TB-Profiler result

Run: ERR2229053
Summary

Run ID: ERR2229053

Sample name:

Date: 31-03-2023 16:33:55

Number of reads: 1403990

Percentage reads mapped: 99.42

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
mshA 575305 c.-43C>A upstream_gene_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.26
ccsA 620172 p.Cys94Trp missense_variant 0.1
ccsA 620262 c.372C>T synonymous_variant 0.14
ccsA 620406 c.516G>T synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474619 n.962G>A non_coding_transcript_exon_variant 0.22
rrl 1475843 n.2186G>T non_coding_transcript_exon_variant 0.12
fabG1 1673346 c.-94C>G upstream_gene_variant 0.22
fabG1 1673349 c.-91G>C upstream_gene_variant 0.23
fabG1 1673357 c.-83G>A upstream_gene_variant 0.21
fabG1 1673359 c.-81T>C upstream_gene_variant 0.21
fabG1 1673361 c.-79C>G upstream_gene_variant 0.21
fabG1 1673380 c.-60C>G upstream_gene_variant 0.26
fabG1 1674136 p.Ser233Pro missense_variant 0.14
tlyA 1917846 c.-94C>A upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 0.97
PPE35 2170048 p.Leu189Val missense_variant 0.44
PPE35 2170053 p.Thr187Ser missense_variant 0.47
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519128 c.1014G>C synonymous_variant 0.14
kasA 2519131 c.1017G>C synonymous_variant 0.13
kasA 2519140 c.1026G>C synonymous_variant 0.24
kasA 2519143 c.1029G>C synonymous_variant 0.24
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.2
embB 4246548 p.Pro12Gln missense_variant 0.23
embB 4246555 c.42G>C synonymous_variant 0.18
embB 4246556 p.Ala15Pro missense_variant 0.18
embB 4247028 p.Leu172Arg missense_variant 0.15
embB 4247516 p.Asn335Asp missense_variant 0.12
aftB 4267889 c.948C>A synonymous_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0