TB-Profiler result

Run: ERR4819786
Summary

Run ID: ERR4819786

Sample name:

Date: 01-04-2023 16:18:17

Number of reads: 373174

Percentage reads mapped: 99.58

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 7952 c.651C>T synonymous_variant 0.22
gyrA 9170 c.1869G>T synonymous_variant 0.22
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759801 c.-6T>C upstream_gene_variant 1.0
rpoB 760726 p.Arg307His missense_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763704 p.Ser112Leu missense_variant 0.13
rpoC 766003 c.2634G>A synonymous_variant 0.2
rpoC 766210 c.2844_2845dupGA frameshift_variant 0.25
rpoC 767115 p.Lys1249Met missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 779495 c.-590G>A upstream_gene_variant 0.22
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471679 n.-167C>T upstream_gene_variant 0.15
rrl 1473480 n.-178C>T upstream_gene_variant 0.67
fabG1 1673324 c.-116G>A upstream_gene_variant 0.12
rpsA 1833733 c.192C>T synonymous_variant 0.12
rpsA 1834177 c.636A>C synonymous_variant 1.0
ndh 2102389 c.654G>C synonymous_variant 0.2
ndh 2102392 c.651C>A synonymous_variant 0.2
ndh 2102401 c.642T>C synonymous_variant 0.2
ndh 2102407 c.636T>C synonymous_variant 0.22
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168221 p.Ala798Thr missense_variant 0.15
PPE35 2169538 p.Thr359Ala missense_variant 0.14
PPE35 2170392 p.Gly74Ala missense_variant 0.18
PPE35 2170400 c.213G>C synonymous_variant 0.2
PPE35 2170626 c.-14G>A upstream_gene_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519329 c.1217delG frameshift_variant 0.25
kasA 2519337 p.Asn408Ile missense_variant 0.17
eis 2714387 p.Glu316Lys missense_variant 0.18
ahpC 2726465 c.273C>T synonymous_variant 0.12
folC 2746770 c.829C>T synonymous_variant 0.22
thyA 3074359 p.Leu38Ser missense_variant 0.22
thyA 3074645 c.-174T>G upstream_gene_variant 0.38
thyA 3074648 c.-177T>G upstream_gene_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474669 c.663T>C synonymous_variant 0.33
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640533 c.-10G>A upstream_gene_variant 0.11
fbiA 3641398 p.Asp286Asn missense_variant 0.12
fbiB 3642769 p.Leu412Pro missense_variant 0.25
ddn 3986877 p.Pro12Ser missense_variant 0.12
clpC1 4038451 p.Thr752Ser missense_variant 0.14
clpC1 4039404 p.Glu434Val missense_variant 0.4
clpC1 4039600 p.His369Tyr missense_variant 0.33
clpC1 4040144 c.561G>C synonymous_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.11
embB 4246548 p.Pro12Gln missense_variant 0.1
embB 4246555 c.42G>C synonymous_variant 0.1
embB 4246556 p.Ala15Pro missense_variant 0.1
embB 4246563 p.Leu17Trp missense_variant 0.1
embB 4247933 p.Gly474Ser missense_variant 0.15
embB 4249329 p.Met939Arg missense_variant 0.5
aftB 4267141 p.Leu566Met missense_variant 0.13
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269455 p.Val127Ile missense_variant 0.12
ethA 4326060 p.Lys472Glu missense_variant 0.14
ethA 4326676 p.Ser266Arg missense_variant 1.0
ethA 4327494 c.-22_-21insA upstream_gene_variant 0.13
ethR 4327832 p.Ala95Val missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407755 p.Met150Val missense_variant 0.13
gid 4407927 p.Glu92Asp missense_variant 1.0