TB-Profiler result

Run: ERR245816
Summary

Run ID: ERR245816

Sample name:

Date: 31-03-2023 18:22:44

Number of reads: 886593

Percentage reads mapped: 99.14

Strain: lineage4.1.2

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
lineage4.1.2 Euro-American T;H 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
gyrA 7323 p.Pro8Ala missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7498 p.Pro66Arg missense_variant 0.2
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8445 p.Arg382Gly missense_variant 0.39
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 576751 p.Lys468Asn missense_variant 0.5
rpoB 759831 p.Thr9Pro missense_variant 0.31
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761300 c.1494G>C synonymous_variant 0.17
rpoB 761420 c.1614C>A synonymous_variant 0.18
rpoB 761867 c.2061C>G synonymous_variant 0.33
rpoC 762836 c.-534C>G upstream_gene_variant 0.5
rpoC 764725 p.Phe452Leu missense_variant 0.27
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776288 c.2193C>G synonymous_variant 0.4
mmpL5 776659 p.Asp608Asn missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303615 p.Ala229Pro missense_variant 0.33
fbiC 1304772 p.Tyr614* stop_gained 0.29
embR 1417136 p.Ser71Ile missense_variant 0.67
embR 1417233 c.115C>T synonymous_variant 0.25
embR 1417501 c.-154A>C upstream_gene_variant 0.29
atpE 1461019 c.-26C>A upstream_gene_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.27
fabG1 1673449 p.Thr4Pro missense_variant 0.5
inhA 1674334 p.Arg45Gly missense_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154758 p.Glu452Lys missense_variant 0.3
katG 2155723 p.Ala130Glu missense_variant 0.25
PPE35 2167871 c.2742G>C synonymous_variant 0.31
PPE35 2168501 p.Phe704Leu missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.28
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288881 p.Arg121Gly missense_variant 0.25
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2714355 c.978C>G synonymous_variant 0.22
eis 2714366 p.Val323Leu missense_variant 0.5
ahpC 2725954 c.-239C>T upstream_gene_variant 0.29
folC 2747066 p.Gly178Asp missense_variant 0.25
pepQ 2859819 c.600G>T synonymous_variant 0.22
Rv2752c 3064552 p.Arg547Pro missense_variant 0.21
thyA 3073817 p.Gln219Glu missense_variant 0.5
thyA 3073890 p.Leu194Phe missense_variant 0.27
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448416 c.-88C>G upstream_gene_variant 0.21
Rv3083 3449673 p.Tyr390* stop_gained 0.35
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474986 p.Val327Gly missense_variant 0.5
Rv3236c 3612960 p.Ala53Pro missense_variant 0.5
fbiA 3641271 p.Tyr243* stop_gained 0.4
alr 3840494 c.927G>C synonymous_variant 1.0
alr 3841504 c.-84C>G upstream_gene_variant 0.14
rpoA 3878238 p.Asp90Glu missense_variant 0.15
clpC1 4038857 c.1848C>A synonymous_variant 0.38
clpC1 4039932 p.Gly258Val missense_variant 0.25
embC 4239721 c.-142C>G upstream_gene_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.33
embA 4243977 p.Ala249Pro missense_variant 1.0
embB 4247121 p.Ser203Leu missense_variant 1.0
embB 4247488 p.Ser325Arg missense_variant 0.18
aftB 4267156 p.Gln561Lys missense_variant 0.4
ubiA 4269529 p.Ala102Gly missense_variant 0.22
whiB6 4338493 p.Thr10Lys missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0