TB-Profiler result

Run: ERR2229660
Summary

Run ID: ERR2229660

Sample name:

Date: 31-03-2023 17:23:58

Number of reads: 1042331

Percentage reads mapped: 99.38

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
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776018 c.2463G>C synonymous_variant 0.12
mmpL5 776021 c.2460G>C synonymous_variant 0.13
mmpL5 776245 p.Ile746Phe missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406395 p.Val316Met missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472170 n.325G>A non_coding_transcript_exon_variant 0.29
rrs 1473120 n.1275C>A non_coding_transcript_exon_variant 0.17
rrs 1473357 n.1512A>G non_coding_transcript_exon_variant 0.2
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673726 p.Phe96Ser missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155418 p.Pro232Thr missense_variant 0.18
PPE35 2167758 p.Gly952Asp missense_variant 0.18
PPE35 2168057 p.Gln852His missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168834 c.1779G>T synonymous_variant 0.13
PPE35 2169029 p.Asp528Glu missense_variant 0.22
PPE35 2169581 c.1032C>G synonymous_variant 0.12
PPE35 2169587 c.1026G>A synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.44
PPE35 2170053 p.Thr187Ser missense_variant 0.44
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746636 c.963C>G synonymous_variant 0.12
ribD 2987083 p.Val82Ala missense_variant 0.12
Rv2752c 3065085 p.Arg369Ser missense_variant 0.18
Rv2752c 3065116 p.Gly359Val missense_variant 0.22
Rv3083 3448337 c.-167C>A upstream_gene_variant 0.12
Rv3236c 3612533 c.583dupG frameshift_variant 0.1
fbiB 3642423 p.Phe297Ile missense_variant 0.12
rpoA 3878641 c.-134C>G upstream_gene_variant 0.25
embC 4241571 p.Gly570Asp missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.12
embB 4246548 p.Pro12Gln missense_variant 0.21
embB 4246555 c.42G>C synonymous_variant 0.27
embB 4246556 p.Ala15Pro missense_variant 0.27
embB 4246563 p.Leu17Trp missense_variant 0.19
embB 4246567 c.54G>T synonymous_variant 0.18
aftB 4269360 c.-524G>A upstream_gene_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