TB-Profiler result

Run: SRR21277779
Summary

Run ID: SRR21277779

Sample name:

Date: 04-04-2023 01:41:42

Number of reads: 14455347

Percentage reads mapped: 97.1

Strain: lineage4.5

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
lineage4.5 Euro-American H;T RD122 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 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575662 c.315C>A synonymous_variant 0.11
mshA 575671 c.324G>A synonymous_variant 0.11
mshA 575920 c.573C>T synonymous_variant 0.11
mshA 576235 c.888C>A synonymous_variant 0.15
mshA 576244 c.897C>T synonymous_variant 0.18
mshA 576633 p.Ser429Leu missense_variant 0.12
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoC 765289 c.1920G>A synonymous_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 0.99
mmpL5 777310 p.Gly391Cys missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303098 c.168C>A synonymous_variant 0.12
fbiC 1303996 p.Gly356Cys missense_variant 0.15
fbiC 1304120 p.Lys397Arg missense_variant 0.29
embR 1416964 c.384C>T synonymous_variant 0.11
embR 1416969 p.Ala127Ser missense_variant 0.15
embR 1416970 c.378C>A synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674358 c.157C>A synonymous_variant 0.12
inhA 1674363 c.162G>A synonymous_variant 0.14
inhA 1674808 p.Val203Ile missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918568 p.Ala210Glu missense_variant 0.12
ndh 2101683 p.Gly454Cys missense_variant 0.13
ndh 2101695 p.Ala450Thr missense_variant 0.12
katG 2155741 p.Gly124Val missense_variant 0.24
PPE35 2170346 p.Gln89His missense_variant 0.11
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518135 c.21T>A synonymous_variant 1.0
kasA 2518790 p.Ala226Ser missense_variant 0.1
kasA 2519008 c.894C>A synonymous_variant 0.15
kasA 2519164 c.1050C>T synonymous_variant 0.12
eis 2714876 p.Ala153Thr missense_variant 0.17
eis 2714881 p.Ala151Asn missense_variant 0.14
eis 2715052 p.Arg94Leu missense_variant 0.12
eis 2715058 p.Arg92His missense_variant 0.12
folC 2746314 p.Arg429Trp missense_variant 0.2
folC 2746587 p.Arg338Trp missense_variant 0.1
folC 2747344 c.255G>T synonymous_variant 0.11
folC 2747776 c.-178G>A upstream_gene_variant 0.12
pepQ 2859604 p.Gly272Val missense_variant 0.12
pepQ 2859609 c.810G>A synonymous_variant 0.14
pepQ 2859923 p.Gly166Cys missense_variant 0.12
pepQ 2859953 p.Asp156Asn missense_variant 0.17
pepQ 2859954 c.465C>A synonymous_variant 0.18
pepQ 2860146 c.273C>T synonymous_variant 0.12
pepQ 2860589 c.-171G>T upstream_gene_variant 0.36
ribD 2987308 p.Ala157Glu missense_variant 0.18
ribD 2987348 c.510G>T synonymous_variant 0.11
Rv2752c 3066293 c.-102C>T upstream_gene_variant 0.12
thyX 3067201 p.Glu249* stop_gained 0.12
thyX 3067853 c.93C>T synonymous_variant 0.13
thyX 3067871 p.Trp25* stop_gained 0.18
thyX 3067973 c.-28A>T upstream_gene_variant 0.11
thyX 3068001 c.-56G>A upstream_gene_variant 0.1
fbiD 3339336 c.219C>T synonymous_variant 0.16
fbiD 3339555 c.438C>A synonymous_variant 0.11
fbiD 3339746 p.Ala210Val missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474984 c.978G>T synonymous_variant 0.11
fbiB 3642014 p.Gln160His missense_variant 0.2
fbiB 3642047 c.513G>T synonymous_variant 0.11
fbiB 3642170 c.636G>A synonymous_variant 0.27
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038191 c.2514C>T synonymous_variant 0.12
clpC1 4038318 p.Pro796Leu missense_variant 1.0
clpC1 4040229 p.Gly159Val missense_variant 0.14
clpC1 4040254 p.Ala151Thr missense_variant 0.15
embC 4241082 p.Leu407Pro missense_variant 0.11
embC 4241221 c.1359C>A synonymous_variant 0.18
embC 4242098 p.Gly746Ser missense_variant 1.0
embC 4242389 p.Leu843Met missense_variant 0.19
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243516 p.Ala95Asp missense_variant 0.2
embA 4243856 c.624C>A synonymous_variant 0.17
embA 4244213 c.981C>A synonymous_variant 0.11
embA 4244296 p.Ala355Val missense_variant 0.11
embA 4244438 c.1206C>A synonymous_variant 0.14
embA 4244907 p.Gly559Cys missense_variant 0.13
embB 4246672 c.159C>A synonymous_variant 0.13
embB 4247028 p.Leu172Arg missense_variant 0.39
embB 4247641 c.1128G>T synonymous_variant 0.1
embB 4248584 c.2071_2073delCGCinsAGA synonymous_variant 0.1
aftB 4267910 c.927G>T synonymous_variant 0.11
aftB 4267927 p.Ala304Ser missense_variant 0.33
aftB 4267970 p.Phe289Leu missense_variant 0.11
ubiA 4270020 c.-187C>T upstream_gene_variant 0.12
ethR 4328029 p.Ala161Thr missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0