TB-Profiler result

Run: ERR2229427
Summary

Run ID: ERR2229427

Sample name:

Date: 31-03-2023 17:10:40

Number of reads: 241423

Percentage reads mapped: 99.31

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.67
rpoB 759837 p.Ala11Thr missense_variant 0.67
rpoB 760555 p.Glu250Val missense_variant 0.4
rpoB 761534 c.1728G>T synonymous_variant 0.2
rpoC 764102 p.Val245Phe missense_variant 0.4
mmpL5 775637 p.Ile948Val missense_variant 0.4
mmpL5 777434 c.1047C>T synonymous_variant 0.2
mmpL5 777468 p.Pro338Leu missense_variant 0.29
mmpL5 777630 p.Arg284Pro missense_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800959 p.Gln51Lys missense_variant 0.33
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1407235 c.104_105delTG frameshift_variant 0.25
Rv1258c 1407243 p.Leu33Gln missense_variant 0.29
atpE 1461047 c.3G>A start_lost 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473290 n.1445C>A non_coding_transcript_exon_variant 0.25
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474313 n.656T>A non_coding_transcript_exon_variant 0.4
rrl 1475929 n.2272T>G non_coding_transcript_exon_variant 0.25
fabG1 1673380 c.-60C>G upstream_gene_variant 0.33
rpsA 1834106 p.Ala189Ser missense_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169365 p.Ser416Asn missense_variant 0.22
PPE35 2169902 p.Leu237Phe missense_variant 0.25
PPE35 2169910 p.Asn235Tyr missense_variant 0.25
PPE35 2170048 p.Leu189Val missense_variant 0.5
PPE35 2170053 p.Thr187Ser missense_variant 0.56
PPE35 2170157 p.Ala152Ser missense_variant 0.43
PPE35 2170581 p.Asn11Ile missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715141 c.188_191delTGTA frameshift_variant 0.2
eis 2715151 p.Met61Thr missense_variant 0.2
eis 2715160 c.172delG frameshift_variant 0.22
pepQ 2860207 p.Leu71Arg missense_variant 0.5
Rv2752c 3064619 p.Asp525Asn missense_variant 0.2
whiB7 3568588 p.Asp31Gly missense_variant 0.5
fbiA 3640848 p.Phe102Leu missense_variant 0.29
clpC1 4039929 c.775delA frameshift_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243830 p.Gly200Ser missense_variant 0.5
embA 4246041 p.Asp937Asn missense_variant 0.29
aftB 4269045 c.-209G>T upstream_gene_variant 0.67
whiB6 4338468 p.Asn18Lys missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0