TB-Profiler result

Run: ERR4817552
Summary

Run ID: ERR4817552

Sample name:

Date: 01-04-2023 15:03:35

Number of reads: 871730

Percentage reads mapped: 99.01

Strain: lineage2.2.1.1

Drug-resistance: Sensitive

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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 0.99
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
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 491147 p.Trp122* stop_gained 0.11
fgd1 491695 p.Leu305Met missense_variant 0.29
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 619715 c.-176C>T upstream_gene_variant 0.22
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 760277 c.471G>A synonymous_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764602 c.1233C>T synonymous_variant 0.11
rpoC 764605 c.1236G>T synonymous_variant 0.1
rpoC 767049 p.Gln1227Leu missense_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
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801084 c.276G>A synonymous_variant 0.13
rplC 801247 p.Arg147Cys missense_variant 0.12
fbiC 1303016 p.Val29Gly missense_variant 0.17
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1416222 p.Phe376Leu missense_variant 0.14
embR 1416232 p.Cys372Gly missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473945 n.288T>A non_coding_transcript_exon_variant 0.11
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834624 c.1083G>A synonymous_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102485 c.558C>T synonymous_variant 0.13
ndh 2103022 c.21C>G synonymous_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155607 p.Gly169Ser missense_variant 0.18
katG 2155686 c.426C>T synonymous_variant 0.12
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.29
PPE35 2170053 p.Thr187Ser missense_variant 0.29
PPE35 2170466 c.147A>G synonymous_variant 0.33
PPE35 2170469 c.144G>C synonymous_variant 0.33
Rv1979c 2222562 c.603C>T synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289651 c.-410T>C upstream_gene_variant 0.12
pncA 2289714 c.-473G>T upstream_gene_variant 0.11
pncA 2289830 c.-589G>C upstream_gene_variant 0.13
kasA 2518382 p.Leu90Met missense_variant 0.12
kasA 2518614 p.Pro167Leu missense_variant 0.13
eis 2714846 p.Val163Ile missense_variant 1.0
Rv2752c 3067179 c.-988T>C upstream_gene_variant 0.12
thyX 3067583 c.363C>G synonymous_variant 0.12
thyA 3073935 c.537C>A synonymous_variant 0.1
ald 3086739 c.-81G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640892 p.Gln117Arg missense_variant 0.1
fbiB 3641145 c.-390C>T upstream_gene_variant 1.0
rpoA 3878464 p.Thr15Ile missense_variant 0.14
rpoA 3878641 c.-134C>G upstream_gene_variant 0.22
clpC1 4038293 c.2412G>C synonymous_variant 0.11
clpC1 4038320 c.2385G>A synonymous_variant 0.11
clpC1 4038329 p.Glu792Asp missense_variant 0.12
clpC1 4038350 c.2355C>G synonymous_variant 0.12
clpC1 4038356 c.2349T>C synonymous_variant 0.11
clpC1 4038359 c.2346A>G synonymous_variant 0.11
embC 4239929 p.Gly23Arg missense_variant 0.11
embC 4240317 p.Cys152Tyr missense_variant 0.12
embC 4240742 p.Asp294Tyr missense_variant 0.11
embC 4240963 c.1101G>T synonymous_variant 0.11
embC 4241028 p.Trp389* stop_gained 0.15
embC 4242152 p.Gly764Cys missense_variant 0.15
embC 4242432 p.Gly857Asp missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.96
embA 4245131 c.1899G>A synonymous_variant 1.0
embB 4248115 c.1602C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268314 c.521_522delCG frameshift_variant 0.12
aftB 4268676 p.Arg54Gln missense_variant 0.18
aftB 4269213 c.-377C>A upstream_gene_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