TB-Profiler result

Run: SRR6785439
Summary

Run ID: SRR6785439

Sample name:

Date: 04-04-2023 15:56:14

Number of reads: 779775

Percentage reads mapped: 99.59

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 0.99
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 8896 p.Asp532Val missense_variant 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490912 p.Trp44Arg missense_variant 0.14
mshA 576108 p.Ala254Gly missense_variant 0.25
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoC 765865 p.Ile832Met missense_variant 0.17
rpoC 767219 p.Thr1284Ala missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779477 p.Glu163Val missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471796 n.-50A>T upstream_gene_variant 0.3
rrl 1474013 n.356A>T non_coding_transcript_exon_variant 0.33
rrl 1475936 n.2279T>A non_coding_transcript_exon_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.22
fabG1 1673349 c.-91G>C upstream_gene_variant 0.22
fabG1 1673359 c.-81T>C upstream_gene_variant 0.11
fabG1 1673361 c.-79C>G upstream_gene_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.38
inhA 1674922 p.Thr241Pro missense_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154093 c.2019A>G synonymous_variant 1.0
PPE35 2167814 c.2799C>T synonymous_variant 0.18
PPE35 2170054 p.Thr187Ala missense_variant 0.25
PPE35 2170159 p.Ala152Ser missense_variant 0.12
PPE35 2170447 p.Ser56Ala missense_variant 0.15
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715215 p.Val40Met missense_variant 1.0
Rv3083 3448408 c.-96T>A upstream_gene_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840206 c.1215T>G synonymous_variant 1.0
alr 3841171 p.Ala84Thr missense_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
clpC1 4039018 p.Ser563Ala missense_variant 0.17
clpC1 4039022 c.1683A>G synonymous_variant 0.12
panD 4044433 c.-152A>G upstream_gene_variant 1.0
embC 4241687 p.Thr609Ala missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244508 p.Leu426Val missense_variant 0.25
aftB 4267135 p.Cys568Ser missense_variant 0.2
aftB 4267774 p.Ile355Phe missense_variant 0.4
ethR 4328092 p.Thr182Pro missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0