TB-Profiler result

Run: ERR2229087
Summary

Run ID: ERR2229087

Sample name:

Date: 31-03-2023 16:40:01

Number of reads: 1677603

Percentage reads mapped: 99.5

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 0.22
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
fbiC 1304042 p.Trp371Leu missense_variant 0.11
Rv1258c 1407235 c.104_105delTG frameshift_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472999 n.1158dupG non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474119 n.462T>A non_coding_transcript_exon_variant 0.15
rrl 1475136 n.1479G>T non_coding_transcript_exon_variant 0.12
rrl 1476119 n.2462G>T non_coding_transcript_exon_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.32
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.19
PPE35 2168728 p.Gly629Arg missense_variant 0.99
PPE35 2169272 c.1341C>G synonymous_variant 0.12
PPE35 2169902 c.711G>C synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.46
PPE35 2170053 p.Thr187Ser missense_variant 0.47
PPE35 2170147 p.Ser156Ala missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290064 c.-823C>T upstream_gene_variant 0.12
kasA 2518606 c.492G>C synonymous_variant 0.14
kasA 2518609 p.Met165Ile missense_variant 0.12
kasA 2519128 c.1014G>C synonymous_variant 0.12
kasA 2519131 c.1017G>C synonymous_variant 0.13
kasA 2519140 c.1026G>C synonymous_variant 0.26
kasA 2519143 c.1029G>C synonymous_variant 0.26
kasA 2519153 p.Ile347Val missense_variant 0.18
thyX 3067340 c.606G>A synonymous_variant 0.13
embC 4241048 p.Leu396Phe missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.19
embB 4246555 c.42G>C synonymous_variant 0.27
embB 4246556 p.Ala15Pro missense_variant 0.27
embB 4246567 c.54G>T synonymous_variant 0.25
embB 4246747 p.Asp78Glu 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