TB-Profiler result

Run: ERR2515831
Summary

Run ID: ERR2515831

Sample name:

Date: 31-03-2023 21:08:42

Number of reads: 671975

Percentage reads mapped: 99.67

Strain: lineage2.2.1

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
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 491360 p.Ile193Thr missense_variant 0.2
fgd1 491396 p.Glu205Val missense_variant 0.15
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766500 p.Ala1044Val 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 779559 c.-654G>A upstream_gene_variant 0.11
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406295 p.Val349Asp missense_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406831 c.509delG frameshift_variant 0.11
embR 1416952 p.Glu132Asp missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474341 n.684T>C non_coding_transcript_exon_variant 0.1
fabG1 1674104 p.Ser222Asn missense_variant 0.14
rpsA 1833491 c.-51A>C upstream_gene_variant 0.11
rpsA 1833749 p.Ile70Leu missense_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154878 p.Trp412Arg missense_variant 0.1
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169956 c.656delA frameshift_variant 0.14
Rv1979c 2222645 p.Leu174Phe missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714526 c.805_806delAC frameshift_variant 1.0
folC 2746194 p.Thr469Pro missense_variant 0.4
folC 2746450 c.1149C>G synonymous_variant 0.11
pepQ 2859328 c.1090delC frameshift_variant 0.1
Rv2752c 3065711 p.Gly161Ser missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473998 c.-9G>A upstream_gene_variant 1.0
fprA 3473998 c.-10_-9insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3612892 c.225G>A synonymous_variant 0.14
Rv3236c 3613109 p.Val3Asp missense_variant 0.11
Rv3236c 3613215 c.-99G>C upstream_gene_variant 0.11
embC 4241078 p.Ile406Val missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242789 p.Gly976Val missense_variant 0.12
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244332 p.Val367Ala missense_variant 0.11
embA 4244484 p.Thr418Ser missense_variant 0.11
embA 4244654 p.Gln474His missense_variant 0.12
embB 4249202 p.Thr897Ser missense_variant 0.1
embB 4249586 p.Thr1025Ser missense_variant 0.14
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268136 p.Leu234Pro missense_variant 0.11
aftB 4268650 p.Trp63Arg missense_variant 0.11
ethA 4326095 p.Asn460Ile missense_variant 0.1
ethA 4326523 c.951T>C synonymous_variant 0.17
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