TB-Profiler result

Run: ERR4821121
Summary

Run ID: ERR4821121

Sample name:

Date: 01-04-2023 17:04:18

Number of reads: 536610

Percentage reads mapped: 99.49

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
lineage4.1.2 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 8689 p.Ala463Val missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490796 p.Lys5Arg missense_variant 0.12
fgd1 490846 p.Glu22Lys missense_variant 0.13
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
rpoC 764419 c.1050C>A synonymous_variant 0.29
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766902 p.Gly1178Val missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781444 c.-116C>T upstream_gene_variant 0.11
rplC 801177 c.369C>T synonymous_variant 0.17
fbiC 1305489 c.2559G>T synonymous_variant 0.11
embR 1416222 p.Phe376Leu missense_variant 0.13
embR 1416232 p.Cys372Gly missense_variant 0.12
embR 1416878 c.469delC frameshift_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472069 n.224G>T non_coding_transcript_exon_variant 0.67
rrl 1473715 n.58G>A non_coding_transcript_exon_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154387 c.1725G>C synonymous_variant 0.25
PPE35 2168106 p.Leu836His missense_variant 0.18
PPE35 2168145 p.Pro823Arg missense_variant 0.2
PPE35 2168512 p.Gly701Cys missense_variant 0.4
PPE35 2169911 c.701delA frameshift_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290066 c.-825G>T upstream_gene_variant 0.15
pncA 2290081 c.-840C>A upstream_gene_variant 0.17
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2747575 c.24G>A synonymous_variant 0.11
thyX 3067921 p.Val9Met missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448313 c.-190delC upstream_gene_variant 0.14
Rv3083 3448337 c.-167C>A upstream_gene_variant 0.13
Rv3083 3448342 c.-161delC upstream_gene_variant 0.13
Rv3083 3448906 p.Tyr135His missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877514 p.Thr332Ala missense_variant 1.0
rpoA 3877732 p.Arg259Leu missense_variant 0.2
ddn 3987201 p.Ala120Ser missense_variant 0.12
clpC1 4038844 p.Val621Met missense_variant 0.17
embC 4239999 p.Ala46Val missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4268068 p.Val257Met missense_variant 0.13
ubiA 4268936 p.Ala300Thr missense_variant 0.2
ubiA 4269482 p.Trp118Arg missense_variant 0.14
ethR 4326766 c.-783G>T upstream_gene_variant 0.15
ethR 4327990 p.Tyr148His missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0