12
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302989 p.Gln20Arg missense_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673764 p.Ile109Leu missense_variant 0.11
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834480 c.939C>T synonymous_variant 0.25
rpsA 1834532 p.Val331Ile missense_variant 0.13
tlyA 1917811 c.-129T>C upstream_gene_variant 0.22
tlyA 1917924 c.-16A>G upstream_gene_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.39
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714846 p.Val163Ile missense_variant 1.0
eis 2715127 p.Leu69Ser missense_variant 0.15
eis 2715450 c.-118T>C upstream_gene_variant 0.12
ribD 2986719 c.-120G>A upstream_gene_variant 0.12
thyA 3073806 c.666C>G synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339243 p.Met42Ile missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474205 p.Phe67Leu missense_variant 0.13
whiB7 3568686 c.-7A>G upstream_gene_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641109 c.-426C>A upstream_gene_variant 0.13
fbiA 3641294 p.Pro251Leu missense_variant 0.11
clpC1 4038857 c.1848C>A synonymous_variant 0.17
clpC1 4039566 p.Val380Ala missense_variant 0.12
clpC1 4040535 p.Glu57Gly missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.2
embC 4242827 p.Leu989Val missense_variant 0.21
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243582 p.Ala117Val missense_variant 0.12
embB 4246817 p.Ala102Thr missense_variant 0.17
embB 4248115 c.1602C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268428 p.Ser137Pro missense_variant 0.17
ubiA 4269070 p.Phe255Ser missense_variant 0.25
ethA 4327244 p.Asp77Gly missense_variant 1.0
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