TB-Profiler result

Run: ERR3994098
Summary

Run ID: ERR3994098

Sample name:

Date: 01-04-2023 03:42:22

Number of reads: 2453114

Percentage reads mapped: 99.97

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 0.22
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 8727 p.Arg476Ser missense_variant 0.18
gyrA 8838 p.Arg513Cys missense_variant 0.67
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 762408 p.Ala868Thr missense_variant 0.5
rpoB 763173 p.Gln1123* stop_gained 0.5
rpoC 763846 c.479delA frameshift_variant 0.4
rpoC 763934 p.Ala189Thr missense_variant 0.5
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775811 c.2669delT frameshift_variant 0.5
mmpL5 776260 p.Ala741Thr missense_variant 0.33
mmpL5 777395 c.1086C>T synonymous_variant 0.4
rpsL 781395 c.-165T>C upstream_gene_variant 0.8
rplC 800817 c.9A>C synonymous_variant 1.0
rplC 801223 p.His139Tyr missense_variant 0.67
fbiC 1304710 p.Ala594Thr missense_variant 0.2
embR 1416304 c.1044C>T synonymous_variant 1.0
rpsA 1834348 c.807T>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101761 p.Gln428* stop_gained 0.29
ndh 2103240 c.-198C>T upstream_gene_variant 0.33
PPE35 2167738 c.2875C>T synonymous_variant 0.67
PPE35 2168463 p.Pro717Leu missense_variant 0.56
Rv1979c 2221913 p.Pro418Thr missense_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.83
pncA 2289724 c.-483C>G upstream_gene_variant 0.18
eis 2714494 p.Thr280Asn missense_variant 0.67
eis 2715147 c.186G>T synonymous_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612395 p.Ala241Val missense_variant 0.17
Rv3236c 3612515 p.Arg201His missense_variant 0.67
ddn 3986702 c.-142G>A upstream_gene_variant 0.33
embC 4241415 p.Arg518Leu missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.75
embA 4243388 p.Asp52Glu missense_variant 0.25
embA 4243917 c.689dupG frameshift_variant 0.33
embB 4247423 p.Leu304Met missense_variant 0.4
embB 4248909 p.Ala799Val missense_variant 0.67
embB 4249408 c.2895G>A synonymous_variant 1.0
embB 4249781 p.Ser1090Pro missense_variant 0.25
embB 4249787 p.Gly1092Ser missense_variant 0.25
aftB 4267406 p.Lys477His missense_variant 0.33
aftB 4267411 p.Gly476Cys missense_variant 0.33
aftB 4267413 p.Gly475Ala missense_variant 0.33
aftB 4267912 p.Pro309Ser missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408031 p.Leu58Phe missense_variant 1.0