TB-Profiler result

Run: SRR7535049

Summary

Run ID: SRR7535049

Sample name:

Date: 04-04-2023 19:42:31

Number of reads: 3491424

Percentage reads mapped: 98.92

Strain: lineage4.8

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
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
mshA 576259 p.Ser304Arg missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407226 p.Gly39Cys missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475013 n.1356G>T non_coding_transcript_exon_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 0.97
katG 2153922 p.Lys730Asn missense_variant 0.22
katG 2155767 c.345C>A synonymous_variant 0.23
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170069 p.Pro182Thr missense_variant 0.33
PPE35 2170451 c.162C>A synonymous_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518529 p.Pro139Thr missense_variant 0.2
kasA 2518588 c.474T>C synonymous_variant 0.1
folC 2746579 p.Glu340Asp missense_variant 0.25
pepQ 2859588 c.831G>T synonymous_variant 0.2
ald 3086767 c.-53A>C upstream_gene_variant 1.0
fbiD 3339388 p.Pro91Thr missense_variant 0.18
Rv3083 3448488 c.-16C>A upstream_gene_variant 0.2
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448637 p.Trp45* stop_gained 0.5
Rv3083 3448650 c.147C>A synonymous_variant 1.0
Rv3083 3448725 c.222G>A synonymous_variant 0.5
Rv3083 3448746 c.243C>A synonymous_variant 0.33
Rv3083 3449317 p.Glu272* stop_gained 1.0
Rv3083 3449638 p.Glu379* stop_gained 1.0
fbiB 3641903 c.369C>A synonymous_variant 0.23
rpoA 3878565 c.-58G>A upstream_gene_variant 0.33
rpoA 3878582 c.-75C>T upstream_gene_variant 1.0
rpoA 3878633 c.-126C>A upstream_gene_variant 0.25
embC 4240586 p.Gly242Cys missense_variant 0.2
embC 4242417 p.Gly852Asp missense_variant 0.17
embC 4242473 p.Leu871Met missense_variant 0.25
embC 4242562 p.Trp900Cys missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267715 c.1122G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0