TB-Profiler result

Run: ERR2229201
Summary

Run ID: ERR2229201

Sample name:

Date: 31-03-2023 16:48:16

Number of reads: 1330517

Percentage reads mapped: 99.21

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 576184 c.837A>G synonymous_variant 0.17
rpoB 760421 p.Trp205Cys missense_variant 0.13
rpoC 764302 c.933C>A synonymous_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776193 p.Ala763Val missense_variant 0.12
mmpL5 777176 p.Glu435Asp 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 1473948 n.291C>G non_coding_transcript_exon_variant 0.23
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.16
inhA 1673589 c.-613A>G upstream_gene_variant 0.75
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155879 p.Arg78Gln missense_variant 0.13
PPE35 2167965 p.Ala883Gly missense_variant 0.15
PPE35 2167967 c.2646A>C synonymous_variant 0.15
PPE35 2167973 c.2640A>G synonymous_variant 0.12
PPE35 2168215 p.Thr800Ala missense_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.21
PPE35 2169272 c.1341C>G synonymous_variant 0.21
PPE35 2169278 c.1335T>C synonymous_variant 0.29
PPE35 2169281 c.1332T>G synonymous_variant 0.28
PPE35 2169902 c.711G>C synonymous_variant 0.18
PPE35 2170048 p.Leu189Val missense_variant 0.31
PPE35 2170053 p.Thr187Ser missense_variant 0.33
PPE35 2170159 p.Ala152Ser missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289726 c.-485C>G upstream_gene_variant 0.12
fprA 3474386 p.Asp127Gly missense_variant 0.14
fprA 3475285 p.Asp427Asn missense_variant 0.2
Rv3236c 3612082 c.1035T>A synonymous_variant 0.12
clpC1 4039645 p.His354Asp missense_variant 0.13
clpC1 4040144 c.561G>C synonymous_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.23
embB 4246548 p.Pro12Gln missense_variant 0.27
embB 4246555 c.42G>C synonymous_variant 0.36
embB 4246556 p.Ala15Pro missense_variant 0.36
embB 4246563 p.Leu17Trp missense_variant 0.31
embB 4246567 c.54G>T synonymous_variant 0.23
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0