TB-Profiler result

Run: ERR2229355
Summary

Run ID: ERR2229355

Sample name:

Date: 18-08-2022 10:31:21

Number of reads: 1275494

Percentage reads mapped: 97.81

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 0.99
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 5672 p.Glu145Lys missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9660 p.Ala787Ser missense_variant 0.15
mshA 576108 p.Ala254Gly missense_variant 0.33
rpoB 762125 c.2321_2322dupTG frameshift_variant 0.13
rpoC 763582 p.Lys71Asn missense_variant 0.13
rpoC 764434 c.1065A>G synonymous_variant 0.12
rpoC 765631 p.Asp754Glu missense_variant 0.17
rpoC 765768 p.Ile800Thr missense_variant 0.12
mmpR5 779320 p.Met111Leu missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303110 c.181delA frameshift_variant 0.13
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304497 p.Pro523Ser missense_variant 0.12
embR 1417377 c.-30C>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471822 n.-24C>A upstream_gene_variant 0.14
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.12
rrl 1476291 n.2634G>A non_coding_transcript_exon_variant 0.12
rrl 1476780 n.3123C>A non_coding_transcript_exon_variant 0.14
fabG1 1673349 c.-91G>C upstream_gene_variant 0.12
fabG1 1673357 c.-83G>A upstream_gene_variant 0.17
fabG1 1673359 c.-81T>C upstream_gene_variant 0.17
fabG1 1673361 c.-79C>G upstream_gene_variant 0.19
fabG1 1673380 c.-60C>G upstream_gene_variant 0.47
fabG1 1673439 c.-1G>T upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155191 c.921A>C synonymous_variant 0.15
katG 2155515 c.597C>A synonymous_variant 0.12
kasA 2517964 c.-151C>T upstream_gene_variant 0.15
kasA 2518839 p.Ala242Gly missense_variant 0.14
kasA 2518864 c.750G>C synonymous_variant 0.12
eis 2714223 c.1110C>A synonymous_variant 0.17
folC 2747011 c.588G>T synonymous_variant 0.17
ribD 2986809 c.-30G>T upstream_gene_variant 0.17
ribD 2987330 c.492G>T synonymous_variant 0.15
thyX 3067345 p.Ser201Cys missense_variant 0.13
thyX 3067367 c.579G>A synonymous_variant 0.14
thyX 3068015 c.-70T>G upstream_gene_variant 0.2
ald 3087059 c.240G>A synonymous_variant 0.12
ald 3087279 p.Gly154Trp missense_variant 0.2
fbiA 3640476 c.-67C>A upstream_gene_variant 0.15
fbiA 3641267 p.Gly242Val missense_variant 0.12
fbiB 3642039 p.Gly169Ser missense_variant 0.14
fbiB 3642272 c.738C>A synonymous_variant 0.13
fbiB 3642698 c.1164G>A synonymous_variant 0.14
alr 3840209 p.Glu404Asp missense_variant 0.13
alr 3840619 p.Asp268His missense_variant 0.13
alr 3840661 p.Gly254Cys missense_variant 0.2
alr 3841612 c.-193_-192insC upstream_gene_variant 0.16
embC 4240883 p.Ser341Arg missense_variant 0.17
embC 4241601 p.Met580Lys missense_variant 0.18
embB 4246544 p.Thr11Pro missense_variant 0.19
embB 4246548 p.Pro12Gln missense_variant 0.57
embB 4246555 c.42G>C synonymous_variant 0.65
embB 4246556 p.Ala15Pro missense_variant 0.65
embB 4246563 p.Leu17Trp missense_variant 0.36
embB 4246567 c.54G>T synonymous_variant 0.33
embB 4248783 p.Pro757His missense_variant 0.17
ethA 4326166 c.1308A>G synonymous_variant 0.17
ethA 4326195 p.Glu427Gln missense_variant 0.11
ethA 4327184 p.His97Arg missense_variant 0.12