TB-Profiler result

Run: ERR2229011
Summary

Run ID: ERR2229011

Sample name:

Date: 31-03-2023 16:30:43

Number of reads: 925486

Percentage reads mapped: 99.38

Strain: lineage4.8

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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 0.99
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
embB 4247782 p.Met423Ile missense_variant 0.12 ethambutol
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 0.47
mshA 576190 c.844dupA frameshift_variant 0.22
ccsA 620053 p.Ala55Thr missense_variant 0.12
rpoB 762462 p.Lys886Glu missense_variant 0.12
rpoC 764058 p.Ala230Val missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777219 p.Leu421Pro missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1417432 c.-86delT upstream_gene_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472684 n.839G>A non_coding_transcript_exon_variant 0.14
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475578 n.1921C>T non_coding_transcript_exon_variant 0.18
rrl 1475810 n.2153T>C non_coding_transcript_exon_variant 0.11
rrl 1475930 n.2273G>C non_coding_transcript_exon_variant 0.17
rrl 1476468 n.2811C>A non_coding_transcript_exon_variant 0.25
fabG1 1673380 c.-60C>G upstream_gene_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101702 p.Glu447Asp missense_variant 0.12
ndh 2103154 c.-112G>C upstream_gene_variant 0.15
katG 2155003 p.Gly370Val missense_variant 0.13
PPE35 2167763 p.Ile950Val missense_variant 0.1
PPE35 2167965 p.Ala883Gly missense_variant 0.18
PPE35 2167967 c.2646A>C synonymous_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.15
PPE35 2170048 p.Leu189Val missense_variant 0.24
PPE35 2170053 p.Thr187Ser missense_variant 0.27
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518026 c.-89G>T upstream_gene_variant 0.14
kasA 2518376 p.Lys88Glu missense_variant 0.14
kasA 2518524 p.Val137Ala missense_variant 0.12
kasA 2518569 p.Ala152Val missense_variant 0.13
eis 2714985 c.348G>A synonymous_variant 0.33
ribD 2986816 c.-23A>G upstream_gene_variant 0.12
Rv2752c 3066138 c.54C>G synonymous_variant 0.11
thyX 3067212 p.Pro245Gln missense_variant 0.13
fbiD 3339417 p.Glu100Asp missense_variant 0.11
fbiD 3339741 c.624G>T synonymous_variant 0.25
fbiD 3339744 c.627A>C synonymous_variant 0.22
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.22
fbiB 3642226 p.Gln231Pro missense_variant 0.11
fbiB 3642229 p.Leu232Gln missense_variant 0.12
fbiB 3642232 p.Leu233Gln missense_variant 0.12
fbiB 3642234 p.Arg234Trp missense_variant 0.11
clpC1 4040187 p.Gln173Arg missense_variant 0.11
clpC1 4040309 c.396C>A synonymous_variant 0.14
embC 4240413 p.Leu184Gln missense_variant 0.18
embC 4241654 p.Gly598Arg missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242842 p.Gln994* stop_gained 0.11
embC 4242890 p.Arg1010Gly missense_variant 0.12
embA 4243774 p.Ala181Val missense_variant 0.12
embA 4243859 c.627C>T synonymous_variant 0.12
embB 4247175 p.Ala221Glu missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0