TB-Profiler result

Run: ERR2229309
Summary

Run ID: ERR2229309

Sample name:

Date: 31-03-2023 16:59:58

Number of reads: 1178684

Percentage reads mapped: 98.52

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 6377 p.Val380Ile missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8673 p.Ile458Phe missense_variant 0.11
mshA 575168 c.-180C>T upstream_gene_variant 0.15
mshA 576108 p.Ala254Gly missense_variant 0.4
rpoB 759995 c.189C>A synonymous_variant 0.15
rpoB 760528 p.Gln241Pro missense_variant 0.12
rpoB 760845 p.Thr347Pro missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775726 c.2755C>T synonymous_variant 0.15
mmpL5 775727 c.2754C>G synonymous_variant 0.15
mmpL5 775736 c.2745C>G synonymous_variant 0.13
mmpL5 775741 c.2740C>T synonymous_variant 0.13
mmpL5 775742 c.2739C>T synonymous_variant 0.12
mmpL5 776033 c.2448C>T synonymous_variant 0.14
mmpL5 776272 p.Lys737Glu missense_variant 0.15
mmpL5 776752 p.Phe577Leu missense_variant 0.12
mmpL5 777167 p.Phe438Leu missense_variant 0.14
rpsL 781386 c.-174G>A upstream_gene_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406343 p.Asn333Ile missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.16
fabG1 1673349 c.-91G>C upstream_gene_variant 0.15
fabG1 1673380 c.-60C>G upstream_gene_variant 0.26
inhA 1673664 c.-538A>T upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103050 c.-8A>G upstream_gene_variant 0.13
katG 2153970 p.Asp714Glu missense_variant 0.14
PPE35 2167745 p.Thr956Arg missense_variant 0.16
PPE35 2167955 c.2658A>C synonymous_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.69
PPE35 2170053 p.Thr187Ser missense_variant 0.69
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289244 c.-3C>T upstream_gene_variant 0.18
eis 2714713 p.Ala207Glu missense_variant 0.2
Rv2752c 3065409 c.783C>T synonymous_variant 0.12
Rv2752c 3066330 c.-139G>T upstream_gene_variant 0.14
Rv2752c 3066390 c.-199C>G upstream_gene_variant 0.2
whiB7 3568428 c.252A>G synonymous_variant 0.19
fbiB 3641415 c.-120C>T upstream_gene_variant 0.12
clpC1 4038318 p.Pro796Leu missense_variant 0.13
embC 4239779 c.-84C>G upstream_gene_variant 0.12
embC 4240373 p.Leu171Met missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.56
embB 4246555 c.42G>C synonymous_variant 0.62
embB 4246556 p.Ala15Pro missense_variant 0.62
embB 4246563 p.Leu17Trp missense_variant 0.29
embB 4246567 c.54G>T synonymous_variant 0.36
embB 4247028 p.Leu172Arg missense_variant 0.22
embB 4249117 c.2604G>A synonymous_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0