TB-Profiler result

Run: SRR6207277
Summary

Run ID: SRR6207277

Sample name:

Date: 02-08-2023 15:06:07

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage2.2.1

Drug-resistance: MDR-TB

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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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
ethR 4327831 p.Ala95Thr missense_variant 1.0 ethionamide
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 5835 p.Phe199Tyr missense_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7451 c.150C>A synonymous_variant 0.14
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490769 c.-14A>G upstream_gene_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575854 p.Trp169Cys missense_variant 0.18
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620062 p.Ser58Arg missense_variant 0.12
ccsA 620474 p.Leu195Pro missense_variant 0.18
ccsA 620625 p.Ile245Met missense_variant 0.94
rpoB 762427 p.Ser874Tyr missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763555 c.186C>T synonymous_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 776238 p.Gly748Asp missense_variant 0.11
mmpL5 776401 p.Glu694* stop_gained 0.1
mmpS5 778979 c.-74G>T upstream_gene_variant 0.94
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305150 c.2220C>T synonymous_variant 0.15
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406766 p.Gln192Arg missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673560 p.Lys41Leu missense_variant 0.14
inhA 1673816 c.-386G>A upstream_gene_variant 0.14
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103225 c.-183A>C upstream_gene_variant 0.29
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156440 c.-329A>C upstream_gene_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168892 p.Thr574Lys missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714230 p.Thr368Met missense_variant 0.12
eis 2714735 c.595_597delGAG conservative_inframe_deletion 0.1
eis 2714745 c.581_587delAGGTGCT frameshift_variant 0.1
ahpC 2726338 p.Val49Gly missense_variant 0.18
folC 2747118 p.Ala161Thr missense_variant 0.1
ribD 2987172 p.Ser112Gly missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3613093 p.Leu8Phe missense_variant 0.12
fbiA 3640784 p.Gln81Arg missense_variant 0.12
fbiB 3642199 p.Val222Ala missense_variant 0.2
ddn 3987185 c.342G>C synonymous_variant 0.1
clpC1 4039490 c.1215G>A synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243872 p.Val214Ile missense_variant 0.25
embA 4244586 p.Leu452Met missense_variant 0.2
embB 4245674 c.-840A>G upstream_gene_variant 0.15
embB 4247703 p.Pro397Arg missense_variant 0.14
embB 4248320 p.Gly603Arg missense_variant 1.0
aftB 4267094 c.1742delC frameshift_variant 0.11
aftB 4267647 p.Asp397Gly missense_variant 1.0
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