TB-Profiler result

Run: ERR4815813
Summary

Run ID: ERR4815813

Sample name:

Date: 01-04-2023 14:04:47

Number of reads: 659798

Percentage reads mapped: 99.72

Strain: lineage4.8.1

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.99
lineage4.8.1 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 5734 c.497delA frameshift_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576751 p.Lys468Asn missense_variant 0.14
rpoB 762200 c.2394C>T synonymous_variant 0.94
rpoC 766453 c.3088delC frameshift_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776744 c.1737C>T synonymous_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304056 p.Glu376Lys missense_variant 0.12
fbiC 1305431 p.Val834Ala missense_variant 0.11
fbiC 1305470 p.Arg847His missense_variant 0.11
atpE 1460853 c.-192T>C upstream_gene_variant 0.18
rrs 1471657 n.-189G>T upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472075 n.230A>T non_coding_transcript_exon_variant 0.14
fabG1 1673560 p.Lys41Leu missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170609 p.His2Tyr missense_variant 0.1
Rv1979c 2222076 c.1089C>T synonymous_variant 0.12
Rv1979c 2222988 c.177T>C synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519248 c.1134C>A synonymous_variant 0.18
Rv2752c 3064622 p.Thr524Pro missense_variant 0.15
Rv2752c 3065788 c.403delC frameshift_variant 0.15
ald 3086919 p.Leu34Ile missense_variant 0.11
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3236c 3612656 p.Val154Glu missense_variant 0.15
fbiB 3642874 p.Leu447Arg missense_variant 1.0
alr 3840232 c.1188delA frameshift_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243680 p.Ala150Thr missense_variant 0.12
embA 4245336 p.Val702Leu missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0