TB-Profiler result

Run: ERR4817788
Summary

Run ID: ERR4817788

Sample name:

Date: 01-04-2023 15:11:28

Number of reads: 258769

Percentage reads mapped: 99.41

Strain: lineage4.6

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
lineage4.6 Euro-American T;LAM 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
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 5095 c.-145A>G upstream_gene_variant 0.25
gyrB 5602 p.His121Gln missense_variant 0.17
gyrB 7229 p.Thr664Ser missense_variant 0.22
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7445 c.146delA frameshift_variant 0.22
gyrA 7535 c.234C>T synonymous_variant 0.25
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575154 c.-194G>T upstream_gene_variant 1.0
ccsA 619750 c.-141C>T upstream_gene_variant 1.0
ccsA 619831 c.-60T>G upstream_gene_variant 0.5
rpoB 759673 c.-134T>G upstream_gene_variant 0.25
rpoB 761205 p.Arg467Cys missense_variant 0.5
rpoB 761232 p.Arg476Trp missense_variant 0.4
rpoB 762988 p.Arg1061Gln missense_variant 0.5
rpoC 765951 p.Ala861Val missense_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776631 p.Ile617Thr missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781825 p.Asp89Gly missense_variant 0.15
fbiC 1303016 p.Val29Gly missense_variant 0.5
Rv1258c 1406533 p.Gly270Ser missense_variant 0.22
embR 1416479 p.Ala290Val missense_variant 0.33
atpE 1461110 c.66C>T synonymous_variant 0.14
atpE 1461128 c.84C>T synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674096 c.-106G>A upstream_gene_variant 1.0
rpsA 1834019 c.479delA frameshift_variant 0.17
rpsA 1834551 p.Val337Gly missense_variant 0.25
tlyA 1917872 c.-68T>C upstream_gene_variant 0.25
tlyA 1917875 c.-65T>G upstream_gene_variant 0.25
tlyA 1917878 c.-62T>C upstream_gene_variant 0.25
tlyA 1917893 c.-47G>C upstream_gene_variant 0.29
tlyA 1917897 c.-43T>C upstream_gene_variant 0.29
tlyA 1917900 c.-40T>C upstream_gene_variant 0.29
tlyA 1917908 c.-32C>G upstream_gene_variant 0.4
tlyA 1917929 c.-11T>C upstream_gene_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101788 p.Val419Leu missense_variant 0.18
katG 2155632 c.480A>G synonymous_variant 0.18
PPE35 2168695 p.Asn640His missense_variant 0.25
PPE35 2168869 p.Pro582Thr missense_variant 0.17
PPE35 2169242 c.1371C>T synonymous_variant 0.2
PPE35 2169526 p.Asn363Asp missense_variant 0.15
Rv1979c 2221736 c.1429C>A synonymous_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223322 c.-158G>T upstream_gene_variant 0.29
kasA 2518030 c.-85C>T upstream_gene_variant 1.0
kasA 2518473 p.Glu120Val missense_variant 0.2
ahpC 2726597 c.405C>A synonymous_variant 0.29
folC 2747462 p.Ser46Asn missense_variant 0.4
pepQ 2859316 p.Glu368Gly missense_variant 0.33
pepQ 2859521 c.898C>T synonymous_variant 0.67
pepQ 2860617 c.-199C>G upstream_gene_variant 0.5
thyX 3067457 c.489C>G synonymous_variant 0.4
thyX 3067465 p.Ile161Val missense_variant 0.29
thyX 3067475 c.471A>G synonymous_variant 0.29
thyX 3067490 c.456C>G synonymous_variant 0.29
thyX 3067493 c.453A>G synonymous_variant 0.29
thyX 3067515 p.Ser144Thr missense_variant 0.2
thyX 3067530 p.Ala139Ser missense_variant 0.25
thyX 3067545 p.Glu134Ala missense_variant 0.22
thyX 3067549 p.Thr133Ala missense_variant 0.22
thyX 3067556 p.His130Gln missense_variant 0.22
thyX 3067559 c.387C>G synonymous_variant 0.29
thyX 3067565 p.Asp127Glu missense_variant 0.29
thyX 3067570 p.Ala126Pro missense_variant 0.29
thyX 3067577 c.369G>A synonymous_variant 0.29
thyX 3067583 c.363C>G synonymous_variant 0.25
thyX 3067594 p.Val118Leu missense_variant 0.29
fbiD 3339523 p.Arg136Trp missense_variant 0.4
fprA 3473998 c.-9G>A upstream_gene_variant 1.0
fprA 3473998 c.-10_-9insA upstream_gene_variant 1.0
whiB7 3568648 c.31_32insT frameshift_variant 1.0
Rv3236c 3612360 p.Gly253Arg missense_variant 1.0
Rv3236c 3613198 c.-82C>T upstream_gene_variant 0.33
fbiA 3640354 c.-189C>G upstream_gene_variant 0.15
fbiA 3640505 c.-38C>A upstream_gene_variant 0.18
fbiA 3640640 p.Ala33Val missense_variant 0.25
alr 3841612 c.-193_-192insC upstream_gene_variant 0.25
ddn 3987189 p.Asp116Tyr missense_variant 0.29
ddn 3987261 p.Thr140Ser missense_variant 0.2
clpC1 4038518 c.2187G>C synonymous_variant 0.14
clpC1 4040655 p.Gln17Pro missense_variant 0.14
clpC1 4040746 c.-42C>T upstream_gene_variant 0.14
panD 4043945 p.Lys113Gln missense_variant 0.25
embC 4239819 c.-44G>A upstream_gene_variant 0.18
embC 4240203 p.Pro114His missense_variant 0.4
embC 4241372 p.Arg504Ser missense_variant 0.2
embC 4242527 p.Gly889Trp missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243871 c.639G>T synonymous_variant 0.4
embA 4244832 p.Val534Leu missense_variant 1.0
embB 4246783 c.270C>T synonymous_variant 1.0
embB 4248014 p.Thr501Ala missense_variant 0.4
aftB 4266967 p.Pro624Ala missense_variant 0.13
aftB 4267030 p.Asp603Asn missense_variant 0.14
aftB 4267290 p.Ala516Val missense_variant 0.22
aftB 4267302 p.Asn512Thr missense_variant 0.22
aftB 4268349 p.Arg163Pro missense_variant 0.67
ethA 4326184 c.1290C>A synonymous_variant 0.2
ethA 4327476 c.-3T>C upstream_gene_variant 0.15
ethA 4327554 c.-81G>A upstream_gene_variant 1.0
ethA 4328462 c.-990delG upstream_gene_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0