TB-Profiler result

Run: ERR2229069
Summary

Run ID: ERR2229069

Sample name:

Date: 31-03-2023 16:35:46

Number of reads: 1274473

Percentage reads mapped: 99.45

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 576289 c.942G>C synonymous_variant 0.18
mshA 576294 p.Ala316Val missense_variant 0.18
mshA 576488 p.Val381His missense_variant 0.13
mshA 576590 p.Arg415Gly missense_variant 0.15
ccsA 620127 c.237C>T synonymous_variant 0.12
rpoC 766828 p.His1153Gln missense_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
fabG1 1673380 c.-60C>G upstream_gene_variant 0.26
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.15
PPE35 2167967 c.2646A>C synonymous_variant 0.14
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.3
PPE35 2170053 p.Thr187Ser missense_variant 0.33
PPE35 2170147 p.Ser156Ala missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987398 p.Leu187Pro missense_variant 0.11
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3236c 3612411 p.Leu236Met missense_variant 0.14
fbiA 3640698 p.Trp52* stop_gained 0.12
fbiB 3642031 p.Gly166Val missense_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.15
clpC1 4040144 c.561G>C synonymous_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244376 p.Glu382* stop_gained 0.18
embB 4247105 p.Pro198Ser missense_variant 0.14
whiB6 4338261 c.261G>C 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