TB-Profiler result

Run: ERR7801186
Summary

Run ID: ERR7801186

Sample name:

Date: 02-04-2023 05:58:20

Number of reads: 738812

Percentage reads mapped: 99.46

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 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
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 491320 p.Ala180Ser missense_variant 0.17
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575859 p.Val171Ala missense_variant 0.13
mshA 576436 p.Gln363His missense_variant 0.1
ccsA 620281 p.Arg131Ser missense_variant 0.14
ccsA 620367 c.477T>C synonymous_variant 0.11
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761960 p.Met718Ile missense_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764491 c.1122G>T synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777887 p.Gln198His missense_variant 0.12
mmpL5 779160 c.-680C>A upstream_gene_variant 0.14
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303403 p.Ala158Glu missense_variant 0.13
fbiC 1303992 p.Trp354Cys missense_variant 0.13
fbiC 1304706 c.1776C>T synonymous_variant 0.14
fbiC 1305076 p.Pro716Thr missense_variant 0.13
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1416931 c.417G>T synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917961 p.Asp8His missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103033 p.Gln4* stop_gained 0.18
katG 2154417 c.1695G>C synonymous_variant 0.1
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155838 p.Pro92Thr missense_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168813 c.1800C>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289364 c.-123G>T upstream_gene_variant 0.12
eis 2715108 c.225G>T synonymous_variant 0.12
ahpC 2726311 p.Ser40Ile missense_variant 0.12
ribD 2987547 c.709C>A synonymous_variant 0.2
thyX 3068103 c.-158C>A upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339722 p.Gly202Val missense_variant 0.2
Rv3083 3449032 p.Gly177Cys missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
alr 3840680 c.741G>A synonymous_variant 0.12
alr 3840693 p.Arg243Leu missense_variant 0.11
alr 3841489 c.-69T>C upstream_gene_variant 0.13
embC 4240219 c.357C>A synonymous_variant 0.14
embC 4240669 c.807G>T synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245936 p.Asp902Asn missense_variant 0.11
embB 4246544 p.Thr11Pro missense_variant 0.12
embB 4246561 c.48T>C synonymous_variant 0.15
aftB 4267337 c.1500C>A synonymous_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268855 c.-19G>A upstream_gene_variant 0.12
ethA 4326676 p.Ser266Arg missense_variant 0.96
ethA 4328046 c.-573C>A upstream_gene_variant 0.12
whiB6 4338384 c.138C>T synonymous_variant 0.13
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 4408213 c.-11C>T upstream_gene_variant 0.14