TB-Profiler result

Run: SRR21277756

Summary

Run ID: SRR21277756

Sample name:

Date: 04-04-2023 01:39:37

Number of reads: 9707854

Percentage reads mapped: 99.13

Strain: lineage2.2.1.1

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
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 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 7609 p.Trp103Leu missense_variant 0.1
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575671 c.324G>A synonymous_variant 0.12
mshA 575849 p.Arg168Ser missense_variant 0.14
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576234 p.Ile296Asn missense_variant 0.11
mshA 576451 c.1104G>A synonymous_variant 0.29
mshA 576616 c.1269G>T synonymous_variant 0.12
ccsA 619720 c.-171C>A upstream_gene_variant 0.13
ccsA 620154 c.264C>A synonymous_variant 0.22
ccsA 620206 p.Pro106Ser missense_variant 0.1
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763957 p.Lys196Asn missense_variant 0.14
rpoC 765287 p.Leu640Met missense_variant 0.14
rpoC 766969 c.3600C>A synonymous_variant 0.13
rpoC 766975 c.3606C>T synonymous_variant 0.17
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 777333 p.Gly383Val missense_variant 0.29
mmpL5 777362 p.Met373Ile missense_variant 0.18
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801245 p.Arg146His missense_variant 0.12
fbiC 1303113 p.Ser61Arg missense_variant 0.2
fbiC 1303121 p.Arg64Leu missense_variant 0.15
fbiC 1304426 p.Leu499Gln missense_variant 0.12
fbiC 1305447 c.2517C>A synonymous_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407518 c.-178C>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918588 p.Glu217* stop_gained 0.1
ndh 2101692 p.Glu451* stop_gained 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155743 p.Gly123Val missense_variant 0.1
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170037 c.576C>T synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518717 c.603C>T synonymous_variant 0.11
kasA 2518871 p.His253Tyr missense_variant 1.0
kasA 2519008 c.894C>A synonymous_variant 0.11
eis 2714846 p.Val163Ile missense_variant 1.0
eis 2715026 p.Glu103* stop_gained 0.13
eis 2715057 c.276C>T synonymous_variant 0.22
eis 2715556 c.-224C>T upstream_gene_variant 0.14
folC 2746296 p.Asn435Tyr missense_variant 0.14
folC 2746363 c.1236G>A synonymous_variant 0.12
folC 2746635 p.Asp322Asn missense_variant 0.2
pepQ 2859605 p.Gly272Trp missense_variant 0.18
pepQ 2859891 c.528G>T synonymous_variant 0.1
pepQ 2859948 c.471G>A synonymous_variant 0.1
pepQ 2860122 c.297C>T synonymous_variant 0.1
pepQ 2860589 c.-171G>T upstream_gene_variant 0.43
ribD 2987346 p.Pro170Ser missense_variant 0.14
thyX 3067297 p.Arg217Ser missense_variant 0.11
thyX 3067541 c.405C>A synonymous_variant 0.14
thyX 3067859 c.87C>T synonymous_variant 0.15
thyX 3067892 c.54G>A synonymous_variant 0.2
thyX 3068022 c.-77C>A upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087338 c.519G>T synonymous_variant 0.17
fbiD 3339017 c.-101C>A upstream_gene_variant 0.12
fbiD 3339058 c.-60G>T upstream_gene_variant 0.11
fbiD 3339308 p.Pro64His missense_variant 0.23
fbiD 3339337 p.Gly74Trp missense_variant 0.12
fbiD 3339761 c.644G>T stop_lost&splice_region_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474912 c.906G>A synonymous_variant 0.12
fprA 3474992 p.Thr329Met missense_variant 0.15
fprA 3474998 p.Gly331Val missense_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641628 p.Ala32Thr missense_variant 0.1
fbiB 3642036 p.Ala168Ser missense_variant 0.11
fbiB 3642239 c.705G>T synonymous_variant 0.2
alr 3841188 p.Ala78Asp missense_variant 0.21
clpC1 4038176 c.2529G>T synonymous_variant 0.12
clpC1 4038186 p.Ala840Val missense_variant 0.14
clpC1 4038512 c.2193C>T synonymous_variant 1.0
clpC1 4040230 p.Gly159Trp missense_variant 0.12
embC 4240401 p.Pro180His missense_variant 0.12
embC 4240539 p.Pro226His missense_variant 0.12
embC 4240644 p.Arg261Leu missense_variant 0.18
embC 4242369 p.Arg836His missense_variant 0.15
embA 4242374 c.-859C>A upstream_gene_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242707 p.Asp949Tyr missense_variant 0.2
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243615 p.Arg128Leu missense_variant 0.18
embA 4243630 p.Ala133Val missense_variant 0.15
embA 4243874 c.642C>A synonymous_variant 0.11
embA 4243972 p.Gly247Val missense_variant 0.1
embA 4244211 p.Pro327Ser missense_variant 0.12
embA 4244447 c.1215G>A synonymous_variant 0.1
embA 4244851 p.Arg540Gln missense_variant 0.1
embA 4245487 p.Pro752Leu missense_variant 0.18
embB 4246663 c.150G>A synonymous_variant 1.0
embB 4246799 p.Gly96Trp missense_variant 0.12
embB 4247108 p.Gly199Trp missense_variant 0.1
embB 4247640 p.Ala376Val missense_variant 0.22
embB 4248115 c.1602C>T synonymous_variant 1.0
embB 4248607 c.2094G>T synonymous_variant 0.27
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267676 c.1161G>A synonymous_variant 0.15
aftB 4267679 c.1158G>A synonymous_variant 0.12
aftB 4268492 c.345G>T synonymous_variant 0.11
whiB6 4338259 p.Arg88Leu missense_variant 0.2
whiB6 4338323 p.Val67Ile missense_variant 0.25
whiB6 4338326 p.Ala66Thr missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407927 p.Glu92Asp missense_variant 1.0