TB-Profiler result

Run: ERR2229408
Summary

Run ID: ERR2229408

Sample name:

Date: 31-03-2023 17:09:50

Number of reads: 1339483

Percentage reads mapped: 99.17

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
fgd1 491528 p.Trp249Leu missense_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.29
rpoB 761152 p.Leu449Gln missense_variant 0.12
rpoC 763589 p.Ile74Val missense_variant 0.12
rpoC 765669 p.His767Leu missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776018 c.2463G>C synonymous_variant 0.22
mmpL5 776021 c.2460G>C synonymous_variant 0.36
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475032 n.1375G>T non_coding_transcript_exon_variant 0.12
rrl 1475099 n.1442G>A non_coding_transcript_exon_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.17
PPE35 2167967 c.2646A>C synonymous_variant 0.16
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.44
PPE35 2170053 p.Thr187Ser missense_variant 0.46
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.21
kasA 2518609 p.Met165Ile missense_variant 0.17
folC 2746840 p.Asp253Glu missense_variant 0.14
thyX 3067631 c.315C>A synonymous_variant 0.17
thyX 3068133 c.-188G>T upstream_gene_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 0.14
clpC1 4039018 p.Ser563Ala missense_variant 0.12
clpC1 4039022 c.1683A>G synonymous_variant 0.15
clpC1 4039645 p.His354Asp missense_variant 0.3
clpC1 4039654 p.Thr351Ser missense_variant 0.16
clpC1 4040057 c.648C>T synonymous_variant 0.12
clpC1 4040144 c.561G>C synonymous_variant 0.29
panD 4044298 c.-18delA upstream_gene_variant 0.13
embC 4242220 c.2358A>T synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243611 c.382delC frameshift_variant 0.15
embA 4243947 p.Arg239* stop_gained 0.2
embA 4244821 p.Gly530Val missense_variant 1.0
embB 4246555 c.42G>C synonymous_variant 0.33
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246563 p.Leu17Trp missense_variant 0.5
embB 4246567 c.54G>T synonymous_variant 0.5
embB 4247512 c.999T>C synonymous_variant 0.13
embB 4247516 p.Asn335Asp missense_variant 0.13
embB 4249652 p.His1047Ile missense_variant 0.12
embB 4249751 c.3238T>C synonymous_variant 0.18
aftB 4268635 p.Tyr68Asn missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0