TB-Profiler result

Run: ERR4812409
Summary

Run ID: ERR4812409

Sample name:

Date: 01-04-2023 12:03:30

Number of reads: 746739

Percentage reads mapped: 99.78

Strain: lineage4

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
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 5798 c.560_561delTC frameshift_variant 0.22
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 575342 c.-6G>A upstream_gene_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.57
rpoB 760852 p.Met349Lys missense_variant 0.29
rpoB 761162 c.1356G>T synonymous_variant 1.0
rpoB 761889 p.Val695Leu missense_variant 1.0
rpoC 763369 c.-1C>T upstream_gene_variant 0.15
rpoC 766962 p.Gly1198Val missense_variant 0.11
rpoC 767007 p.Ala1213Gly missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778636 c.-156C>T upstream_gene_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801009 c.201A>G synonymous_variant 1.0
fbiC 1304001 c.1071C>A synonymous_variant 0.17
Rv1258c 1406259 p.Pro361Gln missense_variant 0.13
Rv1258c 1407090 p.Ala84Glu missense_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473759 n.102G>C non_coding_transcript_exon_variant 0.5
inhA 1673883 c.-319C>G upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918355 p.Leu139Pro missense_variant 0.11
ndh 2101958 p.Phe362Ser missense_variant 0.11
ndh 2102094 p.Val317Leu missense_variant 0.17
ndh 2102519 p.Val175Ala missense_variant 0.12
ndh 2103057 c.-15C>T upstream_gene_variant 0.22
katG 2153926 p.Asp729Gly missense_variant 1.0
katG 2156018 p.Gly32Ser missense_variant 0.15
katG 2156528 c.-417G>C upstream_gene_variant 0.2
Rv1979c 2222798 p.Pro123Ala missense_variant 0.18
Rv1979c 2223214 c.-50A>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518267 c.153C>T synonymous_variant 0.13
kasA 2519097 p.Val328Ala missense_variant 1.0
eis 2714781 c.552G>A synonymous_variant 0.11
folC 2747225 p.Arg125Gln missense_variant 0.17
folC 2747724 c.-126C>T upstream_gene_variant 0.12
Rv2752c 3065365 p.Leu276Gln missense_variant 0.15
Rv2752c 3065398 p.Ser265* stop_gained 0.14
Rv2752c 3065517 c.675C>T synonymous_variant 1.0
thyX 3067225 p.Val241Leu missense_variant 0.2
ald 3086627 c.-193A>G upstream_gene_variant 0.12
ald 3087622 p.Ala268Gly missense_variant 0.17
ald 3087803 c.984C>A synonymous_variant 0.15
Rv3083 3448845 c.342C>T synonymous_variant 0.14
fprA 3474208 p.Glu68Lys missense_variant 0.14
fprA 3474299 p.Asp98Gly missense_variant 1.0
fprA 3474712 p.Glu236Lys missense_variant 0.11
Rv3236c 3612055 p.Leu354Phe missense_variant 0.13
ddn 3987078 p.Lys79Glu missense_variant 0.12
panD 4044430 c.-149C>A upstream_gene_variant 0.13
embC 4241433 p.Met524Thr missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244825 c.1594_1595delCT frameshift_variant 0.29
embA 4245967 p.Phe912Ser missense_variant 0.14
embB 4246584 p.Arg24Pro missense_variant 0.25
embB 4247028 p.Leu172Arg missense_variant 0.14
embB 4248971 p.Lys820Glu missense_variant 0.14
ethA 4326167 p.Pro436Arg missense_variant 0.13
ethA 4326693 p.Arg261Trp missense_variant 0.33
ethA 4328317 c.-844C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408143 c.60G>T synonymous_variant 0.14