TB-Profiler result

Run: ERR2229552
Summary

Run ID: ERR2229552

Sample name:

Date: 31-03-2023 17:18:38

Number of reads: 1070594

Percentage reads mapped: 99.44

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
gyrB 6549 p.Gly437Ala missense_variant 0.38
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576119 p.Ala258Thr missense_variant 0.29
mshA 576482 p.Val379Leu missense_variant 0.18
rpoB 762472 p.Ile889Thr missense_variant 0.1
rpoC 763987 c.618C>A synonymous_variant 0.18
rpoC 763999 p.Asp210Glu missense_variant 0.17
rpoC 764025 c.658delG frameshift_variant 0.15
rpoC 765665 p.Asn766Asp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779137 p.Arg50Trp missense_variant 0.11
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 1674044 p.Ala202Gly missense_variant 0.19
tlyA 1917777 c.-163A>G upstream_gene_variant 0.12
tlyA 1917911 c.-29G>A upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153969 p.Asp715Tyr missense_variant 0.11
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169717 p.Asn299Ile missense_variant 0.12
PPE35 2169732 p.Asn294Ser missense_variant 0.14
PPE35 2169902 p.Leu237Phe missense_variant 0.23
PPE35 2169910 p.Asn235Tyr missense_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.2
PPE35 2170139 c.474G>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518946 p.Val278Leu missense_variant 0.11
ahpC 2726089 c.-104C>A upstream_gene_variant 0.11
pepQ 2860284 c.135G>T synonymous_variant 0.12
ribD 2987441 c.603A>G synonymous_variant 0.11
fprA 3474215 p.Thr70Met missense_variant 0.12
fprA 3475328 p.Arg441Gln missense_variant 0.15
whiB7 3568524 p.Cys52* stop_gained 0.11
panD 4043936 p.Asp116Tyr missense_variant 0.13
embC 4242522 p.Ala887Glu missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.15
embB 4246555 c.42G>C synonymous_variant 0.17
embB 4246556 p.Ala15Pro missense_variant 0.17
embB 4247028 p.Leu172Arg missense_variant 0.2
embB 4247395 c.882C>A synonymous_variant 0.11
aftB 4267960 p.Val293Leu missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0