TB-Profiler result

Run: SRR6982152

Summary

Run ID: SRR6982152

Sample name:

Date: 04-04-2023 18:29:01

Number of reads: 561445

Percentage reads mapped: 99.23

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 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 491742 c.960T>C synonymous_variant 1.0
mshA 575813 c.468delG frameshift_variant 0.12
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576090 p.Arg248Pro missense_variant 0.12
mshA 576286 c.942_946dupGCTCG frameshift_variant 0.1
ccsA 619992 c.102C>T synonymous_variant 0.13
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761457 p.Pro551Ser missense_variant 0.11
rpoB 762724 p.Gly973Asp missense_variant 0.1
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 0.94
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473612 n.-46A>G upstream_gene_variant 0.14
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918467 c.528T>C synonymous_variant 0.1
ndh 2103173 c.-132delG upstream_gene_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 0.96
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169473 c.1140C>A synonymous_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288895 c.338_346delGCACGCCAC disruptive_inframe_deletion 0.54
ahpC 2726699 c.507G>A synonymous_variant 0.1
ahpC 2726775 p.Ala195Thr missense_variant 0.12
pepQ 2860362 c.57G>A synonymous_variant 0.12
thyA 3074403 c.69C>T synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448584 c.81C>T synonymous_variant 0.14
Rv3083 3449265 c.762C>A synonymous_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3612948 p.Phe57Leu missense_variant 0.18
fbiB 3642129 p.Ala199Ser missense_variant 0.13
clpC1 4040128 p.Arg193Ser missense_variant 0.11
panD 4044353 c.-72A>G upstream_gene_variant 0.12
embC 4241219 p.Ile453Val missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.19
embB 4246556 p.Ala15Pro missense_variant 0.18
embB 4246563 p.Leu17Trp missense_variant 0.18
embB 4246567 c.54G>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269136 p.Tyr233Phe missense_variant 0.12
ethA 4328010 c.-537G>A upstream_gene_variant 0.11
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
gid 4407979 p.Pro75Gln missense_variant 0.13