TB-Profiler result

Run: SRR6982373

Summary

Run ID: SRR6982373

Sample name:

Date: 04-04-2023 18:35:29

Number of reads: 385352

Percentage reads mapped: 99.55

Strain: lineage4.4.1.1

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans None 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 490765 c.-18T>C upstream_gene_variant 0.12
ccsA 619980 c.90G>A synonymous_variant 0.22
ccsA 620801 p.Val304Ala missense_variant 0.12
rpoB 761017 p.Glu404Gly missense_variant 0.2
rpoB 761683 p.Leu626Pro missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776723 p.Tyr586* stop_gained 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781654 p.Gly32Asp missense_variant 0.11
fbiC 1302875 c.-56C>A upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833616 c.75A>G synonymous_variant 0.11
rpsA 1834518 p.Leu326Pro missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2154430 p.His561Arg missense_variant 0.14
katG 2154904 p.Glu403Ala missense_variant 0.18
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987053 p.Asn72Ile missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448390 c.-114A>C upstream_gene_variant 0.14
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612416 p.Glu234Val missense_variant 0.25
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3640782 c.-753C>G upstream_gene_variant 0.29
embC 4240692 p.Val277Ala missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244786 c.1556delT frameshift_variant 0.4
ubiA 4269714 p.Leu40Phe missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407570 c.633C>A synonymous_variant 0.11