TB-Profiler result

Run: SRR6982211
Summary

Run ID: SRR6982211

Sample name:

Date: 04-04-2023 18:30:43

Number of reads: 661759

Percentage reads mapped: 99.62

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 9207 p.Lys636Gln missense_variant 0.12
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 619924 p.Arg12Ser missense_variant 0.2
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763056 c.3252delC frameshift_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
mmpL5 776969 p.Gln504His missense_variant 0.13
mmpL5 778087 p.Asp132Asn missense_variant 0.12
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
Rv1258c 1406990 c.351C>T synonymous_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473480 n.-178C>T upstream_gene_variant 0.11
inhA 1674447 p.Ile82Met missense_variant 0.11
inhA 1674653 p.Pro151Gln missense_variant 0.12
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918030 p.Lys31Glu missense_variant 0.1
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339021 c.-97G>A upstream_gene_variant 0.15
fbiD 3339189 c.73delA frameshift_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612362 p.Thr252Ile missense_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3641438 p.Asp299Ala missense_variant 1.0
alr 3841599 c.-179T>A upstream_gene_variant 0.12
embC 4240773 p.Ser304Phe missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243759 p.Asp176Gly missense_variant 0.11
embA 4243772 c.540A>C synonymous_variant 0.13
embB 4249693 p.Asp1060Glu missense_variant 0.15
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267871 p.Gln322His missense_variant 0.2
whiB6 4338307 p.Ala72Val missense_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 4407927 p.Glu92Asp missense_variant 1.0