TB-Profiler result

Run: ERR2517265
Summary

Run ID: ERR2517265

Sample name:

Date: 31-03-2023 22:04:03

Number of reads: 1619282

Percentage reads mapped: 99.33

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
gyrB 7256 p.Leu673Met missense_variant 0.12
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 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576256 c.909C>A synonymous_variant 0.29
mshA 576575 p.Ala410Ser missense_variant 0.14
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 762011 c.2205G>C synonymous_variant 1.0
rpoB 762097 p.Thr764Ile missense_variant 0.14
rpoC 764203 c.834G>T synonymous_variant 0.13
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766382 p.Glu1005* stop_gained 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775919 c.2562G>A synonymous_variant 0.22
mmpL5 777724 p.His253Tyr missense_variant 0.12
mmpL5 778711 c.-231T>C upstream_gene_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781737 p.Gln60Lys missense_variant 0.17
rpsL 781813 p.Gly85Val missense_variant 0.25
embR 1416577 p.Gln257His missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476521 n.2864C>A non_coding_transcript_exon_variant 0.12
fabG1 1673357 c.-83G>A upstream_gene_variant 0.13
fabG1 1673359 c.-81T>C upstream_gene_variant 0.13
fabG1 1673361 c.-79C>G upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.33
rpsA 1833761 p.Val74Ile missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101791 p.Thr418Pro missense_variant 0.12
ndh 2102820 p.Val75Met missense_variant 0.12
katG 2153970 p.Asp714Glu missense_variant 0.12
katG 2156332 c.-221C>T upstream_gene_variant 0.14
PPE35 2167959 p.Pro885Gln missense_variant 0.12
PPE35 2168105 c.2508C>A synonymous_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.61
PPE35 2170053 p.Thr187Ser missense_variant 0.62
PPE35 2170316 c.297T>C synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290067 c.-826C>T upstream_gene_variant 0.33
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ribD 2987243 c.405G>T synonymous_variant 0.12
Rv2752c 3065975 p.Asp73Tyr missense_variant 0.12
thyA 3074139 p.Gln111His missense_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086937 p.Gly40* stop_gained 0.12
fbiD 3339155 p.Ile13Ser missense_variant 0.11
Rv3083 3448400 c.-104G>T upstream_gene_variant 0.14
Rv3083 3448656 c.153G>T synonymous_variant 0.17
Rv3083 3448722 p.Lys73Asn missense_variant 0.22
Rv3083 3449712 c.1209C>A synonymous_variant 0.15
Rv3083 3449959 p.Ala486Thr missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474425 p.Gln140Leu missense_variant 0.15
fprA 3475165 p.Gly387Cys missense_variant 0.12
fbiA 3641486 p.Ala315Gly missense_variant 0.11
rpoA 3878582 c.-75C>T upstream_gene_variant 1.0
ddn 3987058 p.Arg72Leu missense_variant 0.25
embC 4242108 p.Cys749Tyr missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244071 p.Val280Ala missense_variant 0.4
embA 4244299 p.Ser356Phe missense_variant 0.25
embB 4246544 p.Thr11Pro missense_variant 0.45
embB 4246548 p.Pro12Gln missense_variant 0.27
embB 4246555 c.42G>C synonymous_variant 0.33
embB 4246556 p.Ala15Pro missense_variant 0.33
embB 4246567 c.54_55insT frameshift_variant 0.4
embB 4247478 p.Trp322Leu missense_variant 0.2
embB 4249587 p.Thr1025Ile missense_variant 0.18
ethA 4326025 p.Arg483Ser missense_variant 0.14
ethR 4327931 p.Arg128Met missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408102 p.Gly34Val missense_variant 0.17