TB-Profiler result

Run: ERR245831
Summary

Run ID: ERR245831

Sample name:

Date: 31-03-2023 18:23:41

Number of reads: 12413748

Percentage reads mapped: 99.45

Strain: lineage2.2.1

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 0.99
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
gyrB 5347 c.108G>C synonymous_variant 0.19
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7493 c.192C>T synonymous_variant 0.17
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.99
fgd1 491742 c.960T>C synonymous_variant 0.99
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620407 p.Pro173Ala missense_variant 0.24
ccsA 620625 p.Ile245Met missense_variant 0.99
rpoB 762249 p.Leu815Val missense_variant 0.19
rpoC 762836 c.-534C>G upstream_gene_variant 0.27
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764725 p.Phe452Leu missense_variant 0.24
rpoC 767305 p.Tyr1312* stop_gained 0.21
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.99
mmpL5 776182 p.Asp767Asn missense_variant 0.99
mmpL5 777399 p.Thr361Arg missense_variant 0.2
mmpS5 779615 c.-710C>G upstream_gene_variant 0.99
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.99
embR 1417501 c.-154A>C upstream_gene_variant 0.28
atpE 1461019 c.-26C>A upstream_gene_variant 0.21
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.23
fabG1 1673449 p.Thr4Pro missense_variant 0.39
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.21
ndh 2103226 c.-184C>G upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.99
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.36
eis 2715586 c.-254G>C upstream_gene_variant 0.39
ahpC 2725954 c.-239C>T upstream_gene_variant 0.26
Rv2752c 3064741 p.Gly484Ala missense_variant 0.2
thyA 3073817 p.Gln219Glu missense_variant 0.23
ald 3086739 c.-81G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.99
Rv3083 3449058 p.Ser185Arg missense_variant 0.31
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 0.99
fbiB 3641955 p.Gly141Arg missense_variant 0.22
ddn 3987013 p.Gly57Ala missense_variant 0.27
clpC1 4038857 c.1848C>A synonymous_variant 0.18
clpC1 4039363 p.Ala448Pro missense_variant 0.29
clpC1 4039932 p.Gly258Val missense_variant 0.32
embC 4241056 c.1194C>G synonymous_variant 0.26
embC 4241429 p.Phe523Val missense_variant 0.51
embC 4241456 p.Ala532Pro missense_variant 0.44
embC 4242476 p.Pro872Ala missense_variant 0.16
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.28
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4249504 p.Gln997His missense_variant 0.22
embB 4249618 c.3105C>G synonymous_variant 0.18
aftB 4267647 p.Asp397Gly missense_variant 0.99
ubiA 4269529 p.Ala102Gly missense_variant 0.17
ethA 4327672 c.-199G>A upstream_gene_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407927 p.Glu92Asp missense_variant 0.99