TB-Profiler result

Run: ERR2229182
Summary

Run ID: ERR2229182

Sample name:

Date: 31-03-2023 16:47:03

Number of reads: 421955

Percentage reads mapped: 99.44

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 6225 p.Asn329Ser missense_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 575853 p.Trp169Leu missense_variant 0.18
rpoC 765212 p.Pro615Thr missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775747 p.Met912Leu missense_variant 0.14
mmpL5 777114 p.Met456Thr missense_variant 0.29
mmpS5 778626 c.279_280insGTGAGCG frameshift_variant 0.33
mmpS5 778630 p.Leu92Phe missense_variant 0.33
mmpS5 778632 c.267_273delGCTCACC frameshift_variant 0.33
mmpL5 779277 c.-797C>T upstream_gene_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406088 p.Ala418Asp missense_variant 0.5
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 0.17
fabG1 1673349 c.-91G>C upstream_gene_variant 0.18
fabG1 1673359 c.-81T>C upstream_gene_variant 0.1
fabG1 1673380 c.-60C>G upstream_gene_variant 0.53
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918303 p.Leu122Met missense_variant 0.22
katG 2154749 p.Ile455Val missense_variant 0.15
PPE35 2167833 p.Leu927Arg missense_variant 0.2
PPE35 2167865 c.2748G>C synonymous_variant 0.27
PPE35 2167868 c.2745A>C synonymous_variant 0.27
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169308 c.1305C>T synonymous_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.24
PPE35 2170053 p.Thr187Ser missense_variant 0.29
PPE35 2170147 p.Ser156Ala missense_variant 0.14
Rv1979c 2222166 c.999C>T synonymous_variant 0.2
Rv1979c 2222818 p.Thr116Met missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519233 c.1119C>T synonymous_variant 0.5
pepQ 2860197 c.222T>C synonymous_variant 0.12
ribD 2986746 c.-93G>A upstream_gene_variant 0.17
Rv2752c 3065631 c.560delG frameshift_variant 0.12
ald 3087013 p.Trp65Leu missense_variant 0.17
ald 3087688 p.Val290Glu missense_variant 0.17
ald 3087807 c.991delG frameshift_variant 0.22
fprA 3474143 p.Trp46Leu missense_variant 0.25
fbiA 3641420 p.Gly293Val missense_variant 0.4
fbiB 3641776 p.Glu81Val missense_variant 0.33
alr 3840212 c.1209C>A synonymous_variant 0.12
alr 3840811 p.Asp204Tyr missense_variant 0.25
alr 3840815 p.Lys202Asn missense_variant 0.25
rpoA 3877716 c.792C>T synonymous_variant 0.11
rpoA 3877927 p.Leu194Gln missense_variant 0.22
ddn 3986838 c.-6A>C upstream_gene_variant 0.17
clpC1 4038773 p.Asp644Glu missense_variant 0.14
clpC1 4038776 p.Glu643Asp missense_variant 0.14
clpC1 4039555 p.Thr384Ala missense_variant 0.2
embC 4241756 c.1894C>T synonymous_variant 0.67
embC 4241854 c.1992A>C synonymous_variant 0.4
embC 4242153 p.Gly764Val missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246708 c.195C>A synonymous_variant 0.22
embB 4247344 c.831C>T synonymous_variant 0.29
aftB 4267191 p.Gly549Val missense_variant 0.12
ubiA 4269927 c.-94T>C upstream_gene_variant 0.25
ethR 4327673 p.Leu42Pro missense_variant 0.14
ethR 4327772 p.Leu75Pro missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0