TB-Profiler result

Run: SRR6855771

Summary

Run ID: SRR6855771

Sample name:

Date: 04-04-2023 17:45:07

Number of reads: 547251

Percentage reads mapped: 99.66

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 Euro-American (S-type) 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
gyrB 5309 p.Glu24Lys missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576557 p.His404Asp missense_variant 0.12
mshA 576664 c.1317C>A synonymous_variant 0.12
ccsA 619798 c.-93G>T upstream_gene_variant 0.17
rpoB 761504 c.1698C>A synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2155737 c.375C>A synonymous_variant 0.1
PPE35 2167855 c.2757delG frameshift_variant 0.15
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170113 p.Ala167Glu missense_variant 0.12
Rv1979c 2222341 p.Met275Thr missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290237 c.-999_-997delAGA upstream_gene_variant 0.12
thyA 3074515 c.-44T>C upstream_gene_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612191 p.Gly309Val missense_variant 0.18
Rv3236c 3612228 p.Leu297Met missense_variant 0.17
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3641010 c.-525C>T upstream_gene_variant 1.0
rpoA 3878699 c.-192C>A upstream_gene_variant 0.4
embC 4240540 c.678C>A synonymous_variant 0.14
embC 4240962 c.1104delG frameshift_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245512 c.2280G>C synonymous_variant 1.0
embA 4245557 p.Glu775Asp missense_variant 0.13
embB 4246825 p.Lys104Asn missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0