TB-Profiler result

Run: ERR2229752

Summary

Run ID: ERR2229752

Sample name:

Date: 31-03-2023 17:32:37

Number of reads: 465588

Percentage reads mapped: 98.99

Strain: lineage4

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
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 5060 c.-180G>C upstream_gene_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 760448 c.642C>T synonymous_variant 0.2
rpoB 762798 p.Ala998Thr missense_variant 0.22
rpoC 764201 p.Arg278Trp missense_variant 0.17
rpoC 764280 p.Gln304Arg missense_variant 0.25
rpoC 765607 c.2238C>A synonymous_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778524 p.Ala128Thr missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305366 p.Met812Ile missense_variant 0.2
embR 1416858 p.Thr164Pro missense_variant 0.29
embR 1417250 p.Pro33Leu missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.18
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.2
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475029 n.1377delG non_coding_transcript_exon_variant 0.67
fabG1 1673346 c.-94C>G upstream_gene_variant 0.24
fabG1 1673349 c.-91G>C upstream_gene_variant 0.24
fabG1 1673357 c.-83G>A upstream_gene_variant 0.28
fabG1 1673359 c.-81T>C upstream_gene_variant 0.29
fabG1 1673361 c.-79C>G upstream_gene_variant 0.29
fabG1 1673380 c.-60C>G upstream_gene_variant 0.41
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154522 c.1590C>G synonymous_variant 0.17
katG 2155485 c.627T>C synonymous_variant 0.17
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168916 p.Pro566Leu missense_variant 0.22
PPE35 2169488 c.1125G>C synonymous_variant 0.18
PPE35 2169491 c.1122T>C synonymous_variant 0.18
PPE35 2169553 p.Pro354Ser missense_variant 0.29
PPE35 2169567 p.Thr349Ile missense_variant 0.33
PPE35 2169840 p.Gly258Asp missense_variant 0.17
PPE35 2169902 p.Leu237Phe missense_variant 0.18
PPE35 2169910 p.Asn235Tyr missense_variant 0.16
PPE35 2169956 c.657T>C synonymous_variant 0.11
PPE35 2169964 p.Leu217Val missense_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.4
PPE35 2170053 p.Thr187Ser missense_variant 0.4
Rv1979c 2221993 p.Ile391Asn missense_variant 0.15
Rv1979c 2223168 c.-4T>A upstream_gene_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714346 c.987C>T synonymous_variant 0.4
eis 2714782 p.Gln184Arg missense_variant 0.29
eis 2715288 c.45G>T synonymous_variant 0.29
pepQ 2859661 p.Val253Gly missense_variant 0.33
thyA 3073769 c.703C>A synonymous_variant 0.15
thyA 3073919 p.Thr185Pro missense_variant 0.22
fprA 3475229 p.Asp408Ala missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244727 p.Phe499Val missense_variant 0.22
embB 4246548 p.Pro12Gln missense_variant 0.5
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246563 p.Leu17Trp missense_variant 0.5
embB 4246567 c.54G>T synonymous_variant 0.4
embB 4246918 c.405G>T synonymous_variant 0.22
embB 4247470 c.957T>C synonymous_variant 0.12
embB 4247811 p.Leu433Gln missense_variant 0.2
aftB 4267034 c.1803C>T synonymous_variant 0.71
ethA 4327059 p.Gly139Ser missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0