TB-Profiler result

Run: ERR4819745
Summary

Run ID: ERR4819745

Sample name:

Date: 01-04-2023 16:16:57

Number of reads: 1141282

Percentage reads mapped: 99.29

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7951 p.Ala217Asp missense_variant 0.22
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490743 c.-40G>A upstream_gene_variant 0.11
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575387 p.Ala14Pro missense_variant 0.18
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576410 p.Phe355Leu missense_variant 0.12
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760872 p.Glu356Lys missense_variant 0.17
rpoC 762551 c.-819C>T upstream_gene_variant 0.11
rpoC 763821 p.Leu151Arg missense_variant 0.93
rpoC 764046 p.Phe226Ser missense_variant 0.13
rpoC 764345 p.Pro326Thr missense_variant 0.17
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766147 c.2778C>A synonymous_variant 0.12
rpoC 766340 p.Ile991Val missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779121 c.-641C>T upstream_gene_variant 0.15
mmpL5 779145 c.-665G>A upstream_gene_variant 0.22
mmpR5 779248 p.Gly87Arg missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801099 c.294delG frameshift_variant 0.12
fbiC 1304860 p.Lys644Glu missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474372 n.715C>T non_coding_transcript_exon_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918166 p.Ala76Glu missense_variant 0.11
ndh 2102243 p.Arg267Leu missense_variant 0.22
katG 2155834 p.Ala93Asp missense_variant 0.33
katG 2155868 p.Glu82* stop_gained 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2519142 p.Leu343Pro missense_variant 0.12
eis 2714795 p.Glu180* stop_gained 0.22
eis 2714963 c.369delC frameshift_variant 0.18
eis 2715165 c.168T>A synonymous_variant 0.15
eis 2715379 c.-47T>C upstream_gene_variant 0.1
folC 2747104 c.495C>T synonymous_variant 0.12
ribD 2987400 p.Arg188Gly missense_variant 0.14
ribD 2987558 c.720T>C synonymous_variant 0.14
Rv2752c 3066350 c.-159T>A upstream_gene_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 0.96
Rv3083 3449005 p.His168Asn missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474375 c.369C>T synonymous_variant 0.12
Rv3236c 3612405 p.Ala238Ser missense_variant 0.11
ddn 3986957 c.114C>T synonymous_variant 0.12
clpC1 4040213 c.492T>C synonymous_variant 0.14
embC 4240027 c.165C>A synonymous_variant 0.12
embC 4240576 c.714A>G synonymous_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246587 p.Gly25Glu missense_variant 0.12
embB 4246643 p.Thr44Ala missense_variant 0.25
embB 4247803 c.1290G>A synonymous_variant 0.12
embB 4247840 p.Gly443Ser missense_variant 0.18
embB 4248651 p.Phe713Cys missense_variant 0.14
embB 4249747 c.3234C>T synonymous_variant 0.14
aftB 4267327 p.Val504Met missense_variant 0.12
aftB 4267445 c.1392G>C synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407809 p.Asp132Asn missense_variant 0.13