TB-Profiler result

Run: ERR037540
Summary

Run ID: ERR037540

Sample name:

Date: 31-03-2023 08:37:14

Number of reads: 15612538

Percentage reads mapped: 99.6

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 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.24
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800997 p.Asn63Lys missense_variant 0.2
atpE 1461019 c.-26C>A upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.21
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.32
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.22
eis 2715586 c.-254G>C upstream_gene_variant 0.51
Rv2752c 3064552 p.Arg547Pro missense_variant 0.23
Rv2752c 3064741 p.Gly484Ala missense_variant 0.26
thyA 3073806 c.666C>G synonymous_variant 0.24
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 0.25
Rv3083 3448508 p.Asn2Thr missense_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.17
fbiB 3642734 c.1200G>C synonymous_variant 0.22
fbiB 3642772 p.Asp413Ala missense_variant 0.15
alr 3840764 c.657G>C synonymous_variant 1.0
rpoA 3878238 p.Asp90Glu missense_variant 0.19
clpC1 4038857 c.1848C>A synonymous_variant 0.16
clpC1 4039932 p.Gly258Val missense_variant 0.28
embC 4239842 c.-21C>A upstream_gene_variant 0.14
embC 4242476 p.Pro872Ala missense_variant 0.27
embC 4242497 p.Arg879Gly missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.42
embC 4242827 p.Leu989Val missense_variant 0.22
embA 4245963 p.Val911Ile missense_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.22
ethA 4327672 c.-199G>A upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0