TB-Profiler result

Run: ERR4827476
Summary

Run ID: ERR4827476

Sample name:

Date: 01-04-2023 18:05:25

Number of reads: 1489093

Percentage reads mapped: 99.56

Strain: lineage4.1.2.1

Drug-resistance: HR-TB

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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
lineage4.1.2 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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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 7247 p.Val670Ile 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
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760291 p.Ile162Thr missense_variant 0.11
rpoB 760843 p.Gln346Arg missense_variant 0.33
rpoB 762525 p.Val907Leu missense_variant 0.18
rpoC 764116 c.747C>T synonymous_variant 0.11
rpoC 764856 p.Val496Ala missense_variant 0.13
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766051 p.Glu894Asp missense_variant 0.22
rpoC 766685 p.Glu1106Gln missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778086 c.394delG frameshift_variant 0.33
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406138 c.1203C>T synonymous_variant 0.15
atpE 1461123 p.Gly27Ser missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474475 n.818A>T non_coding_transcript_exon_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.33
fabG1 1673560 p.Lys41Gln missense_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154809 p.Thr435Ala missense_variant 0.18
katG 2155373 p.Asp247Asn missense_variant 0.14
katG 2155417 p.Pro232Leu missense_variant 0.12
PPE35 2167828 p.Ala929Thr missense_variant 0.14
PPE35 2169103 p.Pro504Ser missense_variant 1.0
Rv1979c 2222182 p.Thr328Ser missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746539 p.His354Asn missense_variant 0.18
ribD 2986756 c.-83C>G upstream_gene_variant 0.13
Rv2752c 3064921 p.Glu424Gly missense_variant 0.22
Rv2752c 3065671 p.Asp174Val missense_variant 0.15
Rv2752c 3066051 c.141G>A synonymous_variant 0.2
thyX 3068055 c.-110A>G upstream_gene_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475306 p.Gly434Ser missense_variant 0.67
clpC1 4039577 p.Asp376Glu missense_variant 0.2
clpC1 4039645 p.His354Asp missense_variant 0.33
clpC1 4039654 p.Thr351Ser missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.22
embB 4246548 p.Pro12Gln missense_variant 0.22
embB 4246555 c.42G>C synonymous_variant 0.25
embB 4246556 p.Ala15Pro missense_variant 0.25
embB 4246567 c.54_55insT frameshift_variant 0.29
embB 4248777 p.Val755Asp missense_variant 0.15
aftB 4267224 p.Ile538Thr missense_variant 0.12
aftB 4268355 p.Pro161Leu missense_variant 0.25
ethA 4327280 p.Arg65Pro missense_variant 0.14
ethR 4327282 c.-267G>A upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0