TB-Profiler result

Run: ERR2229490
Summary

Run ID: ERR2229490

Sample name:

Date: 31-03-2023 17:14:48

Number of reads: 256864

Percentage reads mapped: 98.94

Strain: lineage4

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
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 9535 p.Arg745His missense_variant 0.5
fgd1 490932 p.His50Gln missense_variant 0.4
rpoB 760272 p.Glu156Lys missense_variant 0.2
rpoC 767146 c.3777G>A synonymous_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776018 c.2463G>C synonymous_variant 0.5
mmpL5 776021 c.2460G>C synonymous_variant 0.5
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801066 c.258G>T synonymous_variant 0.29
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305127 p.Thr733Pro missense_variant 0.33
Rv1258c 1407513 c.-174delG upstream_gene_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472436 n.591G>A non_coding_transcript_exon_variant 0.5
fabG1 1673380 c.-60C>G upstream_gene_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101706 p.Ala446Val missense_variant 0.4
PPE35 2168185 p.Thr810Ala missense_variant 0.67
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168760 p.Pro618His missense_variant 0.22
PPE35 2169488 c.1125G>C synonymous_variant 0.4
PPE35 2169491 c.1122T>C synonymous_variant 0.4
PPE35 2169902 p.Leu237Phe missense_variant 0.25
PPE35 2169910 p.Asn235Tyr missense_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.33
PPE35 2170053 p.Thr187Ser missense_variant 0.35
PPE35 2170513 p.Leu34Val missense_variant 0.18
PPE35 2170528 p.Ser29Ala missense_variant 0.22
PPE35 2170529 c.84G>C synonymous_variant 0.22
PPE35 2170535 c.78G>T synonymous_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518751 p.Met213Leu missense_variant 0.22
ribD 2987047 p.Val70Ala missense_variant 1.0
ribD 2987540 c.702G>T synonymous_variant 0.25
Rv2752c 3065739 c.453G>A synonymous_variant 0.33
thyX 3067865 c.81C>A synonymous_variant 1.0
thyA 3074355 c.117G>T synonymous_variant 0.33
fbiA 3640834 p.Gln98Lys missense_variant 0.29
clpC1 4039645 p.His354Asp missense_variant 0.29
clpC1 4040855 c.-151G>A upstream_gene_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 1.0
embB 4246555 c.42G>C synonymous_variant 1.0
embB 4246556 p.Ala15Pro missense_variant 1.0
embB 4249592 p.Thr1027Pro missense_variant 0.4
embB 4249628 p.Ile1039Val missense_variant 0.29
embB 4249673 p.Ser1054Thr missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0