TB-Profiler result

Run: ERR025832
Summary

Run ID: ERR025832

Sample name:

Date: 31-03-2023 08:17:46

Number of reads: 382338

Percentage reads mapped: 99.01

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 0.37
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 0.75
fgd1 491742 c.960T>C synonymous_variant 0.62
ccsA 620625 p.Ile245Met missense_variant 0.5
rpoB 759746 c.-61C>T upstream_gene_variant 0.3
rpoC 762434 c.-936T>G upstream_gene_variant 0.45
rpoC 763031 c.-339T>C upstream_gene_variant 0.83
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.83
mmpL5 776182 p.Asp767Asn missense_variant 0.43
mmpS5 779565 c.-660G>A upstream_gene_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471840 n.-6T>G upstream_gene_variant 0.25
rpsA 1833646 c.105T>C synonymous_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.4
katG 2154724 p.Arg463Leu missense_variant 0.82
PPE35 2167926 p.Leu896Ser missense_variant 0.88
PPE35 2169866 c.747G>C synonymous_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.5
ahpC 2726105 c.-88G>A upstream_gene_variant 0.33
ahpC 2726338 p.Val49Gly missense_variant 0.22
folC 2747263 c.336C>A synonymous_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 0.86
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.7
whiB7 3568515 c.165G>C synonymous_variant 0.43
Rv3236c 3612813 p.Thr102Ala missense_variant 0.29
fbiB 3641955 p.Gly141Arg missense_variant 0.33
alr 3840765 p.Leu219Pro missense_variant 0.29
clpC1 4039729 p.Asp326Asn missense_variant 0.5
embC 4241562 p.Arg567His missense_variant 0.83
embC 4242075 p.Arg738Gln missense_variant 0.55
embC 4242476 p.Pro872Ala missense_variant 0.43
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.5
embB 4246754 c.243delC frameshift_variant 0.15
embB 4247975 p.Val488Ile missense_variant 0.4
embB 4249531 p.Ile1006Met missense_variant 0.22
aftB 4267647 p.Asp397Gly missense_variant 0.33
ethA 4327546 c.-73T>C upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.44
gid 4407620 p.Tyr195His missense_variant 0.38