TB-Profiler result

Run: ERR9285887
Summary

Run ID: ERR9285887

Sample name:

Date: 02-04-2023 11:43:50

Number of reads: 810640

Percentage reads mapped: 99.66

Strain: lineage4.4.1.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.4 Euro-American S;T None 0.98
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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 490994 p.Gly71Asp missense_variant 0.11
fgd1 491052 c.270C>T synonymous_variant 0.14
mshA 576285 p.Val313Ala missense_variant 0.12
mshA 576482 p.Val379Leu missense_variant 0.15
mshA 576700 p.Glu451Asp missense_variant 0.15
rpoC 765299 p.Val644Ile missense_variant 0.11
rpoC 766945 c.3576A>T synonymous_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779080 p.Ser31Gly missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416232 p.Cys372Gly missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472322 n.478delA non_coding_transcript_exon_variant 0.25
rrs 1473220 n.1375C>A non_coding_transcript_exon_variant 0.11
rrl 1473458 n.-200G>A upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918190 p.Arg84Gln missense_variant 0.11
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.18
PPE35 2169690 p.Gly308Asp missense_variant 0.11
PPE35 2169727 p.Asn296Asp missense_variant 0.1
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.15
PPE35 2169962 c.651C>T synonymous_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.27
PPE35 2170053 p.Thr187Ser missense_variant 0.27
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2517960 c.-154delT upstream_gene_variant 0.14
folC 2746646 p.Gln318Leu missense_variant 0.13
folC 2746923 p.Gly226Ser missense_variant 1.0
pepQ 2859839 p.Val194Leu missense_variant 0.12
ribD 2987578 p.Asp247Gly missense_variant 0.1
thyA 3074535 c.-64C>T upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 0.97
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
clpC1 4040144 c.561G>C synonymous_variant 0.11
embC 4240371 p.Gly170Glu missense_variant 0.12
embC 4240469 p.Asp203Tyr missense_variant 0.12
embC 4242602 p.Ser914Thr missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242829 c.-404G>T upstream_gene_variant 0.11
embA 4243692 p.Gly154Ser missense_variant 1.0
embA 4245835 p.Leu868Arg missense_variant 0.13
embB 4246904 p.Val131Met missense_variant 1.0
aftB 4267507 c.1329delC frameshift_variant 0.12
aftB 4268196 p.Val214Ala missense_variant 0.1
ubiA 4269864 c.-32delG upstream_gene_variant 0.11
ethA 4327499 c.-26C>T upstream_gene_variant 0.11
ethA 4328252 c.-779T>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407740 p.Pro155Thr missense_variant 0.11