TB-Profiler result

Run: SRR6982191

Summary

Run ID: SRR6982191

Sample name:

Date: 04-04-2023 18:30:08

Number of reads: 523316

Percentage reads mapped: 99.08

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
ethA 4326026 c.1447delA frameshift_variant 0.12 ethionamide
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 6540 p.Asp434Gly missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8731 p.Gly477Val missense_variant 0.11
rpoC 765809 p.Thr814Ser missense_variant 0.11
rpoC 767156 p.Gly1263Arg missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776792 c.1689T>C synonymous_variant 0.18
mmpL5 776889 p.Ser531Tyr missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801038 p.Pro77Gln missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.8
rrl 1475210 n.1553T>C non_coding_transcript_exon_variant 0.13
inhA 1673600 c.-602G>A upstream_gene_variant 0.1
rpsA 1834520 p.Ala327Thr missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2168816 c.1797C>A synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223346 c.-182C>T upstream_gene_variant 0.12
pncA 2289934 c.-693C>A upstream_gene_variant 0.13
eis 2714965 p.Gly123Val missense_variant 0.1
folC 2746588 c.1011C>T synonymous_variant 0.14
thyX 3067285 p.Ala221Ser missense_variant 0.11
fprA 3474269 p.Val88Asp missense_variant 0.11
Rv3236c 3613062 p.Ala19Thr missense_variant 0.18
Rv3236c 3613094 p.Leu8Ser missense_variant 0.2
fbiB 3642231 c.697C>T synonymous_variant 0.11
clpC1 4038802 p.Tyr635His missense_variant 0.11
clpC1 4039729 p.Asp326Asn missense_variant 1.0
clpC1 4040013 p.Gln231Arg missense_variant 0.12
embC 4240517 p.Asp219Asn missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243883 c.651C>T synonymous_variant 0.93
embA 4245780 p.Ala850Ser missense_variant 0.12
ethA 4326276 p.Glu400Gln missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0