TB-Profiler result

Run: ERR4819473
Summary

Run ID: ERR4819473

Sample name:

Date: 01-04-2023 16:07:44

Number of reads: 1004713

Percentage reads mapped: 99.46

Strain: lineage4.4

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
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 7979 c.678G>T synonymous_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491406 p.Met208Ile missense_variant 0.13
fgd1 491448 c.666C>G synonymous_variant 0.15
mshA 575845 c.498C>T synonymous_variant 0.12
mshA 576337 c.990G>A synonymous_variant 0.13
rpoB 760848 p.Thr348Ala missense_variant 0.12
rpoB 762562 p.Arg919Gln missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777602 p.Gln293His missense_variant 1.0
rpsL 781372 c.-188T>C upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303123 p.Val65Met missense_variant 0.12
Rv1258c 1407270 p.Gly24Ala missense_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673585 p.Ser49Phe missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154719 p.Ser465Pro missense_variant 0.12
PPE35 2170558 p.Ala19Pro missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289734 c.-493C>T upstream_gene_variant 0.12
eis 2714523 p.His270Gln missense_variant 1.0
folC 2746617 p.Ala328Thr missense_variant 0.22
Rv2752c 3065715 c.477T>C synonymous_variant 1.0
thyX 3067228 p.Glu240* stop_gained 0.12
ald 3086788 c.-32T>C upstream_gene_variant 0.96
ald 3087690 p.His291Tyr missense_variant 0.11
Rv3083 3448325 c.-179G>C upstream_gene_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612140 p.Ala326Val missense_variant 0.14
Rv3236c 3612529 c.588C>T synonymous_variant 0.25
fbiA 3641078 p.Gln179Arg missense_variant 0.11
fbiB 3641091 c.-444C>T upstream_gene_variant 0.11
fbiB 3642706 p.Arg391Leu missense_variant 0.11
embC 4241105 c.1243C>A synonymous_variant 0.17
embC 4242408 p.Pro849Leu missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243324 p.Val31Ala missense_variant 1.0
embA 4244732 c.1500G>A synonymous_variant 1.0
embA 4244931 p.Pro567Ala missense_variant 0.15
embA 4245680 p.Lys816Asn missense_variant 0.11
embB 4247548 c.1035C>T synonymous_variant 1.0
aftB 4268460 p.Ile126Thr missense_variant 1.0
aftB 4268569 p.Leu90Val missense_variant 0.2
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338289 p.Gly78Ala missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0