TB-Profiler result

Run: SRR2101308
Summary

Run ID: SRR2101308

Sample name:

Date: 03-04-2023 23:38:34

Number of reads: 584580

Percentage reads mapped: 99.29

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
gyrB 7197 p.Gly653Asp missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7416 p.Arg39Ser missense_variant 0.22
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
mshA 576776 p.Gly477Trp missense_variant 0.22
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 762781 p.Gly992Asp missense_variant 0.15
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 776789 c.1692C>T synonymous_variant 0.11
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
inhA 1673778 c.-424C>A upstream_gene_variant 0.11
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917865 c.-75T>A upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101800 c.1243C>T synonymous_variant 0.13
ndh 2101854 p.Leu397Met missense_variant 0.12
ndh 2101975 c.1068G>A synonymous_variant 0.15
ndh 2102016 p.Val343Ile missense_variant 0.15
ndh 2102759 p.Ala95Val missense_variant 0.11
ndh 2103226 c.-184C>G upstream_gene_variant 0.94
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
pncA 2289596 c.-355C>A upstream_gene_variant 0.12
pncA 2290211 c.-970G>T upstream_gene_variant 0.12
Rv2752c 3065482 p.Cys237Phe missense_variant 0.11
ald 3086739 c.-81G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474440 p.Leu145Pro missense_variant 0.13
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3877678 p.Ala277Gly missense_variant 0.11
clpC1 4039617 p.Arg363Gln missense_variant 1.0
panD 4044303 c.-22T>C upstream_gene_variant 0.17
embC 4241731 c.1871_1875delCCGTG frameshift_variant 0.14
embC 4242558 p.Gln899Pro missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244158 p.Ser309* stop_gained 0.11
aftB 4267222 p.Ala539Thr missense_variant 0.29
aftB 4267306 p.Val511Leu missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268575 c.257_261dupTGGCC frameshift_variant 0.14
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