TB-Profiler result

Run: ERR2510802
Summary

Run ID: ERR2510802

Sample name:

Date: 31-03-2023 18:56:47

Number of reads: 540540

Percentage reads mapped: 98.8

Strain: lineage4.1.2.1

Drug-resistance: Sensitive

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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
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 490745 c.-38G>T upstream_gene_variant 0.12
fgd1 490766 c.-17A>G upstream_gene_variant 0.13
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576482 p.Val379Leu missense_variant 0.13
rpoB 760042 p.Gly79Val missense_variant 0.18
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765504 p.Thr712Ile missense_variant 0.18
rpoC 765935 p.Ala856Ser missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416478 c.870C>A synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472759 n.914T>C non_coding_transcript_exon_variant 0.18
rrl 1475387 n.1730C>A non_coding_transcript_exon_variant 0.22
fabG1 1673380 c.-60C>G upstream_gene_variant 0.15
rpsA 1834746 p.Glu402Gly missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156098 p.His5Leu missense_variant 0.12
PPE35 2167969 p.Pro882Thr missense_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.19
PPE35 2170053 p.Thr187Ser missense_variant 0.2
Rv1979c 2222003 p.Ile388Val missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288820 p.Gln141Arg missense_variant 0.2
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2519025 p.Asp304Gly missense_variant 0.12
kasA 2519211 p.Val366Ala missense_variant 0.22
ahpC 2726489 c.297G>A synonymous_variant 0.11
ribD 2987093 c.255G>T synonymous_variant 0.17
Rv2752c 3064564 c.1627delG frameshift_variant 0.12
thyA 3074315 p.Lys53Glu missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475088 p.Lys361Arg missense_variant 0.18
Rv3236c 3611992 c.1125T>C synonymous_variant 0.1
rpoA 3877615 p.Lys298Arg missense_variant 0.13
panD 4044037 p.Gly82Glu missense_variant 0.11
embC 4240303 c.441G>T synonymous_variant 0.13
embC 4240465 p.Phe201Leu missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.6
embB 4247028 p.Leu172Arg missense_variant 0.22
embB 4247033 p.Ser174Arg missense_variant 0.25
embB 4247556 p.Leu348Pro missense_variant 0.12
embB 4249536 p.Glu1008Gly missense_variant 0.14
embB 4249675 c.3162C>A synonymous_variant 0.33
ethR 4326961 c.-588G>C upstream_gene_variant 0.17
ethR 4326964 c.-585G>A upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338609 c.-88T>C upstream_gene_variant 0.12
whiB6 4338676 c.-155T>C upstream_gene_variant 1.0
gid 4408293 c.-91T>C upstream_gene_variant 0.17