TB-Profiler result

Run: ERR4817247
Summary

Run ID: ERR4817247

Sample name:

Date: 01-04-2023 14:53:12

Number of reads: 443003

Percentage reads mapped: 99.03

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 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 8411 c.1110C>A synonymous_variant 0.25
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576470 p.Gly375Cys missense_variant 0.25
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 760810 p.Thr335Ser missense_variant 0.25
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777080 p.Lys467Asn missense_variant 0.18
mmpL5 778300 p.Ala61Ser missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833565 c.24G>T synonymous_variant 0.29
rpsA 1833964 c.423C>T synonymous_variant 0.22
tlyA 1917808 c.-132C>T upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154223 p.Gly630Asp missense_variant 0.15
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155452 c.660G>A synonymous_variant 0.2
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2221932 c.1233G>A synonymous_variant 0.2
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
folC 2747251 c.348C>T synonymous_variant 0.22
ribD 2986667 c.-172T>C upstream_gene_variant 0.13
ribD 2987568 c.731delT frameshift_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3338960 c.-158C>T upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474844 p.Gly280Ser missense_variant 0.2
Rv3236c 3612592 c.525C>T synonymous_variant 0.22
alr 3841473 c.-53G>A upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4327139 p.Ala112Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0