TB-Profiler result

Run: ERR2517319

Summary

Run ID: ERR2517319

Sample name:

Date: 31-03-2023 22:06:46

Number of reads: 2797589

Percentage reads mapped: 99.4

Strain: lineage4.2.2.2

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.2 Euro-American (Ural) T;LAM7-TUR None 0.99
lineage4.2.2.2 Euro-American (Ural) T;LAM7-TUR 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 6281 p.Asp348Tyr missense_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7837 p.Gly179Ala missense_variant 0.14
gyrA 8688 p.Ala463Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490873 p.Gly31Cys missense_variant 0.12
fgd1 490887 c.105G>T synonymous_variant 0.13
mshA 576077 c.730C>T synonymous_variant 1.0
rpoB 761450 p.Phe548Leu missense_variant 0.18
rpoB 761489 c.1683G>A synonymous_variant 0.89
rpoC 763274 c.-96G>T upstream_gene_variant 0.13
rpoC 766813 c.3444G>T synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776344 p.Gly713Trp missense_variant 0.13
mmpR5 779186 p.Gly66Val missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781816 p.Arg86Leu missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.12
fabG1 1673357 c.-83G>A upstream_gene_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.12
inhA 1674655 p.Ser152Cys missense_variant 0.12
rpsA 1834017 p.Arg159His missense_variant 0.12
rpsA 1834324 p.Glu261Asp missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.46
PPE35 2170053 p.Thr187Ser missense_variant 0.43
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.96
kasA 2518613 p.Pro167Thr missense_variant 0.2
eis 2715050 p.Gly95Arg missense_variant 0.18
Rv2752c 3066280 c.-89C>T upstream_gene_variant 0.97
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087648 p.Gly277Cys missense_variant 0.12
ald 3087851 c.1032G>T synonymous_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474950 p.Ala315Val missense_variant 0.18
whiB7 3568420 p.Arg87His missense_variant 0.29
fbiA 3640772 p.Arg77Pro missense_variant 0.11
fbiA 3640774 p.Gly78Arg missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245260 c.2028C>A synonymous_variant 0.22
embB 4246544 p.Thr11Pro missense_variant 0.18
embB 4247683 c.1170C>A synonymous_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407999 c.204C>T synonymous_variant 0.22