TB-Profiler result

Run: ERR2229299
Summary

Run ID: ERR2229299

Sample name:

Date: 31-03-2023 16:58:52

Number of reads: 1207644

Percentage reads mapped: 99.17

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 0.15
mshA 576111 p.Ala255Gly missense_variant 0.18
ccsA 620524 p.Leu212Met missense_variant 0.13
rpoC 764209 c.840C>G synonymous_variant 0.15
rpoC 766614 p.Lys1082Thr missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775871 p.Ile870Met missense_variant 0.14
mmpL5 777103 p.Ala460Thr missense_variant 0.12
mmpL5 777279 p.Ala401Glu missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303144 p.Ser72Pro missense_variant 0.17
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305162 p.Phe744Leu missense_variant 0.12
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 0.28
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102466 p.Ala193Thr missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.37
PPE35 2170053 p.Thr187Ser missense_variant 0.37
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747032 c.567A>T synonymous_variant 0.12
Rv2752c 3064534 p.Pro553Gln missense_variant 0.18
fbiD 3339589 p.Leu158Val missense_variant 0.12
fprA 3475049 p.Ile348Thr missense_variant 0.14
fbiA 3641423 p.Asp294Ala missense_variant 0.25
rpoA 3878662 c.-156delA upstream_gene_variant 0.2
clpC1 4038776 p.Glu643Asp missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243581 p.Ala117Thr missense_variant 0.13
embA 4246189 p.Asn986Thr missense_variant 0.2
embA 4246195 p.Pro988His missense_variant 0.15
embB 4246584 p.Arg24Pro missense_variant 0.17
embB 4247308 p.Met265Ile missense_variant 0.13
aftB 4268560 c.276delG frameshift_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0