TB-Profiler result

Run: ERR552393
Summary

Run ID: ERR552393

Sample name:

Date: 15-08-2022 10:50:08

Number of reads: 520569

Percentage reads mapped: 99.7

Strain: lineage4.6.1.2

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.1 Euro-American (Uganda) T2 RD724 1.0
lineage4.6.1.2 Euro-American T2 RD724 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 7539 p.Thr80Ala missense_variant 1.0
gyrA 7570 p.Ala90Gly missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576084 p.Val246Ala missense_variant 0.13
mshA 576579 p.Gly411Glu missense_variant 0.11
ccsA 619945 p.Thr19Ala missense_variant 0.17
rpoB 762933 p.Tyr1043His missense_variant 0.1
rpoC 764377 c.1008C>T synonymous_variant 0.17
rpoC 764810 p.Pro481Thr missense_variant 1.0
rpoC 765957 p.Thr863Ile missense_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778116 c.364delC frameshift_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406504 c.837C>T synonymous_variant 0.12
embR 1416410 p.Leu313Arg missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674207 c.6A>G synonymous_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918440 c.501G>A synonymous_variant 0.89
ndh 2103207 c.-165C>A upstream_gene_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065192 p.Ile334Val missense_variant 0.09
Rv2752c 3065595 p.Leu199Phe missense_variant 0.09
Rv2752c 3065604 c.585_587delCGT disruptive_inframe_deletion 0.09
Rv2752c 3065920 p.Pro91Leu missense_variant 1.0
thyA 3074582 c.-111T>C upstream_gene_variant 0.11
thyA 3074636 c.-165T>C upstream_gene_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642198 p.Val222Leu missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244153 p.Tyr307* stop_gained 0.1
embA 4245055 p.Thr608Asn missense_variant 1.0
embA 4245585 p.Pro785Ser missense_variant 1.0
embB 4245719 c.-795G>T upstream_gene_variant 0.2
aftB 4268790 p.Leu16Pro missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0