TB-Profiler result

Run: SRR6831756
Summary

Run ID: SRR6831756

Sample name:

Date: 04-04-2023 17:01:00

Number of reads: 704249

Percentage reads mapped: 99.42

Strain: lineage2.2

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 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 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 7984 p.Phe228Tyr missense_variant 0.22
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575312 c.-36G>A upstream_gene_variant 0.21
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620362 p.Ala158Ser missense_variant 0.11
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764496 p.Glu376Gly missense_variant 0.14
rpoC 766645 p.Glu1092Asp missense_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
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303755 c.825T>C synonymous_variant 0.29
fbiC 1305352 p.Gly808Cys missense_variant 0.2
Rv1258c 1406100 p.Pro414Leu missense_variant 0.17
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.8
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102475 p.Ala190Thr missense_variant 0.29
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156406 c.-295C>A upstream_gene_variant 0.22
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2221862 p.Arg435Cys missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518302 p.His63Arg missense_variant 0.17
kasA 2519057 p.Thr315Ser missense_variant 0.25
kasA 2519062 c.948T>G synonymous_variant 0.25
kasA 2519065 c.951C>A synonymous_variant 0.22
kasA 2519070 p.Asp319Val missense_variant 0.22
ribD 2987086 p.Val83Ala missense_variant 0.14
ribD 2987088 p.Gly84Ser missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448594 p.Thr31Ser missense_variant 0.2
Rv3083 3449556 c.1053G>A synonymous_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640352 c.-191G>C upstream_gene_variant 0.17
fbiA 3640356 c.-187G>A upstream_gene_variant 0.2
alr 3841172 c.248delG frameshift_variant 0.15
rpoA 3877727 p.Tyr261Asn missense_variant 0.17
ddn 3986767 c.-77C>T upstream_gene_variant 0.17
embC 4239674 c.-189C>A upstream_gene_variant 0.2
embC 4240813 c.951C>T synonymous_variant 0.13
embC 4242129 p.Leu756Pro missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244024 p.Trp264Cys missense_variant 0.29
embA 4245089 c.1857G>A synonymous_variant 0.67
embA 4245670 p.Ala813Val missense_variant 0.4
embB 4246567 c.54G>T synonymous_variant 0.18
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268084 c.753G>A synonymous_variant 0.15
aftB 4268701 p.Gly46Arg missense_variant 0.4
aftB 4268874 c.-38T>A upstream_gene_variant 0.2
ethR 4327426 c.-123A>G upstream_gene_variant 0.2
ethR 4327962 p.Trp138Cys missense_variant 0.38
whiB6 4338298 p.Leu75Gln missense_variant 1.0
whiB6 4338563 c.-42G>T upstream_gene_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
gid 4408124 p.Ala27Pro missense_variant 0.18