TB-Profiler result

Run: SRR6855794
Summary

Run ID: SRR6855794

Sample name:

Date: 04-04-2023 17:45:59

Number of reads: 369063

Percentage reads mapped: 99.63

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 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
gyrB 7158 c.1931_1933delCCG disruptive_inframe_deletion 0.15
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 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761411 c.1605G>A synonymous_variant 0.14
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
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
embR 1416521 p.Val276Ala missense_variant 0.1
embR 1416632 c.715delC frameshift_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674495 p.Met98Ile missense_variant 0.12
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834628 p.Lys363Glu missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155582 p.Gly177Ala missense_variant 0.11
PPE35 2167649 c.2964A>G splice_region_variant&stop_retained_variant 0.13
PPE35 2167834 c.2779C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222834 p.Ser111Pro missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747206 c.393G>A synonymous_variant 0.12
pepQ 2860617 c.-199C>A upstream_gene_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449006 p.His168Pro missense_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Ser missense_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
alr 3840345 p.Glu359Gly missense_variant 0.11
clpC1 4039705 c.999delG frameshift_variant 0.11
embC 4240001 c.142_143dupCC frameshift_variant 0.15
embC 4240559 p.Ala233Thr missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243138 c.-95C>A upstream_gene_variant 0.15
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244222 c.990G>A synonymous_variant 0.14
embB 4246523 p.Cys4Arg missense_variant 0.15
embB 4246585 c.72C>T synonymous_variant 0.14
embB 4246747 c.237delT frameshift_variant 0.17
embB 4248634 c.2121A>C synonymous_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268559 p.Leu93Gln missense_variant 0.12
ethR 4327812 c.265delA frameshift_variant 0.12
whiB6 4338575 c.-55delG upstream_gene_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407620 p.Tyr195His missense_variant 1.0
gid 4407829 p.Gln125Leu missense_variant 0.1
gid 4407927 p.Glu92Asp missense_variant 1.0