TB-Profiler result

Run: ERR2229451
Summary

Run ID: ERR2229451

Sample name:

Date: 31-03-2023 17:12:50

Number of reads: 1033389

Percentage reads mapped: 99.41

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
gyrA 7415 c.114C>A synonymous_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.23
rpoB 763062 p.Lys1086Glu 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
Rv1258c 1406318 c.1023A>T synonymous_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 0.2
fabG1 1674157 p.Asp240Asn missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102855 c.187delA frameshift_variant 0.14
PPE35 2167865 c.2748G>C synonymous_variant 0.15
PPE35 2167868 c.2745A>C synonymous_variant 0.15
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.15
PPE35 2170053 p.Thr187Ser missense_variant 0.16
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519041 c.927C>T synonymous_variant 0.14
kasA 2519140 c.1026G>C synonymous_variant 0.12
kasA 2519143 c.1029G>C synonymous_variant 0.12
kasA 2519153 p.Ile347Val missense_variant 0.11
folC 2746345 c.1254G>A synonymous_variant 0.12
folC 2746393 c.1206C>A synonymous_variant 0.13
Rv2752c 3064548 p.Gln548His missense_variant 0.17
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3236c 3612652 c.465G>T synonymous_variant 0.14
ddn 3986816 c.-28G>C upstream_gene_variant 0.1
embC 4241777 p.Gly639Arg missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243636 p.Gly135Val missense_variant 0.12
embA 4244562 p.Arg444Trp missense_variant 0.14
embB 4245533 c.-981C>A upstream_gene_variant 0.14
embB 4246548 p.Pro12Gln missense_variant 0.4
embB 4246555 c.42G>C synonymous_variant 0.4
embB 4246556 p.Ala15Pro missense_variant 0.4
embB 4247028 p.Leu172Arg missense_variant 0.27
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0