TB-Profiler result

Run: ERR4815182
Summary

Run ID: ERR4815182

Sample name:

Date: 01-04-2023 13:43:11

Number of reads: 487216

Percentage reads mapped: 99.18

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
gid 4408100 c.102delG frameshift_variant 1.0 streptomycin
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
gyrB 5627 p.Ala130Pro missense_variant 0.22
gyrB 6951 p.Leu571Pro missense_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8055 p.Arg252* stop_gained 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761347 p.Val514Ala missense_variant 0.25
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 762977 c.-393C>T upstream_gene_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763702 c.333C>G synonymous_variant 0.15
rpoC 763721 p.Leu118Val missense_variant 0.14
rpoC 765371 p.Leu668Val missense_variant 1.0
rpoC 766385 p.Pro1006Ser missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304767 p.Gly613Ser missense_variant 0.2
Rv1258c 1406234 c.1107A>G synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155808 p.Phe102Leu missense_variant 0.2
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222963 p.Ala68Ser missense_variant 0.25
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 3087814 p.Ala332Glu missense_variant 0.33
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641333 p.Gly264Ala missense_variant 0.11
fbiB 3642679 p.Gln382Arg missense_variant 0.15
ddn 3987297 c.454T>C stop_lost&splice_region_variant 0.11
clpC1 4038428 c.2277G>A synonymous_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4246225 p.Gly998Asp missense_variant 0.29
ethA 4328300 c.-828delC upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338718 c.-197C>A upstream_gene_variant 0.29
gid 4407588 c.615A>G synonymous_variant 1.0