TB-Profiler result

Run: ERR233357
Summary

Run ID: ERR233357

Sample name:

Date: 27-03-2023 11:50:21

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage2.2.1

Drug-resistance: Other

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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
ethA 4327054 p.Tyr140* stop_gained 0.11 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
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 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576184 c.837A>C synonymous_variant 0.19
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.28
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764725 p.Phe452Leu missense_variant 0.19
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
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1416232 p.Cys372Gly missense_variant 0.11
atpE 1461019 c.-26C>A upstream_gene_variant 0.15
rrs 1471658 n.-188T>G upstream_gene_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.15
rrs 1473360 n.1515T>G non_coding_transcript_exon_variant 0.3
fabG1 1673449 p.Thr4Pro missense_variant 0.27
inhA 1674892 p.Asn231Asp missense_variant 0.22
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918023 c.84C>T synonymous_variant 1.0
tlyA 1918069 p.Thr44Pro missense_variant 0.2
ndh 2102891 p.Phe51Ser missense_variant 0.18
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154793 p.Asp440Gly missense_variant 0.24
PPE35 2167871 c.2742G>C synonymous_variant 0.15
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169379 p.Phe412Val missense_variant 0.24
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223318 c.-154A>C upstream_gene_variant 1.0
kasA 2518144 c.29dupG frameshift_variant 0.12
kasA 2518891 c.777C>A synonymous_variant 0.16
eis 2714366 p.Val323Leu missense_variant 0.17
ahpC 2726550 p.Gln120Lys missense_variant 0.15
folC 2747218 p.Ile127Met missense_variant 0.18
ribD 2987392 p.Arg185Pro missense_variant 0.17
Rv2752c 3064741 p.Gly484Ala missense_variant 0.24
thyA 3073890 p.Leu194Phe missense_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339550 p.Gly145Trp missense_variant 0.16
Rv3083 3448929 p.Tyr142* stop_gained 0.12
Rv3083 3449058 p.Ser185Arg missense_variant 0.24
Rv3083 3449673 p.Tyr390* stop_gained 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
alr 3840268 p.Thr385Pro missense_variant 0.16
rpoA 3878601 c.-94C>G upstream_gene_variant 0.3
rpoA 3878641 c.-135delG upstream_gene_variant 0.19
ddn 3987013 p.Gly57Ala missense_variant 0.32
ddn 3987076 p.Ser78Tyr missense_variant 1.0
clpC1 4039363 p.Ala448Pro missense_variant 0.14
clpC1 4039932 p.Gly258Val missense_variant 0.17
clpC1 4040516 c.189C>T synonymous_variant 0.98
embC 4241056 c.1194C>G synonymous_variant 0.21
embC 4242476 p.Pro872Ala missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.26
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243977 p.Ala249Pro missense_variant 0.17
embA 4244375 c.1143C>G synonymous_variant 0.14
embB 4248725 p.Ser738Ala missense_variant 0.21
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4327672 c.-199G>A upstream_gene_variant 0.17
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