TB-Profiler result

Run: SRR21277782
Summary

Run ID: SRR21277782

Sample name:

Date: 04-04-2023 01:42:05

Number of reads: 17772087

Percentage reads mapped: 97.84

Strain: lineage2.2.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 491308 p.Ala176Thr missense_variant 0.11
fgd1 491318 p.Pro179Gln missense_variant 0.12
fgd1 491322 c.540G>T synonymous_variant 0.14
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575283 c.-65C>A upstream_gene_variant 0.11
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576449 p.Pro368Lys missense_variant 0.11
ccsA 619732 c.-159C>A upstream_gene_variant 0.2
ccsA 619842 c.-49G>T upstream_gene_variant 0.13
ccsA 619965 c.75G>A synonymous_variant 0.1
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761658 p.Pro618Thr missense_variant 0.15
rpoB 761673 p.Gly623Trp missense_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764562 p.Pro398Gln missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777295 p.Gly396Cys missense_variant 0.14
mmpL5 777367 c.1114C>A synonymous_variant 0.1
mmpL5 777371 c.1110C>A synonymous_variant 0.11
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304444 p.Ala505Glu missense_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406987 c.354G>T synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 0.99
tlyA 1917955 p.Arg6Ser missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 0.97
tlyA 1918566 c.627C>A synonymous_variant 0.14
tlyA 1918572 c.633C>A synonymous_variant 0.11
tlyA 1918588 p.Glu217* stop_gained 0.13
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155741 p.Gly124Val missense_variant 0.11
katG 2155743 c.369G>T synonymous_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170355 c.258G>T synonymous_variant 0.15
PPE35 2170365 p.Ala83Val missense_variant 0.15
PPE35 2170403 c.210C>A synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289559 c.-318T>G upstream_gene_variant 1.0
kasA 2518595 p.Arg161Ser missense_variant 0.1
kasA 2519161 c.1047G>T synonymous_variant 0.21
eis 2715568 c.-236G>T upstream_gene_variant 0.15
folC 2746317 p.Asp428Tyr missense_variant 0.12
folC 2746342 c.1257G>A synonymous_variant 0.21
folC 2746586 p.Arg338Leu missense_variant 0.1
folC 2746588 c.1011C>T synonymous_variant 0.11
pepQ 2859605 p.Gly272Trp missense_variant 0.11
pepQ 2859937 p.Gly161Val missense_variant 0.15
pepQ 2859941 p.Arg160Ser missense_variant 0.11
pepQ 2860150 p.Ala90Val missense_variant 0.14
pepQ 2860589 c.-171G>T upstream_gene_variant 0.62
thyX 3067223 c.723G>A synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339337 p.Gly74Cys missense_variant 0.15
fbiD 3339561 c.444C>A synonymous_variant 0.1
fbiD 3339743 p.Arg209Leu missense_variant 0.19
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474972 c.966C>T synonymous_variant 0.11
Rv3236c 3612813 p.Thr102Ala missense_variant 0.99
fbiA 3640352 c.-191G>A upstream_gene_variant 1.0
fbiB 3642039 p.Gly169Cys missense_variant 0.17
fbiB 3642377 c.843C>T synonymous_variant 0.11
alr 3841037 c.384G>T synonymous_variant 0.1
clpC1 4038187 p.Ala840Thr missense_variant 0.1
clpC1 4038195 p.Ala837Glu missense_variant 0.12
clpC1 4040230 p.Gly159Trp missense_variant 0.11
embC 4240459 c.597G>T synonymous_variant 0.1
embC 4240602 p.Ala247Glu missense_variant 0.12
embC 4240612 c.750C>A synonymous_variant 0.12
embC 4241686 c.1824G>A synonymous_variant 0.1
embC 4241689 c.1827G>T synonymous_variant 0.17
embA 4242241 c.-992C>T upstream_gene_variant 1.0
embC 4242597 p.Gly912Val missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243627 p.Ala132Val missense_variant 0.11
embA 4243936 p.Asp235Val missense_variant 0.11
embA 4244213 c.981C>A synonymous_variant 0.11
embA 4244220 p.Leu330Met missense_variant 0.11
embA 4244857 p.Ala542Glu missense_variant 0.1
embB 4246799 p.Gly96Leu missense_variant 0.13
embB 4247077 c.564G>T synonymous_variant 0.14
embB 4247624 p.Pro371Thr missense_variant 0.12
embB 4247851 c.1338C>A synonymous_variant 0.11
embB 4247865 p.Ala451Glu missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267925 p.Ala304Ser missense_variant 0.11
aftB 4267938 p.Arg300Leu missense_variant 0.14
aftB 4267954 p.Ala295Thr missense_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