TB-Profiler result

Run: ERR4817137
Summary

Run ID: ERR4817137

Sample name:

Date: 01-04-2023 14:49:22

Number of reads: 100433

Percentage reads mapped: 98.54

Strain: lineage4.9

Drug-resistance: Other

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
La1.8.1 M.bovis None None 0.07
lineage4 Euro-American LAM;T;S;X;H None 0.9
lineage4.9 Euro-American (H37Rv-like) T1 None 0.91
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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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
gyrB 5183 c.-57G>A upstream_gene_variant 0.15
gyrB 5752 c.513G>A synonymous_variant 0.67
gyrB 5894 p.Val219Ile missense_variant 1.0
gyrA 6406 c.-896C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9217 p.Asp639Ala missense_variant 1.0
rpoB 762005 c.2199C>T synonymous_variant 0.67
rpoB 762026 c.2220G>A synonymous_variant 1.0
rpoC 764831 p.Glu488Lys missense_variant 0.67
rpoC 765947 c.2578T>C synonymous_variant 0.67
rplC 801454 p.Glu216Gln missense_variant 1.0
fbiC 1304303 p.Arg458His missense_variant 0.4
fbiC 1304934 c.2004C>T synonymous_variant 0.5
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673715 c.-487C>G upstream_gene_variant 1.0
rpsA 1834859 p.Ala440Thr missense_variant 1.0
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154333 c.1779C>G synonymous_variant 0.25
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155857 c.255C>T synonymous_variant 0.5
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168103 p.Pro837His missense_variant 0.4
PPE35 2168319 p.Thr765Ile missense_variant 1.0
PPE35 2168541 p.Thr691Ile missense_variant 0.33
PPE35 2168814 c.1798dupA frameshift_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
Rv3083 3448783 p.Val94Ile missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
fbiB 3642613 p.Tyr360Phe missense_variant 0.5
clpC1 4038403 c.2302T>C synonymous_variant 1.0
embC 4242642 p.Arg927His missense_variant 1.0
embA 4242970 c.-263C>T upstream_gene_variant 1.0
embC 4243137 p.Arg1092His missense_variant 0.4
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
aftB 4267167 p.Gln557Pro missense_variant 0.86
ubiA 4268965 p.Ala290Val missense_variant 1.0
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4326024 p.Pro484Ser missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0