TB-Profiler result

Run: ERR2229242
Summary

Run ID: ERR2229242

Sample name:

Date: 31-03-2023 16:52:43

Number of reads: 1378982

Percentage reads mapped: 98.85

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 576108 p.Ala254Gly missense_variant 0.38
ccsA 620341 p.Val151Leu missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777140 c.1341G>C synonymous_variant 0.14
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
rrs 1472006 n.161G>A non_coding_transcript_exon_variant 0.13
rrs 1472175 n.330G>T non_coding_transcript_exon_variant 0.18
rrs 1472743 n.898T>C non_coding_transcript_exon_variant 0.15
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673357 c.-83G>A upstream_gene_variant 0.16
fabG1 1673359 c.-81T>C upstream_gene_variant 0.17
fabG1 1673361 c.-79C>G upstream_gene_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.24
inhA 1674742 p.Lys181Glu missense_variant 0.12
rpsA 1834195 c.654G>T synonymous_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102901 p.His48Asn missense_variant 0.3
ndh 2102987 p.Ile19Thr missense_variant 0.18
ndh 2103022 c.21C>A synonymous_variant 0.14
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.11
PPE35 2169278 c.1335T>C synonymous_variant 0.11
PPE35 2169902 p.Leu237Phe missense_variant 0.14
PPE35 2169956 c.657T>C synonymous_variant 0.12
PPE35 2169964 p.Leu217Val missense_variant 0.12
PPE35 2169974 c.639T>C synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.5
PPE35 2170053 p.Thr187Ser missense_variant 0.43
Rv1979c 2222571 c.594G>A synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.12
pepQ 2859417 c.1002C>T synonymous_variant 0.12
Rv2752c 3064530 c.1662G>T synonymous_variant 0.2
thyX 3067537 p.Asp137Asn missense_variant 0.12
thyA 3074458 p.Glu5Gly missense_variant 0.15
ald 3087115 p.Ala99Val missense_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244901 p.Ala557Ser missense_variant 0.15
embB 4246544 p.Thr11Pro missense_variant 0.12
embB 4246548 p.Pro12Gln missense_variant 0.21
embB 4246555 c.42G>C synonymous_variant 0.27
embB 4246556 p.Ala15Pro missense_variant 0.27
embB 4246567 c.54_55insT frameshift_variant 0.25
ubiA 4269370 p.Ser155Leu missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0