TB-Profiler result

Run: SRR6479538
Summary

Run ID: SRR6479538

Sample name:

Date: 04-04-2023 14:32:36

Number of reads: 596750

Percentage reads mapped: 99.01

Strain:

Drug-resistance: Other

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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
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
rrs 1473246 n.1401A>G non_coding_transcript_exon_variant 1.0 kanamycin, capreomycin, aminoglycosides, amikacin
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 7009 c.-293G>A upstream_gene_variant 0.4
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7930 p.Ala210Val missense_variant 1.0
gyrA 8509 p.Glu403Gly missense_variant 0.2
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 762782 c.-588T>C upstream_gene_variant 0.33
rpoC 763163 c.-207C>A upstream_gene_variant 0.2
rpoC 764444 p.Asp359Asn missense_variant 0.33
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778400 p.Met27Ile missense_variant 0.2
mmpR5 779407 c.421dupG frameshift_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801149 p.Val114Ala missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471825 n.-21T>C upstream_gene_variant 0.22
rrs 1472679 n.834T>A non_coding_transcript_exon_variant 0.25
rrl 1474929 n.1272A>G non_coding_transcript_exon_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155814 p.Pro100Ala missense_variant 0.67
PPE35 2169269 c.1344A>G synonymous_variant 0.4
PPE35 2169272 c.1341C>A synonymous_variant 0.4
PPE35 2169278 c.1335T>C synonymous_variant 0.33
PPE35 2169281 c.1332T>G synonymous_variant 0.4
PPE35 2170048 p.Leu189Val missense_variant 0.43
PPE35 2170053 p.Thr187Ser missense_variant 0.43
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
pepQ 2859682 p.Gln246Arg missense_variant 0.22
thyX 3067705 p.Tyr81Asp missense_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448647 p.Phe48Leu missense_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640415 c.-128T>C upstream_gene_variant 1.0
alr 3840316 p.Gly369Arg missense_variant 0.13
clpC1 4040157 p.Met183Thr missense_variant 0.15
embC 4240520 p.Thr220Pro missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4245764 c.-750G>T upstream_gene_variant 0.4
embA 4245883 p.Gly884Ala missense_variant 0.4
ethR 4327692 p.Asp48Glu missense_variant 0.33
ethA 4328351 c.-878C>G upstream_gene_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0