TB-Profiler result

Run: ERR2229162
Summary

Run ID: ERR2229162

Sample name:

Date: 31-03-2023 16:46:08

Number of reads: 585719

Percentage reads mapped: 99.42

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
gyrB 7185 p.Ser649Phe missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.4
ccsA 620602 p.Pro238Ser missense_variant 0.12
rpoB 760713 p.Ala303Ser missense_variant 0.22
rpoB 761229 p.Gly475Cys missense_variant 0.15
rpoB 762574 p.Gly923Asp missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778572 p.Ile112Val missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304178 c.1248G>T synonymous_variant 0.5
fbiC 1305112 p.Asp728Tyr missense_variant 0.18
fbiC 1305132 c.2202C>T synonymous_variant 0.12
fbiC 1305210 c.2280G>A synonymous_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673357 c.-83G>A upstream_gene_variant 0.13
fabG1 1673359 c.-81T>C upstream_gene_variant 0.13
fabG1 1673361 c.-79C>G upstream_gene_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154229 p.Val628Glu missense_variant 0.12
katG 2155354 p.Arg253Gln missense_variant 0.22
PPE35 2167865 c.2748G>C synonymous_variant 0.22
PPE35 2167868 c.2745A>C synonymous_variant 0.25
PPE35 2168208 p.Asp802Val missense_variant 0.14
PPE35 2168254 p.Pro787Thr missense_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169044 c.1569G>C synonymous_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.38
PPE35 2170053 p.Thr187Ser missense_variant 0.3
PPE35 2170157 p.Ala152Ser missense_variant 0.15
PPE35 2170412 c.201G>T synonymous_variant 0.12
PPE35 2170415 c.198A>C synonymous_variant 0.12
Rv1979c 2222149 p.Arg339His missense_variant 0.14
Rv1979c 2222334 c.831C>T synonymous_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714399 p.His312Tyr missense_variant 0.12
ahpC 2725938 c.-255_-254insA upstream_gene_variant 0.18
ahpC 2726087 c.-106T>C upstream_gene_variant 0.2
folC 2746332 p.Glu423* stop_gained 0.25
pepQ 2860560 c.-142T>C upstream_gene_variant 0.18
Rv2752c 3066148 p.Gly15Val missense_variant 0.12
fprA 3474858 c.852G>A synonymous_variant 0.29
fprA 3475110 c.1104C>A synonymous_variant 0.2
clpC1 4038740 c.1965G>C synonymous_variant 0.15
clpC1 4038845 c.1860G>A synonymous_variant 0.17
clpC1 4040826 c.-122C>G upstream_gene_variant 0.11
panD 4044247 p.Arg12His missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243364 p.Phe44Leu missense_variant 0.17
embB 4246548 p.Pro12Gln missense_variant 0.33
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4249327 p.Lys938Asn missense_variant 0.15
embB 4249478 p.Ala989Ser missense_variant 0.14
aftB 4268019 p.Ser273Leu missense_variant 0.29
aftB 4268511 p.Ser109Ile missense_variant 0.2
aftB 4268520 p.Tyr106Cys missense_variant 0.29
ubiA 4269211 p.Lys208Arg missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0