TB-Profiler result

Run: SRR6785428
Summary

Run ID: SRR6785428

Sample name:

Date: 04-04-2023 15:54:06

Number of reads: 620355

Percentage reads mapped: 99.5

Strain: lineage4.1

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
lineage4.1 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
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 490892 p.Val37Gly missense_variant 0.38
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576528 p.Glu394Ala missense_variant 0.33
rpoB 760106 c.300G>A synonymous_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 763920 p.Leu184Arg missense_variant 0.29
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779011 p.Asp8Tyr missense_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.15
fabG1 1673349 c.-91G>C upstream_gene_variant 0.15
fabG1 1673380 c.-60C>G upstream_gene_variant 0.31
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169063 p.Met517Lys missense_variant 0.33
Rv1979c 2222756 p.Lys137Glu missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288901 p.Thr114Met missense_variant 0.13
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
Rv2752c 3066126 c.66C>T synonymous_variant 0.67
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087759 p.Thr314Pro missense_variant 0.4
fbiD 3339686 p.Asp190Ala missense_variant 0.17
fprA 3473936 c.-71A>C upstream_gene_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474266 p.His87Arg missense_variant 0.22
Rv3236c 3613146 c.-30T>G upstream_gene_variant 0.22
alr 3840825 p.Tyr199Phe missense_variant 0.22
rpoA 3878490 c.18C>G synonymous_variant 0.67
clpC1 4040409 p.Gly99Val missense_variant 0.14
clpC1 4040605 p.Leu34Ile missense_variant 0.18
embC 4239832 c.-31T>C upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338513 c.9C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407790 p.Ala138Val missense_variant 1.0