TB-Profiler result

Run: ERR4407451
Summary

Run ID: ERR4407451

Sample name:

Date: 01-04-2023 05:44:38

Number of reads: 427882

Percentage reads mapped: 99.57

Strain: lineage4.3.2

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9296 p.Cys665* stop_gained 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9398 c.2097T>A synonymous_variant 0.11
gyrA 9459 p.Gly720Ser missense_variant 0.11
gyrA 9711 p.Met804Val missense_variant 0.13
rpoC 764169 p.Asn267Ser missense_variant 0.11
rpoC 764285 p.Gly306Ser missense_variant 0.11
rpoC 764540 p.Val391Ile missense_variant 0.13
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779000 p.Asn4Ser missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801246 c.438C>T synonymous_variant 0.1
fbiC 1303016 p.Val29Gly missense_variant 0.41
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169919 p.Leu232Ile missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859784 p.Leu212Pro missense_variant 0.15
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074657 c.-186C>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448415 c.-89G>A upstream_gene_variant 0.15
Rv3083 3448945 p.Gly148Ser missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612191 p.Gly309Val missense_variant 0.12
fbiA 3640816 p.Leu92Phe missense_variant 0.11
fbiA 3640819 p.Val93Leu missense_variant 0.11
fbiA 3640822 c.281_283delGCT disruptive_inframe_deletion 0.1
rpoA 3878689 c.-183delA upstream_gene_variant 0.25
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039894 p.Lys271Glu missense_variant 0.11
embC 4240043 c.183delG frameshift_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242986 p.Ala1042Thr missense_variant 0.13
embA 4243705 p.Gly158Asp missense_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.25
embB 4246548 p.Pro12Gln missense_variant 0.25
embB 4246555 c.42G>C synonymous_variant 0.21
embB 4246556 p.Ala15Pro missense_variant 0.21
embB 4246563 p.Leu17Trp missense_variant 0.21
embB 4246567 c.54G>T synonymous_variant 0.2
embB 4247771 p.Glu420* stop_gained 0.15
embB 4248549 p.Ala679Val missense_variant 0.17
aftB 4267906 p.Val311Leu missense_variant 0.17
aftB 4268910 c.-74T>C upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407644 p.Arg187Trp missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0