TB-Profiler result

Run: ERR2653062
Summary

Run ID: ERR2653062

Sample name:

Date: 31-03-2023 22:28:32

Number of reads: 1029515

Percentage reads mapped: 99.42

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.99
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 5853 p.Thr205Ile missense_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 0.96
gyrA 9083 c.1782G>A synonymous_variant 0.11
gyrA 9084 p.His595Asp missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 763310 c.3506_3507delAG frameshift_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766843 c.3474T>C synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776581 c.1900C>T synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406416 p.Pro309Ser missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475199 n.1542G>T non_coding_transcript_exon_variant 0.11
rrl 1475575 n.1918C>T non_coding_transcript_exon_variant 0.17
rrl 1475662 n.2005C>T non_coding_transcript_exon_variant 0.18
rrl 1476113 n.2456T>A non_coding_transcript_exon_variant 0.15
tlyA 1917822 c.-118G>C upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154102 c.2010C>G synonymous_variant 0.11
katG 2155732 p.Gln127Arg missense_variant 0.1
PPE35 2168895 p.Gly573Phe missense_variant 0.25
Rv1979c 2222769 p.Gln132His missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086927 c.108G>A synonymous_variant 0.13
ald 3086957 c.138C>T synonymous_variant 0.25
ald 3087405 p.Val196Ile missense_variant 1.0
ald 3087531 p.Ala238Ser missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612201 p.Val306Leu missense_variant 0.1
fbiB 3642694 p.Ala387Val missense_variant 0.13
alr 3840962 c.459G>A synonymous_variant 0.12
rpoA 3878122 p.Asn129Ser missense_variant 0.11
rpoA 3878630 c.-123G>C upstream_gene_variant 0.16
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038968 p.Gln579His missense_variant 0.11
embC 4239741 c.-122C>A upstream_gene_variant 0.12
embC 4241341 p.Phe493Leu missense_variant 0.14
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4245656 c.-858C>T upstream_gene_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.11
embB 4246567 c.54G>T synonymous_variant 0.12
aftB 4268605 p.Arg78Ser missense_variant 0.12
aftB 4268870 c.-34G>T upstream_gene_variant 0.12
ethA 4326024 p.Pro484Thr missense_variant 0.94
ethR 4327574 p.Ala9Asp missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0