TB-Profiler result

Run: ERR2229213
Summary

Run ID: ERR2229213

Sample name:

Date: 31-03-2023 16:49:19

Number of reads: 457532

Percentage reads mapped: 99.66

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 490645 c.-138T>C upstream_gene_variant 0.11
ccsA 620347 p.Gly153* stop_gained 0.11
rpoB 759615 c.-192A>C upstream_gene_variant 0.29
rpoB 760566 p.Ser254Pro missense_variant 0.2
rpoC 764549 p.Pro394Thr missense_variant 0.2
rpoC 765725 p.Gly786Ser missense_variant 0.12
rpoC 765950 p.Ala861Pro missense_variant 0.11
rpoC 766616 p.Arg1083Trp missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.33
fbiC 1303155 c.225G>A synonymous_variant 0.2
fbiC 1303747 p.Thr273Ala missense_variant 1.0
atpE 1461063 p.Ala7Thr missense_variant 0.11
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 0.12
fabG1 1673349 c.-91G>C upstream_gene_variant 0.13
fabG1 1673357 c.-83G>A upstream_gene_variant 0.18
fabG1 1673359 c.-81T>C upstream_gene_variant 0.18
fabG1 1673361 c.-79C>G upstream_gene_variant 0.18
fabG1 1673380 c.-60C>G upstream_gene_variant 0.22
inhA 1673450 c.-752C>T upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102900 c.142delC frameshift_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169819 p.Asn265Ile missense_variant 0.11
PPE35 2169822 p.Ala264Asp missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.26
PPE35 2170053 p.Thr187Ser missense_variant 0.28
PPE35 2170729 c.-117T>A upstream_gene_variant 0.14
Rv1979c 2222484 c.681C>A synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289572 c.-331C>A upstream_gene_variant 0.2
ahpC 2726341 p.Val50Gly missense_variant 0.2
pepQ 2859412 p.Val336Ala missense_variant 0.33
Rv2752c 3067097 c.-906G>C upstream_gene_variant 0.18
thyX 3067340 c.606G>A synonymous_variant 0.43
thyX 3067632 p.Ser105Tyr missense_variant 0.2
ddn 3987120 p.Lys93Glu missense_variant 0.11
embC 4239793 c.-70A>T upstream_gene_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.27
embB 4246555 c.42G>C synonymous_variant 0.17
embB 4246556 p.Ala15Pro missense_variant 0.17
embB 4246563 p.Leu17Trp missense_variant 0.17
embB 4246567 c.54G>T synonymous_variant 0.17
embB 4249652 p.His1047Asn missense_variant 0.29
aftB 4267122 p.Arg572Gln missense_variant 0.2
ethA 4328369 c.-896G>C upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0