TB-Profiler result

Run: SRR22048436
Summary

Run ID: SRR22048436

Sample name:

Date: 04-04-2023 03:49:17

Number of reads: 768608

Percentage reads mapped: 99.25

Strain: lineage4.2.1

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 0.99
lineage4.2.1 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 6637 c.-665T>A upstream_gene_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7623 p.Pro108Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576617 p.His424Asn missense_variant 0.15
ccsA 620117 p.Val76Gly missense_variant 0.36
rpoB 760951 p.Gln382Pro missense_variant 0.2
rpoB 761710 p.Val635Gly missense_variant 0.14
rpoC 764472 p.Asn368Thr missense_variant 0.4
rpoC 765895 p.Glu842Asp missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776038 p.Ser815Ala missense_variant 0.2
mmpL5 776448 p.Glu678Gly missense_variant 0.12
mmpS5 779522 c.-617T>C upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406929 p.Ser138Ala missense_variant 0.18
Rv1258c 1407104 p.Asp79Glu missense_variant 0.17
embR 1416836 p.Val171Gly missense_variant 0.25
embR 1416957 p.Phe131Val missense_variant 0.13
embR 1417230 p.Ala40Ser missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472197 n.352A>G non_coding_transcript_exon_variant 0.2
fabG1 1673242 c.-198C>G upstream_gene_variant 0.12
inhA 1674477 c.276G>T synonymous_variant 0.33
rpsA 1834458 p.Pro306Leu missense_variant 0.12
rpsA 1834975 c.1434C>T synonymous_variant 0.3
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102509 c.534T>G synonymous_variant 0.18
ndh 2103064 c.-22A>C upstream_gene_variant 0.14
katG 2155218 p.Leu298Phe missense_variant 0.29
katG 2155241 p.Ala291Ser missense_variant 0.22
katG 2155257 c.855C>T synonymous_variant 0.18
katG 2155371 c.741C>T synonymous_variant 1.0
katG 2155679 p.Arg145Ser missense_variant 0.12
PPE35 2168084 p.Glu843Asp missense_variant 0.22
PPE35 2168470 p.Thr715Pro missense_variant 0.33
PPE35 2168876 c.1737C>T synonymous_variant 0.29
PPE35 2169879 p.Phe245Cys missense_variant 1.0
PPE35 2169882 p.Ser244Ile missense_variant 0.33
Rv1979c 2222849 p.Trp106Gly missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726608 p.Asp139Ala missense_variant 0.25
pepQ 2860348 p.Ile24Ser missense_variant 0.18
Rv2752c 3065165 p.Gly343Cys missense_variant 0.67
Rv2752c 3065871 p.Phe107Leu missense_variant 0.33
thyA 3074160 c.312A>G synonymous_variant 0.15
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640469 c.-74T>G upstream_gene_variant 0.33
fbiB 3641637 p.Ala35Thr missense_variant 0.33
alr 3840500 c.921G>A synonymous_variant 0.15
rpoA 3878680 c.-173C>T upstream_gene_variant 1.0
embC 4242175 c.2313G>T synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244920 p.Leu563Arg missense_variant 0.14
embA 4246078 c.2849delC frameshift_variant 0.25
embB 4249594 c.3081G>A synonymous_variant 1.0
aftB 4267083 p.His585Pro missense_variant 0.33
ethA 4328376 c.-903G>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0