TB-Profiler result

Run: ERR4816201
Summary

Run ID: ERR4816201

Sample name:

Date: 01-04-2023 14:17:46

Number of reads: 905829

Percentage reads mapped: 99.59

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
pncA 2288775 p.Leu156Pro missense_variant 0.1 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 575161 c.-187T>A upstream_gene_variant 0.25
mshA 575175 c.-173G>A upstream_gene_variant 0.18
mshA 576500 p.Ile385Leu missense_variant 0.15
ccsA 619813 c.-78C>A upstream_gene_variant 0.17
ccsA 620461 p.Val191Phe missense_variant 0.1
rpoB 759620 c.-187A>C upstream_gene_variant 0.21
rpoC 763355 c.-15G>A upstream_gene_variant 1.0
rpoC 765158 p.Gly597Ser missense_variant 0.11
rpoC 766490 p.Arg1041Gly missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302983 p.Pro18Leu missense_variant 1.0
fbiC 1304070 c.1140C>G synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475696 n.2039T>C non_coding_transcript_exon_variant 0.67
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.67
rrl 1475703 n.2046A>G non_coding_transcript_exon_variant 0.67
rpsA 1833423 c.-119C>T upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169287 c.1326T>C synonymous_variant 0.11
PPE35 2169293 c.1320T>C synonymous_variant 0.11
PPE35 2169902 p.Leu237Phe missense_variant 0.24
PPE35 2169910 p.Asn235Tyr missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726552 c.360A>G synonymous_variant 0.11
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3236c 3612375 p.Gly248Ser missense_variant 0.11
Rv3236c 3612955 c.162C>T synonymous_variant 0.25
clpC1 4039729 p.Asp326Asn missense_variant 1.0
clpC1 4040144 c.561G>C synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244902 p.Ala557Glu missense_variant 0.2
embA 4245484 p.Gln751Pro missense_variant 0.12
embA 4245756 c.2525dupG frameshift_variant 0.11
embB 4247749 c.1236G>T synonymous_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0