TB-Profiler result

Run: ERR2229357
Summary

Run ID: ERR2229357

Sample name:

Date: 31-03-2023 17:05:19

Number of reads: 1472074

Percentage reads mapped: 98.98

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9164 c.1863G>A synonymous_variant 0.11
mshA 576108 p.Ala254Gly missense_variant 0.41
mshA 576111 p.Ala255Gly missense_variant 0.2
mshA 576259 c.912C>T synonymous_variant 0.13
ccsA 620842 p.His318Asp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776882 p.Ile533Met missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304428 c.1498C>A synonymous_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.23
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101830 p.Ile405Phe missense_variant 0.12
ndh 2103109 c.-67C>T upstream_gene_variant 0.11
PPE35 2167814 c.2799C>T synonymous_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169066 p.Ala516Val missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.56
PPE35 2170053 p.Thr187Ser missense_variant 0.57
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518879 c.765A>G synonymous_variant 0.21
kasA 2518882 c.768C>A synonymous_variant 0.21
kasA 2519306 p.Val398Ile missense_variant 0.13
eis 2714845 p.Val163Asp missense_variant 0.12
pepQ 2859762 p.Lys219Asn missense_variant 0.12
pepQ 2860153 p.Glu89Ala missense_variant 0.17
Rv2752c 3064777 p.Phe472Ser missense_variant 0.11
thyX 3067340 c.606G>A synonymous_variant 0.18
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
clpC1 4039018 p.Ser563Ala missense_variant 0.15
clpC1 4039022 c.1683A>G synonymous_variant 0.2
clpC1 4039498 p.Ile403Val missense_variant 0.2
clpC1 4039508 c.1197G>C synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243096 c.-137A>C upstream_gene_variant 0.1
embA 4244920 p.Leu563Pro missense_variant 0.13
embB 4246548 p.Pro12Gln missense_variant 0.32
embB 4246555 c.42G>C synonymous_variant 0.47
embB 4246556 p.Ala15Pro missense_variant 0.47
embB 4246563 p.Leu17Trp missense_variant 0.31
embB 4246567 c.54G>T synonymous_variant 0.21
aftB 4267866 p.Leu324Arg missense_variant 0.12
aftB 4267900 p.Ala313Ser missense_variant 0.22
aftB 4268213 c.624T>C synonymous_variant 0.17
aftB 4268810 c.27G>C synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408406 c.-204A>G upstream_gene_variant 0.12
Rv3083 3448498 c.-5_*1408del transcript_ablation 1.0