TB-Profiler result

Run: ERR9899672
Summary

Run ID: ERR9899672

Sample name:

Date: 02-04-2023 13:30:49

Number of reads: 401997

Percentage reads mapped: 99.57

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 8710 p.Ala470Val missense_variant 0.12
gyrA 9083 p.Gln594His missense_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576097 c.750T>C synonymous_variant 0.13
ccsA 619831 c.-60T>G upstream_gene_variant 0.6
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761760 p.Ile652Val missense_variant 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778320 c.160delG frameshift_variant 0.12
mmpR5 779179 p.Ser64Arg missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781650 p.Arg31Gly missense_variant 0.11
Rv1258c 1406964 p.Ser126Trp missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1674175 p.Gly246Ser missense_variant 0.17
rpsA 1833434 c.-108C>T upstream_gene_variant 0.13
rpsA 1834866 p.Gly442Val missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102052 p.Gly331Cys missense_variant 0.12
katG 2154743 p.Ser457Gly missense_variant 1.0
PPE35 2168838 p.Pro592Leu missense_variant 0.15
Rv1979c 2223137 p.Ala10Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518141 c.29dupG frameshift_variant 0.11
ahpC 2726002 c.-191G>T upstream_gene_variant 0.1
folC 2746745 p.Val285Gly missense_variant 0.4
pepQ 2860005 c.414C>T synonymous_variant 0.25
pepQ 2860203 p.Glu72Asp missense_variant 0.29
Rv2752c 3064864 p.Pro443Leu missense_variant 0.18
thyA 3074654 c.-183T>G upstream_gene_variant 0.38
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3338984 c.-134T>A upstream_gene_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840811 p.Asp204Tyr missense_variant 0.1
alr 3841210 p.Gly71Cys missense_variant 0.15
clpC1 4040160 p.Ala182Val missense_variant 0.12
embC 4240863 p.Trp334Leu missense_variant 0.2
embC 4242094 c.2232G>A synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249588 c.3075C>A synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407644 p.Arg187Gly missense_variant 0.25