TB-Profiler result

Run: ERR2229700
Summary

Run ID: ERR2229700

Sample name:

Date: 31-03-2023 17:27:56

Number of reads: 1190575

Percentage reads mapped: 99.22

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 6557 p.Gly440Cys missense_variant 0.11
gyrB 7247 p.Val670Ile missense_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7922 p.Asn207Lys missense_variant 0.1
gyrA 8008 p.Gly236Val missense_variant 0.12
mshA 575319 c.-29C>A upstream_gene_variant 0.18
ccsA 620752 p.Arg288Trp missense_variant 0.12
rpoB 761700 p.Ala632Thr missense_variant 0.14
rpoB 763060 p.Ile1085Ser missense_variant 0.1
rpoC 766846 c.3477C>A synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775981 p.Leu834Met missense_variant 0.15
mmpL5 775987 p.His832Tyr missense_variant 0.18
mmpL5 775990 c.2491C>T synonymous_variant 0.15
mmpL5 776076 p.Ala802Asp missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801182 p.Gly125Val missense_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304791 p.Val621Leu missense_variant 0.18
embR 1417284 p.Thr22Ser missense_variant 0.12
embR 1417450 c.-103C>T upstream_gene_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 0.21
fabG1 1673349 c.-91G>C upstream_gene_variant 0.17
fabG1 1673357 c.-83G>A upstream_gene_variant 0.24
fabG1 1673359 c.-81T>C upstream_gene_variant 0.26
fabG1 1673361 c.-79C>G upstream_gene_variant 0.26
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
inhA 1674718 p.Arg173Gly missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169287 c.1326T>C synonymous_variant 0.12
PPE35 2169602 c.1011C>A synonymous_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.64
PPE35 2170053 p.Thr187Ser missense_variant 0.64
PPE35 2170557 c.55delG frameshift_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289885 c.-644C>A upstream_gene_variant 0.29
kasA 2518988 p.Thr292Ala missense_variant 0.22
kasA 2519214 p.Ile367Asn missense_variant 0.29
kasA 2519219 c.1105_1106insA frameshift_variant 0.29
eis 2714789 p.Trp182Arg missense_variant 0.12
folC 2746359 p.Val414Ile missense_variant 0.13
ribD 2986823 c.-16T>C upstream_gene_variant 0.12
ribD 2987422 p.Gly195Val missense_variant 0.14
Rv2752c 3066166 p.Gly9Asp missense_variant 0.17
thyX 3067231 p.Thr239Ser missense_variant 0.11
thyX 3067340 c.606G>A synonymous_variant 0.13
fprA 3474932 p.Glu309Gly missense_variant 0.15
whiB7 3568703 c.-24A>T upstream_gene_variant 0.14
rpoA 3878567 c.-60C>G upstream_gene_variant 1.0
clpC1 4038181 p.Gly842Ser missense_variant 0.12
embC 4242096 p.Ala745Val missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244289 p.Gly353Trp missense_variant 0.22
embA 4244825 c.1593G>A synonymous_variant 0.15
embA 4245954 p.Leu908Met missense_variant 0.33
embA 4246185 p.Ala985Pro missense_variant 0.13
embB 4246544 p.Thr11Pro missense_variant 0.21
embB 4246548 p.Pro12Gln missense_variant 0.42
embB 4246555 c.42G>C synonymous_variant 0.48
embB 4246556 p.Ala15Pro missense_variant 0.48
embB 4246563 p.Leu17Trp missense_variant 0.25
embB 4246567 c.54G>T synonymous_variant 0.27
embB 4246747 p.Asp78Glu missense_variant 0.14
aftB 4267237 p.Pro534Ser missense_variant 0.11
ubiA 4269404 p.His144Asn missense_variant 0.12
ethA 4327368 p.Glu36* stop_gained 0.15
ethR 4327930 p.Arg128Gly missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0