TB-Profiler result

Run: ERR2229237
Summary

Run ID: ERR2229237

Sample name:

Date: 31-03-2023 16:51:01

Number of reads: 888934

Percentage reads mapped: 99.19

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576293 p.Ala316Ser missense_variant 0.2
rpoB 761152 p.Leu449Gln missense_variant 0.14
rpoC 766865 p.Thr1166Ser missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776911 p.Glu524* stop_gained 0.14
mmpS5 778812 p.Phe32Leu missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.21
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102389 c.654G>C synonymous_variant 0.17
ndh 2102392 c.651C>A synonymous_variant 0.17
katG 2155782 c.330C>A synonymous_variant 0.13
PPE35 2167814 c.2799C>T synonymous_variant 0.15
PPE35 2167965 p.Ala883Gly missense_variant 0.21
PPE35 2167967 c.2646A>C synonymous_variant 0.21
PPE35 2168047 p.Leu856Val missense_variant 0.18
PPE35 2168051 p.Val854Ile missense_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.12
PPE35 2169272 c.1341C>G synonymous_variant 0.12
PPE35 2169278 c.1335T>C synonymous_variant 0.2
PPE35 2169281 c.1332T>G synonymous_variant 0.21
PPE35 2169287 c.1326T>C synonymous_variant 0.2
PPE35 2169293 c.1320T>C synonymous_variant 0.19
PPE35 2169308 c.1305C>T synonymous_variant 0.18
PPE35 2170048 p.Leu189Val missense_variant 0.42
PPE35 2170053 p.Thr187Ser missense_variant 0.41
Rv1979c 2221936 p.Asn410Ser missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289584 c.-343A>T upstream_gene_variant 0.17
kasA 2519155 p.Ile347Met missense_variant 0.11
kasA 2519308 c.1194C>T synonymous_variant 0.11
ahpC 2726627 p.Gln145His missense_variant 0.1
pepQ 2860144 p.Val92Gly missense_variant 0.14
fbiA 3640520 c.-23G>C upstream_gene_variant 0.17
clpC1 4038345 p.Glu787Gly missense_variant 0.2
embC 4241733 p.Ala624Gly missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244241 p.Leu337Met missense_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.22
embB 4249406 p.Pro965Ser missense_variant 0.11
embB 4249788 p.Gly1092Asp missense_variant 0.11
ethA 4327346 p.Gly43Val missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0