TB-Profiler result

Run: ERR245711
Summary

Run ID: ERR245711

Sample name:

Date: 31-03-2023 18:15:56

Number of reads: 14890991

Percentage reads mapped: 99.2

Strain: lineage4.1.2

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;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
ethA 4327054 p.Tyr140* stop_gained 0.16 ethionamide
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 7323 p.Pro8Ala missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7493 c.192C>T synonymous_variant 0.24
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.24
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 762249 p.Leu815Val missense_variant 0.2
rpoC 762836 c.-534C>G upstream_gene_variant 0.27
rpoC 764725 p.Phe452Leu missense_variant 0.19
rpoC 765150 p.Gly594Glu missense_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776659 p.Asp608Asn missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.18
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.19
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918069 p.Thr44Pro missense_variant 0.35
PPE35 2168501 p.Phe704Leu missense_variant 0.99
PPE35 2169379 p.Phe412Val missense_variant 0.2
PPE35 2169866 c.747G>C synonymous_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289293 c.-52C>G upstream_gene_variant 0.23
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.2
eis 2715586 c.-254G>C upstream_gene_variant 0.3
pepQ 2859381 c.1038C>G synonymous_variant 0.21
Rv2752c 3064552 p.Arg547Pro missense_variant 0.2
Rv2752c 3064741 p.Gly484Ala missense_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3611982 p.Ala379Pro missense_variant 0.27
fbiB 3641955 p.Gly141Arg missense_variant 0.24
fbiB 3642734 c.1200G>C synonymous_variant 0.21
clpC1 4039932 p.Gly258Val missense_variant 0.3
embC 4241056 c.1194C>G synonymous_variant 0.23
embC 4241456 p.Ala532Pro missense_variant 0.28
embC 4242476 p.Pro872Ala missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244375 c.1143C>G synonymous_variant 0.23
embB 4247121 p.Ser203Leu missense_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.27
whiB6 4338595 c.-75delG upstream_gene_variant 1.0