TB-Profiler result

Run: ERR551069

Summary

Run ID: ERR551069

Sample name:

Date: 02-08-2023 08:16:04

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.1

Drug-resistance: HR-TB


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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
lineage4.1 Euro-American T;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
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
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 6231 p.Tyr331Cys missense_variant 0.11
gyrA 6880 c.-422G>A upstream_gene_variant 1.0
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 0.18
mshA 576426 p.Val360Ala missense_variant 1.0
rpoC 763360 c.-10A>G upstream_gene_variant 0.11
rpoC 764191 c.822C>T synonymous_variant 0.18
rpoC 764669 p.Pro434Ala missense_variant 0.17
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766207 p.Asp946Glu missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778798 c.107delG frameshift_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781421 c.-139C>A upstream_gene_variant 1.0
rplC 800984 p.Pro59Gln missense_variant 0.17
fbiC 1305233 p.Ala768Glu missense_variant 0.1
embR 1416887 p.Arg154His missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673310 c.-130T>C upstream_gene_variant 1.0
inhA 1674461 p.Lys87Met missense_variant 0.17
rpsA 1833973 c.432G>C synonymous_variant 0.1
rpsA 1834536 p.Glu332Gly missense_variant 0.12
rpsA 1834850 p.Ala437Thr missense_variant 0.2
rpsA 1834985 c.1444T>C stop_lost&splice_region_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101912 c.1131G>A synonymous_variant 0.25
ndh 2102599 c.444T>C synonymous_variant 0.15
katG 2154909 c.1203C>G synonymous_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289152 c.90C>T synonymous_variant 0.17
kasA 2518124 p.Pro4Thr missense_variant 0.11
kasA 2518147 c.33C>T synonymous_variant 0.26
folC 2746302 p.Ala433Ser missense_variant 0.15
ribD 2986820 c.-19A>G upstream_gene_variant 0.12
Rv2752c 3065045 p.Phe383Leu missense_variant 0.14
Rv2752c 3065670 p.Asp174Glu missense_variant 0.12
Rv2752c 3065938 p.Asp85Gly missense_variant 0.1
thyX 3067682 c.264G>C synonymous_variant 0.12
thyX 3067781 c.165C>T synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339127 p.Thr4Ala missense_variant 0.12
Rv3083 3448888 p.Arg129Trp missense_variant 0.12
Rv3083 3449584 p.Asp361Tyr missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568500 c.180T>C synonymous_variant 0.14
whiB7 3568780 c.-101A>G upstream_gene_variant 0.11
fbiA 3640577 p.Gly12Val missense_variant 0.15
fbiB 3642314 c.781delA frameshift_variant 0.15
ddn 3987004 p.Arg54Leu missense_variant 0.13
clpC1 4038602 c.2103G>A synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4246401 p.Val1057Leu missense_variant 0.29
embB 4247421 p.Ile303Thr missense_variant 0.1
embB 4248710 p.Tyr733Asn missense_variant 0.14
aftB 4267252 p.Asp529Tyr missense_variant 0.1
ethR 4327195 c.-354T>A upstream_gene_variant 0.12
whiB6 4338229 c.292dupC frameshift_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0