TB-Profiler result

Run: ERR2503474
Summary

Run ID: ERR2503474

Sample name:

Date: 31-03-2023 18:28:44

Number of reads: 260836

Percentage reads mapped: 99.57

Strain: lineage4.2.1.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 None 1.0
lineage4.2.1.1 Euro-American (TUR) H3;H4 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 490751 c.-32T>G upstream_gene_variant 0.5
rpoB 762267 p.Glu821Lys missense_variant 0.33
rpoC 765578 c.2209C>T synonymous_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.33
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781893 p.Gln112* stop_gained 0.22
fbiC 1303016 p.Val29Gly missense_variant 0.31
fbiC 1304924 p.Pro665Arg missense_variant 0.29
Rv1258c 1406166 c.1174delC frameshift_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833516 c.-26A>G upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102687 p.Ala119Val missense_variant 0.22
ndh 2103225 c.-183A>C upstream_gene_variant 0.3
PPE35 2169879 p.Phe245Cys missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519155 c.1041C>T synonymous_variant 0.4
thyA 3074648 c.-177T>G upstream_gene_variant 0.4
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086861 p.Phe14Leu missense_variant 0.17
fbiD 3338931 c.-187C>T upstream_gene_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3640557 c.-978T>C upstream_gene_variant 0.15
alr 3840544 p.Val293Met missense_variant 1.0
clpC1 4039730 c.975C>G synonymous_variant 0.11
embC 4242134 p.Glu758* stop_gained 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267911 p.Pro309Leu missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0