TB-Profiler result

Run: ERR4821753
Summary

Run ID: ERR4821753

Sample name:

Date: 01-04-2023 17:26:02

Number of reads: 447441

Percentage reads mapped: 99.54

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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
embB 4247513 p.Tyr334His missense_variant 0.18 ethambutol
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 9147 p.Gly616Ser missense_variant 0.22
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9596 c.2295G>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576608 p.Ala421Thr missense_variant 0.2
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 759924 p.Glu40* stop_gained 0.5
rpoB 761243 c.1437G>T synonymous_variant 0.22
rpoB 762333 p.Gly843Cys missense_variant 0.29
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoB 762902 p.Asp1032Glu missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764181 p.Asp271Gly missense_variant 1.0
rpoC 764734 p.Phe455Leu missense_variant 0.17
rpoC 765544 c.2175C>G synonymous_variant 1.0
rpoC 765549 p.Ser727Ile missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776696 c.1784delC frameshift_variant 0.11
mmpR5 778019 c.-971C>A upstream_gene_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800863 p.Glu19* stop_gained 0.11
fbiC 1303262 p.Pro111Gln missense_variant 0.11
Rv1258c 1406401 p.Ile314Val missense_variant 0.29
embR 1416311 p.Ser346Leu missense_variant 0.25
atpE 1461179 c.135G>A synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1917985 c.46C>T synonymous_variant 0.2
tlyA 1918012 p.Glu25* stop_gained 0.18
ndh 2101911 p.Ala378Ser missense_variant 0.2
ndh 2102641 p.Phe134Leu missense_variant 0.33
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155877 p.Asp79Asn missense_variant 0.4
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170769 c.-157C>T upstream_gene_variant 1.0
Rv1979c 2221943 p.Arg408Trp missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087242 c.423C>T synonymous_variant 0.2
Rv3083 3448855 p.Val118Ile missense_variant 0.25
fprA 3473819 c.-188A>T upstream_gene_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612006 p.Arg371Ser missense_variant 0.22
fbiA 3640487 c.-56A>G upstream_gene_variant 0.17
fbiA 3641075 p.Ala178Val missense_variant 0.18
fbiA 3641101 p.Phe187Leu missense_variant 0.2
fbiB 3641720 c.186G>A synonymous_variant 0.18
rpoA 3877659 c.849G>A synonymous_variant 0.15
rpoA 3877940 p.Asp190Asn missense_variant 0.22
clpC1 4038226 p.Pro827Thr missense_variant 0.18
clpC1 4038740 c.1965G>A synonymous_variant 0.18
clpC1 4038911 c.1794G>T synonymous_variant 0.22
panD 4044149 p.Thr45Ser missense_variant 0.29
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244017 p.Leu262* stop_gained 0.2
embA 4244194 p.Gly321Asp missense_variant 0.33
aftB 4267263 p.Arg525His missense_variant 0.17
ethA 4326380 p.Thr365Lys missense_variant 0.15
ethA 4328365 c.-892G>T upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0