TB-Profiler result

Run: ERR039340
Summary

Run ID: ERR039340

Sample name:

Date: 31-03-2023 08:44:03

Number of reads: 12101978

Percentage reads mapped: 99.56

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
rpoB 762249 p.Leu815Val missense_variant 0.18
rpoC 762836 c.-534C>G upstream_gene_variant 0.3
rpoC 764074 c.705C>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.16
mmpL5 778651 c.-171C>G upstream_gene_variant 0.99
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800997 p.Asn63Lys missense_variant 0.21
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.21
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.25
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.27
PPE35 2168261 p.Phe784Leu missense_variant 0.99
PPE35 2169320 p.Leu431Phe missense_variant 0.14
PPE35 2169866 c.747G>C synonymous_variant 0.28
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715586 c.-254G>C upstream_gene_variant 0.4
pepQ 2859381 c.1038C>G synonymous_variant 0.23
ribD 2987307 p.Ala157Pro missense_variant 0.24
Rv2752c 3064741 p.Gly484Ala missense_variant 0.26
thyA 3073806 c.666C>G synonymous_variant 0.18
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 0.5
fprA 3475280 p.Val425Gly missense_variant 0.34
fbiA 3640582 p.Arg14Gly missense_variant 0.99
fbiB 3641955 p.Gly141Arg missense_variant 0.23
fbiB 3642734 c.1200G>C synonymous_variant 0.25
clpC1 4038857 c.1848C>A synonymous_variant 0.19
clpC1 4039932 p.Gly258Val missense_variant 0.31
embC 4239842 c.-21C>A upstream_gene_variant 0.24
embC 4242425 p.Arg855Gly missense_variant 0.13
embC 4242476 p.Pro872Ala missense_variant 0.23
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.34
ubiA 4269529 p.Ala102Gly missense_variant 0.18
ethA 4327672 c.-199G>A upstream_gene_variant 0.26
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0