TB-Profiler result

Run: ERR2229268
Summary

Run ID: ERR2229268

Sample name:

Date: 31-03-2023 16:55:07

Number of reads: 1535817

Percentage reads mapped: 99.2

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
mshA 576111 p.Ala255Gly missense_variant 0.33
ccsA 620117 p.Val76Gly missense_variant 0.3
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 1673357 c.-83G>A upstream_gene_variant 0.16
fabG1 1673359 c.-81T>C upstream_gene_variant 0.16
fabG1 1673361 c.-79C>G upstream_gene_variant 0.16
fabG1 1673380 c.-60C>G upstream_gene_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102729 p.Gly105Val missense_variant 0.12
PPE35 2167967 c.2646A>C synonymous_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169602 c.1011C>A synonymous_variant 0.18
PPE35 2170048 p.Leu189Val missense_variant 0.22
PPE35 2170053 p.Thr187Ser missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746331 p.Glu423Val missense_variant 0.13
folC 2746567 c.1032C>T synonymous_variant 0.12
Rv2752c 3064533 c.1659G>A synonymous_variant 0.22
Rv2752c 3065783 p.Gly137Ser missense_variant 0.12
fbiB 3642874 p.Leu447Pro missense_variant 0.11
alr 3841546 c.-126C>A upstream_gene_variant 0.17
panD 4044466 c.-185T>C upstream_gene_variant 0.12
embC 4241570 p.Gly570Ser missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242706 p.Asp948Glu missense_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.18
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.22
embB 4246556 p.Ala15Pro missense_variant 0.22
embB 4247039 p.Phe176Val missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0