TB-Profiler result

Run: SRR6982298
Summary

Run ID: SRR6982298

Sample name:

Date: 04-04-2023 18:33:25

Number of reads: 814887

Percentage reads mapped: 99.61

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 491294 p.Pro171Arg missense_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620150 p.Gly87Val missense_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761476 p.Arg557Leu missense_variant 0.11
rpoB 761639 c.1833G>A synonymous_variant 0.11
rpoB 761645 c.1839C>A synonymous_variant 0.11
rpoB 762785 p.Asp993Glu missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_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
mmpL5 778008 p.Gly158Asp missense_variant 0.11
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801177 p.Phe123Leu missense_variant 0.11
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
atpE 1461090 p.Ile16Val missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_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 2155472 p.Arg214Trp missense_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169701 p.Asn304Lys missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290061 c.-820C>A upstream_gene_variant 0.1
kasA 2518692 p.Ala193Gly missense_variant 0.12
ahpC 2726341 p.Val50Gly missense_variant 0.27
folC 2746726 c.873G>A synonymous_variant 0.11
Rv2752c 3065460 c.732G>T synonymous_variant 0.11
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
fbiB 3640875 c.-660C>G upstream_gene_variant 0.12
fbiA 3641008 p.Ile156Val missense_variant 0.1
fbiB 3642349 c.818delG frameshift_variant 0.13
clpC1 4038540 p.Leu722Pro missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243481 c.249C>A synonymous_variant 0.11
embA 4245631 p.Asn800Ser missense_variant 0.13
embB 4246587 p.Gly25Ala missense_variant 0.11
embB 4248333 p.Ala607Asp missense_variant 0.11
embB 4248339 p.Leu609Pro missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268672 c.165C>A synonymous_variant 0.12
ubiA 4268942 p.Ala298Ser missense_variant 0.11
ethA 4327518 c.-45G>T 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