TB-Profiler result

Run: ERR11068932

Summary

Run ID: ERR11068932

Sample name:

Date: 07-04-2023 07:41:49

Number of reads: 435271

Percentage reads mapped: 99.56

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
gyrB 5582 p.Ala115Thr missense_variant 0.2
gyrB 6299 c.1060C>T synonymous_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9261 p.Arg654Cys missense_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491259 c.477T>A synonymous_variant 0.2
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761205 p.Arg467Cys missense_variant 0.13
rpoC 764522 p.Gly385Arg missense_variant 0.25
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766155 p.Ala929Gly missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1460907 c.-138T>C upstream_gene_variant 1.0
atpE 1460963 c.-82C>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475664 n.2007A>T non_coding_transcript_exon_variant 0.12
rrl 1476770 n.3113T>C non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101962 p.Pro361Ala missense_variant 0.17
katG 2155590 p.Glu174Asp missense_variant 0.22
Rv1979c 2222426 p.Ala247Thr missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726215 p.Asp8Gly missense_variant 0.14
ribD 2987450 p.Glu204Asp missense_variant 1.0
thyX 3067967 c.-22G>A upstream_gene_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878637 c.-130G>C upstream_gene_variant 0.29
rpoA 3878653 c.-146A>C upstream_gene_variant 0.17
clpC1 4038170 c.2535G>T synonymous_variant 1.0
clpC1 4038234 p.Arg824Leu missense_variant 0.13
clpC1 4040605 p.Leu34Ile missense_variant 0.33
embC 4239935 p.Asn25Tyr missense_variant 0.18
embC 4241049 p.Leu396His missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245196 p.Ile655Asn missense_variant 0.23
embB 4248546 p.Ile678Thr missense_variant 0.17
aftB 4267571 c.1266T>C synonymous_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0